Query 041485
Match_columns 179
No_of_seqs 101 out of 1773
Neff 10.0
Searched_HMMs 46136
Date Fri Mar 29 07:39:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041485.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041485hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15456 universal stress prot 99.9 1.1E-25 2.4E-30 154.0 15.9 139 18-171 2-142 (142)
2 PRK15005 universal stress prot 99.9 1.2E-25 2.5E-30 154.1 15.6 141 18-171 2-144 (144)
3 PRK09982 universal stress prot 99.9 2E-25 4.3E-30 152.7 14.0 139 18-174 3-141 (142)
4 cd01989 STK_N The N-terminal d 99.9 6.6E-25 1.4E-29 150.7 16.4 141 20-172 1-145 (146)
5 PRK15118 universal stress glob 99.9 1.9E-24 4.2E-29 148.1 13.6 138 18-174 3-141 (144)
6 PRK10116 universal stress prot 99.9 8.7E-24 1.9E-28 144.5 15.1 138 18-174 3-141 (142)
7 PF00582 Usp: Universal stress 99.9 1.2E-23 2.6E-28 142.1 14.2 139 18-171 2-140 (140)
8 cd01988 Na_H_Antiporter_C The 99.9 1.1E-22 2.5E-27 137.0 15.1 131 20-171 1-132 (132)
9 PRK11175 universal stress prot 99.9 9.3E-23 2E-27 155.8 15.3 145 18-174 3-148 (305)
10 cd01987 USP_OKCHK USP domain i 99.9 2.7E-22 5.9E-27 134.0 13.1 123 20-171 1-124 (124)
11 PRK11175 universal stress prot 99.9 5.9E-21 1.3E-25 145.9 14.2 144 17-175 151-303 (305)
12 cd00293 USP_Like Usp: Universa 99.8 2.1E-19 4.5E-24 120.0 15.2 130 20-170 1-130 (130)
13 COG0589 UspA Universal stress 99.8 2.8E-18 6.1E-23 118.0 16.5 146 18-173 5-153 (154)
14 PRK12652 putative monovalent c 99.6 1.6E-14 3.5E-19 111.7 15.6 131 18-172 5-151 (357)
15 PRK10490 sensor protein KdpD; 99.4 4E-12 8.7E-17 109.7 15.3 125 18-173 250-375 (895)
16 COG2205 KdpD Osmosensitive K+ 99.4 1.1E-11 2.3E-16 102.6 13.6 129 18-175 248-377 (890)
17 cd01984 AANH_like Adenine nucl 98.5 6.8E-07 1.5E-11 55.5 7.0 84 21-169 1-85 (86)
18 PLN03159 cation/H(+) antiporte 97.9 0.00042 9E-09 60.1 12.8 147 19-174 459-617 (832)
19 TIGR02432 lysidine_TilS_N tRNA 97.5 0.0022 4.8E-08 45.7 10.3 93 20-144 1-110 (189)
20 PF01171 ATP_bind_3: PP-loop f 97.4 0.0054 1.2E-07 43.5 10.8 92 20-143 1-106 (182)
21 PLN03159 cation/H(+) antiporte 97.4 0.0085 1.8E-07 52.2 13.8 41 18-58 630-670 (832)
22 cd01992 PP-ATPase N-terminal d 97.1 0.015 3.2E-07 41.2 10.5 93 20-144 1-107 (185)
23 PRK10696 tRNA 2-thiocytidine b 97.0 0.022 4.7E-07 42.8 11.5 107 3-144 14-142 (258)
24 PRK12342 hypothetical protein; 96.5 0.045 9.7E-07 41.0 9.9 105 26-168 32-140 (254)
25 COG0037 MesJ tRNA(Ile)-lysidin 96.4 0.11 2.3E-06 39.7 11.8 51 5-59 10-60 (298)
26 PRK03359 putative electron tra 96.4 0.054 1.2E-06 40.6 9.5 106 26-168 33-143 (256)
27 PF01012 ETF: Electron transfe 96.3 0.037 8E-07 38.5 7.8 87 20-143 1-100 (164)
28 cd01993 Alpha_ANH_like_II This 96.2 0.13 2.9E-06 36.1 10.6 39 20-58 1-41 (185)
29 COG2086 FixA Electron transfer 96.1 0.079 1.7E-06 39.8 9.2 105 25-168 33-142 (260)
30 COG0041 PurE Phosphoribosylcar 95.0 0.21 4.7E-06 34.1 7.3 71 97-175 17-91 (162)
31 PF00448 SRP54: SRP54-type pro 95.0 0.61 1.3E-05 33.5 10.2 112 21-170 5-120 (196)
32 PRK05253 sulfate adenylyltrans 94.6 0.72 1.6E-05 35.5 10.1 92 18-143 27-137 (301)
33 TIGR01162 purE phosphoribosyla 94.2 0.46 1E-05 32.8 7.6 72 96-175 12-87 (156)
34 PRK10660 tilS tRNA(Ile)-lysidi 93.6 1.1 2.5E-05 36.3 10.0 66 18-115 15-81 (436)
35 PRK14665 mnmA tRNA-specific 2- 93.1 3.6 7.9E-05 32.6 12.5 38 15-56 2-39 (360)
36 cd01985 ETF The electron trans 92.9 1.6 3.6E-05 30.7 9.0 36 20-56 1-45 (181)
37 TIGR00591 phr2 photolyase PhrI 92.9 1.3 2.8E-05 36.2 9.4 91 26-142 32-122 (454)
38 TIGR02039 CysD sulfate adenyly 92.7 3.5 7.6E-05 31.7 10.9 91 18-142 19-128 (294)
39 PRK10867 signal recognition pa 92.4 3.9 8.4E-05 33.3 11.3 92 22-149 105-199 (433)
40 PRK13820 argininosuccinate syn 92.2 4.2 9E-05 32.7 11.1 37 18-57 2-39 (394)
41 COG0299 PurN Folate-dependent 92.1 3.3 7.2E-05 29.7 9.7 83 19-142 1-88 (200)
42 PF00731 AIRC: AIR carboxylase 91.7 1.5 3.2E-05 30.2 7.1 71 96-174 14-88 (150)
43 PF00875 DNA_photolyase: DNA p 91.3 1.7 3.6E-05 30.1 7.4 113 31-172 13-125 (165)
44 COG0541 Ffh Signal recognition 91.3 5.6 0.00012 32.3 10.8 97 20-153 103-202 (451)
45 TIGR00268 conserved hypothetic 90.9 5.3 0.00012 29.8 11.5 36 18-57 12-47 (252)
46 cd01713 PAPS_reductase This do 90.7 3.9 8.5E-05 27.9 9.4 37 20-57 1-37 (173)
47 PRK12563 sulfate adenylyltrans 90.5 4.6 0.0001 31.3 9.6 42 18-59 37-78 (312)
48 TIGR00959 ffh signal recogniti 89.9 9.2 0.0002 31.1 11.2 92 22-149 104-198 (428)
49 PRK07313 phosphopantothenoylcy 89.8 1.8 4E-05 30.7 6.5 35 18-53 1-35 (182)
50 PRK06027 purU formyltetrahydro 89.3 6.7 0.00015 30.0 9.6 84 17-143 88-175 (286)
51 PRK05579 bifunctional phosphop 88.9 2.6 5.7E-05 33.9 7.4 35 18-53 6-40 (399)
52 PRK13982 bifunctional SbtC-lik 88.6 3.8 8.3E-05 33.7 8.3 35 18-53 70-104 (475)
53 KOG1467 Translation initiation 88.3 9.4 0.0002 31.4 10.0 110 19-176 360-473 (556)
54 TIGR01425 SRP54_euk signal rec 88.2 13 0.00028 30.3 11.0 94 22-152 105-201 (429)
55 PLN02948 phosphoribosylaminoim 88.2 11 0.00024 31.9 11.0 71 96-174 424-498 (577)
56 TIGR00655 PurU formyltetrahydr 88.1 7.5 0.00016 29.7 9.1 83 17-142 83-169 (280)
57 cd01990 Alpha_ANH_like_I This 87.6 8.3 0.00018 27.5 9.6 34 21-57 1-34 (202)
58 TIGR03556 photolyase_8HDF deox 87.4 3.9 8.5E-05 33.6 7.8 87 29-142 13-99 (471)
59 cd01995 ExsB ExsB is a transcr 87.0 8 0.00017 26.7 9.6 34 20-57 1-34 (169)
60 TIGR02765 crypto_DASH cryptoch 86.9 11 0.00023 30.6 10.0 121 26-169 10-130 (429)
61 PRK13010 purU formyltetrahydro 86.6 9.6 0.00021 29.3 9.0 83 17-142 92-178 (289)
62 TIGR02852 spore_dpaB dipicolin 86.1 7.9 0.00017 27.7 7.8 34 19-53 1-35 (187)
63 COG1606 ATP-utilizing enzymes 86.0 13 0.00027 28.0 11.2 98 5-142 7-122 (269)
64 TIGR00853 pts-lac PTS system, 86.0 1.4 3.1E-05 27.7 3.6 67 97-174 19-85 (95)
65 cd05565 PTS_IIB_lactose PTS_II 85.2 1.8 3.8E-05 27.6 3.8 66 96-172 15-80 (99)
66 PRK09590 celB cellobiose phosp 84.8 2.2 4.7E-05 27.4 4.1 67 98-173 18-84 (104)
67 PRK14664 tRNA-specific 2-thiou 84.3 19 0.00042 28.6 11.0 37 15-55 2-38 (362)
68 TIGR02113 coaC_strep phosphopa 83.9 4.3 9.4E-05 28.7 5.7 34 19-53 1-34 (177)
69 KOG1650 Predicted K+/H+-antipo 83.8 5.7 0.00012 34.9 7.3 42 18-59 614-655 (769)
70 COG1927 Mtd Coenzyme F420-depe 82.7 13 0.00027 27.2 7.5 68 102-174 24-97 (277)
71 cd05564 PTS_IIB_chitobiose_lic 81.9 2.8 6.1E-05 26.3 3.7 67 97-174 15-81 (96)
72 PF02844 GARS_N: Phosphoribosy 81.9 1.5 3.3E-05 27.9 2.5 24 119-142 48-71 (100)
73 PF02601 Exonuc_VII_L: Exonucl 81.5 8.5 0.00018 29.8 7.0 54 116-170 50-113 (319)
74 PLN00200 argininosuccinate syn 81.2 27 0.0006 28.2 11.6 38 18-58 5-42 (404)
75 PLN02331 phosphoribosylglycina 80.9 19 0.00041 26.2 9.6 82 20-142 1-87 (207)
76 TIGR00032 argG argininosuccina 80.9 28 0.0006 28.1 10.5 34 20-57 1-34 (394)
77 PRK11070 ssDNA exonuclease Rec 80.8 34 0.00074 29.1 12.9 93 18-143 69-161 (575)
78 PRK11889 flhF flagellar biosyn 80.4 30 0.00065 28.2 10.1 73 99-172 286-360 (436)
79 PRK13011 formyltetrahydrofolat 80.2 24 0.00053 27.0 9.1 83 17-142 88-174 (286)
80 PRK06029 3-octaprenyl-4-hydrox 79.9 3.7 8E-05 29.3 4.1 37 18-54 1-37 (185)
81 cd07044 CofD_YvcK Family of Co 79.2 4.7 0.0001 31.3 4.8 53 120-174 163-216 (309)
82 cd01986 Alpha_ANH_like Adenine 78.8 13 0.00029 23.3 7.9 34 21-58 1-34 (103)
83 TIGR01826 CofD_related conserv 78.8 5.7 0.00012 30.8 5.1 54 120-175 161-215 (310)
84 PF12683 DUF3798: Protein of u 77.9 18 0.00039 27.5 7.3 92 20-142 4-95 (275)
85 TIGR02699 archaeo_AfpA archaeo 77.8 12 0.00025 26.5 6.1 34 20-53 1-35 (174)
86 COG1066 Sms Predicted ATP-depe 77.5 37 0.00081 27.6 10.7 35 20-58 95-130 (456)
87 cd02067 B12-binding B12 bindin 77.3 17 0.00036 23.5 6.6 46 100-146 18-63 (119)
88 COG1646 Predicted phosphate-bi 75.9 25 0.00055 26.1 7.4 71 102-174 8-80 (240)
89 cd03364 TOPRIM_DnaG_primases T 75.7 10 0.00023 22.6 4.8 35 18-52 43-77 (79)
90 PF04459 DUF512: Protein of un 75.6 28 0.00061 25.3 7.7 79 96-174 110-203 (204)
91 cd01714 ETF_beta The electron 75.5 28 0.0006 25.1 8.5 34 23-56 29-62 (202)
92 PRK08576 hypothetical protein; 75.4 44 0.00095 27.4 10.3 35 19-57 235-269 (438)
93 TIGR00521 coaBC_dfp phosphopan 75.3 24 0.00051 28.4 7.9 35 18-53 3-37 (390)
94 PRK00994 F420-dependent methyl 75.1 29 0.00062 25.9 7.5 49 123-175 50-98 (277)
95 KOG3180 Electron transfer flav 73.7 30 0.00064 25.1 7.1 79 29-142 40-123 (254)
96 COG1184 GCD2 Translation initi 73.7 40 0.00086 26.1 9.2 70 100-176 161-233 (301)
97 COG0036 Rpe Pentose-5-phosphat 73.3 34 0.00074 25.2 7.9 59 99-159 99-157 (220)
98 PRK00109 Holliday junction res 73.2 8.8 0.00019 25.9 4.4 54 121-174 42-99 (138)
99 COG1597 LCB5 Sphingosine kinas 72.9 35 0.00076 26.3 8.1 74 94-173 18-92 (301)
100 PRK00143 mnmA tRNA-specific 2- 72.9 45 0.00097 26.3 11.1 35 19-57 1-35 (346)
101 COG0420 SbcD DNA repair exonuc 72.6 7 0.00015 31.2 4.4 20 122-141 29-48 (390)
102 PF07279 DUF1442: Protein of u 72.0 36 0.00079 25.0 10.4 27 118-146 102-128 (218)
103 cd02070 corrinoid_protein_B12- 72.0 23 0.00049 25.5 6.6 48 100-148 101-148 (201)
104 COG3340 PepE Peptidase E [Amin 71.9 37 0.0008 25.0 8.6 45 96-142 49-93 (224)
105 KOG0780 Signal recognition par 71.7 43 0.00094 27.1 8.3 57 96-152 143-202 (483)
106 cd07187 YvcK_like family of mo 71.5 11 0.00023 29.3 5.0 54 120-175 164-218 (308)
107 PF13662 Toprim_4: Toprim doma 70.8 6.9 0.00015 23.5 3.2 35 18-52 46-80 (81)
108 PLN02828 formyltetrahydrofolat 70.7 44 0.00096 25.4 11.3 86 17-142 69-156 (268)
109 TIGR03573 WbuX N-acetyl sugar 70.2 52 0.0011 25.9 11.5 50 4-56 44-94 (343)
110 TIGR00342 thiazole biosynthesi 70.1 54 0.0012 26.1 10.4 36 18-57 172-207 (371)
111 smart00851 MGS MGS-like domain 70.0 15 0.00033 22.5 4.7 63 105-168 26-89 (90)
112 PRK00286 xseA exodeoxyribonucl 69.9 25 0.00054 28.6 7.0 53 117-170 172-230 (438)
113 TIGR02766 crypt_chrom_pln cryp 69.8 57 0.0012 26.9 9.2 111 30-169 11-121 (475)
114 PF03652 UPF0081: Uncharacteri 69.7 20 0.00043 24.1 5.5 57 119-175 37-98 (135)
115 COG1570 XseA Exonuclease VII, 69.4 25 0.00054 28.7 6.7 54 116-170 171-231 (440)
116 PF07355 GRDB: Glycine/sarcosi 69.3 26 0.00056 27.7 6.6 68 101-170 40-117 (349)
117 TIGR02069 cyanophycinase cyano 69.2 46 0.00099 25.0 8.6 23 31-53 13-35 (250)
118 PF10087 DUF2325: Uncharacteri 68.5 26 0.00056 21.8 5.9 73 96-174 10-85 (97)
119 PRK10674 deoxyribodipyrimidine 68.4 43 0.00093 27.7 8.1 93 26-142 11-105 (472)
120 TIGR00884 guaA_Cterm GMP synth 67.7 56 0.0012 25.4 11.7 38 18-58 16-53 (311)
121 PF01933 UPF0052: Uncharacteri 67.7 9.5 0.00021 29.5 4.0 52 120-173 172-224 (300)
122 PRK02929 L-arabinose isomerase 67.6 47 0.001 27.8 8.1 47 120-172 55-105 (499)
123 PF02441 Flavoprotein: Flavopr 67.1 13 0.00029 24.5 4.2 34 19-53 1-34 (129)
124 COG2876 AroA 3-deoxy-D-arabino 66.7 28 0.00061 26.4 6.0 115 21-173 47-161 (286)
125 COG1440 CelA Phosphotransferas 66.7 18 0.00039 23.1 4.4 64 98-172 18-81 (102)
126 TIGR00237 xseA exodeoxyribonuc 66.4 34 0.00074 27.9 7.1 53 117-170 166-225 (432)
127 cd00532 MGS-like MGS-like doma 66.2 32 0.0007 22.1 6.1 65 106-170 39-105 (112)
128 cd03557 L-arabinose_isomerase 65.8 59 0.0013 27.1 8.4 48 120-173 49-100 (484)
129 PRK08745 ribulose-phosphate 3- 65.4 24 0.00052 26.0 5.6 43 99-142 159-201 (223)
130 cd01712 ThiI ThiI is required 65.1 44 0.00095 23.2 10.4 35 20-58 1-35 (177)
131 PRK08091 ribulose-phosphate 3- 63.8 26 0.00056 25.9 5.5 43 99-142 167-209 (228)
132 COG0452 Dfp Phosphopantothenoy 63.6 33 0.00071 27.7 6.4 39 18-57 4-42 (392)
133 cd01715 ETF_alpha The electron 63.3 47 0.001 23.0 10.6 24 121-144 71-94 (168)
134 PRK11914 diacylglycerol kinase 63.1 57 0.0012 25.0 7.6 71 96-173 26-97 (306)
135 TIGR00250 RNAse_H_YqgF RNAse H 63.1 19 0.00042 24.0 4.4 54 120-174 35-93 (130)
136 TIGR00646 MG010 DNA primase-re 62.4 21 0.00046 26.2 4.7 37 18-54 154-190 (218)
137 cd07186 CofD_like LPPG:FO 2-ph 61.7 36 0.00078 26.4 6.0 51 120-172 172-223 (303)
138 PRK00074 guaA GMP synthase; Re 61.6 97 0.0021 26.0 12.7 37 18-57 215-251 (511)
139 PHA02031 putative DnaG-like pr 61.5 15 0.00033 27.8 3.9 36 19-54 207-242 (266)
140 cd00578 L-fuc_L-ara-isomerases 61.3 62 0.0013 26.5 7.8 74 95-174 22-98 (452)
141 COG1691 NCAIR mutase (PurE)-re 61.1 66 0.0014 23.9 9.1 62 104-173 139-204 (254)
142 PF01596 Methyltransf_3: O-met 61.0 55 0.0012 23.7 6.7 47 98-144 83-132 (205)
143 PRK00771 signal recognition pa 60.6 94 0.002 25.5 10.9 33 22-55 100-132 (437)
144 PF04244 DPRP: Deoxyribodipyri 60.6 33 0.00072 25.3 5.6 74 96-174 49-127 (224)
145 PF02142 MGS: MGS-like domain 60.4 7.7 0.00017 24.1 2.0 65 103-168 24-94 (95)
146 cd01994 Alpha_ANH_like_IV This 60.3 60 0.0013 23.2 7.4 34 20-57 1-34 (194)
147 PF03575 Peptidase_S51: Peptid 60.3 15 0.00032 25.1 3.6 61 99-161 3-63 (154)
148 PRK14057 epimerase; Provisiona 59.9 32 0.0007 25.9 5.4 43 99-142 181-223 (254)
149 COG0552 FtsY Signal recognitio 59.4 87 0.0019 24.7 9.8 96 20-152 142-240 (340)
150 PRK11921 metallo-beta-lactamas 59.3 91 0.002 25.0 10.5 89 20-144 217-311 (394)
151 PRK02628 nadE NAD synthetase; 59.2 1.2E+02 0.0025 26.5 9.4 46 8-54 352-400 (679)
152 TIGR01769 GGGP geranylgeranylg 59.1 28 0.00061 25.3 4.9 48 125-174 16-63 (205)
153 COG0788 PurU Formyltetrahydrof 58.6 80 0.0017 24.1 8.9 43 100-142 129-175 (287)
154 PRK14974 cell division protein 58.5 90 0.0019 24.6 10.7 50 100-149 186-238 (336)
155 cd01997 GMP_synthase_C The C-t 57.5 87 0.0019 24.2 9.7 35 20-57 1-35 (295)
156 PLN02476 O-methyltransferase 57.4 72 0.0016 24.4 7.0 48 96-143 154-204 (278)
157 PRK08305 spoVFB dipicolinate s 57.2 29 0.00063 25.0 4.7 35 18-53 5-40 (196)
158 PF14582 Metallophos_3: Metall 57.1 23 0.00049 26.4 4.1 20 157-176 82-101 (255)
159 PRK05703 flhF flagellar biosyn 57.1 1.1E+02 0.0023 25.1 9.8 29 26-54 230-259 (424)
160 PF13362 Toprim_3: Toprim doma 56.6 45 0.00097 20.5 5.1 38 17-54 40-79 (96)
161 PLN02589 caffeoyl-CoA O-methyl 56.4 68 0.0015 24.0 6.7 47 99-145 118-168 (247)
162 PRK02261 methylaspartate mutas 56.4 46 0.001 22.4 5.4 44 100-144 22-65 (137)
163 cd00954 NAL N-Acetylneuraminic 56.1 89 0.0019 23.8 8.6 78 96-174 58-138 (288)
164 PF01884 PcrB: PcrB family; I 56.0 49 0.0011 24.6 5.8 52 120-175 19-70 (230)
165 PRK15411 rcsA colanic acid cap 55.9 74 0.0016 22.9 7.3 67 99-172 14-85 (207)
166 PRK00919 GMP synthase subunit 55.5 97 0.0021 24.1 12.1 38 18-58 21-58 (307)
167 PRK05647 purN phosphoribosylgl 55.4 76 0.0017 22.9 9.0 84 18-142 1-89 (200)
168 cd00950 DHDPS Dihydrodipicolin 55.4 89 0.0019 23.6 7.7 78 95-173 56-135 (284)
169 COG4122 Predicted O-methyltran 55.2 72 0.0016 23.5 6.5 53 95-149 94-147 (219)
170 COG3360 Uncharacterized conser 54.6 35 0.00075 20.0 3.8 44 14-58 3-46 (71)
171 cd01029 TOPRIM_primases TOPRIM 54.3 43 0.00092 19.6 4.6 34 18-51 43-76 (79)
172 TIGR02370 pyl_corrinoid methyl 54.0 73 0.0016 22.8 6.4 48 100-148 103-150 (197)
173 PRK04147 N-acetylneuraminate l 53.5 99 0.0021 23.6 7.9 77 96-173 61-139 (293)
174 KOG0781 Signal recognition par 53.4 1.4E+02 0.003 25.2 10.6 119 6-157 367-490 (587)
175 PRK05920 aromatic acid decarbo 52.8 33 0.00072 24.9 4.4 35 18-53 3-37 (204)
176 PF01220 DHquinase_II: Dehydro 52.6 71 0.0015 21.7 5.6 72 92-170 25-98 (140)
177 PRK12723 flagellar biosynthesi 52.6 1.2E+02 0.0027 24.4 9.4 108 26-174 183-297 (388)
178 PRK14561 hypothetical protein; 52.5 84 0.0018 22.5 9.2 32 20-56 2-33 (194)
179 cd01996 Alpha_ANH_like_III Thi 52.4 69 0.0015 21.5 10.0 34 20-56 3-36 (154)
180 PF02887 PK_C: Pyruvate kinase 52.3 36 0.00078 22.0 4.2 43 122-173 5-48 (117)
181 cd02072 Glm_B12_BD B12 binding 52.3 65 0.0014 21.5 5.4 42 101-143 19-60 (128)
182 cd01025 TOPRIM_recR TOPRIM_rec 52.1 64 0.0014 21.0 5.2 49 4-53 44-92 (112)
183 TIGR01501 MthylAspMutase methy 51.7 66 0.0014 21.7 5.4 42 101-143 21-62 (134)
184 cd01537 PBP1_Repressors_Sugar_ 51.6 87 0.0019 22.4 8.9 72 95-173 15-88 (264)
185 cd02069 methionine_synthase_B1 51.6 81 0.0018 23.0 6.3 68 100-170 107-175 (213)
186 COG1197 Mfd Transcription-repa 51.5 2E+02 0.0044 26.8 9.6 97 9-142 607-705 (1139)
187 PF00072 Response_reg: Respons 51.1 56 0.0012 20.1 6.9 71 96-174 9-81 (112)
188 PF01729 QRPTase_C: Quinolinat 51.0 84 0.0018 22.0 6.4 30 112-142 128-157 (169)
189 TIGR00064 ftsY signal recognit 50.9 1.1E+02 0.0023 23.3 10.9 49 100-148 118-169 (272)
190 PRK00211 sulfur relay protein 50.6 56 0.0012 21.4 4.9 39 18-57 1-43 (119)
191 TIGR00674 dapA dihydrodipicoli 50.5 1.1E+02 0.0024 23.2 8.2 78 95-173 54-133 (285)
192 PF07302 AroM: AroM protein; 50.4 58 0.0012 24.0 5.3 44 121-171 163-209 (221)
193 cd02065 B12-binding_like B12 b 50.4 65 0.0014 20.6 5.9 69 99-171 17-87 (125)
194 PRK09875 putative hydrolase; P 50.1 66 0.0014 24.8 5.9 50 95-144 138-189 (292)
195 COG0415 PhrB Deoxyribodipyrimi 50.0 1.5E+02 0.0032 24.6 8.6 89 26-142 11-99 (461)
196 COG0391 Uncharacterized conser 50.0 47 0.001 26.0 5.1 53 120-175 178-232 (323)
197 PF01507 PAPS_reduct: Phosphoa 49.8 80 0.0017 21.5 7.9 35 20-58 1-35 (174)
198 PRK13059 putative lipid kinase 49.6 1.2E+02 0.0025 23.2 8.3 69 98-173 21-91 (295)
199 TIGR00619 sbcd exonuclease Sbc 49.4 32 0.00069 25.7 4.1 22 96-119 26-47 (253)
200 cd00951 KDGDH 5-dehydro-4-deox 49.4 1.2E+02 0.0025 23.2 7.6 75 96-172 57-133 (289)
201 COG1058 CinA Predicted nucleot 48.9 57 0.0012 24.7 5.2 69 96-169 21-92 (255)
202 PRK05452 anaerobic nitric oxid 48.6 1.6E+02 0.0034 24.5 10.4 89 20-144 221-315 (479)
203 COG0042 tRNA-dihydrouridine sy 48.5 1.3E+02 0.0028 23.5 9.6 101 21-142 69-174 (323)
204 PRK11106 queuosine biosynthesi 48.4 1.1E+02 0.0024 22.7 10.2 36 19-58 2-37 (231)
205 COG0816 Predicted endonuclease 48.3 57 0.0012 22.2 4.7 54 121-174 41-98 (141)
206 PF05582 Peptidase_U57: YabG p 48.3 90 0.002 24.0 6.2 47 96-142 116-163 (287)
207 cd06318 PBP1_ABC_sugar_binding 48.1 1.1E+02 0.0024 22.5 8.1 72 95-172 15-88 (282)
208 COG0426 FpaA Uncharacterized f 48.0 1.5E+02 0.0032 24.0 12.0 47 95-143 261-307 (388)
209 cd02071 MM_CoA_mut_B12_BD meth 47.8 76 0.0017 20.6 6.5 46 100-146 18-63 (122)
210 cd01998 tRNA_Me_trans tRNA met 47.6 1.4E+02 0.003 23.6 10.5 34 20-57 1-34 (349)
211 COG1504 Uncharacterized conser 47.4 45 0.00099 21.7 3.8 41 130-173 58-98 (121)
212 COG1036 Archaeal flavoproteins 47.4 32 0.0007 24.1 3.4 62 116-177 71-138 (187)
213 PF03740 PdxJ: Pyridoxal phosp 47.0 95 0.0021 23.2 6.0 72 36-145 25-96 (239)
214 TIGR02313 HpaI-NOT-DapA 2,4-di 46.8 1.3E+02 0.0028 23.0 8.2 77 96-173 57-136 (294)
215 TIGR00930 2a30 K-Cl cotranspor 46.8 2.3E+02 0.0051 25.9 12.1 95 20-143 577-677 (953)
216 TIGR01918 various_sel_PB selen 46.7 1.1E+02 0.0024 25.0 6.7 48 122-170 65-113 (431)
217 PF13727 CoA_binding_3: CoA-bi 46.7 25 0.00054 24.0 3.0 47 121-171 129-175 (175)
218 PF03358 FMN_red: NADPH-depend 46.7 86 0.0019 20.9 7.3 29 29-57 14-42 (152)
219 PRK10653 D-ribose transporter 46.5 1.2E+02 0.0027 22.7 8.0 72 95-172 42-115 (295)
220 TIGR00683 nanA N-acetylneurami 46.5 1.3E+02 0.0028 23.0 8.5 78 96-174 58-138 (290)
221 PHA02546 47 endonuclease subun 46.5 36 0.00079 26.7 4.1 15 96-110 26-40 (340)
222 TIGR00639 PurN phosphoribosylg 46.5 1.1E+02 0.0023 21.9 9.9 41 103-143 44-89 (190)
223 PF01008 IF-2B: Initiation fac 46.1 1.3E+02 0.0028 22.7 10.5 63 105-173 154-219 (282)
224 PRK13398 3-deoxy-7-phosphohept 46.0 1.3E+02 0.0028 22.8 11.6 115 20-173 27-143 (266)
225 PRK00509 argininosuccinate syn 45.8 1.6E+02 0.0035 23.9 12.0 38 18-58 2-39 (399)
226 PRK08417 dihydroorotase; Provi 45.8 44 0.00095 26.7 4.6 26 33-58 182-207 (386)
227 TIGR02855 spore_yabG sporulati 45.7 1.3E+02 0.0029 23.0 6.7 48 96-143 115-163 (283)
228 cd03145 GAT1_cyanophycinase Ty 45.5 1.2E+02 0.0025 22.1 9.4 39 121-161 73-111 (217)
229 cd06533 Glyco_transf_WecG_TagA 45.4 97 0.0021 21.6 5.8 44 121-170 87-130 (171)
230 COG0608 RecJ Single-stranded D 45.4 1.8E+02 0.0039 24.2 10.7 87 18-142 36-122 (491)
231 PRK08185 hypothetical protein; 45.2 86 0.0019 24.1 5.8 57 118-174 22-78 (283)
232 PRK15424 propionate catabolism 45.2 1.3E+02 0.0028 25.5 7.3 67 96-174 24-93 (538)
233 cd00952 CHBPH_aldolase Trans-o 45.2 1.4E+02 0.0031 23.0 8.6 78 95-173 64-144 (309)
234 TIGR01917 gly_red_sel_B glycin 45.0 1.3E+02 0.0028 24.7 6.8 48 122-170 65-113 (431)
235 PRK05265 pyridoxine 5'-phospha 44.9 1.3E+02 0.0028 22.5 7.3 73 36-146 27-99 (239)
236 TIGR00640 acid_CoA_mut_C methy 44.8 73 0.0016 21.3 4.8 60 99-161 20-79 (132)
237 PRK10481 hypothetical protein; 44.8 1.3E+02 0.0027 22.3 7.4 62 101-170 146-212 (224)
238 TIGR02088 LEU3_arch isopropylm 44.8 1.5E+02 0.0033 23.2 7.6 28 28-55 140-167 (322)
239 PRK05395 3-dehydroquinate dehy 44.6 66 0.0014 22.1 4.5 70 94-170 28-99 (146)
240 PRK13015 3-dehydroquinate dehy 44.6 95 0.0021 21.3 5.3 70 94-170 28-99 (146)
241 PRK12726 flagellar biosynthesi 44.5 1.7E+02 0.0037 23.8 10.0 50 100-149 252-301 (407)
242 TIGR00288 conserved hypothetic 44.4 1.1E+02 0.0023 21.4 7.6 51 4-54 8-63 (160)
243 cd00408 DHDPS-like Dihydrodipi 44.3 1.4E+02 0.003 22.5 11.0 79 95-174 53-133 (281)
244 PF02310 B12-binding: B12 bind 44.3 82 0.0018 20.0 7.6 42 100-142 19-60 (121)
245 PF00834 Ribul_P_3_epim: Ribul 44.0 21 0.00045 25.9 2.2 46 96-142 151-196 (201)
246 TIGR03249 KdgD 5-dehydro-4-deo 44.0 1.5E+02 0.0031 22.8 7.6 74 96-171 62-137 (296)
247 cd06315 PBP1_ABC_sugar_binding 43.7 1.3E+02 0.0029 22.3 6.9 72 95-172 16-89 (280)
248 PLN02781 Probable caffeoyl-CoA 43.5 1.3E+02 0.0029 22.1 6.8 47 96-142 104-153 (234)
249 PRK08883 ribulose-phosphate 3- 43.4 94 0.002 22.8 5.6 44 98-142 154-197 (220)
250 COG0745 OmpR Response regulato 43.3 1.3E+02 0.0029 22.1 7.2 70 96-174 11-82 (229)
251 cd06322 PBP1_ABC_sugar_binding 43.2 1.3E+02 0.0028 21.9 7.3 72 95-172 15-88 (267)
252 TIGR00420 trmU tRNA (5-methyla 43.0 1.7E+02 0.0037 23.2 10.3 34 19-56 1-34 (352)
253 PRK13054 lipid kinase; Reviewe 42.7 1.5E+02 0.0033 22.6 8.2 67 101-173 23-93 (300)
254 TIGR02634 xylF D-xylose ABC tr 42.7 1.5E+02 0.0032 22.5 8.4 73 95-173 14-88 (302)
255 COG3969 Predicted phosphoadeno 42.5 60 0.0013 25.8 4.5 43 17-59 26-69 (407)
256 PF01261 AP_endonuc_2: Xylose 42.5 1.2E+02 0.0025 21.2 8.9 80 32-135 70-157 (213)
257 TIGR00177 molyb_syn molybdenum 42.4 98 0.0021 20.8 5.3 43 99-141 30-74 (144)
258 PRK00779 ornithine carbamoyltr 42.1 1.6E+02 0.0035 22.8 7.8 42 119-170 85-126 (304)
259 cd05569 PTS_IIB_fructose PTS_I 41.9 68 0.0015 20.0 4.1 45 98-144 18-64 (96)
260 PF02571 CbiJ: Precorrin-6x re 41.5 1.1E+02 0.0024 22.9 5.9 51 119-175 179-230 (249)
261 PRK00766 hypothetical protein; 41.3 91 0.002 22.5 5.1 58 109-170 42-104 (194)
262 PF13167 GTP-bdg_N: GTP-bindin 41.0 92 0.002 19.6 7.0 48 95-142 7-66 (95)
263 cd01297 D-aminoacylase D-amino 41.0 1.9E+02 0.0041 23.3 12.0 53 4-58 200-253 (415)
264 PRK13055 putative lipid kinase 40.9 1.7E+02 0.0038 22.8 8.4 72 96-173 20-94 (334)
265 COG1911 RPL30 Ribosomal protei 40.9 81 0.0018 20.0 4.1 48 122-174 24-71 (100)
266 TIGR02329 propionate_PrpR prop 40.8 2E+02 0.0044 24.3 7.8 67 96-174 14-83 (526)
267 TIGR00583 mre11 DNA repair pro 40.7 80 0.0017 25.6 5.3 12 163-174 109-120 (405)
268 PRK03170 dihydrodipicolinate s 40.6 1.6E+02 0.0035 22.4 8.5 78 95-173 57-136 (292)
269 TIGR00559 pdxJ pyridoxine 5'-p 40.6 1.5E+02 0.0033 22.1 7.4 72 37-146 25-96 (237)
270 COG2185 Sbm Methylmalonyl-CoA 40.5 1.2E+02 0.0026 20.8 6.2 66 100-168 31-96 (143)
271 PRK08745 ribulose-phosphate 3- 40.2 1.5E+02 0.0032 21.9 7.6 57 101-159 102-158 (223)
272 smart00493 TOPRIM topoisomeras 40.2 53 0.0011 19.0 3.3 26 19-44 48-73 (76)
273 PF14639 YqgF: Holliday-juncti 40.0 39 0.00084 23.2 3.0 19 123-141 53-71 (150)
274 cd06320 PBP1_allose_binding Pe 40.0 1.5E+02 0.0032 21.7 7.2 72 95-172 15-90 (275)
275 cd01539 PBP1_GGBP Periplasmic 39.7 1.6E+02 0.0036 22.2 7.4 71 96-172 16-90 (303)
276 PRK07627 dihydroorotase; Provi 39.7 69 0.0015 26.0 4.8 26 33-58 213-238 (425)
277 cd06375 PBP1_mGluR_groupII Lig 39.4 2.1E+02 0.0046 23.4 12.9 94 18-144 174-267 (458)
278 cd06361 PBP1_GPC6A_like Ligand 39.4 2E+02 0.0044 23.1 13.9 99 18-145 172-270 (403)
279 PF03808 Glyco_tran_WecB: Glyc 39.2 1.3E+02 0.0029 20.9 6.0 45 120-170 88-132 (172)
280 PRK08005 epimerase; Validated 39.1 1.5E+02 0.0033 21.6 7.6 58 101-160 98-155 (210)
281 PRK06806 fructose-bisphosphate 38.7 1.8E+02 0.0039 22.3 6.8 56 119-174 28-84 (281)
282 PRK09195 gatY tagatose-bisphos 38.4 1.5E+02 0.0032 22.9 6.1 59 116-174 25-84 (284)
283 cd06323 PBP1_ribose_binding Pe 38.4 1.5E+02 0.0033 21.4 7.2 72 95-172 15-88 (268)
284 cd01971 Nitrogenase_VnfN_like 38.2 69 0.0015 26.0 4.7 65 113-178 63-130 (427)
285 cd06301 PBP1_rhizopine_binding 38.1 1.6E+02 0.0034 21.5 7.7 71 96-172 16-89 (272)
286 KOG3076 5'-phosphoribosylglyci 38.1 1.5E+02 0.0033 21.4 7.5 35 18-52 6-41 (206)
287 cd01424 MGS_CPS_II Methylglyox 37.8 1.1E+02 0.0023 19.4 6.4 63 105-170 39-101 (110)
288 cd01538 PBP1_ABC_xylose_bindin 37.7 1.7E+02 0.0037 21.8 8.2 73 95-173 15-89 (288)
289 TIGR00715 precor6x_red precorr 37.5 1.5E+02 0.0032 22.4 6.0 53 117-174 180-233 (256)
290 cd01536 PBP1_ABC_sugar_binding 37.5 1.6E+02 0.0034 21.2 8.1 72 95-172 15-88 (267)
291 cd06282 PBP1_GntR_like_2 Ligan 37.4 1.6E+02 0.0034 21.3 8.5 69 96-171 16-86 (266)
292 PRK06731 flhF flagellar biosyn 37.3 1.9E+02 0.004 22.1 11.5 52 99-150 120-171 (270)
293 COG1184 GCD2 Translation initi 37.3 2E+02 0.0043 22.4 8.7 52 118-173 128-179 (301)
294 cd00466 DHQase_II Dehydroquina 37.1 1.1E+02 0.0025 20.8 4.8 70 94-170 26-97 (140)
295 cd02801 DUS_like_FMN Dihydrour 37.0 1.6E+02 0.0035 21.2 9.0 74 95-172 112-191 (231)
296 cd07388 MPP_Tt1561 Thermus the 37.0 1.1E+02 0.0023 22.6 5.1 18 123-140 21-38 (224)
297 PRK12857 fructose-1,6-bisphosp 37.0 1.8E+02 0.0038 22.4 6.4 57 118-174 27-84 (284)
298 PF13155 Toprim_2: Toprim-like 36.9 99 0.0021 18.8 5.4 37 9-46 39-75 (96)
299 cd00946 FBP_aldolase_IIA Class 36.9 1.8E+02 0.004 23.1 6.6 57 118-174 25-97 (345)
300 cd00885 cinA Competence-damage 36.9 1.4E+02 0.0031 20.8 5.6 43 98-140 21-65 (170)
301 PRK06801 hypothetical protein; 36.8 1.9E+02 0.0041 22.2 6.6 57 118-174 27-84 (286)
302 TIGR00347 bioD dethiobiotin sy 36.7 1E+02 0.0023 20.9 4.9 19 125-143 121-139 (166)
303 TIGR01088 aroQ 3-dehydroquinat 36.6 1.2E+02 0.0027 20.6 4.9 70 94-170 26-97 (141)
304 PRK12737 gatY tagatose-bisphos 36.1 1.8E+02 0.0038 22.4 6.3 57 118-174 27-84 (284)
305 KOG3111 D-ribulose-5-phosphate 36.1 1.4E+02 0.0031 21.7 5.3 58 98-157 101-158 (224)
306 COG1926 Predicted phosphoribos 36.0 1.8E+02 0.0038 21.5 8.3 119 19-142 26-160 (220)
307 CHL00076 chlB photochlorophyll 35.9 82 0.0018 26.4 4.8 25 119-143 101-126 (513)
308 TIGR00829 FRU PTS system, fruc 35.8 74 0.0016 19.5 3.5 43 99-143 18-62 (85)
309 PF05716 AKAP_110: A-kinase an 35.8 1E+02 0.0022 26.2 5.1 78 19-135 587-666 (685)
310 PRK05234 mgsA methylglyoxal sy 35.8 1.4E+02 0.003 20.2 6.3 63 105-169 45-111 (142)
311 cd06319 PBP1_ABC_sugar_binding 35.6 1.8E+02 0.0038 21.3 7.6 72 95-172 15-88 (277)
312 cd05403 NT_KNTase_like Nucleot 35.4 47 0.001 19.8 2.7 34 111-146 17-50 (93)
313 TIGR00364 exsB protein. This p 35.3 1.6E+02 0.0036 20.9 9.6 21 123-143 101-121 (201)
314 PRK06372 translation initiatio 35.2 2E+02 0.0043 21.8 6.7 67 101-174 126-195 (253)
315 TIGR01858 tag_bisphos_ald clas 34.7 2E+02 0.0043 22.1 6.4 57 118-174 25-82 (282)
316 PF01515 PTA_PTB: Phosphate ac 34.6 1.1E+02 0.0023 24.0 5.0 49 95-143 77-126 (319)
317 PTZ00323 NAD+ synthase; Provis 34.6 2.2E+02 0.0047 22.1 12.1 40 18-57 46-86 (294)
318 TIGR00273 iron-sulfur cluster- 34.4 1.8E+02 0.0039 23.9 6.4 52 90-141 45-96 (432)
319 cd06277 PBP1_LacI_like_1 Ligan 34.3 1.8E+02 0.004 21.1 9.1 70 95-173 18-89 (268)
320 PRK15408 autoinducer 2-binding 34.2 2.3E+02 0.0049 22.1 7.0 72 96-173 40-114 (336)
321 PRK07369 dihydroorotase; Provi 34.2 2.5E+02 0.0055 22.7 7.9 26 33-58 214-239 (418)
322 COG0036 Rpe Pentose-5-phosphat 34.2 1.9E+02 0.0042 21.3 11.1 42 99-142 158-199 (220)
323 PRK10416 signal recognition pa 34.2 2.3E+02 0.0049 22.2 11.6 47 103-149 163-212 (318)
324 PRK03620 5-dehydro-4-deoxygluc 33.9 2.2E+02 0.0048 21.9 7.7 75 96-172 64-140 (303)
325 PRK13602 putative ribosomal pr 33.9 91 0.002 18.9 3.7 20 123-142 17-36 (82)
326 PF13407 Peripla_BP_4: Peripla 33.7 1.8E+02 0.004 21.0 8.0 73 95-173 14-89 (257)
327 PF03668 ATP_bind_2: P-loop AT 33.7 2.2E+02 0.0048 21.9 8.8 54 5-58 37-92 (284)
328 COG0191 Fba Fructose/tagatose 33.6 1.5E+02 0.0033 22.8 5.5 56 119-174 28-85 (286)
329 COG0151 PurD Phosphoribosylami 33.4 46 0.001 27.1 2.8 23 120-142 50-72 (428)
330 PRK08392 hypothetical protein; 33.4 1.8E+02 0.0038 21.0 5.8 68 97-166 138-205 (215)
331 smart00852 MoCF_biosynth Proba 33.0 1.5E+02 0.0031 19.6 5.7 42 99-140 21-64 (135)
332 PF11215 DUF3010: Protein of u 32.6 1.5E+02 0.0032 20.1 4.7 49 123-171 51-101 (138)
333 cd04795 SIS SIS domain. SIS (S 32.5 1.1E+02 0.0023 17.9 4.0 35 18-53 47-81 (87)
334 PRK13337 putative lipid kinase 32.3 2.3E+02 0.005 21.7 8.6 69 99-173 22-92 (304)
335 PRK12724 flagellar biosynthesi 32.3 2.9E+02 0.0062 22.8 8.9 82 25-146 231-312 (432)
336 cd06274 PBP1_FruR Ligand bindi 32.2 2E+02 0.0043 20.9 9.3 70 96-173 16-87 (264)
337 PRK10355 xylF D-xylose transpo 32.2 2.4E+02 0.0052 21.8 8.2 72 95-172 41-114 (330)
338 TIGR02260 benz_CoA_red_B benzo 32.1 1.4E+02 0.003 24.3 5.4 56 121-176 338-393 (413)
339 TIGR02990 ectoine_eutA ectoine 31.7 2.2E+02 0.0047 21.2 7.1 69 95-169 131-211 (239)
340 PF01380 SIS: SIS domain SIS d 31.6 1.2E+02 0.0026 19.3 4.4 38 17-55 52-89 (131)
341 PRK09061 D-glutamate deacylase 31.6 3.1E+02 0.0067 23.0 9.4 52 5-58 201-257 (509)
342 cd00947 TBP_aldolase_IIB Tagat 31.5 1.9E+02 0.0042 22.1 5.8 57 118-174 22-79 (276)
343 cd08550 GlyDH-like Glycerol_de 31.5 2.6E+02 0.0056 22.0 7.5 68 98-173 38-110 (349)
344 cd06295 PBP1_CelR Ligand bindi 31.5 2.1E+02 0.0045 20.9 9.6 70 96-173 27-96 (275)
345 COG2099 CobK Precorrin-6x redu 31.4 96 0.0021 23.5 4.0 53 120-176 53-105 (257)
346 PRK06850 hypothetical protein; 31.2 3.2E+02 0.007 23.0 9.6 38 19-56 35-77 (507)
347 TIGR03702 lip_kinase_YegS lipi 31.2 2.4E+02 0.0051 21.5 8.0 66 102-173 20-89 (293)
348 TIGR01334 modD putative molybd 31.2 2.4E+02 0.0053 21.6 8.9 34 109-143 233-266 (277)
349 PF01791 DeoC: DeoC/LacD famil 31.1 2.1E+02 0.0046 20.9 7.4 78 93-171 109-200 (236)
350 PRK08535 translation initiatio 31.1 2.5E+02 0.0055 21.8 11.7 63 103-172 165-230 (310)
351 cd02812 PcrB_like PcrB_like pr 31.0 1.4E+02 0.003 22.0 4.8 51 122-175 14-65 (219)
352 cd06313 PBP1_ABC_sugar_binding 30.9 2.2E+02 0.0047 21.0 7.3 71 96-172 16-88 (272)
353 cd06309 PBP1_YtfQ_like Peripla 30.9 2.1E+02 0.0046 20.9 7.9 72 95-172 15-88 (273)
354 cd00840 MPP_Mre11_N Mre11 nucl 30.7 1.1E+02 0.0025 21.6 4.5 9 136-144 80-88 (223)
355 cd01967 Nitrogenase_MoFe_alpha 30.6 1.2E+02 0.0026 24.3 4.9 26 119-144 103-129 (406)
356 PF00885 DMRL_synthase: 6,7-di 30.6 1.8E+02 0.0038 19.8 5.9 74 95-168 19-103 (144)
357 cd06334 PBP1_ABC_ligand_bindin 30.6 2.6E+02 0.0057 21.8 10.5 33 18-50 140-172 (351)
358 KOG2310 DNA repair exonuclease 30.6 47 0.001 28.0 2.5 22 120-141 39-60 (646)
359 COG2201 CheB Chemotaxis respon 30.5 1.9E+02 0.004 23.1 5.7 50 119-172 33-82 (350)
360 PRK13606 LPPG:FO 2-phospho-L-l 30.5 1.1E+02 0.0024 23.8 4.4 46 120-170 174-221 (303)
361 PRK09197 fructose-bisphosphate 30.5 2.8E+02 0.0061 22.1 6.6 57 119-175 31-103 (350)
362 cd00886 MogA_MoaB MogA_MoaB fa 30.4 1.8E+02 0.0038 19.8 5.1 41 100-140 24-68 (152)
363 TIGR00421 ubiX_pad polyprenyl 30.3 90 0.002 22.1 3.7 34 20-54 1-34 (181)
364 cd01968 Nitrogenase_NifE_I Nit 30.2 1.4E+02 0.0031 24.0 5.2 26 119-144 102-128 (410)
365 PRK08057 cobalt-precorrin-6x r 30.1 1.7E+02 0.0036 22.0 5.2 50 119-174 175-225 (248)
366 COG0603 Predicted PP-loop supe 30.1 2.3E+02 0.005 21.0 8.0 38 18-59 2-39 (222)
367 TIGR03590 PseG pseudaminic aci 30.1 2.4E+02 0.0053 21.3 9.5 38 121-172 231-268 (279)
368 COG0329 DapA Dihydrodipicolina 29.9 2.6E+02 0.0057 21.6 9.6 78 96-174 61-140 (299)
369 cd03115 SRP The signal recogni 29.8 1.9E+02 0.004 19.8 11.2 17 26-42 9-25 (173)
370 PLN02496 probable phosphopanto 29.7 1.3E+02 0.0027 22.1 4.4 35 18-54 19-53 (209)
371 cd01422 MGS Methylglyoxal synt 29.3 1.6E+02 0.0035 19.0 6.1 59 108-169 44-106 (115)
372 TIGR01430 aden_deam adenosine 29.3 2.7E+02 0.0058 21.5 10.0 37 99-135 175-211 (324)
373 cd07402 MPP_GpdQ Enterobacter 29.3 1.5E+02 0.0033 21.4 5.0 11 161-171 67-77 (240)
374 cd00003 PNPsynthase Pyridoxine 29.3 2.5E+02 0.0053 21.0 7.1 72 37-146 25-96 (234)
375 PRK13794 hypothetical protein; 29.2 3.4E+02 0.0074 22.6 9.2 37 19-58 248-284 (479)
376 cd05008 SIS_GlmS_GlmD_1 SIS (S 29.0 1.3E+02 0.0029 19.2 4.2 38 18-56 46-83 (126)
377 PRK05749 3-deoxy-D-manno-octul 28.9 3E+02 0.0066 22.0 8.4 20 121-142 309-328 (425)
378 cd00958 DhnA Class I fructose- 28.7 2.3E+02 0.0051 20.6 7.7 69 96-172 109-187 (235)
379 TIGR01768 GGGP-family geranylg 28.7 1.5E+02 0.0034 21.9 4.7 50 122-174 16-65 (223)
380 cd06317 PBP1_ABC_sugar_binding 28.7 2.3E+02 0.005 20.6 8.4 72 95-172 16-89 (275)
381 cd06300 PBP1_ABC_sugar_binding 28.6 2.4E+02 0.0051 20.6 7.4 72 95-172 15-93 (272)
382 TIGR00381 cdhD CO dehydrogenas 28.5 2.2E+02 0.0048 23.0 5.8 16 155-170 179-194 (389)
383 PF01177 Asp_Glu_race: Asp/Glu 28.5 1E+02 0.0022 22.0 3.8 40 124-168 162-205 (216)
384 PRK12457 2-dehydro-3-deoxyphos 28.3 2.8E+02 0.006 21.4 7.9 43 95-142 73-115 (281)
385 cd01972 Nitrogenase_VnfE_like 28.2 1.3E+02 0.0029 24.3 4.8 26 119-144 105-131 (426)
386 PRK02090 phosphoadenosine phos 28.1 2.5E+02 0.0054 20.8 7.4 36 19-58 41-76 (241)
387 PRK06806 fructose-bisphosphate 28.0 2.8E+02 0.006 21.3 12.8 159 1-171 27-207 (281)
388 cd00758 MoCF_BD MoCF_BD: molyb 28.0 1.8E+02 0.0039 19.1 5.4 42 99-140 22-65 (133)
389 PF04392 ABC_sub_bind: ABC tra 27.9 2.6E+02 0.0056 21.2 6.1 43 14-56 127-170 (294)
390 PRK06371 translation initiatio 27.8 3.1E+02 0.0067 21.7 8.8 96 35-170 157-255 (329)
391 PF00994 MoCF_biosynth: Probab 27.7 1.9E+02 0.0041 19.2 5.3 46 96-141 17-64 (144)
392 PRK03670 competence damage-ind 27.7 2.3E+02 0.005 21.3 5.6 44 97-140 21-67 (252)
393 cd07392 MPP_PAE1087 Pyrobaculu 27.7 1E+02 0.0023 21.1 3.7 16 158-173 46-61 (188)
394 cd06267 PBP1_LacI_sugar_bindin 27.6 2.3E+02 0.005 20.2 9.0 71 95-173 15-87 (264)
395 PF13500 AAA_26: AAA domain; P 27.6 74 0.0016 22.5 2.9 26 124-149 120-145 (199)
396 TIGR02667 moaB_proteo molybden 27.5 2.1E+02 0.0046 19.8 5.6 41 100-140 26-70 (163)
397 cd06360 PBP1_alkylbenzenes_lik 27.5 2.8E+02 0.006 21.1 11.1 17 124-140 180-196 (336)
398 PRK09271 flavodoxin; Provision 27.5 1.1E+02 0.0024 20.9 3.7 46 95-142 15-60 (160)
399 PRK13057 putative lipid kinase 27.4 2.8E+02 0.006 21.0 6.8 68 98-173 15-83 (287)
400 TIGR01283 nifE nitrogenase mol 27.3 1.4E+02 0.003 24.5 4.8 25 119-143 137-162 (456)
401 cd01542 PBP1_TreR_like Ligand- 27.3 2.4E+02 0.0052 20.3 8.3 70 95-172 15-86 (259)
402 PRK12581 oxaloacetate decarbox 27.3 3.7E+02 0.008 22.4 11.3 48 1-49 71-121 (468)
403 cd06296 PBP1_CatR_like Ligand- 27.2 2.5E+02 0.0053 20.4 8.4 70 95-172 15-86 (270)
404 PF00701 DHDPS: Dihydrodipicol 27.1 2.8E+02 0.0061 21.0 8.5 76 96-172 58-135 (289)
405 cd01981 Pchlide_reductase_B Pc 27.1 1.3E+02 0.0028 24.4 4.5 26 119-144 101-127 (430)
406 KOG1552 Predicted alpha/beta h 27.1 2.8E+02 0.006 21.1 5.8 48 125-173 144-201 (258)
407 PRK14478 nitrogenase molybdenu 26.9 1.5E+02 0.0032 24.6 4.9 26 119-144 135-161 (475)
408 PRK06683 hypothetical protein; 26.8 1.5E+02 0.0033 17.9 3.8 44 123-171 17-60 (82)
409 PRK08005 epimerase; Validated 26.7 2E+02 0.0044 21.0 5.0 25 118-142 169-193 (210)
410 TIGR01391 dnaG DNA primase, ca 26.7 1.3E+02 0.0028 24.4 4.5 35 19-53 301-335 (415)
411 PRK12388 fructose-1,6-bisphosp 26.7 3.2E+02 0.0069 21.5 7.7 81 18-138 119-205 (321)
412 PF10649 DUF2478: Protein of u 26.6 1.2E+02 0.0026 21.2 3.6 47 123-170 83-129 (159)
413 cd06305 PBP1_methylthioribose_ 26.6 2.5E+02 0.0055 20.4 8.5 72 95-172 15-88 (273)
414 PRK08091 ribulose-phosphate 3- 26.5 2.7E+02 0.0059 20.7 7.9 58 101-160 108-167 (228)
415 PRK12738 kbaY tagatose-bisphos 26.4 3E+02 0.0066 21.2 6.3 59 116-174 25-84 (286)
416 TIGR01819 F420_cofD LPPG:FO 2- 26.4 1.4E+02 0.0029 23.2 4.2 46 120-170 171-218 (297)
417 cd06284 PBP1_LacI_like_6 Ligan 26.4 2.5E+02 0.0055 20.2 9.2 69 95-172 15-85 (267)
418 KOG1650 Predicted K+/H+-antipo 26.3 4.8E+02 0.01 23.4 10.9 147 18-173 443-600 (769)
419 TIGR00512 salvage_mtnA S-methy 26.2 3.3E+02 0.0071 21.5 8.9 65 103-172 200-267 (331)
420 CHL00073 chlN photochlorophyll 26.1 1.7E+02 0.0036 24.3 4.9 50 96-145 84-140 (457)
421 TIGR00696 wecB_tagA_cpsF bacte 26.1 2.4E+02 0.0052 19.9 5.5 21 122-142 89-109 (177)
422 PF04260 DUF436: Protein of un 25.9 2.4E+02 0.0053 19.9 7.6 112 31-169 3-116 (172)
423 TIGR02127 pyrF_sub2 orotidine 25.9 3E+02 0.0064 20.9 10.1 47 6-54 3-59 (261)
424 PF03162 Y_phosphatase2: Tyros 25.8 1.6E+02 0.0035 20.4 4.3 70 106-175 29-102 (164)
425 PRK10886 DnaA initiator-associ 25.7 1.5E+02 0.0032 21.3 4.2 40 18-58 109-148 (196)
426 PRK08384 thiamine biosynthesis 25.7 3.6E+02 0.0078 21.8 9.9 36 18-57 180-215 (381)
427 TIGR00737 nifR3_yhdG putative 25.7 3.2E+02 0.0069 21.2 9.8 75 95-172 120-200 (319)
428 TIGR00857 pyrC_multi dihydroor 25.7 1.6E+02 0.0034 23.7 4.8 26 33-58 199-224 (411)
429 smart00807 AKAP_110 A-kinase a 25.6 1.6E+02 0.0035 25.2 4.7 77 21-136 756-833 (851)
430 COG0301 ThiI Thiamine biosynth 25.6 3.7E+02 0.0079 21.8 7.7 37 18-58 175-211 (383)
431 cd06362 PBP1_mGluR Ligand bind 25.5 3.6E+02 0.0078 21.8 12.7 33 18-50 172-204 (452)
432 COG3640 CooC CO dehydrogenase 25.5 1.4E+02 0.0031 22.5 4.0 37 18-54 156-193 (255)
433 TIGR00147 lipid kinase, YegS/R 25.5 3E+02 0.0065 20.8 8.5 70 96-172 19-91 (293)
434 COG0655 WrbA Multimeric flavod 25.4 2.6E+02 0.0056 20.0 8.2 38 21-58 6-43 (207)
435 cd06275 PBP1_PurR Ligand-bindi 25.1 2.7E+02 0.0059 20.2 9.5 72 95-173 15-88 (269)
436 TIGR03151 enACPred_II putative 24.9 3.3E+02 0.0072 21.1 6.9 65 103-171 103-168 (307)
437 PRK04169 geranylgeranylglycery 24.8 1.9E+02 0.0042 21.5 4.7 45 127-174 26-70 (232)
438 PF01993 MTD: methylene-5,6,7, 24.6 1.1E+02 0.0024 23.0 3.3 47 123-173 49-95 (276)
439 cd04726 KGPDC_HPS 3-Keto-L-gul 24.6 2.6E+02 0.0055 19.7 10.9 72 99-172 93-166 (202)
440 COG2129 Predicted phosphoester 24.6 1.6E+02 0.0035 21.8 4.1 53 120-176 17-76 (226)
441 PLN00096 isocitrate dehydrogen 24.5 1E+02 0.0022 24.9 3.3 36 22-57 169-204 (393)
442 PF13580 SIS_2: SIS domain; PD 24.3 2.2E+02 0.0048 18.9 5.2 34 18-52 103-136 (138)
443 cd04731 HisF The cyclase subun 24.1 2.9E+02 0.0064 20.2 8.6 51 122-172 151-201 (243)
444 PF01012 ETF: Electron transfe 24.1 2.4E+02 0.0052 19.2 6.8 80 95-174 18-100 (164)
445 PF14097 SpoVAE: Stage V sporu 24.0 81 0.0017 22.3 2.4 22 20-41 1-22 (180)
446 PF00532 Peripla_BP_1: Peripla 24.0 3.2E+02 0.0069 20.6 9.0 72 95-174 17-89 (279)
447 PRK08349 hypothetical protein; 24.0 2.7E+02 0.0059 19.7 11.1 33 20-56 2-34 (198)
448 PRK00861 putative lipid kinase 24.0 3.3E+02 0.0071 20.7 7.4 57 110-173 33-90 (300)
449 PRK09722 allulose-6-phosphate 24.0 3.1E+02 0.0066 20.4 7.7 58 100-159 99-156 (229)
450 COG4635 HemG Flavodoxin [Energ 23.9 1E+02 0.0023 21.6 2.9 71 95-171 15-88 (175)
451 COG2870 RfaE ADP-heptose synth 23.9 2.2E+02 0.0048 23.3 5.0 53 120-175 128-182 (467)
452 cd05006 SIS_GmhA Phosphoheptos 23.9 1.7E+02 0.0037 20.3 4.1 39 18-57 101-139 (177)
453 PF05902 4_1_CTD: 4.1 protein 23.8 2E+02 0.0044 18.8 4.0 36 19-54 71-108 (114)
454 cd06346 PBP1_ABC_ligand_bindin 23.8 3.2E+02 0.007 20.6 11.1 31 18-48 137-167 (312)
455 PRK11891 aspartate carbamoyltr 23.8 4.2E+02 0.0091 21.9 8.7 41 119-169 169-209 (429)
456 COG0512 PabA Anthranilate/para 23.7 2.5E+02 0.0054 20.3 4.9 62 101-170 17-80 (191)
457 PRK05772 translation initiatio 23.6 3.9E+02 0.0085 21.5 9.3 98 38-175 191-291 (363)
458 cd05014 SIS_Kpsf KpsF-like pro 23.5 1.9E+02 0.0042 18.5 4.2 40 18-58 47-86 (128)
459 cd01974 Nitrogenase_MoFe_beta 23.5 4.1E+02 0.0089 21.7 10.2 27 116-142 360-386 (435)
460 PRK00090 bioD dithiobiotin syn 23.5 2.2E+02 0.0049 20.4 4.9 20 124-143 124-143 (222)
461 PRK14057 epimerase; Provisiona 23.4 3.3E+02 0.0072 20.6 7.9 48 111-160 134-181 (254)
462 PF02610 Arabinose_Isome: L-ar 23.4 3E+02 0.0066 22.0 5.7 44 123-172 61-105 (359)
463 COG0381 WecB UDP-N-acetylgluco 23.3 4.1E+02 0.0088 21.6 8.3 41 18-58 3-43 (383)
464 TIGR00644 recJ single-stranded 23.2 4.6E+02 0.01 22.2 10.7 35 109-143 111-145 (539)
465 PF02729 OTCace_N: Aspartate/o 23.2 68 0.0015 21.7 1.9 40 119-168 81-120 (142)
466 PF09954 DUF2188: Uncharacteri 23.1 1.5E+02 0.0032 16.6 3.1 25 29-54 26-51 (62)
467 PRK15454 ethanol dehydrogenase 23.1 4E+02 0.0087 21.4 7.6 41 99-139 67-112 (395)
468 cd01979 Pchlide_reductase_N Pc 23.1 1.7E+02 0.0036 23.5 4.4 49 96-144 74-129 (396)
469 PRK13938 phosphoheptose isomer 23.1 2.9E+02 0.0063 19.8 5.7 40 18-58 113-152 (196)
470 PF02568 ThiI: Thiamine biosyn 23.0 3E+02 0.0065 19.9 10.4 37 18-58 3-39 (197)
471 PRK07998 gatY putative fructos 23.0 3.4E+02 0.0075 20.9 5.8 56 119-174 28-84 (283)
472 COG2379 GckA Putative glycerat 22.9 4.2E+02 0.0092 21.6 10.4 131 40-173 170-316 (422)
473 PRK08883 ribulose-phosphate 3- 22.9 3.1E+02 0.0068 20.1 7.8 53 100-154 97-149 (220)
474 PRK10474 putative PTS system f 22.9 1.7E+02 0.0036 18.0 3.5 44 99-144 4-49 (88)
475 cd07399 MPP_YvnB Bacillus subt 22.8 1.9E+02 0.004 20.9 4.3 20 155-174 97-116 (214)
476 cd03110 Fer4_NifH_child This p 22.8 2.6E+02 0.0057 19.1 6.3 31 19-49 116-146 (179)
477 TIGR00511 ribulose_e2b2 ribose 22.7 3.7E+02 0.008 20.8 10.6 64 102-172 159-225 (301)
478 COG0707 MurG UDP-N-acetylgluco 22.7 4E+02 0.0086 21.2 9.8 101 19-175 183-283 (357)
479 TIGR00330 glpX fructose-1,6-bi 22.6 3.8E+02 0.0083 21.0 7.8 81 18-138 119-205 (321)
480 PF02878 PGM_PMM_I: Phosphoglu 22.6 2.4E+02 0.0052 18.6 6.7 40 18-57 40-79 (137)
481 COG1737 RpiR Transcriptional r 22.6 1.6E+02 0.0034 22.4 4.0 39 18-57 177-215 (281)
482 TIGR00615 recR recombination p 22.5 3.1E+02 0.0067 19.9 5.4 45 6-51 124-168 (195)
483 COG0156 BioF 7-keto-8-aminopel 22.4 1.5E+02 0.0033 23.9 4.0 48 1-49 154-204 (388)
484 PF13607 Succ_CoA_lig: Succiny 22.4 2.5E+02 0.0055 18.9 4.8 72 99-174 15-91 (138)
485 PF01207 Dus: Dihydrouridine s 22.4 3.7E+02 0.0081 20.8 10.3 129 20-170 55-189 (309)
486 PRK09722 allulose-6-phosphate 22.2 3.3E+02 0.0072 20.2 12.2 43 99-142 157-199 (229)
487 TIGR02057 PAPS_reductase phosp 22.2 3.3E+02 0.007 20.0 9.0 39 18-59 25-63 (226)
488 PRK11815 tRNA-dihydrouridine s 22.2 3.9E+02 0.0085 20.9 8.8 47 94-141 121-172 (333)
489 TIGR00169 leuB 3-isopropylmala 22.1 1E+02 0.0022 24.5 3.0 29 29-57 163-191 (349)
490 TIGR03127 RuMP_HxlB 6-phospho 22.1 1.9E+02 0.0041 20.0 4.2 39 18-57 72-110 (179)
491 PLN02958 diacylglycerol kinase 22.1 4.7E+02 0.01 21.8 12.2 70 99-174 133-209 (481)
492 PF02514 CobN-Mg_chel: CobN/Ma 22.0 5.9E+02 0.013 24.0 7.9 73 96-171 89-166 (1098)
493 PRK08194 tartrate dehydrogenas 22.0 93 0.002 24.8 2.7 29 29-57 161-189 (352)
494 KOG0785 Isocitrate dehydrogena 22.0 3.2E+02 0.007 21.5 5.4 30 30-59 179-209 (365)
495 PRK10550 tRNA-dihydrouridine s 22.0 3.9E+02 0.0084 20.8 11.7 75 94-172 119-202 (312)
496 PRK09358 adenosine deaminase; 21.9 3.9E+02 0.0084 20.8 10.7 38 99-136 185-222 (340)
497 PRK11104 hemG protoporphyrinog 21.7 2.9E+02 0.0063 19.3 5.9 42 95-143 15-56 (177)
498 cd03146 GAT1_Peptidase_E Type 21.6 3.2E+02 0.0069 19.7 7.9 38 100-141 50-88 (212)
499 COG1619 LdcA Uncharacterized p 21.6 4E+02 0.0087 20.9 7.5 94 26-147 19-115 (313)
500 PRK09059 dihydroorotase; Valid 21.6 1.9E+02 0.0041 23.6 4.5 27 32-58 217-243 (429)
No 1
>PRK15456 universal stress protein UspG; Provisional
Probab=99.94 E-value=1.1e-25 Score=153.97 Aligned_cols=139 Identities=20% Similarity=0.248 Sum_probs=106.1
Q ss_pred CCeEEEeecCCc--cHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhH
Q 041485 18 NRSIGVALDFSK--GSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQ 95 (179)
Q Consensus 18 ~~~ILv~vd~s~--~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (179)
|++||||+|+|+ .+..|+++|..+|+.. ++++++|+.++..... . .... ... +...+...+..+
T Consensus 2 ~~~ILv~vD~S~~~~s~~al~~A~~la~~~-~~l~llhv~~~~~~~~----~---~~~~---~~~---~~~~~~~~~~~~ 67 (142)
T PRK15456 2 YKTIIMPVDVFEMELSDKAVRHAEFLAQDD-GVIHLLHVLPGSASLS----L---HRFA---ADV---RRFEEHLQHEAE 67 (142)
T ss_pred CccEEEeccCCchhHHHHHHHHHHHHHhcC-CeEEEEEEecCccccc----c---cccc---cch---hhHHHHHHHHHH
Confidence 699999999994 8999999999999874 6999999987642110 0 0000 010 112222233344
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
+.++.+.+.+...+.++++++..|++.+.|.+++++.++||||||+++++ +.++++||++++++++++||||+||
T Consensus 68 ~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~~~a~~pVLvV~ 142 (142)
T PRK15456 68 ERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVIRHANLPVLVVR 142 (142)
T ss_pred HHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHHHcCCCCEEEeC
Confidence 55555555555557788888999999999999999999999999999976 7778999999999999999999986
No 2
>PRK15005 universal stress protein F; Provisional
Probab=99.94 E-value=1.2e-25 Score=154.09 Aligned_cols=141 Identities=18% Similarity=0.205 Sum_probs=105.5
Q ss_pred CCeEEEeecCCcc--HHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhH
Q 041485 18 NRSIGVALDFSKG--SKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQ 95 (179)
Q Consensus 18 ~~~ILv~vd~s~~--s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (179)
|++||||+|+|+. +..|+++|.++|+..+++++++|+.++..... ..+. .........+ ...+..+
T Consensus 2 ~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~------~~~~--~~~~~~~~~~----~~~~~~~ 69 (144)
T PRK15005 2 NRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYA------SLGL--AYSAELPAMD----DLKAEAK 69 (144)
T ss_pred CccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCcccc------cccc--cccccchHHH----HHHHHHH
Confidence 6899999999998 57999999999999999999999997643211 0000 0000110001 1122223
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
+.++.+.+.+...+.+++.++..|++.+.|++++++.++||||||++ ++.+.+.++||++.+++++++||||+||
T Consensus 70 ~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~-~~~~~~~llGS~a~~vl~~a~cpVlvVr 144 (144)
T PRK15005 70 SQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASH-RPDITTYLLGSNAAAVVRHAECSVLVVR 144 (144)
T ss_pred HHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC-CCCchheeecchHHHHHHhCCCCEEEeC
Confidence 44444445555567778888889999999999999999999999988 4568888999999999999999999996
No 3
>PRK09982 universal stress protein UspD; Provisional
Probab=99.94 E-value=2e-25 Score=152.73 Aligned_cols=139 Identities=20% Similarity=0.212 Sum_probs=102.7
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
|++||||+|+|+.+..|+++|..+|+..+++++++||.++..... .+. ..+. . +...+...+..++.
T Consensus 3 ~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~-------~~~-~~~~----~-~~~~~~~~~~~~~~ 69 (142)
T PRK09982 3 YKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELY-------PGI-YFPA----T-EDILQLLKNKSDNK 69 (142)
T ss_pred ceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhc-------hhh-hccc----h-HHHHHHHHHHHHHH
Confidence 799999999999999999999999999999999999987542110 000 0000 0 11112222333344
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
++.+.+.+.. ..++..+..|+|.+.|+++|++.++||||||++ ++.+.+++ | ++++++++++||||+||...
T Consensus 70 l~~~~~~~~~--~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~-~-va~~V~~~s~~pVLvv~~~~ 141 (142)
T PRK09982 70 LYKLTKNIQW--PKTKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM-P-AYRGMINKMSADLLIVPFID 141 (142)
T ss_pred HHHHHHhcCC--CcceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH-H-HHHHHHhcCCCCEEEecCCC
Confidence 4444444432 346677778999999999999999999999976 77777766 5 99999999999999999754
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=99.94 E-value=6.6e-25 Score=150.69 Aligned_cols=141 Identities=29% Similarity=0.379 Sum_probs=111.9
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+|||++|+|+.+..|++||++++...+++++++|+.++..... + ..+ . ........+...+..++.++
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~----~-~~~----~---~~~~~~~~~~~~~~~~~~l~ 68 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIP----S-SSG----K---LEVASAYKQEEDKEAKELLL 68 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCC----C-Ccc----c---hHHHHHHHHHHHHHHHHHHH
Confidence 4999999999999999999999999999999999987643210 0 000 0 00111122233344566777
Q ss_pred HHHHHhhcCCceEEEEEecc-ChhHHHHHHHHhCCCCEEEEecCCCccccccccc-chhHHHhhcCC--CCEEEEcC
Q 041485 100 MLDAASKQKHVSVVAKLYWG-DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLG-SVSNHVLANAS--CPVTIVKD 172 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g-~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~g-s~~~~il~~~~--~pVlvv~~ 172 (179)
.+.+.+...++.++..+..| ++.+.|++++++.++|+||||+++++.+.++++| |++.+++++++ |||++|++
T Consensus 69 ~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~ 145 (146)
T cd01989 69 PYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSK 145 (146)
T ss_pred HHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeC
Confidence 77777777788888888776 8999999999999999999999999999988887 69999999999 99999986
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.92 E-value=1.9e-24 Score=148.12 Aligned_cols=138 Identities=19% Similarity=0.209 Sum_probs=98.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
|++||||+|+|+.+..|+++|..+|+..+++++++|+..+.... ..+. .. ..... ..++..++.
T Consensus 3 ~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~-------~~~~--~~---~~~~~----~~~~~~~~~ 66 (144)
T PRK15118 3 YKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDL-------YTGL--ID---VNLGD----MQKRISEET 66 (144)
T ss_pred ceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhh-------hhhh--hh---cchHH----HHHHHHHHH
Confidence 89999999999999999999999999999999999994332110 0000 00 00001 111111222
Q ss_pred HHHHHHHhhcCCceEE-EEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 98 LDMLDAASKQKHVSVV-AKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~-~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.+.+.+.....++.+. ..+..|++.+.|+++|++.++||||||+++ +.+. . +||++++++++++||||+||...
T Consensus 67 ~~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~-~-lgSva~~v~~~a~~pVLvv~~~~ 141 (144)
T PRK15118 67 HHALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQ-DFWS-K-LMSSARQLINTVHVDMLIVPLRD 141 (144)
T ss_pred HHHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCcc-cHHH-H-HHHHHHHHHhhCCCCEEEecCCc
Confidence 3334444455566653 455579999999999999999999999995 3333 3 58999999999999999999654
No 6
>PRK10116 universal stress protein UspC; Provisional
Probab=99.92 E-value=8.7e-24 Score=144.47 Aligned_cols=138 Identities=13% Similarity=0.188 Sum_probs=102.8
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
|++|||++|+++.+..++++|..+|+.++++++++|+.+...... + .. . .......+...++.
T Consensus 3 ~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~--------~---~~--~----~~~~~~~~~~~~~~ 65 (142)
T PRK10116 3 YSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYN--------Q---FA--A----PMLEDLRSVMQEET 65 (142)
T ss_pred CceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccch--------h---hh--H----HHHHHHHHHHHHHH
Confidence 899999999999999999999999999999999999986642110 0 00 0 00111111222233
Q ss_pred HHHHHHHhhcCCceEE-EEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 98 LDMLDAASKQKHVSVV-AKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~-~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.+.+.+.....++... ..+..|++.+.|++++++.++||||+|+++++.+.+++ |++++++++++||||+||..+
T Consensus 66 ~~~l~~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~--s~a~~v~~~~~~pVLvv~~~~ 141 (142)
T PRK10116 66 QSFLDKLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS--CSAKRVIASSEVDVLLVPLTG 141 (142)
T ss_pred HHHHHHHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH--HHHHHHHhcCCCCEEEEeCCC
Confidence 3334444455566543 45667999999999999999999999999988877753 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=99.92 E-value=1.2e-23 Score=142.10 Aligned_cols=139 Identities=28% Similarity=0.402 Sum_probs=105.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
+++|||++|+++.+..++++|..+|+..+++++++|+.+...... ....................
T Consensus 2 ~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~ 66 (140)
T PF00582_consen 2 YKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYS---------------FSAAEDEESEEEAEEEEQAR 66 (140)
T ss_dssp TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHH---------------HHHHHHHHHHHHHHHHHHHH
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeeccccccc---------------cccccccccccccchhhhhh
Confidence 599999999999999999999999999999999999999864221 01111111111111111111
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
..................+..|++.+.|++++++.++|+||||+++++.+.++++||++.+++++++|||++||
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 140 (140)
T PF00582_consen 67 QAEAEEAEAEGGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLVVP 140 (140)
T ss_dssp HHHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEEEE
T ss_pred hHHHHHHhhhccceeEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEEeC
Confidence 11112233344667777788899999999999999999999999998999999999999999999999999997
No 8
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.91 E-value=1.1e-22 Score=136.96 Aligned_cols=131 Identities=18% Similarity=0.227 Sum_probs=109.2
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+||||+|+++.+..++++|.++|+..+++++++|+.+...... . .. .....+..++.++
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~-----------~----~~------~~~~~~~~~~~~~ 59 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSS-----------P----SQ------LEVNVQRARKLLR 59 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCC-----------c----ch------hHHHHHHHHHHHH
Confidence 5999999999999999999999999999999999998753211 0 00 0011233457777
Q ss_pred HHHHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 100 MLDAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
.+.+.+.+.|+.++..+.. |++.+.|.+++++.++|+||||+++++.+.+.++||++.+++++++|||++++
T Consensus 60 ~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~~~pvlvv~ 132 (132)
T cd01988 60 QAERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESAPCDVAVVK 132 (132)
T ss_pred HHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcCCCCEEEeC
Confidence 7777887888888887754 79999999999999999999999999988888999999999999999999985
No 9
>PRK11175 universal stress protein UspE; Provisional
Probab=99.90 E-value=9.3e-23 Score=155.85 Aligned_cols=145 Identities=19% Similarity=0.216 Sum_probs=109.8
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
+++|||++|+|+.+..|+++|+++|+..+++++++|+.++..... .+ ...... .....+...+..++.
T Consensus 3 ~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~-------~~--~~~~~~---~~~~~~~~~~~~~~~ 70 (305)
T PRK11175 3 YQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEM-------TT--LLSPDE---REAMRQGVISQRTAW 70 (305)
T ss_pred cceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhh-------hc--ccchhH---HHHHHHHHHHHHHHH
Confidence 899999999999999999999999999999999999876532110 00 000000 011111111223344
Q ss_pred HHHHHHHhhcCCceEEEEEe-ccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 98 LDMLDAASKQKHVSVVAKLY-WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~-~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
++.+...+...+++++..+. .|++.+.|.++++++++||||+|+++++.+.+.++||++.+++++++||||+||...
T Consensus 71 l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~~~ 148 (305)
T PRK11175 71 IREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKDQD 148 (305)
T ss_pred HHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEecccc
Confidence 44444455566888888766 589999999999999999999999998899999999999999999999999999753
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=99.89 E-value=2.7e-22 Score=134.00 Aligned_cols=123 Identities=16% Similarity=0.192 Sum_probs=101.4
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+||||+|+++.+..++++|..+|...+++++++|+.++.... ..+..++.++
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~----------------------------~~~~~~~~l~ 52 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLNR----------------------------LSEAERRRLA 52 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCcccc----------------------------CCHHHHHHHH
Confidence 599999999999999999999999999999999998764210 0112234455
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcC-CCCEEEEc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANA-SCPVTIVK 171 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~-~~pVlvv~ 171 (179)
.+.+.+++.++++. .+..|++.+.|.++++++++|+||||+++++.+.++++||+++++++++ +|||+|++
T Consensus 53 ~~~~~~~~~~~~~~-~~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~~~a~~~~v~v~~ 124 (124)
T cd01987 53 EALRLAEELGAEVV-TLPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLLRRAGNIDVHIVA 124 (124)
T ss_pred HHHHHHHHcCCEEE-EEeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHHHhCCCCeEEEeC
Confidence 55566666666543 2345789999999999999999999999999999999999999999999 99999985
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.86 E-value=5.9e-21 Score=145.92 Aligned_cols=144 Identities=15% Similarity=0.206 Sum_probs=104.1
Q ss_pred CCCeEEEeecCCccH-------HHHHHHHHHHhcCC-CCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHH
Q 041485 17 NNRSIGVALDFSKGS-------KLALKWAIDNLLEK-GDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQ 88 (179)
Q Consensus 17 ~~~~ILv~vd~s~~s-------~~al~~a~~la~~~-~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (179)
.+++||+++|+++.+ ..++++|..+|+.. +++++++|+.+...... ..+ .+ .....+ ..+
T Consensus 151 ~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~------~~~---~~--~~~~~~-~~~ 218 (305)
T PRK11175 151 EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINI------AIE---LP--EFDPSV-YND 218 (305)
T ss_pred CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhc------ccc---cc--ccchhh-HHH
Confidence 479999999998753 67999999999998 99999999987543110 000 00 000001 111
Q ss_pred hhhhhhHHHHHHHHHHhhcCCceE-EEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCE
Q 041485 89 YEVDLDQDVLDMLDAASKQKHVSV-VAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPV 167 (179)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pV 167 (179)
. ..++..+.+.+.....++.. ..++..|++.+.|.+++++.++||||||+++++.+.++++||++++|+++++|||
T Consensus 219 ~---~~~~~~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~~~~~~pV 295 (305)
T PRK11175 219 A---IRGQHLLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVIDHLNCDL 295 (305)
T ss_pred H---HHHHHHHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHHhcCCCCE
Confidence 1 11122223334444445543 3556679999999999999999999999999999999999999999999999999
Q ss_pred EEEcCCCC
Q 041485 168 TIVKDPSA 175 (179)
Q Consensus 168 lvv~~~~~ 175 (179)
|+||+.+.
T Consensus 296 Lvv~~~~~ 303 (305)
T PRK11175 296 LAIKPDGY 303 (305)
T ss_pred EEEcCCCC
Confidence 99987654
No 12
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=99.84 E-value=2.1e-19 Score=119.98 Aligned_cols=130 Identities=34% Similarity=0.487 Sum_probs=106.9
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+|||++|+++.+..++++|..+|+..+++++++|+.++..... . ...+......++.++
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~--------------~-------~~~~~~~~~~~~~l~ 59 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSA--------------A-------ELAELLEEEARALLE 59 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcc--------------h-------hHHHHHHHHHHHHHH
Confidence 5899999999999999999999999999999999987653210 0 111112233345666
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+...+...++++...+..|++.+.|.+++++.++|+||+|.++++.+.+.++|+.+.+++++++|||+++
T Consensus 60 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 60 ALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred HHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCCCCCEEeC
Confidence 66666666788888888889889999999999999999999998888888899999999999999999985
No 13
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.82 E-value=2.8e-18 Score=118.03 Aligned_cols=146 Identities=26% Similarity=0.337 Sum_probs=114.8
Q ss_pred CCeEEEeec-CCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 18 NRSIGVALD-FSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 18 ~~~ILv~vd-~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
+++|++++| +++.+..+++.+..++...+..++++++.+...... .......... ............++
T Consensus 5 ~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~------~~~~~~~~~~----~~~~~~~~~~~~~~ 74 (154)
T COG0589 5 YKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTA------LVSVALADAP----IPLSEEELEEEAEE 74 (154)
T ss_pred cceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEeccccccc------ccccccccch----hhhhHHHHHHHHHH
Confidence 799999999 999999999999999999999999999987654221 0000000000 11111222344467
Q ss_pred HHHHHHHHhhcCCce-EEEEEeccCh-hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 97 VLDMLDAASKQKHVS-VVAKLYWGDA-RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~-~~~~~~~g~~-~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
..+.+.+.....++. +...+..|++ .+.|.+++.+.++|+||||+++++.+.++++||++++++++++|||+++|..
T Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~~~~~~pVlvv~~~ 153 (154)
T COG0589 75 LLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVLRHAPCPVLVVRSE 153 (154)
T ss_pred HHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHHhcCCCCEEEEccC
Confidence 777777888888887 4888888988 7999999999999999999999999999999999999999999999999874
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.64 E-value=1.6e-14 Score=111.66 Aligned_cols=131 Identities=14% Similarity=0.100 Sum_probs=89.3
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCC--CCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEK--GDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQ 95 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~--~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (179)
|++||||+|+|+.+.+|+++|+++|+.. +++++++||.+...... . . .... ...+
T Consensus 5 ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~------------~-~------~~~~----~~~e 61 (357)
T PRK12652 5 ANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDP------------E-G------QDEL----AAAE 61 (357)
T ss_pred cCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCccccc------------c-h------hHHH----HHHH
Confidence 8999999999999999999999999984 69999999988643110 0 0 0010 1112
Q ss_pred HHHHHHHHHhhc------CCceEEEEEec--------cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhh
Q 041485 96 DVLDMLDAASKQ------KHVSVVAKLYW--------GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLA 161 (179)
Q Consensus 96 ~~~~~~~~~~~~------~~~~~~~~~~~--------g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~ 161 (179)
+.++.+.+.+++ .|+++++.+.. |++++.|+++|+++++|+||||..-......-.+.+ .+.-+.
T Consensus 62 elle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~-~~~~~~ 140 (357)
T PRK12652 62 ELLERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQP-LERELA 140 (357)
T ss_pred HHHHHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccch-HHHHHH
Confidence 333333333322 58888887755 899999999999999999999976333333222333 345566
Q ss_pred cCCCCEEEEcC
Q 041485 162 NASCPVTIVKD 172 (179)
Q Consensus 162 ~~~~pVlvv~~ 172 (179)
++.|.+=.-|-
T Consensus 141 ~~~~~~~~~~~ 151 (357)
T PRK12652 141 RAGITYEEAPV 151 (357)
T ss_pred hcCCceecCCc
Confidence 66666655443
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.44 E-value=4e-12 Score=109.65 Aligned_cols=125 Identities=13% Similarity=0.126 Sum_probs=98.5
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
..+||||+++++.+..+++.|.++|.+.+++++++||..+..... + .+..+..
T Consensus 250 ~eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~~-------------~--------------~~~~~~l 302 (895)
T PRK10490 250 RDAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLHRL-------------P--------------EKKRRAI 302 (895)
T ss_pred CCeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcCcC-------------C--------------HHHHHHH
Confidence 578999999999999999999999999999999999987642110 0 0111223
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCC-CCEEEEcCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANAS-CPVTIVKDP 173 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~-~pVlvv~~~ 173 (179)
.+.+ +++++.|.++.. +..+++++.|+++|++++++.||||.+.++++ ++.||+++++++.++ ++|.||+..
T Consensus 303 ~~~~-~lA~~lGa~~~~-~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~r~~~~idi~iv~~~ 375 (895)
T PRK10490 303 LSAL-RLAQELGAETAT-LSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLARLGPDLDLVIVALD 375 (895)
T ss_pred HHHH-HHHHHcCCEEEE-EeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHHHhCCCCCEEEEeCC
Confidence 3333 577777877442 33469999999999999999999999887765 456899999999999 999999754
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.39 E-value=1.1e-11 Score=102.61 Aligned_cols=129 Identities=16% Similarity=0.151 Sum_probs=109.8
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
..+||||+++++.+.+.+++|.++|.+.+++++++||..+..... .+..+..
T Consensus 248 ~e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~----------------------------~~~~~~~ 299 (890)
T COG2205 248 RERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELHRL----------------------------SEKEARR 299 (890)
T ss_pred cceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEeccccccc----------------------------cHHHHHH
Confidence 479999999999999999999999999999999999998874211 1223466
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCC-CCEEEEcCCCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANAS-CPVTIVKDPSA 175 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~-~pVlvv~~~~~ 175 (179)
++...+++++.|-++.+.. .++.++.|.+||+.+++.-||+|.+.++++..+|.|+.+.++++..+ +.|.+|+...+
T Consensus 300 l~~~~~Lae~lGae~~~l~-~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~~~ 377 (890)
T COG2205 300 LHENLRLAEELGAEIVTLY-GGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALDAP 377 (890)
T ss_pred HHHHHHHHHHhCCeEEEEe-CCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCCCC
Confidence 6777788888887766533 47999999999999999999999999999988899999999999999 99999986553
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=98.51 E-value=6.8e-07 Score=55.50 Aligned_cols=84 Identities=20% Similarity=0.112 Sum_probs=69.6
Q ss_pred EEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHH
Q 041485 21 IGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDM 100 (179)
Q Consensus 21 ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (179)
|+++++++..|..++.++.+.+ ..+..+..+|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~~--------------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVVV--------------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEeH---------------------------------------------
Confidence 5889999999999999999877 456677777763
Q ss_pred HHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCccccccccc-chhHHHhhcCCCCEEE
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLG-SVSNHVLANASCPVTI 169 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~g-s~~~~il~~~~~pVlv 169 (179)
.....+.+.+++.++|+|++|++........+.+ +++..+++.++|||+.
T Consensus 35 -------------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 -------------------AFVRILKRLAAEEGADVIILGHNADDVAGRRLGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred -------------------HHHHHHHHHHHHcCCCEEEEcCCchhhhhhccCchhhhhhcccccCCceeC
Confidence 4566777888889999999999987777777767 8999999999999974
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.86 E-value=0.00042 Score=60.14 Aligned_cols=147 Identities=16% Similarity=0.217 Sum_probs=87.9
Q ss_pred CeEEEeecCCccHHHHHHHHHHHh--cCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNL--LEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la--~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
-|||+|+...+.-...++.+.... ++....++++|+.+.....+..-...... ....... .......++
T Consensus 459 lriL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~~~l~~h~~~--~~~~~~~-------~~~~~~~~~ 529 (832)
T PLN03159 459 LRMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRASAMLIVHNTR--KSGRPAL-------NRTQAQSDH 529 (832)
T ss_pred eeEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCccceeeeecc--ccccccc-------ccccccccH
Confidence 489999998888887777655432 22446899999988542211000000000 0000000 000111235
Q ss_pred HHHHHHHHhhcC-CceEEEEEec---cChhHHHHHHHHhCCCCEEEEecCCCccccc------ccccchhHHHhhcCCCC
Q 041485 97 VLDMLDAASKQK-HVSVVAKLYW---GDARDKLCEAVEAMKLDSLVMGSRGLGTIQR------VLLGSVSNHVLANASCP 166 (179)
Q Consensus 97 ~~~~~~~~~~~~-~~~~~~~~~~---g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~------~~~gs~~~~il~~~~~p 166 (179)
+...+....+.. ++.++..... .+..++|+..|.+..+++|+++.|.+....+ -.++.+..++++++||+
T Consensus 530 i~~af~~~~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ApCs 609 (832)
T PLN03159 530 IINAFENYEQHAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAPCS 609 (832)
T ss_pred HHHHHHHHHhhcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCCCC
Confidence 555555554432 4555543322 4899999999999999999999885432222 14456789999999999
Q ss_pred EEEEcCCC
Q 041485 167 VTIVKDPS 174 (179)
Q Consensus 167 Vlvv~~~~ 174 (179)
|-|.=+++
T Consensus 610 VgIlVDRg 617 (832)
T PLN03159 610 VGILVDRG 617 (832)
T ss_pred EEEEEeCC
Confidence 99885543
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=97.50 E-value=0.0022 Score=45.66 Aligned_cols=93 Identities=14% Similarity=0.047 Sum_probs=66.4
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+|+|++++...|..++..+.+.+...+.++.++|+....... ..+..+
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~~~~--------------------------------~~~~~~ 48 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLRPE--------------------------------SDEEAE 48 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCChh--------------------------------HHHHHH
Confidence 589999999999999999999877777789999996653210 023345
Q ss_pred HHHHHhhcCCceEEEEEec-c--------Chh--------HHHHHHHHhCCCCEEEEecCCC
Q 041485 100 MLDAASKQKHVSVVAKLYW-G--------DAR--------DKLCEAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~-g--------~~~--------~~i~~~a~~~~~dlvVlg~~~~ 144 (179)
.+.+.++..|+++...... . +.. ..+.+.|++++++.|+.|++..
T Consensus 49 ~~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~ 110 (189)
T TIGR02432 49 FVQQFCKKLNIPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHAD 110 (189)
T ss_pred HHHHHHHHcCCCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccH
Confidence 5666677777765553321 1 122 5677889999999999998743
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=97.37 E-value=0.0054 Score=43.51 Aligned_cols=92 Identities=17% Similarity=0.149 Sum_probs=62.2
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+|+|+++|...|...+.....+....+.++.++||...-...+ .+..+
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~~~s--------------------------------~~~~~ 48 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLREES--------------------------------DEEAE 48 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STSCCH--------------------------------HHHHH
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCCccc--------------------------------chhHH
Confidence 6999999999999999999999998899999999987653211 23345
Q ss_pred HHHHHhhcCCceEEEEEec-----c-Ch--------hHHHHHHHHhCCCCEEEEecCC
Q 041485 100 MLDAASKQKHVSVVAKLYW-----G-DA--------RDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~-----g-~~--------~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
.+.+.++..++++.+.... + +. -..+.++|++++++.|++|++.
T Consensus 49 ~v~~~~~~~~i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~ 106 (182)
T PF01171_consen 49 FVEEICEQLGIPLYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHL 106 (182)
T ss_dssp HHHHHHHHTT-EEEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BH
T ss_pred HHHHHHHhcCCceEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcC
Confidence 6777788888876664333 1 11 1456678999999999999874
No 21
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.36 E-value=0.0085 Score=52.23 Aligned_cols=41 Identities=17% Similarity=0.109 Sum_probs=37.4
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
..+|.+..=+.+.++.|+.+|.+++++.+.++|+++.....
T Consensus 630 ~~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~ 670 (832)
T PLN03159 630 SHHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGE 670 (832)
T ss_pred ceeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEccc
Confidence 45899999999999999999999999999999999998653
No 22
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=97.07 E-value=0.015 Score=41.16 Aligned_cols=93 Identities=14% Similarity=0.046 Sum_probs=65.8
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+|+|++++...|..++..+.+.....+.++.++|+....... ..+..+
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~~~~--------------------------------~~~~~~ 48 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLRPE--------------------------------SDEEAA 48 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCCCch--------------------------------HHHHHH
Confidence 589999999999999999998877667889999996553210 024445
Q ss_pred HHHHHhhcCCceEEEE--Ee-ccCh-----------hHHHHHHHHhCCCCEEEEecCCC
Q 041485 100 MLDAASKQKHVSVVAK--LY-WGDA-----------RDKLCEAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~--~~-~g~~-----------~~~i~~~a~~~~~dlvVlg~~~~ 144 (179)
.+.+.+...++++.+. .. .+.. ...+.++|++++++.|+.|++..
T Consensus 49 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~d 107 (185)
T cd01992 49 FVADLCAKLGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHAD 107 (185)
T ss_pred HHHHHHHHcCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcH
Confidence 5666667777766654 11 1111 14577789999999999998743
No 23
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=97.02 E-value=0.022 Score=42.78 Aligned_cols=107 Identities=15% Similarity=0.104 Sum_probs=70.5
Q ss_pred hhHHHHHHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCC--CCEEEEEEEeCCCCCcccccccCCCCCCCCCchhh
Q 041485 3 KTLNKLIFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEK--GDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEF 80 (179)
Q Consensus 3 ~~~~~~~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~--~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (179)
+.+.+.+.++.|.....+|+|++++...|...+..+..+.... +.++..+|+.......
T Consensus 14 ~~v~~~i~~~~li~~~~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd~g~~~~------------------- 74 (258)
T PRK10696 14 RQVGQAIADFNMIEEGDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLDQKQPGF------------------- 74 (258)
T ss_pred HHHHHHHHHcCCCCCCCEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEecCCCCCC-------------------
Confidence 3455678888888767899999999999999888888876553 3467888875542100
Q ss_pred hhHHHHHHhhhhhhHHHHHHHHHHhhcCCceEEEEEec-----------cC---------hhHHHHHHHHhCCCCEEEEe
Q 041485 81 RDQEVMKQYEVDLDQDVLDMLDAASKQKHVSVVAKLYW-----------GD---------ARDKLCEAVEAMKLDSLVMG 140 (179)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------g~---------~~~~i~~~a~~~~~dlvVlg 140 (179)
. ++ .+.+.+++.|+++.+.-.. +. --..+.++|++.+++.|++|
T Consensus 75 ~-------------~~---~~~~~~~~lgI~~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~G 138 (258)
T PRK10696 75 P-------------EH---VLPEYLESLGVPYHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALG 138 (258)
T ss_pred C-------------HH---HHHHHHHHhCCCEEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEc
Confidence 0 11 1345556666655442211 11 11455678999999999999
Q ss_pred cCCC
Q 041485 141 SRGL 144 (179)
Q Consensus 141 ~~~~ 144 (179)
++..
T Consensus 139 H~~d 142 (258)
T PRK10696 139 HHRD 142 (258)
T ss_pred CchH
Confidence 8743
No 24
>PRK12342 hypothetical protein; Provisional
Probab=96.54 E-value=0.045 Score=41.00 Aligned_cols=105 Identities=15% Similarity=0.049 Sum_probs=65.7
Q ss_pred cCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHh
Q 041485 26 DFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAAS 105 (179)
Q Consensus 26 d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (179)
..++.+..|++.|+++. ..+.+++++++-++... ....+..+...-
T Consensus 32 ~iNp~D~~AlE~AlrLk-~~g~~Vtvls~Gp~~a~---------------------------------~~~l~r~alamG 77 (254)
T PRK12342 32 KISQFDLNAIEAASQLA-TDGDEIAALTVGGSLLQ---------------------------------NSKVRKDVLSRG 77 (254)
T ss_pred cCChhhHHHHHHHHHHh-hcCCEEEEEEeCCChHh---------------------------------HHHHHHHHHHcC
Confidence 35678999999999998 67899999999776310 011212222222
Q ss_pred hcCCceEEEEEecc-Ch---hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEE
Q 041485 106 KQKHVSVVAKLYWG-DA---RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 106 ~~~~~~~~~~~~~g-~~---~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVl 168 (179)
-+.++-+.-....| |+ +..|..+++..++|||+.|...-.... |.+...+......|.+
T Consensus 78 aD~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D~~t----gqvg~~lA~~Lg~P~v 140 (254)
T PRK12342 78 PHSLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGDLYA----QQVGLLLGELLQLPVI 140 (254)
T ss_pred CCEEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcccCCC----CCHHHHHHHHhCCCcE
Confidence 33344443222233 55 688889999989999999976433222 3445556666666654
No 25
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=96.45 E-value=0.11 Score=39.72 Aligned_cols=51 Identities=18% Similarity=0.061 Sum_probs=40.7
Q ss_pred HHHHHHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCC
Q 041485 5 LNKLIFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQG 59 (179)
Q Consensus 5 ~~~~~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~ 59 (179)
+.+.+..+.|. ..+|+|+++|...|..++.....+... ..+.++||...-.
T Consensus 10 v~~~i~~~~~~--~~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd~~~~ 60 (298)
T COG0037 10 VKRAIREFNLI--EYKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVDHGLR 60 (298)
T ss_pred HHHHHHhcccc--CCeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEecCCCC
Confidence 34455555555 489999999999999999988887766 8999999987754
No 26
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=96.38 E-value=0.054 Score=40.64 Aligned_cols=106 Identities=10% Similarity=0.029 Sum_probs=66.5
Q ss_pred cCCccHHHHHHHHHHHhcCCC-CEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHH
Q 041485 26 DFSKGSKLALKWAIDNLLEKG-DTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAA 104 (179)
Q Consensus 26 d~s~~s~~al~~a~~la~~~~-~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (179)
-.++.+..|++.|+++..+.+ .+++++++-++... ....+..+...
T Consensus 33 ~iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a~---------------------------------~~~~lr~aLAm 79 (256)
T PRK03359 33 KISQYDLNAIEAACQLKQQAAEAQVTALSVGGKALT---------------------------------NAKGRKDVLSR 79 (256)
T ss_pred ccChhhHHHHHHHHHHhhhcCCCEEEEEEECCcchh---------------------------------hHHHHHHHHHc
Confidence 356789999999999998865 89999999776420 01222222233
Q ss_pred hhcCCceEEEEEecc----ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEE
Q 041485 105 SKQKHVSVVAKLYWG----DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 105 ~~~~~~~~~~~~~~g----~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVl 168 (179)
--+.++-+.-....| ..+..|..++++.++|||++|...-.... |.+...+......|.+
T Consensus 80 GaD~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D~~t----gqvg~~lAe~Lg~P~v 143 (256)
T PRK03359 80 GPDELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSDLYA----QQVGLLVGEILNIPAI 143 (256)
T ss_pred CCCEEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCccccCCC----CcHHHHHHHHhCCCce
Confidence 333344443322223 34678888899999999999976433322 3444556666666644
No 27
>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=96.28 E-value=0.037 Score=38.47 Aligned_cols=87 Identities=18% Similarity=0.089 Sum_probs=59.1
Q ss_pred eEEEeecC-----CccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhh
Q 041485 20 SIGVALDF-----SKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLD 94 (179)
Q Consensus 20 ~ILv~vd~-----s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (179)
+|||..+- ++.+..++..|.+++...+.+++++.+-...
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~g~~v~av~~G~~~------------------------------------ 44 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAEALGGEVTAVVLGPAE------------------------------------ 44 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHHCTTSEEEEEEEETCC------------------------------------
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHhhcCCeEEEEEEecch------------------------------------
Confidence 46666654 3779999999999999999999999988422
Q ss_pred HHHHHHHHHHhhcCCceEEEEEecc--------ChhHHHHHHHHhCCCCEEEEecCC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWG--------DARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g--------~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
...+.+++.+...|.+--+.+... .....|.+.+++.++|+|++|...
T Consensus 45 -~~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~ 100 (164)
T PF01012_consen 45 -EAAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTS 100 (164)
T ss_dssp -CHHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSH
T ss_pred -hhHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcC
Confidence 222334455556676433333221 245688889999999999999763
No 28
>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=96.22 E-value=0.13 Score=36.11 Aligned_cols=39 Identities=23% Similarity=0.019 Sum_probs=31.8
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCC--CCEEEEEEEeCCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEK--GDTLYIIHIKLPQ 58 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~--~~~l~ll~v~~~~ 58 (179)
+|+|++++...|..++..+.++.... +.++.++|+....
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d~~~ 41 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGI 41 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEECCC
Confidence 58999999999999988888876554 6688888887654
No 29
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=96.14 E-value=0.079 Score=39.77 Aligned_cols=105 Identities=16% Similarity=0.201 Sum_probs=67.0
Q ss_pred ecCCccHHHHHHHHHHHhc-CCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHH
Q 041485 25 LDFSKGSKLALKWAIDNLL-EKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDA 103 (179)
Q Consensus 25 vd~s~~s~~al~~a~~la~-~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 103 (179)
...++.+..|++.|+++.. ..+.+++++++-++.. ++.+..+..
T Consensus 33 ~~in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~~a-----------------------------------~~~lr~aLA 77 (260)
T COG2086 33 LSINPFDLNAVEEALRLKEKGYGGEVTVLTMGPPQA-----------------------------------EEALREALA 77 (260)
T ss_pred cccChhhHHHHHHHHHhhccCCCceEEEEEecchhh-----------------------------------HHHHHHHHh
Confidence 3446778999999999999 5999999999976642 233322222
Q ss_pred HhhcCCceEEEEEecc----ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEE
Q 041485 104 ASKQKHVSVVAKLYWG----DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 104 ~~~~~~~~~~~~~~~g----~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVl 168 (179)
.--+..+-++-....+ ..+..|...++..+.|||++|...-... -|.+...+......|.+
T Consensus 78 mGaDraili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~D~~----t~qvg~~lAe~Lg~P~~ 142 (260)
T COG2086 78 MGADRAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAIDGD----TGQVGPLLAELLGWPQV 142 (260)
T ss_pred cCCCeEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEecccccCC----ccchHHHHHHHhCCcee
Confidence 3233344444322222 5578888999999999999997643222 23344455555555554
No 30
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=95.03 E-value=0.21 Score=34.11 Aligned_cols=71 Identities=17% Similarity=0.205 Sum_probs=51.5
Q ss_pred HHHHHHHHhhcCCceEEEEEecc-ChhHHHHH---HHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYWG-DARDKLCE---AVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~g-~~~~~i~~---~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+...+.+.+.|+.++.++..- ...+.+.+ .+++.++..+|-|..+..++.++ +...++.||+-||-
T Consensus 17 ~mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPGm--------vAa~T~lPViGVPv 88 (162)
T COG0041 17 TMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPGM--------VAAKTPLPVIGVPV 88 (162)
T ss_pred HHHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcchh--------hhhcCCCCeEeccC
Confidence 34445566777899999988774 44444444 46778899999998877777764 45678999999997
Q ss_pred CCC
Q 041485 173 PSA 175 (179)
Q Consensus 173 ~~~ 175 (179)
.++
T Consensus 89 ~s~ 91 (162)
T COG0041 89 QSK 91 (162)
T ss_pred ccc
Confidence 743
No 31
>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=95.01 E-value=0.61 Score=33.52 Aligned_cols=112 Identities=15% Similarity=0.093 Sum_probs=69.8
Q ss_pred EEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHH
Q 041485 21 IGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDM 100 (179)
Q Consensus 21 ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (179)
++|.-.+.--...+.+.|.++..+ +..+.++.....+. ...++
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R~------------------------------------ga~eQ 47 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYRI------------------------------------GAVEQ 47 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSST------------------------------------HHHHH
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCCc------------------------------------cHHHH
Confidence 456666777777889999998877 88899988755542 44456
Q ss_pred HHHHhhcCCceEEEEEeccChhHH---HHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc-CCCCEEEE
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDK---LCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN-ASCPVTIV 170 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~---i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~-~~~pVlvv 170 (179)
++..++..++++.......++.+. .++..++.++|+|++-+.++++.....+... .+++.. .+..+++|
T Consensus 48 L~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el-~~~~~~~~~~~~~LV 120 (196)
T PF00448_consen 48 LKTYAEILGVPFYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEEL-KKLLEALNPDEVHLV 120 (196)
T ss_dssp HHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHH-HHHHHHHSSSEEEEE
T ss_pred HHHHHHHhccccchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHH-HHHhhhcCCccceEE
Confidence 666777778776543222345444 4455667789999999998887654433332 233333 34555555
No 32
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=94.56 E-value=0.72 Score=35.55 Aligned_cols=92 Identities=15% Similarity=0.166 Sum_probs=62.8
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
+.++++++++...|.-.+..+.+.....+.++.++|+.....+ .+.
T Consensus 27 f~~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iDTG~~F----------------------------------pEt 72 (301)
T PRK05253 27 FENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVDTGWKF----------------------------------PEM 72 (301)
T ss_pred CCCEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEeCCCCC----------------------------------HHH
Confidence 6789999999999999999998766555667899999766421 133
Q ss_pred HHHHHHHhhcCCceEEEEEec-----cC--------------hhHHHHHHHHhCCCCEEEEecCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYW-----GD--------------ARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~-----g~--------------~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
.+...+.+++.|+++.+.... |. -...+.++++++++|.++.|.+.
T Consensus 73 ~ef~d~~a~~~gl~l~v~~~~~~i~~g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~Rr 137 (301)
T PRK05253 73 IEFRDRRAKELGLELIVHSNPEGIARGINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARR 137 (301)
T ss_pred HHHHHHHHHHhCCCEEEEeChHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEecccc
Confidence 333444555666665553211 10 11456678888999999999763
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=94.24 E-value=0.46 Score=32.79 Aligned_cols=72 Identities=15% Similarity=0.162 Sum_probs=48.9
Q ss_pred HHHHHHHHHhhcCCceEEEEEecc-ChhHHHHHH---HHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWG-DARDKLCEA---VEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g-~~~~~i~~~---a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
...+.+...+++.|++++..+..- ...+.+.++ +++.+++.+|.+......+.. -+...++.||+-||
T Consensus 12 ~~~~~a~~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpg--------vva~~t~~PVIgvP 83 (156)
T TIGR01162 12 PTMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPG--------MVAALTPLPVIGVP 83 (156)
T ss_pred HHHHHHHHHHHHcCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHH--------HHHhccCCCEEEec
Confidence 444556667778899988888763 444444444 555778888888765555443 35668899999999
Q ss_pred CCCC
Q 041485 172 DPSA 175 (179)
Q Consensus 172 ~~~~ 175 (179)
....
T Consensus 84 ~~~~ 87 (156)
T TIGR01162 84 VPSK 87 (156)
T ss_pred CCcc
Confidence 7543
No 34
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=93.57 E-value=1.1 Score=36.34 Aligned_cols=66 Identities=21% Similarity=0.200 Sum_probs=48.8
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHh-cCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNL-LEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la-~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
..+|+|+++|...|...+....++. ...+.+++++|+.......+ .+
T Consensus 15 ~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvnhglr~~s--------------------------------~~ 62 (436)
T PRK10660 15 SRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVHHGLSPNA--------------------------------DS 62 (436)
T ss_pred CCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEeCCCCcch--------------------------------HH
Confidence 4889999999999998888887765 23578999999977653211 24
Q ss_pred HHHHHHHHhhcCCceEEEE
Q 041485 97 VLDMLDAASKQKHVSVVAK 115 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~ 115 (179)
..+.+.+.|++.++++.+.
T Consensus 63 ~~~~~~~~~~~l~i~~~~~ 81 (436)
T PRK10660 63 WVKHCEQVCQQWQVPLVVE 81 (436)
T ss_pred HHHHHHHHHHHcCCcEEEE
Confidence 4456777888888876653
No 35
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=93.08 E-value=3.6 Score=32.58 Aligned_cols=38 Identities=11% Similarity=0.186 Sum_probs=28.7
Q ss_pred cCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 15 ASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 15 ~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
..+.++|+|++++.-.|.-++..+.+ .+..+..+|+..
T Consensus 2 ~~~~~kVlValSGGVDSsvaa~LL~~----~G~~V~~v~~~~ 39 (360)
T PRK14665 2 MEKNKRVLLGMSGGTDSSVAAMLLLE----AGYEVTGVTFRF 39 (360)
T ss_pred CCCCCEEEEEEcCCHHHHHHHHHHHH----cCCeEEEEEEec
Confidence 33457999999999988877666654 467788888864
No 36
>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=92.94 E-value=1.6 Score=30.69 Aligned_cols=36 Identities=17% Similarity=0.037 Sum_probs=25.5
Q ss_pred eEEEeec---------CCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 20 SIGVALD---------FSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 20 ~ILv~vd---------~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
+|+|.++ ..+.+..++..|.+++. .+..++++.+-.
T Consensus 1 ~ilV~~e~~~~~~~~~l~~~~~e~l~~A~~l~~-~~~~v~~v~~G~ 45 (181)
T cd01985 1 KILVLVEHVPDTAELVLNPLDLEAVEAALRLKE-YGGEVTALVIGP 45 (181)
T ss_pred CEEEEEEEEcCCCccccCHhhHHHHHHHHHHhh-cCCeEEEEEECC
Confidence 3666665 46677889999999876 556777776643
No 37
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.87 E-value=1.3 Score=36.17 Aligned_cols=91 Identities=15% Similarity=-0.010 Sum_probs=65.8
Q ss_pred cCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHh
Q 041485 26 DFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAAS 105 (179)
Q Consensus 26 d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (179)
|.--....||..|++.|...+.+|..+++.++..... .........+.+..+.+.+
T Consensus 32 DLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~------------------------~~~r~~Fl~esL~~L~~~L 87 (454)
T TIGR00591 32 DQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLAA------------------------TRRHYFFMLGGLDEVANEC 87 (454)
T ss_pred chhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCcccc------------------------cHHHHHHHHHHHHHHHHHH
Confidence 4444566788888887766677899999988753110 1122344456777777777
Q ss_pred hcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 106 KQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 106 ~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
++.|+..- +..|++.+.|.+.+++.+++.|+....
T Consensus 88 ~~~g~~L~--v~~g~~~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 88 ERLIIPFH--LLDGPPKELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred HHcCCceE--EeecChHHHHHHHHHHcCCCEEEEecc
Confidence 77776664 557999999999999999999999764
No 38
>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=92.70 E-value=3.5 Score=31.71 Aligned_cols=91 Identities=13% Similarity=0.143 Sum_probs=60.7
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
+.+.++++++...|.-.+..+.+.....+.++.++|+.....+ .+.
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~IDTG~~F----------------------------------~Et 64 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVDTGWKF----------------------------------REM 64 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEecCCCC----------------------------------HHH
Confidence 5667888999999999999988876555678999999776532 133
Q ss_pred HHHHHHHhhcCCceEEEEEec-----cC-h-------------hHHHHHHHHhCCCCEEEEecC
Q 041485 98 LDMLDAASKQKHVSVVAKLYW-----GD-A-------------RDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~-----g~-~-------------~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.+...+.++..|+++.+.... |- + ...+.++++++++|.++.|.+
T Consensus 65 ~efrd~~a~~~gl~l~v~~~~~~~~~g~~~~~~~~~~~c~vlK~~pL~~al~e~g~da~itG~R 128 (294)
T TIGR02039 65 IAFRDHMVAKYGLRLIVHSNEEGIADGINPFTEGSALHTDIMKTEALRQALDKNQFDAAFGGAR 128 (294)
T ss_pred HHHHHHHHHHhCCCEEEEechhhhhcCccccccChHHHhhHHHHHHHHHHHHHcCCCEEEecCC
Confidence 334444445556555543211 10 1 134667788899999999975
No 39
>PRK10867 signal recognition particle protein; Provisional
Probab=92.37 E-value=3.9 Score=33.30 Aligned_cols=92 Identities=16% Similarity=0.082 Sum_probs=56.6
Q ss_pred EEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHH
Q 041485 22 GVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDML 101 (179)
Q Consensus 22 Lv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (179)
++...++--+..+...|..+....+..+.++......+ ...+++
T Consensus 105 ~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~------------------------------------aa~eQL 148 (433)
T PRK10867 105 MVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRP------------------------------------AAIEQL 148 (433)
T ss_pred EECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccch------------------------------------HHHHHH
Confidence 34445666677888888888766577777776644331 222344
Q ss_pred HHHhhcCCceEEEEEeccChh---HHHHHHHHhCCCCEEEEecCCCccccc
Q 041485 102 DAASKQKHVSVVAKLYWGDAR---DKLCEAVEAMKLDSLVMGSRGLGTIQR 149 (179)
Q Consensus 102 ~~~~~~~~~~~~~~~~~g~~~---~~i~~~a~~~~~dlvVlg~~~~~~~~~ 149 (179)
..+++..++++.......+|. ...+++++..++|+|++-+.++.+...
T Consensus 149 ~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~ 199 (433)
T PRK10867 149 KTLGEQIGVPVFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDE 199 (433)
T ss_pred HHHHhhcCCeEEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccCH
Confidence 455556676654332223443 334456777889999999988766443
No 40
>PRK13820 argininosuccinate synthase; Provisional
Probab=92.18 E-value=4.2 Score=32.67 Aligned_cols=37 Identities=5% Similarity=0.110 Sum_probs=29.5
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCC-EEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGD-TLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~-~l~ll~v~~~ 57 (179)
+++|+|++++...|..++.++.+ ..+. ++..+|+...
T Consensus 2 ~~kVvvA~SGGvDSsvll~lL~e---~~g~~~Viav~vd~g 39 (394)
T PRK13820 2 MKKVVLAYSGGLDTSVCVPLLKE---KYGYDEVITVTVDVG 39 (394)
T ss_pred CCeEEEEEeCcHHHHHHHHHHHH---hcCCCEEEEEEEECC
Confidence 58999999999999988888654 2464 8999998654
No 41
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=92.11 E-value=3.3 Score=29.74 Aligned_cols=83 Identities=13% Similarity=0.011 Sum_probs=57.9
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHH
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVL 98 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (179)
++|.|-++++-....|+--|+. ....++++.+|.......
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~~~~a~i~~Visd~~~A--------------------------------------- 40 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GGKLDAEIVAVISDKADA--------------------------------------- 40 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cCCCCcEEEEEEeCCCCC---------------------------------------
Confidence 4688899999889888888888 444577777766654431
Q ss_pred HHHHHHhhcCCceEEEEEecc-----ChhHHHHHHHHhCCCCEEEEecC
Q 041485 99 DMLDAASKQKHVSVVAKLYWG-----DARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g-----~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
...+++++.|++..+.-... .....|.+..++.++|+||+.-+
T Consensus 41 -~~lerA~~~gIpt~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAGy 88 (200)
T COG0299 41 -YALERAAKAGIPTVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAGY 88 (200)
T ss_pred -HHHHHHHHcCCCEEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcch
Confidence 13345566777654433222 35788999999999999999753
No 42
>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=91.68 E-value=1.5 Score=30.20 Aligned_cols=71 Identities=13% Similarity=0.078 Sum_probs=43.7
Q ss_pred HHHHHHHHHhhcCCceEEEEEecc-ChhHHHHHHHHh---CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWG-DARDKLCEAVEA---MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g-~~~~~i~~~a~~---~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
...+.+...+++.|+.++..+..- ...+.+.+++++ .+++.+|.+.-....+.. -+.-.++.||+-||
T Consensus 14 ~~~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpg--------vva~~t~~PVIgvP 85 (150)
T PF00731_consen 14 PIAEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALPG--------VVASLTTLPVIGVP 85 (150)
T ss_dssp HHHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HHH--------HHHHHSSS-EEEEE
T ss_pred HHHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccchh--------hheeccCCCEEEee
Confidence 555666677778899998877664 455666666655 457877777654444433 35567799999998
Q ss_pred CCC
Q 041485 172 DPS 174 (179)
Q Consensus 172 ~~~ 174 (179)
...
T Consensus 86 ~~~ 88 (150)
T PF00731_consen 86 VSS 88 (150)
T ss_dssp E-S
T ss_pred cCc
Confidence 654
No 43
>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=91.33 E-value=1.7 Score=30.12 Aligned_cols=113 Identities=14% Similarity=0.144 Sum_probs=66.2
Q ss_pred HHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCc
Q 041485 31 SKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHV 110 (179)
Q Consensus 31 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 110 (179)
...||..| ...+.++..+++.++..... . ...........+.+..+.+.+.+.|+
T Consensus 13 DN~aL~~A----~~~~~~v~~vfv~d~~~~~~------~---------------~~~~~r~~Fl~~sL~~L~~~L~~~g~ 67 (165)
T PF00875_consen 13 DNPALHAA----AQNGDPVLPVFVFDPEEFHP------Y---------------RIGPRRRRFLLESLADLQESLRKLGI 67 (165)
T ss_dssp T-HHHHHH----HHTTSEEEEEEEE-HHGGTT------C---------------SSCHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred hhHHHHHH----HHcCCCeEEEEEeccccccc------c---------------cCcchHHHHHHHHHHHHHHHHHhcCc
Confidence 44456655 44678899999998861100 0 00011223445666777777777786
Q ss_pred eEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 111 SVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 111 ~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
... +..|++.+.+...+++.+++.|+....- ++.... ......+.+....+++..+..
T Consensus 68 ~L~--v~~g~~~~~l~~l~~~~~~~~V~~~~~~-~~~~~~-rd~~v~~~l~~~~i~~~~~~~ 125 (165)
T PF00875_consen 68 PLL--VLRGDPEEVLPELAKEYGATAVYFNEEY-TPYERR-RDERVRKALKKHGIKVHTFDD 125 (165)
T ss_dssp -EE--EEESSHHHHHHHHHHHHTESEEEEE----SHHHHH-HHHHHHHHHHHTTSEEEEE--
T ss_pred ceE--EEecchHHHHHHHHHhcCcCeeEecccc-CHHHHH-HHHHHHHHHHhcceEEEEECC
Confidence 654 6679999999999999999999997553 332221 222334556666677766643
No 44
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=91.29 E-value=5.6 Score=32.27 Aligned_cols=97 Identities=18% Similarity=0.110 Sum_probs=67.5
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
-.+|.+.++--...+-..|..+-+ .+-.+-++.....++ ...+
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~Rp------------------------------------AA~e 145 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYRP------------------------------------AAIE 145 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCCh------------------------------------HHHH
Confidence 345667888878888888888777 777777776655542 4445
Q ss_pred HHHHHhhcCCceEEEEEeccCh---hHHHHHHHHhCCCCEEEEecCCCccccccccc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDA---RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLG 153 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~---~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~g 153 (179)
+++.++++.++++-.....-+| ++.=++++++..+|+||+-+.+|.....-++.
T Consensus 146 QL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~ 202 (451)
T COG0541 146 QLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMD 202 (451)
T ss_pred HHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHH
Confidence 6667777777776554212234 35566789999999999999998877765543
No 45
>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=90.93 E-value=5.3 Score=29.85 Aligned_cols=36 Identities=19% Similarity=0.188 Sum_probs=28.7
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
+++++|++++.-.|..++..+.+. +..+..+|+..+
T Consensus 12 ~~~vlVa~SGGvDSs~ll~la~~~----g~~v~av~~~~~ 47 (252)
T TIGR00268 12 FKKVLIAYSGGVDSSLLAAVCSDA----GTEVLAITVVSP 47 (252)
T ss_pred cCCEEEEecCcHHHHHHHHHHHHh----CCCEEEEEecCC
Confidence 478999999999999888877664 567888888543
No 46
>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=90.68 E-value=3.9 Score=27.87 Aligned_cols=37 Identities=22% Similarity=0.257 Sum_probs=27.7
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
+|+|++++...|...+..+.+..... .++.++++...
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~dtg 37 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFLDTG 37 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEeCCC
Confidence 47899999999998888887765432 46778887554
No 47
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=90.52 E-value=4.6 Score=31.31 Aligned_cols=42 Identities=12% Similarity=0.124 Sum_probs=35.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQG 59 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~ 59 (179)
+.++++++++...|.-.+..+.+.+...+.++.++|+.....
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~VDTG~~ 78 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVDTTWK 78 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEeCCCCC
Confidence 577899999999999999999987765567899999977653
No 48
>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=89.88 E-value=9.2 Score=31.12 Aligned_cols=92 Identities=17% Similarity=0.109 Sum_probs=54.9
Q ss_pred EEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHH
Q 041485 22 GVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDML 101 (179)
Q Consensus 22 Lv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (179)
++...++--+..+...|..+....+..+.++......+ ...+++
T Consensus 104 ~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~------------------------------------~a~~QL 147 (428)
T TIGR00959 104 MVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRP------------------------------------AAIEQL 147 (428)
T ss_pred EECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccch------------------------------------HHHHHH
Confidence 34445666677788888887655677777776644331 122334
Q ss_pred HHHhhcCCceEEEEEeccChh---HHHHHHHHhCCCCEEEEecCCCccccc
Q 041485 102 DAASKQKHVSVVAKLYWGDAR---DKLCEAVEAMKLDSLVMGSRGLGTIQR 149 (179)
Q Consensus 102 ~~~~~~~~~~~~~~~~~g~~~---~~i~~~a~~~~~dlvVlg~~~~~~~~~ 149 (179)
..++...++++.......+|. ...++.+...++|+|++-+.++.....
T Consensus 148 ~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~ 198 (428)
T TIGR00959 148 KVLGQQVGVPVFALGKGQSPVEIARRALEYAKENGFDVVIVDTAGRLQIDE 198 (428)
T ss_pred HHHHHhcCCceEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCccccCH
Confidence 445555566544322222443 334456667889999999988765443
No 49
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=89.78 E-value=1.8 Score=30.73 Aligned_cols=35 Identities=14% Similarity=0.051 Sum_probs=28.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
+|+|++++.++..+.++.++...+.+ .+.+++++-
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~~-~g~~V~vv~ 35 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLTK-RGYQVTVLM 35 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHHH-CCCEEEEEE
Confidence 58999999999999998888888754 577766554
No 50
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=89.26 E-value=6.7 Score=30.02 Aligned_cols=84 Identities=11% Similarity=0.075 Sum_probs=51.1
Q ss_pred CCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 17 NNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 17 ~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
+++||.|.++++.....|+-.+..- ...++++.++-...+.
T Consensus 88 ~~~ri~vl~Sg~gsnl~al~~~~~~-~~~~~~i~~visn~~~-------------------------------------- 128 (286)
T PRK06027 88 ERKRVVILVSKEDHCLGDLLWRWRS-GELPVEIAAVISNHDD-------------------------------------- 128 (286)
T ss_pred cCcEEEEEEcCCCCCHHHHHHHHHc-CCCCcEEEEEEEcChh--------------------------------------
Confidence 3567888888777777766665442 2234555444432221
Q ss_pred HHHHHHHHhhcCCceEEEEEec----cChhHHHHHHHHhCCCCEEEEecCC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYW----GDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~----g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
+..++++.|+++...... .+....+.+..++.++|++|+..+.
T Consensus 129 ----~~~lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 129 ----LRSLVERFGIPFHHVPVTKETKAEAEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred ----HHHHHHHhCCCEEEeccCccccchhHHHHHHHHHHhCCCEEEEecch
Confidence 122366778876552211 2345678888999999999998753
No 51
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=88.89 E-value=2.6 Score=33.86 Aligned_cols=35 Identities=11% Similarity=0.096 Sum_probs=28.2
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
.++|++++.++-...++++....+- +.+.++.++-
T Consensus 6 ~k~IllgvTGsiaa~k~~~lv~~L~-~~g~~V~vv~ 40 (399)
T PRK05579 6 GKRIVLGVSGGIAAYKALELVRRLR-KAGADVRVVM 40 (399)
T ss_pred CCeEEEEEeCHHHHHHHHHHHHHHH-hCCCEEEEEE
Confidence 6899999999998888888887774 4577766554
No 52
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=88.65 E-value=3.8 Score=33.70 Aligned_cols=35 Identities=9% Similarity=0.035 Sum_probs=29.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
.++|++++.++-.+.++++....+.+ .+.+++++.
T Consensus 70 ~k~IllgVtGsIAayka~~lvr~L~k-~G~~V~Vvm 104 (475)
T PRK13982 70 SKRVTLIIGGGIAAYKALDLIRRLKE-RGAHVRCVL 104 (475)
T ss_pred CCEEEEEEccHHHHHHHHHHHHHHHh-CcCEEEEEE
Confidence 58999999999999999999988754 577766655
No 53
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=88.31 E-value=9.4 Score=31.38 Aligned_cols=110 Identities=11% Similarity=0.151 Sum_probs=64.7
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHH
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVL 98 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (179)
..+++.++.+.- ++..+..|...+-.+.++-|..-+.... +.
T Consensus 360 gdviltyg~s~v----V~~ill~A~~~~k~frVvVVDSRP~~EG--------------------------------~~-- 401 (556)
T KOG1467|consen 360 GDVLLTYGSSSV----VNMILLEAKELGKKFRVVVVDSRPNLEG--------------------------------RK-- 401 (556)
T ss_pred CCEEEEecchHH----HHHHHHHHHHhCcceEEEEEeCCCCcch--------------------------------HH--
Confidence 567788887754 4444444555667777777755443211 23
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCC---cccccccccchhH-HHhhcCCCCEEEEcCCC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGL---GTIQRVLLGSVSN-HVLANASCPVTIVKDPS 174 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~---~~~~~~~~gs~~~-~il~~~~~pVlvv~~~~ 174 (179)
+.+.+...|+++++..+.+ +.|+. ...+-|++|.+.- +.+- ...|...- =+.++.++|||+|=...
T Consensus 402 --~lr~Lv~~GinctYv~I~a------~syim-~evtkvfLGahailsNG~vy-sR~GTa~valvAna~nVPVlVCCE~y 471 (556)
T KOG1467|consen 402 --LLRRLVDRGINCTYVLINA------ASYIM-LEVTKVFLGAHAILSNGAVY-SRVGTACVALVANAFNVPVLVCCEAY 471 (556)
T ss_pred --HHHHHHHcCCCeEEEEehh------HHHHH-HhcceeeechhhhhcCcchh-hhcchHHHHHHhcccCCCEEEEechh
Confidence 3345567799999977654 22322 2378899998742 1111 11233333 34556669999997665
Q ss_pred CC
Q 041485 175 AA 176 (179)
Q Consensus 175 ~~ 176 (179)
++
T Consensus 472 KF 473 (556)
T KOG1467|consen 472 KF 473 (556)
T ss_pred hh
Confidence 44
No 54
>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=88.22 E-value=13 Score=30.34 Aligned_cols=94 Identities=15% Similarity=0.127 Sum_probs=55.0
Q ss_pred EEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHH
Q 041485 22 GVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDML 101 (179)
Q Consensus 22 Lv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (179)
+|...++--+..+...|..+. ..+..+.++.....+. ...+++
T Consensus 105 lvG~~GvGKTTtaaKLA~~l~-~~G~kV~lV~~D~~R~------------------------------------aA~eQL 147 (429)
T TIGR01425 105 FVGLQGSGKTTTCTKLAYYYQ-RKGFKPCLVCADTFRA------------------------------------GAFDQL 147 (429)
T ss_pred EECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcCcccch------------------------------------hHHHHH
Confidence 444456666777778887655 4466666665533321 223444
Q ss_pred HHHhhcCCceEEEEEeccChhH---HHHHHHHhCCCCEEEEecCCCcccccccc
Q 041485 102 DAASKQKHVSVVAKLYWGDARD---KLCEAVEAMKLDSLVMGSRGLGTIQRVLL 152 (179)
Q Consensus 102 ~~~~~~~~~~~~~~~~~g~~~~---~i~~~a~~~~~dlvVlg~~~~~~~~~~~~ 152 (179)
+..++..++++.......+|.. .-++.++..++|+|++-+.++.+....++
T Consensus 148 k~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm 201 (429)
T TIGR01425 148 KQNATKARIPFYGSYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLF 201 (429)
T ss_pred HHHhhccCCeEEeecCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHH
Confidence 5555556666543332335433 34455666789999999988776554333
No 55
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=88.20 E-value=11 Score=31.94 Aligned_cols=71 Identities=11% Similarity=0.073 Sum_probs=49.1
Q ss_pred HHHHHHHHHhhcCCceEEEEEecc-Ch---hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWG-DA---RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g-~~---~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
...+.+...+++.|++++..+..- .. ...+++.+++.+++.+|.+......+.. -+...+.+||+-||
T Consensus 424 ~~~~~~~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~--------~~a~~t~~pvi~vp 495 (577)
T PLN02948 424 PTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPG--------MVASMTPLPVIGVP 495 (577)
T ss_pred HHHHHHHHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchH--------HHhhccCCCEEEcC
Confidence 455566677788899888877653 33 3444555677789988888665555443 35668899999999
Q ss_pred CCC
Q 041485 172 DPS 174 (179)
Q Consensus 172 ~~~ 174 (179)
...
T Consensus 496 ~~~ 498 (577)
T PLN02948 496 VKT 498 (577)
T ss_pred CCC
Confidence 754
No 56
>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=88.13 E-value=7.5 Score=29.70 Aligned_cols=83 Identities=8% Similarity=0.061 Sum_probs=54.0
Q ss_pred CCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 17 NNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 17 ~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
++++|.|.++++..+..++-.+.+- ...++++.++-.-.+.
T Consensus 83 ~~~ki~vl~Sg~g~nl~~l~~~~~~-g~l~~~i~~visn~~~-------------------------------------- 123 (280)
T TIGR00655 83 KLKRVAILVSKEDHCLGDLLWRWYS-GELDAEIALVISNHED-------------------------------------- 123 (280)
T ss_pred CCcEEEEEEcCCChhHHHHHHHHHc-CCCCcEEEEEEEcChh--------------------------------------
Confidence 4689999999999988888777652 3345555554443221
Q ss_pred HHHHHHHHhhcCCceEEEEEec----cChhHHHHHHHHhCCCCEEEEecC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYW----GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~----g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+...+++.|+++...... ......+.+..++.++|++|+...
T Consensus 124 ----~~~~A~~~gIp~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagy 169 (280)
T TIGR00655 124 ----LRSLVERFGIPFHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKY 169 (280)
T ss_pred ----HHHHHHHhCCCEEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCc
Confidence 111356677776543321 123467888899999999999865
No 57
>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=87.58 E-value=8.3 Score=27.53 Aligned_cols=34 Identities=35% Similarity=0.470 Sum_probs=21.6
Q ss_pred EEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 21 IGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 21 ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
|+|++++...|..++..+.+.. +..+..+|+...
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~---~~~v~~v~vd~g 34 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDAL---GDRVLAVTATSP 34 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHh---CCcEEEEEeCCC
Confidence 4677777777777776665542 225677777544
No 58
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=87.42 E-value=3.9 Score=33.63 Aligned_cols=87 Identities=10% Similarity=0.077 Sum_probs=57.5
Q ss_pred ccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcC
Q 041485 29 KGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQK 108 (179)
Q Consensus 29 ~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 108 (179)
-....||..|++ .+.+|..+++.++..... . .. ........-+.+..+.+.+.+.
T Consensus 13 l~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~-------~--------~~------~~~r~~Fl~esL~~L~~~L~~~ 67 (471)
T TIGR03556 13 LSDNIGLAAARQ----QSAKVVGLFCLDPNILQA-------D--------DM------APARVAYLIGCLQELQQRYQQA 67 (471)
T ss_pred cchHHHHHHHHh----cCCCEEEEEEEchhhhcc-------c--------cC------CHHHHHHHHHHHHHHHHHHHHC
Confidence 345567777764 356799999988742110 0 00 0111233456667777777777
Q ss_pred CceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 109 HVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 109 ~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
|+... +..|++.+.|.+.+++.+++.|+....
T Consensus 68 G~~L~--v~~G~p~~vl~~l~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 68 GSQLL--ILQGDPVQLIPQLAQQLGAKAVYWNLD 99 (471)
T ss_pred CCCeE--EEECCHHHHHHHHHHHcCCCEEEEecc
Confidence 76664 557999999999999999999998754
No 59
>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=87.01 E-value=8 Score=26.73 Aligned_cols=34 Identities=21% Similarity=0.219 Sum_probs=25.8
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
+++|.+++...|..++..+.+ .+.++..+++...
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~----~~~~v~~~~~~~~ 34 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKK----EGYEVHALSFDYG 34 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHH----cCCcEEEEEEECC
Confidence 588999999999988877765 2456888888653
No 60
>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=86.94 E-value=11 Score=30.60 Aligned_cols=121 Identities=15% Similarity=0.081 Sum_probs=69.0
Q ss_pred cCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHh
Q 041485 26 DFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAAS 105 (179)
Q Consensus 26 d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (179)
|.--....||..|++. +.++..|++.++..... ....+. .. ..........+.++.+.+.+
T Consensus 10 DLRl~DN~aL~~A~~~----~~~vl~vfi~dp~~~~~----~~~~~~-----~~------~~~~r~~Fl~esL~~L~~~L 70 (429)
T TIGR02765 10 DLRVHDNPALYKASSS----SDTLIPLYCFDPRQFKL----THFFGF-----PK------TGPARGKFLLESLKDLRTSL 70 (429)
T ss_pred CCccccHHHHHHHHhc----CCeEEEEEEECchHhcc----cccccc-----CC------CCHHHHHHHHHHHHHHHHHH
Confidence 3333455677777653 34789999988753210 000000 00 00112233456677777777
Q ss_pred hcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEE
Q 041485 106 KQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTI 169 (179)
Q Consensus 106 ~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlv 169 (179)
++.|+... +..|++.+.|.+.+++.+++.|+...... +.... .-....+.+....+++..
T Consensus 71 ~~~g~~L~--v~~G~~~~vl~~L~~~~~~~~V~~~~~~~-~~~~~-rd~~v~~~l~~~~i~~~~ 130 (429)
T TIGR02765 71 RKLGSDLL--VRSGKPEDVLPELIKELGVRTVFLHQEVG-SEEKS-VERLLQQALARLGIHVEQ 130 (429)
T ss_pred HHcCCCeE--EEeCCHHHHHHHHHHHhCCCEEEEeccCC-HHHHH-HHHHHHHHHHhcCceEEE
Confidence 77777664 45799999999999999999999986532 22221 112223335555666543
No 61
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=86.62 E-value=9.6 Score=29.27 Aligned_cols=83 Identities=10% Similarity=0.017 Sum_probs=53.8
Q ss_pred CCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 17 NNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 17 ~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
..++|.|.++++..+..++=.+.+-. ..++++.+|-. ... .
T Consensus 92 ~~~kiavl~Sg~g~nl~al~~~~~~~-~l~~~i~~vis--n~~------------------------------------~ 132 (289)
T PRK13010 92 QRPKVVIMVSKFDHCLNDLLYRWRMG-ELDMDIVGIIS--NHP------------------------------------D 132 (289)
T ss_pred CCeEEEEEEeCCCccHHHHHHHHHCC-CCCcEEEEEEE--CCh------------------------------------h
Confidence 46789999999888888887776522 23455444433 321 1
Q ss_pred HHHHHHHHhhcCCceEEEEEec----cChhHHHHHHHHhCCCCEEEEecC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYW----GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~----g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+.+.+++.|+++...... ......+.+..++.++|++|+...
T Consensus 133 ----~~~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 178 (289)
T PRK13010 133 ----LQPLAVQHDIPFHHLPVTPDTKAQQEAQILDLIETSGAELVVLARY 178 (289)
T ss_pred ----HHHHHHHcCCCEEEeCCCcccccchHHHHHHHHHHhCCCEEEEehh
Confidence 125567778876642211 234567889999999999999865
No 62
>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=86.14 E-value=7.9 Score=27.69 Aligned_cols=34 Identities=21% Similarity=0.155 Sum_probs=26.1
Q ss_pred CeEEEeecCCccHHHHH-HHHHHHhcCCCCEEEEEE
Q 041485 19 RSIGVALDFSKGSKLAL-KWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al-~~a~~la~~~~~~l~ll~ 53 (179)
++|++++.++..+.+++ +....+ ...+.+++++-
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L-~~~g~~V~vI~ 35 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKL-VDEGAEVTPIV 35 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHH-HhCcCEEEEEE
Confidence 57999999999999997 555555 45577877665
No 63
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=86.00 E-value=13 Score=28.04 Aligned_cols=98 Identities=19% Similarity=0.172 Sum_probs=60.8
Q ss_pred HHHHHHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHH
Q 041485 5 LNKLIFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQE 84 (179)
Q Consensus 5 ~~~~~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (179)
+++|...+.- .++++|++++.-.|...+..|.+.+ |..+..+.+..+..+
T Consensus 7 l~~l~~~ik~---~~kv~vAfSGGvDSslLa~la~~~l---G~~v~AvTv~sP~~p------------------------ 56 (269)
T COG1606 7 LERLKKAIKE---KKKVVVAFSGGVDSSLLAKLAKEAL---GDNVVAVTVDSPYIP------------------------ 56 (269)
T ss_pred HHHHHHHHhh---cCeEEEEecCCccHHHHHHHHHHHh---ccceEEEEEecCCCC------------------------
Confidence 3344444433 3699999999888887666665544 577777777665432
Q ss_pred HHHHhhhhhhHHHHHHHHHHhhcCCceEEEEE------------------eccChhHHHHHHHHhCCCCEEEEecC
Q 041485 85 VMKQYEVDLDQDVLDMLDAASKQKHVSVVAKL------------------YWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
++..+.+...+.+.|++.++.- +.......|.+.+.+.++|.|+=|..
T Consensus 57 ----------~~e~e~A~~~A~~iGi~H~~i~~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 57 ----------RREIEEAKNIAKEIGIRHEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred ----------hhhhhHHHHHHHHhCCcceeeehhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence 1222233334444454443321 11245688999999999999999974
No 64
>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=85.99 E-value=1.4 Score=27.70 Aligned_cols=67 Identities=10% Similarity=0.134 Sum_probs=41.4
Q ss_pred HHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
+...+.+.+.+.|+++++.... ...+.+... ++|+|+++..-+.... ...+.+....+||.+++...
T Consensus 19 l~~k~~~~~~~~gi~~~v~a~~---~~~~~~~~~--~~Dvill~pqi~~~~~------~i~~~~~~~~ipv~~I~~~~ 85 (95)
T TIGR00853 19 LVNKMNKAAEEYGVPVKIAAGS---YGAAGEKLD--DADVVLLAPQVAYMLP------DLKKETDKKGIPVEVINGAQ 85 (95)
T ss_pred HHHHHHHHHHHCCCcEEEEEec---HHHHHhhcC--CCCEEEECchHHHHHH------HHHHHhhhcCCCEEEeChhh
Confidence 3456667777888887654322 222333443 4899999866433322 22556777789999998643
No 65
>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=85.23 E-value=1.8 Score=27.56 Aligned_cols=66 Identities=9% Similarity=0.092 Sum_probs=42.2
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
-..+.+++.+++.|+++++.- ....++.++..+ +|++++|..-+-.+. ...+.+....+||.+++.
T Consensus 15 ~la~km~~~a~~~gi~~~i~a---~~~~e~~~~~~~--~Dvill~PQv~~~~~------~i~~~~~~~~ipv~~I~~ 80 (99)
T cd05565 15 LLANALNKGAKERGVPLEAAA---GAYGSHYDMIPD--YDLVILAPQMASYYD------ELKKDTDRLGIKLVTTTG 80 (99)
T ss_pred HHHHHHHHHHHHCCCcEEEEE---eeHHHHHHhccC--CCEEEEcChHHHHHH------HHHHHhhhcCCCEEEeCH
Confidence 344566677788888877543 233445555555 899999876443332 235566677899998874
No 66
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=84.78 E-value=2.2 Score=27.40 Aligned_cols=67 Identities=10% Similarity=0.013 Sum_probs=41.8
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
...+.+.+++.|+++++.. . ...++.++....++|++++|.+-+-... ...+++..-.+||.+++..
T Consensus 18 a~k~k~~~~e~gi~~~i~a--~-~~~e~~~~~~~~~~DvIll~PQi~~~~~------~i~~~~~~~~ipv~~I~~~ 84 (104)
T PRK09590 18 AKKTTEYLKEQGKDIEVDA--I-TATEGEKAIAAAEYDLYLVSPQTKMYFK------QFEEAGAKVGKPVVQIPPQ 84 (104)
T ss_pred HHHHHHHHHHCCCceEEEE--e-cHHHHHHhhccCCCCEEEEChHHHHHHH------HHHHHhhhcCCCEEEeCHH
Confidence 3445666777888766433 2 2334555656667999999966432222 2355666678999999753
No 67
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=84.27 E-value=19 Score=28.63 Aligned_cols=37 Identities=11% Similarity=0.102 Sum_probs=26.4
Q ss_pred cCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEe
Q 041485 15 ASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIK 55 (179)
Q Consensus 15 ~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~ 55 (179)
..+.++|+|++++.-.|.-++.... ..+..+..+++.
T Consensus 2 ~~~~~kVlVa~SGGvDSsv~a~lL~----~~G~eV~av~~~ 38 (362)
T PRK14664 2 KESKKRVLVGMSGGIDSTATCLMLQ----EQGYEIVGVTMR 38 (362)
T ss_pred CCCCCEEEEEEeCCHHHHHHHHHHH----HcCCcEEEEEec
Confidence 3345899999999888887665433 356678888874
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=83.90 E-value=4.3 Score=28.69 Aligned_cols=34 Identities=15% Similarity=0.046 Sum_probs=26.1
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
|+|++++.++....++.+....+- +.+.+++++-
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L~-~~g~~V~vi~ 34 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQLT-KLGYDVTVLM 34 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHHH-HCCCEEEEEE
Confidence 689999999999998887766664 4577766554
No 69
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=83.78 E-value=5.7 Score=34.86 Aligned_cols=42 Identities=19% Similarity=0.024 Sum_probs=36.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQG 59 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~ 59 (179)
..+|.+..=+.+.++.|+.++.+++.+....+|+++...+..
T Consensus 614 ~~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~~ 655 (769)
T KOG1650|consen 614 SYKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDES 655 (769)
T ss_pred eeEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccch
Confidence 346677777788889999999999999999999999988754
No 70
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=82.70 E-value=13 Score=27.19 Aligned_cols=68 Identities=18% Similarity=0.268 Sum_probs=45.3
Q ss_pred HHHhhcCCceEEEEEecc---Ch---hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 102 DAASKQKHVSVVAKLYWG---DA---RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 102 ~~~~~~~~~~~~~~~~~g---~~---~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.+++...++.+.+.- .| +| .....+..++.++|.||+.+.+.. ..+ ++-+..++..+..|.+|+.+.+
T Consensus 24 DErAdRedi~vrVvg-sgaKM~Pe~veaav~~~~e~~~pDfvi~isPNpa-aPG---P~kARE~l~~s~~PaiiigDaP 97 (277)
T COG1927 24 DERADREDIEVRVVG-SGAKMDPECVEAAVTEMLEEFNPDFVIYISPNPA-APG---PKKAREILSDSDVPAIIIGDAP 97 (277)
T ss_pred HhhcccCCceEEEec-cccccChHHHHHHHHHHHHhcCCCEEEEeCCCCC-CCC---chHHHHHHhhcCCCEEEecCCc
Confidence 344455566655432 22 33 345557788999999999876432 222 4577899999999999997644
No 71
>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=81.93 E-value=2.8 Score=26.35 Aligned_cols=67 Identities=12% Similarity=0.178 Sum_probs=40.3
Q ss_pred HHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
+.+.+.+.+.+.|+++++.... . ..+..+. .++|+|+++.+-+..... ....+....+||.++|...
T Consensus 15 ~~~ki~~~~~~~~~~~~v~~~~--~-~~~~~~~--~~~Diil~~Pqv~~~~~~------i~~~~~~~~~pv~~I~~~~ 81 (96)
T cd05564 15 LVKKMKKAAEKRGIDAEIEAVP--E-SELEEYI--DDADVVLLGPQVRYMLDE------VKKKAAEYGIPVAVIDMMD 81 (96)
T ss_pred HHHHHHHHHHHCCCceEEEEec--H-HHHHHhc--CCCCEEEEChhHHHHHHH------HHHHhccCCCcEEEcChHh
Confidence 3446677778888876654322 2 2233344 458999998664433332 1334456789999998653
No 72
>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=81.85 E-value=1.5 Score=27.88 Aligned_cols=24 Identities=21% Similarity=0.349 Sum_probs=20.5
Q ss_pred cChhHHHHHHHHhCCCCEEEEecC
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
-.-.+.|.++|+++++|++|+|..
T Consensus 48 ~~d~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 48 ITDPEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp TT-HHHHHHHHHHTTESEEEESSH
T ss_pred CCCHHHHHHHHHHcCCCEEEECCh
Confidence 356789999999999999999965
No 73
>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=81.54 E-value=8.5 Score=29.79 Aligned_cols=54 Identities=20% Similarity=0.344 Sum_probs=33.1
Q ss_pred Eecc-ChhHHHHHHHHh---C----CCCEEEEecCCCcccccc--cccchhHHHhhcCCCCEEEE
Q 041485 116 LYWG-DARDKLCEAVEA---M----KLDSLVMGSRGLGTIQRV--LLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 116 ~~~g-~~~~~i~~~a~~---~----~~dlvVlg~~~~~~~~~~--~~gs~~~~il~~~~~pVlvv 170 (179)
.+.| +...+|+...+. . ++|+||+++.| +...++ |-.-...+.+..+++||+.=
T Consensus 50 ~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGG-Gs~eDL~~FN~e~varai~~~~~Pvisa 113 (319)
T PF02601_consen 50 SVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGG-GSIEDLWAFNDEEVARAIAASPIPVISA 113 (319)
T ss_pred cccccchHHHHHHHHHHHHhccccccccEEEEecCC-CChHHhcccChHHHHHHHHhCCCCEEEe
Confidence 3346 556666654333 2 49999999765 334443 22335566778889998764
No 74
>PLN00200 argininosuccinate synthase; Provisional
Probab=81.18 E-value=27 Score=28.22 Aligned_cols=38 Identities=18% Similarity=0.231 Sum_probs=30.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
+++|+|++++.-.|.-++.++.+. .+.+++.+++....
T Consensus 5 ~~kVvva~SGGlDSsvla~~L~e~---~G~eViav~id~Gq 42 (404)
T PLN00200 5 LNKVVLAYSGGLDTSVILKWLREN---YGCEVVCFTADVGQ 42 (404)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHHh---hCCeEEEEEEECCC
Confidence 369999999999999888887652 36788999886653
No 75
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=80.89 E-value=19 Score=26.19 Aligned_cols=82 Identities=11% Similarity=0.054 Sum_probs=48.3
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+|.|-++++.....++-.+++-- ..++++.++-...+..
T Consensus 1 ki~vl~Sg~Gsn~~al~~~~~~~-~l~~~i~~visn~~~~---------------------------------------- 39 (207)
T PLN02331 1 KLAVFVSGGGSNFRAIHDACLDG-RVNGDVVVVVTNKPGC---------------------------------------- 39 (207)
T ss_pred CEEEEEeCCChhHHHHHHHHHcC-CCCeEEEEEEEeCCCC----------------------------------------
Confidence 47788888888888876665522 2344444433332221
Q ss_pred HHHHHhhcCCceEEEEEecc-----ChhHHHHHHHHhCCCCEEEEecC
Q 041485 100 MLDAASKQKHVSVVAKLYWG-----DARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g-----~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
...+.+++.|+++....... ....++.+..++.++|++|+...
T Consensus 40 ~~~~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~~l~~~~~Dliv~agy 87 (207)
T PLN02331 40 GGAEYARENGIPVLVYPKTKGEPDGLSPDELVDALRGAGVDFVLLAGY 87 (207)
T ss_pred hHHHHHHHhCCCEEEeccccCCCcccchHHHHHHHHhcCCCEEEEeCc
Confidence 12345566677664322111 12467788889999999999754
No 76
>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=80.89 E-value=28 Score=28.09 Aligned_cols=34 Identities=15% Similarity=0.256 Sum_probs=27.4
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
+|+|++++.-.|..++.++.+. +.++..+|+...
T Consensus 1 kVvla~SGGlDSsvll~~l~e~----g~~V~av~id~G 34 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK----GYEVIAYTADVG 34 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc----CCEEEEEEEecC
Confidence 4889999999898888877653 778999998655
No 77
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=80.75 E-value=34 Score=29.08 Aligned_cols=93 Identities=17% Similarity=0.141 Sum_probs=57.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
.++|+|.-|-+-..-.+........+..++.-...++ +.+... ..| .. ...
T Consensus 69 ~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~I--P~R~~e------GYG--l~-------------------~~~ 119 (575)
T PRK11070 69 GTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYLV--PNRFED------GYG--LS-------------------PEV 119 (575)
T ss_pred CCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEEe--CCCCcC------CCC--CC-------------------HHH
Confidence 5899999988776666655556666666763222222 222111 111 00 122
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
.+.+. +.+.+.-+.+-.|....+-+++|++.++|+||..+|.
T Consensus 120 i~~~~----~~~~~LiItvD~Gi~~~e~i~~a~~~gidvIVtDHH~ 161 (575)
T PRK11070 120 VDQAH----ARGAQLIVTVDNGISSHAGVAHAHALGIPVLVTDHHL 161 (575)
T ss_pred HHHHH----hcCCCEEEEEcCCcCCHHHHHHHHHCCCCEEEECCCC
Confidence 22222 2355666667779888999999999999999999774
No 78
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=80.41 E-value=30 Score=28.18 Aligned_cols=73 Identities=11% Similarity=0.042 Sum_probs=37.0
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc-CCC-CEEEEcC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN-ASC-PVTIVKD 172 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~-~~~-pVlvv~~ 172 (179)
+++...++..++++.......+..+.|....+..++|+|++-+.+++......+... .+++.. .+. .+|+++.
T Consensus 286 EQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL-~~~lk~~~PdevlLVLsA 360 (436)
T PRK11889 286 QQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEM-IETMGQVEPDYICLTLSA 360 (436)
T ss_pred HHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHH-HHHHhhcCCCeEEEEECC
Confidence 344455555676655322222333333333333468999999888776544334333 233332 232 2455554
No 79
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=80.23 E-value=24 Score=27.03 Aligned_cols=83 Identities=8% Similarity=-0.016 Sum_probs=50.9
Q ss_pred CCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 17 NNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 17 ~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
+..+|.|.+.++..+..++-.+++-- ..++++.+|-...+.
T Consensus 88 ~~~ri~vl~Sg~g~nl~al~~~~~~~-~~~~~i~~visn~~~-------------------------------------- 128 (286)
T PRK13011 88 ARPKVLIMVSKFDHCLNDLLYRWRIG-ELPMDIVGVVSNHPD-------------------------------------- 128 (286)
T ss_pred cCceEEEEEcCCcccHHHHHHHHHcC-CCCcEEEEEEECCcc--------------------------------------
Confidence 35688888888877777776665532 234555554432221
Q ss_pred HHHHHHHHhhcCCceEEEEEec----cChhHHHHHHHHhCCCCEEEEecC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYW----GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~----g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+...+++.|+++...... .+....+.+..++.++|++|+...
T Consensus 129 ----~~~lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK13011 129 ----LEPLAAWHGIPFHHFPITPDTKPQQEAQVLDVVEESGAELVVLARY 174 (286)
T ss_pred ----HHHHHHHhCCCEEEeCCCcCchhhhHHHHHHHHHHhCcCEEEEeCh
Confidence 122356667776542111 123456788888999999999864
No 80
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=79.93 E-value=3.7 Score=29.29 Aligned_cols=37 Identities=5% Similarity=-0.112 Sum_probs=30.2
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHI 54 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v 54 (179)
+++|++++.++-.+.++.+....+.+..+.+++++--
T Consensus 1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv~T 37 (185)
T PRK06029 1 MKRLIVGISGASGAIYGVRLLQVLRDVGEIETHLVIS 37 (185)
T ss_pred CCEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEEEC
Confidence 5789999999999999999999987656777666543
No 81
>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=79.19 E-value=4.7 Score=31.26 Aligned_cols=53 Identities=17% Similarity=0.213 Sum_probs=37.1
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-CcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-LGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.+....++...+ +|+||+|..+ .+..--.++-.-..+.+++++||++.|.+-.
T Consensus 163 ~~~~~~l~AI~~--ADlIvlgPGSlyTSI~P~Llv~gi~eAi~~s~a~kV~V~ni~ 216 (309)
T cd07044 163 SPSREVLEAIEK--ADNIVIGPGSLYTSILPNISVPGIREALKKTXAKKVYVSNIX 216 (309)
T ss_pred CCCHHHHHHHHh--CCEEEECCCcCHHHhhhhcCcHhHHHHHHhcCCCeEEECCCC
Confidence 455778888888 9999999753 2223333344455667888999999997654
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=78.85 E-value=13 Score=23.27 Aligned_cols=34 Identities=15% Similarity=-0.017 Sum_probs=26.1
Q ss_pred EEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 21 IGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 21 ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
|+|++++...|...+..+.+.. .++.++|+....
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~~----~~~~~~~~~~~~ 34 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKLG----YQVIAVTVDHGI 34 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHhC----CCEEEEEEcCCC
Confidence 5789999999988888877753 268888886654
No 83
>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=78.80 E-value=5.7 Score=30.80 Aligned_cols=54 Identities=20% Similarity=0.231 Sum_probs=37.2
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-CcccccccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-LGTIQRVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
.+....++..++ +|+||+|..+ .+..--.++-.-..+.+++++||++.|.+-..
T Consensus 161 ~a~~~al~AI~~--ADlIvlgPGSlyTSIiPnLlv~gI~eAI~~s~a~kV~v~N~~t 215 (310)
T TIGR01826 161 PALREAVEAIRE--ADLIILGPGSLYTSIIPNLLVPEIAEALRESKAPKVYVCNLMT 215 (310)
T ss_pred CCCHHHHHHHHh--CCEEEECCCcCHHHhchhcCchhHHHHHHhCCCCEEEEeCCCC
Confidence 455778888888 9999999753 22233333344556677889999999976543
No 84
>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=77.88 E-value=18 Score=27.47 Aligned_cols=92 Identities=12% Similarity=0.153 Sum_probs=56.6
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
+|-|.+.....+..-++-|-++.+.++.. .+.|+..|..+. ..++...+
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~~Yg~~-~I~h~tyPdnf~------------------------------~e~EttIs 52 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIKKYGDV-MIKHVTYPDNFM------------------------------SEQETTIS 52 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHHHHHHH-EEEEEE--TTGG------------------------------GCHHHHHH
T ss_pred EEEEEeCCcccChHHHHHHHHHHHHhCcc-eEEEEeCCCccc------------------------------chHHHHHH
Confidence 57777877777787888888888887766 888888887532 12467777
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
++..++.+..+++-+..-.-.-...-.+-+++...|++.++..
T Consensus 53 kI~~lAdDp~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~ 95 (275)
T PF12683_consen 53 KIVSLADDPDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGE 95 (275)
T ss_dssp HHHGGGG-TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS
T ss_pred HHHHhccCCCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCC
Confidence 7888888777765543322222344445577777899988865
No 85
>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=77.77 E-value=12 Score=26.50 Aligned_cols=34 Identities=15% Similarity=0.009 Sum_probs=23.7
Q ss_pred eEEEeecCCcc-HHHHHHHHHHHhcCCCCEEEEEE
Q 041485 20 SIGVALDFSKG-SKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 20 ~ILv~vd~s~~-s~~al~~a~~la~~~~~~l~ll~ 53 (179)
+|++++-+|-. ....++....+.++.+.++.++-
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~~~g~eV~vv~ 35 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKNRYGDEIDVFL 35 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHHhcCCEEEEEE
Confidence 57888888833 34467788888777777766543
No 86
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=77.48 E-value=37 Score=27.64 Aligned_cols=35 Identities=17% Similarity=0.010 Sum_probs=23.9
Q ss_pred eEEEeecCC-ccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 20 SIGVALDFS-KGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 20 ~ILv~vd~s-~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
-||+.-|+. --|.-.++.+.++|++. .++||.-..
T Consensus 95 ~iLIgGdPGIGKSTLLLQva~~lA~~~----~vLYVsGEE 130 (456)
T COG1066 95 VILIGGDPGIGKSTLLLQVAARLAKRG----KVLYVSGEE 130 (456)
T ss_pred EEEEccCCCCCHHHHHHHHHHHHHhcC----cEEEEeCCc
Confidence 345555543 34777899999999766 778886654
No 87
>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=77.31 E-value=17 Score=23.49 Aligned_cols=46 Identities=13% Similarity=0.125 Sum_probs=33.8
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGT 146 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~ 146 (179)
.+...++..|.++.. ....-+.+.+++.+.+.++|+|.++......
T Consensus 18 ~~~~~l~~~G~~V~~-lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~ 63 (119)
T cd02067 18 IVARALRDAGFEVID-LGVDVPPEEIVEAAKEEDADAIGLSGLLTTH 63 (119)
T ss_pred HHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEecccccc
Confidence 456677778887733 2234778899999999999999998763333
No 88
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=75.95 E-value=25 Score=26.08 Aligned_cols=71 Identities=13% Similarity=0.136 Sum_probs=44.7
Q ss_pred HHHhhcCCceEEEEEecc--ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 102 DAASKQKHVSVVAKLYWG--DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 102 ~~~~~~~~~~~~~~~~~g--~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
....+..+..+-+.+... .....|.+.+.+.+.|.|++|-+.--..+ -.-.+..+|-...+.||++.|...
T Consensus 8 ~~~~~~~~~~H~tliDP~k~~~~~ei~~~~~~~GTDaImIGGS~gvt~~--~~~~~v~~ik~~~~lPvilfP~~~ 80 (240)
T COG1646 8 LEKLDWRGKRHLTLIDPDKTEEADEIAEAAAEAGTDAIMIGGSDGVTEE--NVDNVVEAIKERTDLPVILFPGSP 80 (240)
T ss_pred HHHhhhccceEEEEeCcccccccHHHHHHHHHcCCCEEEECCcccccHH--HHHHHHHHHHhhcCCCEEEecCCh
Confidence 333443344333333332 45678889999999999999966422211 123455666668899999998765
No 89
>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=75.75 E-value=10 Score=22.55 Aligned_cols=35 Identities=20% Similarity=0.263 Sum_probs=28.8
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYII 52 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll 52 (179)
.++|.++.|.++...++.+...+.....+..+.++
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~~ 77 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKLGLNVRVL 77 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 48999999999999999888888777777666554
No 90
>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=75.62 E-value=28 Score=25.28 Aligned_cols=79 Identities=15% Similarity=0.120 Sum_probs=49.9
Q ss_pred HHHHHHHHHh-hcCCceEEEEEeccC------------hhHHHHHHHHhCC-CCEEEEecCCCccccccc-ccchhHHHh
Q 041485 96 DVLDMLDAAS-KQKHVSVVAKLYWGD------------ARDKLCEAVEAMK-LDSLVMGSRGLGTIQRVL-LGSVSNHVL 160 (179)
Q Consensus 96 ~~~~~~~~~~-~~~~~~~~~~~~~g~------------~~~~i~~~a~~~~-~dlvVlg~~~~~~~~~~~-~gs~~~~il 160 (179)
..++.+.+.+ ...+.++++.....+ ....|++..+..+ .|.|++...-.....+.| -+-....+.
T Consensus 110 ~~l~~~~~~l~~~~~~~v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~~ml~~~~~~fLDD~t~~el~ 189 (204)
T PF04459_consen 110 PFLKPLVEKLNRIPGLEVEVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPDVMLRHGEGVFLDDMTLEELE 189 (204)
T ss_pred HHHHHHHHHHhccCCCeEEEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECHHHhcCCCCccCCCCcHHHHH
Confidence 3334444443 333666666554432 3577777666533 499999876433333344 477889999
Q ss_pred hcCCCCEEEEcCCC
Q 041485 161 ANASCPVTIVKDPS 174 (179)
Q Consensus 161 ~~~~~pVlvv~~~~ 174 (179)
+...+||.+|+...
T Consensus 190 ~~lg~~v~vv~~~~ 203 (204)
T PF04459_consen 190 ERLGVPVIVVRGPG 203 (204)
T ss_pred HHhCCcEEEeCCCC
Confidence 99999999998653
No 91
>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=75.55 E-value=28 Score=25.13 Aligned_cols=34 Identities=15% Similarity=0.117 Sum_probs=24.9
Q ss_pred EeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 23 VALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 23 v~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
++.-.++.+..++..+..+++..+..++++.+..
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~g~~v~av~~G~ 62 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKYGGEVTVVSMGP 62 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhcCCEEEEEEECC
Confidence 3444566788889999998877777877777643
No 92
>PRK08576 hypothetical protein; Provisional
Probab=75.42 E-value=44 Score=27.41 Aligned_cols=35 Identities=17% Similarity=0.041 Sum_probs=26.6
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
.+++|++++...|..++..+.+... .+.++++...
T Consensus 235 ~rVvVafSGGKDStvLL~La~k~~~----~V~aV~iDTG 269 (438)
T PRK08576 235 WTVIVPWSGGKDSTAALLLAKKAFG----DVTAVYVDTG 269 (438)
T ss_pred CCEEEEEcChHHHHHHHHHHHHhCC----CCEEEEeCCC
Confidence 3899999999999998887777542 2777777544
No 93
>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=75.29 E-value=24 Score=28.42 Aligned_cols=35 Identities=11% Similarity=0.159 Sum_probs=28.2
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
.++|++++.++..+.++++....+. +.+.+++++-
T Consensus 3 ~k~IllgiTGSiaa~~~~~ll~~L~-~~g~~V~vv~ 37 (390)
T TIGR00521 3 NKKILLGVTGGIAAYKTVELVRELV-RQGAEVKVIM 37 (390)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHHH-hCCCEEEEEE
Confidence 4899999999999999999888874 4577766554
No 94
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=75.09 E-value=29 Score=25.95 Aligned_cols=49 Identities=16% Similarity=0.227 Sum_probs=35.4
Q ss_pred HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 123 DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
+...+..++.++|++|+-+.+ ....+ +.-++.++....+|++++.+.+.
T Consensus 50 ~~~~~~~~~~~pDf~i~isPN-~a~PG---P~~ARE~l~~~~iP~IvI~D~p~ 98 (277)
T PRK00994 50 EVVKKMLEEWKPDFVIVISPN-PAAPG---PKKAREILKAAGIPCIVIGDAPG 98 (277)
T ss_pred HHHHHHHHhhCCCEEEEECCC-CCCCC---chHHHHHHHhcCCCEEEEcCCCc
Confidence 344456678899999998664 23332 45778999999999999976543
No 95
>KOG3180 consensus Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=73.74 E-value=30 Score=25.11 Aligned_cols=79 Identities=20% Similarity=0.138 Sum_probs=49.2
Q ss_pred ccHHHHHHHHHHHhcCC-CCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhc
Q 041485 29 KGSKLALKWAIDNLLEK-GDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQ 107 (179)
Q Consensus 29 ~~s~~al~~a~~la~~~-~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 107 (179)
+-+.-|++.|.++-... -..+..+.+-.... ++.++.+.....+
T Consensus 40 PF~eIAvEEAvrlKEk~l~eeviavs~G~aqs-----------------------------------~~ilRt~LA~Gad 84 (254)
T KOG3180|consen 40 PFCEIAVEEAVRLKEKKLAEEVIAVSIGPAQS-----------------------------------QEILRTALAKGAD 84 (254)
T ss_pred chHHHHHHHHHhHhhhhhhheEEEEecCccch-----------------------------------HHHHHHHHhccCC
Confidence 45777888888876642 23455555433321 3455444444445
Q ss_pred CCceEEEEEec----cChhHHHHHHHHhCCCCEEEEecC
Q 041485 108 KHVSVVAKLYW----GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 108 ~~~~~~~~~~~----g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.++.+++.-.. =.+++.+-..+...+.||++||..
T Consensus 85 r~~hv~~~~~~~lepl~vAKiLk~~vekek~~lVllGKQ 123 (254)
T KOG3180|consen 85 RGVHVEVVGAEELEPLHVAKILKKLVEKEKSDLVLLGKQ 123 (254)
T ss_pred ceeEEecCchhhccchHHHHHHHHHHHhhcCCEEEEccc
Confidence 56665542111 266788888899999999999964
No 96
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=73.72 E-value=40 Score=26.12 Aligned_cols=70 Identities=10% Similarity=0.207 Sum_probs=42.5
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCccccccc--ccc-hhHHHhhcCCCCEEEEcCCCCC
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVL--LGS-VSNHVLANASCPVTIVKDPSAA 176 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~--~gs-~~~~il~~~~~pVlvv~~~~~~ 176 (179)
.+.+.+.+.|++++..+ . -.+..++++ +|.+++|...-..-..+. .|+ ...-..++...|++++-...+.
T Consensus 161 ~~ak~L~~~gI~~~~I~--D---sa~~~~~~~--vd~VivGad~I~~nG~lvnkiGT~~lA~~A~e~~~Pf~v~aesyKf 233 (301)
T COG1184 161 IMAKELRQSGIPVTVIV--D---SAVGAFMSR--VDKVLVGADAILANGALVNKIGTSPLALAARELRVPFYVVAESYKF 233 (301)
T ss_pred HHHHHHHHcCCceEEEe--c---hHHHHHHHh--CCEEEECccceecCCcEEeccchHHHHHHHHHhCCCEEEEeeeecc
Confidence 34556677787776543 2 233445666 999999987532222221 233 3344667888999999665543
No 97
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=73.34 E-value=34 Score=25.18 Aligned_cols=59 Identities=14% Similarity=0.037 Sum_probs=44.3
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHH
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHV 159 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~i 159 (179)
....+..++.|+..=.....+.|.+.+..+..+ +|+|.+=+-..+...+.|+.+..++|
T Consensus 99 ~r~i~~Ik~~G~kaGv~lnP~Tp~~~i~~~l~~--vD~VllMsVnPGfgGQ~Fi~~~l~Ki 157 (220)
T COG0036 99 HRTIQLIKELGVKAGLVLNPATPLEALEPVLDD--VDLVLLMSVNPGFGGQKFIPEVLEKI 157 (220)
T ss_pred HHHHHHHHHcCCeEEEEECCCCCHHHHHHHHhh--CCEEEEEeECCCCcccccCHHHHHHH
Confidence 344455566677777777778999999999999 89988877666777777777766654
No 98
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=73.18 E-value=8.8 Score=25.93 Aligned_cols=54 Identities=19% Similarity=0.202 Sum_probs=36.1
Q ss_pred hhHHHHHHHHhCCCCEEEEecCCC-cccc---cccccchhHHHhhcCCCCEEEEcCCC
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSRGL-GTIQ---RVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~~~-~~~~---~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
....|.+++++.+++.+|+|-.-. .+.. ....-..+.++-...++||..+.+..
T Consensus 42 ~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DEr~ 99 (138)
T PRK00109 42 DWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDERL 99 (138)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCc
Confidence 478899999999999999994321 1111 01122456666666789999887654
No 99
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=72.91 E-value=35 Score=26.32 Aligned_cols=74 Identities=11% Similarity=0.191 Sum_probs=50.4
Q ss_pred hHHHHHHHHHHhhcCCceEEEEEeccC-hhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 94 DQDVLDMLDAASKQKHVSVVAKLYWGD-ARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~g~-~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+..+..+.+.+++.+.++..++.... -+..+++.+...++|.||.+.-. +.. +.++.-+..+-.-|+-++|.
T Consensus 18 ~~~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GGD-GTv-----~evingl~~~~~~~LgilP~ 91 (301)
T COG1597 18 AKKLLREVEELLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGGD-GTV-----NEVANGLAGTDDPPLGILPG 91 (301)
T ss_pred hhhHHHHHHHHHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecCc-chH-----HHHHHHHhcCCCCceEEecC
Confidence 356777788888888988888776654 78888888887899999998442 332 23444444443344778775
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 92 G 92 (301)
T COG1597 92 G 92 (301)
T ss_pred C
Confidence 4
No 100
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=72.86 E-value=45 Score=26.33 Aligned_cols=35 Identities=17% Similarity=0.156 Sum_probs=26.2
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
++|+|++++.-.|..++..+.+ .+..+..+|+...
T Consensus 1 ~kVlValSGGvDSsvla~lL~~----~G~~V~~v~~~~~ 35 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE----QGYEVIGVFMKLW 35 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEeCC
Confidence 4799999999888877665544 3567888888653
No 101
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=72.58 E-value=7 Score=31.15 Aligned_cols=20 Identities=25% Similarity=0.355 Sum_probs=11.3
Q ss_pred hHHHHHHHHhCCCCEEEEec
Q 041485 122 RDKLCEAVEAMKLDSLVMGS 141 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~ 141 (179)
...+++.|++.++|+||++.
T Consensus 29 f~~~l~~a~~~~vD~vliAG 48 (390)
T COG0420 29 FDELLEIAKEEKVDFVLIAG 48 (390)
T ss_pred HHHHHHHHHHccCCEEEEcc
Confidence 34455555556666666654
No 102
>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length. The function of this family is unknown.
Probab=72.04 E-value=36 Score=24.96 Aligned_cols=27 Identities=15% Similarity=0.290 Sum_probs=14.4
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCcc
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGT 146 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~ 146 (179)
.|+..+.++..-+ ++|++++..+.+..
T Consensus 102 vg~~~e~~~~~~~--~iDF~vVDc~~~d~ 128 (218)
T PF07279_consen 102 VGEAPEEVMPGLK--GIDFVVVDCKREDF 128 (218)
T ss_pred ecCCHHHHHhhcc--CCCEEEEeCCchhH
Confidence 4654444443323 47777777664433
No 103
>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=71.97 E-value=23 Score=25.47 Aligned_cols=48 Identities=19% Similarity=0.168 Sum_probs=34.6
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQ 148 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~ 148 (179)
.+...++..|.++.. ...+-|.+.+++.+++.++|+|.++....+...
T Consensus 101 ~v~~~l~~~G~~vi~-lG~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~ 148 (201)
T cd02070 101 LVATMLEANGFEVID-LGRDVPPEEFVEAVKEHKPDILGLSALMTTTMG 148 (201)
T ss_pred HHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEeccccccHH
Confidence 355667778877632 224568999999999999999999875433333
No 104
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=71.88 E-value=37 Score=24.95 Aligned_cols=45 Identities=9% Similarity=0.003 Sum_probs=36.2
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.-.+..++.+++.|+.+.-..+.-.+.+.|.....+ .|.|.+|--
T Consensus 49 ~Yv~k~~~~l~~lg~~v~~L~l~~~~~~~Ie~~l~~--~d~IyVgGG 93 (224)
T COG3340 49 FYVEKVRNALAKLGLEVSELHLSKPPLAAIENKLMK--ADIIYVGGG 93 (224)
T ss_pred HHHHHHHHHHHHcCCeeeeeeccCCCHHHHHHhhhh--ccEEEECCc
Confidence 455667778888899888777777888999888888 899999854
No 105
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.75 E-value=43 Score=27.13 Aligned_cols=57 Identities=12% Similarity=0.204 Sum_probs=35.0
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhH---HHHHHHHhCCCCEEEEecCCCcccccccc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARD---KLCEAVEAMKLDSLVMGSRGLGTIQRVLL 152 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~---~i~~~a~~~~~dlvVlg~~~~~~~~~~~~ 152 (179)
...+++...+.+.++++-....+-+|++ +=++..+++++|+||+.+++|.....-+|
T Consensus 143 gAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLf 202 (483)
T KOG0780|consen 143 GAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLF 202 (483)
T ss_pred chHHHHHHHhHhhCCeeEecccccchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHH
Confidence 3445555566666666655433444443 33455777888999998888776665444
No 106
>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=71.48 E-value=11 Score=29.30 Aligned_cols=54 Identities=20% Similarity=0.220 Sum_probs=37.0
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-CcccccccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-LGTIQRVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
.+....++.+++ +|+||+|..+ .+..--.++-.-..+.++.++||++.|.+-..
T Consensus 164 ~~~~~a~~AI~~--AD~Iv~gPGSlyTSI~P~Llv~gI~eAi~~s~a~kV~v~N~~~ 218 (308)
T cd07187 164 KANPEALEAIEE--ADLIVYGPGSLYTSILPNLLVKGIAEAIRASKAPKVYICNLMT 218 (308)
T ss_pred CCCHHHHHHHHh--CCEEEECCCccHHHhhhhcCchhHHHHHHhCCCCEEEEecCCC
Confidence 455788888888 9999999753 22222233344556677889999998876543
No 107
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=70.76 E-value=6.9 Score=23.49 Aligned_cols=35 Identities=20% Similarity=0.189 Sum_probs=22.7
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYII 52 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll 52 (179)
.++|.+++|++.....+..+..+.....+.+++.+
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~~v 80 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVTRV 80 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG---------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccccccC
Confidence 58999999999999999988888776666665543
No 108
>PLN02828 formyltetrahydrofolate deformylase
Probab=70.75 E-value=44 Score=25.41 Aligned_cols=86 Identities=12% Similarity=0.016 Sum_probs=53.9
Q ss_pred CCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 17 NNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 17 ~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
..++|.|.++++..+..+|=.+.+-. ..++++.+|-...+....
T Consensus 69 ~~~riavlvSg~g~nl~~ll~~~~~g-~l~~eI~~ViSn~~~~~~----------------------------------- 112 (268)
T PLN02828 69 PKYKIAVLASKQDHCLIDLLHRWQDG-RLPVDITCVISNHERGPN----------------------------------- 112 (268)
T ss_pred CCcEEEEEEcCCChhHHHHHHhhhcC-CCCceEEEEEeCCCCCCC-----------------------------------
Confidence 46799999999999998888876643 345666655543332100
Q ss_pred HHHHHHHHhhcCCceEEEEEec--cChhHHHHHHHHhCCCCEEEEecC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYW--GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~--g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
..+.+.+++.|+++...... ......+.+..+ ++|++|+..+
T Consensus 113 --a~~~~~A~~~gIP~~~~~~~~~~~~e~~~~~~l~--~~DliVLAgy 156 (268)
T PLN02828 113 --THVMRFLERHGIPYHYLPTTKENKREDEILELVK--GTDFLVLARY 156 (268)
T ss_pred --chHHHHHHHcCCCEEEeCCCCCCCHHHHHHHHHh--cCCEEEEeee
Confidence 12334567778876643322 223346666666 4999999865
No 109
>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=70.16 E-value=52 Score=25.92 Aligned_cols=50 Identities=12% Similarity=0.064 Sum_probs=32.0
Q ss_pred hHHHHHHHHhhcCCC-CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 4 TLNKLIFFFKMASNN-RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 4 ~~~~~~~~~~m~~~~-~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
.|.+|+.+..-.+.. -.++|+++|...|..++..+.. ..+..+.++++..
T Consensus 44 ~l~~l~~~~k~~~~~~yD~iV~lSGGkDSs~la~ll~~---~~gl~~l~vt~~~ 94 (343)
T TIGR03573 44 ELEELVDKIKKKGGGRYDCIIGVSGGKDSTYQAHVLKK---KLGLNPLLVTVDP 94 (343)
T ss_pred HHHHHHHHHHhcCCCCCCEEEECCCCHHHHHHHHHHHH---HhCCceEEEEECC
Confidence 466677765544311 3599999999998887765533 2455555566643
No 110
>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=70.05 E-value=54 Score=26.13 Aligned_cols=36 Identities=14% Similarity=0.065 Sum_probs=29.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
-.++||.+++.-.|.-|+..+.+ .|.++..+|+...
T Consensus 172 ~~kvlvllSGGiDS~vaa~ll~k----rG~~V~av~~~~~ 207 (371)
T TIGR00342 172 QGKVLALLSGGIDSPVAAFMMMK----RGCRVVAVHFFNE 207 (371)
T ss_pred CCeEEEEecCCchHHHHHHHHHH----cCCeEEEEEEeCC
Confidence 47999999999999887766644 4788999999754
No 111
>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=70.05 E-value=15 Score=22.46 Aligned_cols=63 Identities=11% Similarity=0.047 Sum_probs=37.0
Q ss_pred hhcCCceEEEEEe-ccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEE
Q 041485 105 SKQKHVSVVAKLY-WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 105 ~~~~~~~~~~~~~-~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVl 168 (179)
+++.|++++..+. .+.-...+.+..+..++|+||--......... -.|....+.+-...+|++
T Consensus 26 L~~~Gi~~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~-~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 26 LREAGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTLYPLGAQPH-EDGKALRRAAENIDIPGA 89 (90)
T ss_pred HHHCCCcceeccCCCCCCCHHHHHHhcCCCeEEEEECCCcCcceec-cCcHHHHHHHHHcCCCee
Confidence 3456877754332 22223469999999999999986543121111 124455666666667664
No 112
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=69.93 E-value=25 Score=28.63 Aligned_cols=53 Identities=21% Similarity=0.346 Sum_probs=33.1
Q ss_pred ecc-ChhHHHHHHHHh---CCCCEEEEecCCCcccccc--cccchhHHHhhcCCCCEEEE
Q 041485 117 YWG-DARDKLCEAVEA---MKLDSLVMGSRGLGTIQRV--LLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 117 ~~g-~~~~~i~~~a~~---~~~dlvVlg~~~~~~~~~~--~~gs~~~~il~~~~~pVlvv 170 (179)
+.| .....|++..+. .++|.||+++.| +...++ |-.-...+.+..+++||+.=
T Consensus 172 vQG~~A~~~i~~al~~~~~~~~Dviii~RGG-GS~eDL~~Fn~e~v~~ai~~~~~Pvis~ 230 (438)
T PRK00286 172 VQGEGAAASIVAAIERANARGEDVLIVARGG-GSLEDLWAFNDEAVARAIAASRIPVISA 230 (438)
T ss_pred CcCccHHHHHHHHHHHhcCCCCCEEEEecCC-CCHHHhhccCcHHHHHHHHcCCCCEEEe
Confidence 346 466777665443 336999999765 334443 22335566778889998764
No 113
>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=69.79 E-value=57 Score=26.90 Aligned_cols=111 Identities=15% Similarity=0.088 Sum_probs=65.5
Q ss_pred cHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCC
Q 041485 30 GSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKH 109 (179)
Q Consensus 30 ~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (179)
....||..|++ .+ .+..|+|.++..... . . ..........+.+..+.+.+++.|
T Consensus 11 ~DN~aL~~A~~----~~-~vlpvyi~dp~~~~~-------~--------~------~~~~~~~fl~~sL~~L~~~L~~~G 64 (475)
T TIGR02766 11 EDNPALAAAAR----AG-PVIPVFVWAPEEEGQ-------Y--------Y------PGRVSRWWLKQSLAHLDQSLRSLG 64 (475)
T ss_pred chHHHHHHHHh----CC-CEEEEEEechHHhcc-------c--------c------ccHHHHHHHHHHHHHHHHHHHHcC
Confidence 34556766653 23 688999988753110 0 0 001112234567777788888888
Q ss_pred ceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEE
Q 041485 110 VSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTI 169 (179)
Q Consensus 110 ~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlv 169 (179)
....+.. .|++.+.|.+.+++.+++-|+..... .+.... ......+.+....+.+..
T Consensus 65 ~~L~v~~-~g~~~~~l~~l~~~~~i~~v~~~~~~-~~~~~~-rd~~v~~~l~~~gi~~~~ 121 (475)
T TIGR02766 65 TCLVTIR-STDTVAALLDCVRSTGATRLFFNHLY-DPVSLV-RDHRAKEVLTAQGISVQS 121 (475)
T ss_pred CceEEEe-CCCHHHHHHHHHHHcCCCEEEEeccc-CHHHHH-HHHHHHHHHHHcCCEEEE
Confidence 7766432 48999999999999999999987652 222221 222334455544555443
No 114
>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=69.66 E-value=20 Score=24.09 Aligned_cols=57 Identities=14% Similarity=0.178 Sum_probs=39.6
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCc--ccc--cccccchhHHHhhcC-CCCEEEEcCCCC
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLG--TIQ--RVLLGSVSNHVLANA-SCPVTIVKDPSA 175 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~--~~~--~~~~gs~~~~il~~~-~~pVlvv~~~~~ 175 (179)
+...+.|.+.+++++++.+|+|..-+. ... ....-..+..+-... ++||..+.+..+
T Consensus 37 ~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DEr~T 98 (135)
T PF03652_consen 37 EKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDERLT 98 (135)
T ss_dssp CCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEECSCS
T ss_pred chHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECCChh
Confidence 478899999999999999999964211 111 111234566777776 899999976543
No 115
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=69.41 E-value=25 Score=28.71 Aligned_cols=54 Identities=24% Similarity=0.427 Sum_probs=34.3
Q ss_pred Eecc-ChhHHHHHH---HHhC-CCCEEEEecCCCccccccc--ccchhHHHhhcCCCCEEEE
Q 041485 116 LYWG-DARDKLCEA---VEAM-KLDSLVMGSRGLGTIQRVL--LGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 116 ~~~g-~~~~~i~~~---a~~~-~~dlvVlg~~~~~~~~~~~--~gs~~~~il~~~~~pVlvv 170 (179)
.+.| +...+|++. +... .+|.||+|+.+ +.+++++ -.-...+.+..+.+||+--
T Consensus 171 ~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGG-GSiEDLW~FNdE~vaRAi~~s~iPvISA 231 (440)
T COG1570 171 LVQGEGAAEEIVEAIERANQRGDVDVLIVARGG-GSIEDLWAFNDEIVARAIAASRIPVISA 231 (440)
T ss_pred cccCCCcHHHHHHHHHHhhccCCCCEEEEecCc-chHHHHhccChHHHHHHHHhCCCCeEee
Confidence 3346 556666654 4443 39999999665 4455542 3335567788889998753
No 116
>PF07355 GRDB: Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); InterPro: IPR022787 This entry represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. All members are expected to contain an internal UGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon. ; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=69.32 E-value=26 Score=27.69 Aligned_cols=68 Identities=31% Similarity=0.443 Sum_probs=44.8
Q ss_pred HHHHhhcCCceEEEEEeccC---------hhHHHHHHHHhCCCCEEEEecC-CCcccccccccchhHHHhhcCCCCEEEE
Q 041485 101 LDAASKQKHVSVVAKLYWGD---------ARDKLCEAVEAMKLDSLVMGSR-GLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~---------~~~~i~~~a~~~~~dlvVlg~~-~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
+...+.+ +.++...++.|| ..+.|++.+++.++|++|.|.- +.+... .--|.++..|-.+..+|++.-
T Consensus 40 l~~~l~~-~~eIv~TiiCGDnyf~en~eea~~~i~~mv~~~~pD~viaGPaFnagrYG-~acg~v~~aV~e~~~IP~vta 117 (349)
T PF07355_consen 40 LEKALKD-DAEIVATIICGDNYFNENKEEALKKILEMVKKLKPDVVIAGPAFNAGRYG-VACGEVAKAVQEKLGIPVVTA 117 (349)
T ss_pred HHHHhcC-CCEEEEEEEECcchhhhCHHHHHHHHHHHHHhcCCCEEEEcCCcCCchHH-HHHHHHHHHHHHhhCCCEEEE
Confidence 3344444 455555454442 4577888999999999999964 222222 224678888888999999864
No 117
>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=69.18 E-value=46 Score=24.95 Aligned_cols=23 Identities=13% Similarity=0.104 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHhcCCCCEEEEEE
Q 041485 31 SKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 31 s~~al~~a~~la~~~~~~l~ll~ 53 (179)
+..++++.++++...++++.++-
T Consensus 13 ~~~i~~~~~~lag~~~~rI~~ip 35 (250)
T TIGR02069 13 DREILREFVSRAGGEDAIIVIIT 35 (250)
T ss_pred hHHHHHHHHHHhCCCCceEEEEe
Confidence 34477888888877776665443
No 118
>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=68.48 E-value=26 Score=21.83 Aligned_cols=73 Identities=8% Similarity=0.022 Sum_probs=46.1
Q ss_pred HHHHHHHHHhhcCCceEEEEEecc-ChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWG-DARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g-~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.....+++.+++.|....++-..+ .... .|....++ +|+||+-..--++-. -..+.+......+|++.++.
T Consensus 10 ~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~--aD~VIv~t~~vsH~~----~~~vk~~akk~~ip~~~~~~ 83 (97)
T PF10087_consen 10 DRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKK--ADLVIVFTDYVSHNA----MWKVKKAAKKYGIPIIYSRS 83 (97)
T ss_pred ccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCC--CCEEEEEeCCcChHH----HHHHHHHHHHcCCcEEEECC
Confidence 334556677778888877772222 2222 35666666 999999865333221 23456778888899999875
Q ss_pred CC
Q 041485 173 PS 174 (179)
Q Consensus 173 ~~ 174 (179)
.+
T Consensus 84 ~~ 85 (97)
T PF10087_consen 84 RG 85 (97)
T ss_pred CC
Confidence 43
No 119
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=68.42 E-value=43 Score=27.66 Aligned_cols=93 Identities=15% Similarity=0.173 Sum_probs=60.0
Q ss_pred cCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHh
Q 041485 26 DFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAAS 105 (179)
Q Consensus 26 d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (179)
|.--....||..|++.+ +..+..|++.++..... .. .........-+.+..+.+.+
T Consensus 11 DLRl~DN~aL~~A~~~~---~~~vlpvyv~dp~~~~~---------------~~------~~~~r~~Fl~esL~~L~~~L 66 (472)
T PRK10674 11 DLRLHDNLALAAACRDP---SARVLALFIATPAQWAA---------------HD------MAPRQAAFINAQLNALQIAL 66 (472)
T ss_pred CCCcchHHHHHHHHhCC---CCCEEEEEEECchhhcc---------------CC------CCHHHHHHHHHHHHHHHHHH
Confidence 34444566777776533 24699999988752110 00 01122234457777778888
Q ss_pred hcCCceEEEEEe--ccChhHHHHHHHHhCCCCEEEEecC
Q 041485 106 KQKHVSVVAKLY--WGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 106 ~~~~~~~~~~~~--~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
++.|++.-+... .|++.+.+.+.+++.+++-|+....
T Consensus 67 ~~~g~~L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 67 AEKGIPLLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred HHcCCceEEEecCCcCCHHHHHHHHHHHcCCCEEEEecc
Confidence 888877765443 3689999999999999999998754
No 120
>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=67.67 E-value=56 Score=25.40 Aligned_cols=38 Identities=21% Similarity=0.159 Sum_probs=29.3
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
-++++|+++|.-.|.-++..+.+. .+.+++.+|+....
T Consensus 16 ~~kVvValSGGVDSsvla~ll~~~---~G~~v~av~vd~G~ 53 (311)
T TIGR00884 16 DAKVIIALSGGVDSSVAAVLAHRA---IGDRLTCVFVDHGL 53 (311)
T ss_pred CCcEEEEecCChHHHHHHHHHHHH---hCCCEEEEEEeCCC
Confidence 378999999998888777666553 35689999997664
No 121
>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=67.67 E-value=9.5 Score=29.45 Aligned_cols=52 Identities=21% Similarity=0.279 Sum_probs=33.2
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-CcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-LGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
.+....++..++ +|+||+|..+ .+...-.+.-.-..+.++.++||++.|.+-
T Consensus 172 ~~~p~~l~AI~~--AD~IiigPgs~~TSI~P~L~v~gi~~Ai~~s~a~kV~V~ni 224 (300)
T PF01933_consen 172 KANPEALEAIEE--ADLIIIGPGSLYTSIIPNLLVPGIREAIRESKAPKVYVSNI 224 (300)
T ss_dssp -B-HHHHHHHHH---SEEEE-SS-CCCCCHHHHTSHHHHHHHHHSSSEEEEE-SS
T ss_pred CCCHHHHHHHHh--CCEEEEcCCCchhhhcccccchhHHHHHHhCCCCEEEEcCC
Confidence 556788888888 9999999763 333333344445677888888999998764
No 122
>PRK02929 L-arabinose isomerase; Provisional
Probab=67.56 E-value=47 Score=27.76 Aligned_cols=47 Identities=6% Similarity=0.079 Sum_probs=34.9
Q ss_pred ChhHHHHHHHHhCC----CCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 120 DARDKLCEAVEAMK----LDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 120 ~~~~~i~~~a~~~~----~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
+..++|...+++.+ +|.||+-.+..++.+ ..-.+++...+|||+.-.
T Consensus 55 ~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~------~~i~~~~~l~~PvL~~~~ 105 (499)
T PRK02929 55 TTPDEITAVCREANYDDNCAGVITWMHTFSPAK------MWIRGLSALQKPLLHLHT 105 (499)
T ss_pred CCHHHHHHHHHHccccCCCcEEEEccCCCchHH------HHHHHHHHcCCCEEEEec
Confidence 55666667777766 999999877665533 345678999999999954
No 123
>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=67.11 E-value=13 Score=24.52 Aligned_cols=34 Identities=12% Similarity=-0.068 Sum_probs=25.4
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
|||++++.++....++.++...+.+. +.+++++-
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~-g~~v~vv~ 34 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA-GWEVRVVL 34 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT-TSEEEEEE
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC-CCEEEEEE
Confidence 68999999999999988888877655 77765553
No 124
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=66.67 E-value=28 Score=26.44 Aligned_cols=115 Identities=17% Similarity=0.159 Sum_probs=70.6
Q ss_pred EEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHH
Q 041485 21 IGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDM 100 (179)
Q Consensus 21 ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (179)
++++--.|-++..-+..++...+..|+++.-.-.+.+... +|+..| ..++.+..
T Consensus 47 ~viAGPCsvEs~E~i~~~A~~vk~~Ga~~lRGgafKPRTS-----PYsFQG---------------------lge~gL~~ 100 (286)
T COG2876 47 RVIAGPCSVESEEQVRETAESVKAAGAKALRGGAFKPRTS-----PYSFQG---------------------LGEEGLKL 100 (286)
T ss_pred EEEecCcccCCHHHHHHHHHHHHHcchhhccCCcCCCCCC-----cccccc---------------------cCHHHHHH
Confidence 4444444666777777788878888888777777776542 222222 11366667
Q ss_pred HHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
+++...+.|..+.+++..-.-.+.+.+| +|+|=+|.+....+.- -+-+-+.+.|||+-+..
T Consensus 101 l~~a~~~~Gl~vvtEvm~~~~~e~~~~y-----~DilqvGARNMQNF~L-------Lke~G~~~kPvLLKRg~ 161 (286)
T COG2876 101 LKRAADETGLPVVTEVMDVRDVEAAAEY-----ADILQVGARNMQNFAL-------LKEVGRQNKPVLLKRGL 161 (286)
T ss_pred HHHHHHHcCCeeEEEecCHHHHHHHHhh-----hhHHHhcccchhhhHH-------HHHhcccCCCeEEecCc
Confidence 7778888999999988765444444444 6777778765443331 12233455666666544
No 125
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=66.65 E-value=18 Score=23.08 Aligned_cols=64 Identities=17% Similarity=0.289 Sum_probs=40.1
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+..++.+++.|.++++.-. +..++.++..+ +|.+.+|..-+-. + ....+++..-.+||-+++.
T Consensus 18 V~Km~~aA~~kg~~~~I~A~---s~~e~~~~~~~--~DvvLlGPQv~y~-----~-~~~~~~~~~~giPV~vI~~ 81 (102)
T COG1440 18 VTKMKKAAESKGKDVTIEAY---SETELSEYIDN--ADVVLLGPQVRYM-----L-KQLKEAAEEKGIPVEVIDM 81 (102)
T ss_pred HHHHHHHHHhCCCceEEEEe---chhHHHHhhhc--CCEEEEChHHHHH-----H-HHHHHHhcccCCCeEEeCH
Confidence 34455566667777766443 33444455554 9999999664322 2 2346777777889998874
No 126
>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=66.44 E-value=34 Score=27.92 Aligned_cols=53 Identities=19% Similarity=0.361 Sum_probs=32.4
Q ss_pred ecc-ChhHHHHHHHH----hCCCCEEEEecCCCcccccc--cccchhHHHhhcCCCCEEEE
Q 041485 117 YWG-DARDKLCEAVE----AMKLDSLVMGSRGLGTIQRV--LLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 117 ~~g-~~~~~i~~~a~----~~~~dlvVlg~~~~~~~~~~--~~gs~~~~il~~~~~pVlvv 170 (179)
+.| .....|+...+ ..++|+||+++.| +...++ |-.-...+.+..+++||+.=
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 346 55566665433 3348999999765 334443 22334556678899999864
No 127
>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=66.21 E-value=32 Score=22.06 Aligned_cols=65 Identities=15% Similarity=-0.002 Sum_probs=40.0
Q ss_pred hcCCceEEEEEec-cChhHHHHHHHHh-CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 106 KQKHVSVVAKLYW-GDARDKLCEAVEA-MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 106 ~~~~~~~~~~~~~-g~~~~~i~~~a~~-~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
++.|++++..... +.-...+.+..++ .++|+||--..+.......--|....+......+|++.-
T Consensus 39 ~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T~ 105 (112)
T cd00532 39 ADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTTP 105 (112)
T ss_pred HHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEEC
Confidence 4468877764432 1123678899999 999999886543331111223455566666678888754
No 128
>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=65.76 E-value=59 Score=27.07 Aligned_cols=48 Identities=6% Similarity=0.056 Sum_probs=34.5
Q ss_pred ChhHHHHHHHHhC----CCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 120 DARDKLCEAVEAM----KLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 120 ~~~~~i~~~a~~~----~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
+..+.+.+.+++. ++|.||+-.+..++.+ ..-.+++...+|||+.-.+
T Consensus 49 ~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~------~~i~~~~~l~~PvL~~~~q 100 (484)
T cd03557 49 TTPDEILAVCREANADDNCAGVITWMHTFSPAK------MWIAGLTALQKPLLHLHTQ 100 (484)
T ss_pred CCHHHHHHHHHHccccCCccEEEEccCCCchHH------HHHHHHHHcCCCEEEEccC
Confidence 5556666776664 5999999877665533 3456788999999999544
No 129
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=65.37 E-value=24 Score=25.98 Aligned_cols=43 Identities=16% Similarity=0.172 Sum_probs=28.9
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+.+++...+.+.++...+ .|....+.+..+.+.++|.+|+|+.
T Consensus 159 ~~l~~~~~~~~~~~~IeV-DGGI~~eti~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 159 RAIRKKIDALGKPIRLEI-DGGVKADNIGAIAAAGADTFVAGSA 201 (223)
T ss_pred HHHHHHHHhcCCCeeEEE-ECCCCHHHHHHHHHcCCCEEEEChh
Confidence 344455555555555444 4667777777788888999999965
No 130
>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=65.09 E-value=44 Score=23.23 Aligned_cols=35 Identities=14% Similarity=0.041 Sum_probs=28.7
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
+++|++++...|..++..+.+ .+.+++.+|+....
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~----~g~~v~av~~d~g~ 35 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMK----RGIEVDALHFNSGP 35 (177)
T ss_pred CEEEEecCChhHHHHHHHHHH----cCCeEEEEEEeCCC
Confidence 489999999999988877776 37889999997664
No 131
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=63.82 E-value=26 Score=25.95 Aligned_cols=43 Identities=16% Similarity=0.198 Sum_probs=29.7
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
..+++...+.+.++...+ .|....+-+..+.+-++|.+|+|+.
T Consensus 167 ~~lr~~~~~~~~~~~IeV-DGGI~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 167 IQVENRLGNRRVEKLISI-DGSMTLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred HHHHHHHHhcCCCceEEE-ECCCCHHHHHHHHHCCCCEEEEChh
Confidence 344455555666655544 4667677777888889999999965
No 132
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=63.55 E-value=33 Score=27.66 Aligned_cols=39 Identities=10% Similarity=0.072 Sum_probs=30.2
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
.|+|++++.++-.+.++++.+.. ..+.|+.+.++--...
T Consensus 4 ~k~ill~v~gsiaayk~~~l~r~-L~~~ga~v~vvmt~~a 42 (392)
T COG0452 4 GKRILLGVTGSIAAYKSVELVRL-LRRSGAEVRVVMTESA 42 (392)
T ss_pred CceEEEEecCchhhhhHHHHHHH-HhhCCCeeEEEcchhh
Confidence 47999999999999888777766 4567888877765443
No 133
>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=63.30 E-value=47 Score=22.95 Aligned_cols=24 Identities=13% Similarity=0.180 Sum_probs=19.0
Q ss_pred hhHHHHHHHHhCCCCEEEEecCCC
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~~~ 144 (179)
....|.+.+++.++|+|++|....
T Consensus 71 ~a~al~~~i~~~~p~~Vl~~~t~~ 94 (168)
T cd01715 71 YAPALVALAKKEKPSHILAGATSF 94 (168)
T ss_pred HHHHHHHHHHhcCCCEEEECCCcc
Confidence 456777888888899999997754
No 134
>PRK11914 diacylglycerol kinase; Reviewed
Probab=63.12 E-value=57 Score=25.02 Aligned_cols=71 Identities=21% Similarity=0.170 Sum_probs=41.0
Q ss_pred HHHHHHHHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
+..+.+.+.+++.+.++...... ..-+..+.+.+.+.++|+||+..- -+.+.. +...+ ...+.|+-++|..
T Consensus 26 ~~~~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~GG-DGTi~e-----vv~~l-~~~~~~lgiiP~G 97 (306)
T PRK11914 26 HAAERAIARLHHRGVDVVEIVGTDAHDARHLVAAALAKGTDALVVVGG-DGVISN-----ALQVL-AGTDIPLGIIPAG 97 (306)
T ss_pred HHHHHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEECC-chHHHH-----HhHHh-ccCCCcEEEEeCC
Confidence 33444455666677776654433 244666666666677898777533 333332 22333 3567899999854
No 135
>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=63.11 E-value=19 Score=23.98 Aligned_cols=54 Identities=15% Similarity=0.186 Sum_probs=36.2
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-----CcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-----LGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-----~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.....|.+.+++.+++.+|+|-.- .+... ...-..+.++-...++||..+.+..
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a-~~v~~f~~~L~~~~~~~v~~~DEr~ 93 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLT-ERAQKFANRLEGRFGVPVVLWDERL 93 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHH-HHHHHHHHHHHHHhCCCEEEEcCCc
Confidence 457888999999999999999432 11111 1112355666666789999987654
No 136
>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=62.37 E-value=21 Score=26.19 Aligned_cols=37 Identities=22% Similarity=0.070 Sum_probs=32.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHI 54 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v 54 (179)
.++|.+++|++.....|...+.++....+..+.++..
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~l 190 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIEI 190 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEeC
Confidence 4789999999999999999999999888877776654
No 137
>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=61.71 E-value=36 Score=26.41 Aligned_cols=51 Identities=22% Similarity=0.324 Sum_probs=35.3
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-CcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-LGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+..+.++...+ +|+||+|..+ .+...-.+.=.-..+.+++++.|++.|-+
T Consensus 172 ~~~p~vl~AI~~--AD~IVlGPgsp~TSI~P~LlVpgI~eAL~~s~A~vV~Vsp 223 (303)
T cd07186 172 RPAPEVLEAIED--ADLVIIGPSNPVTSIGPILALPGIREALRDKKAPVVAVSP 223 (303)
T ss_pred CCCHHHHHHHHh--CCEEEECCCccHHHhhhhccchhHHHHHHhCCCCEEEEcC
Confidence 567888888888 9999999763 23333333334556678888888887753
No 138
>PRK00074 guaA GMP synthase; Reviewed
Probab=61.56 E-value=97 Score=25.98 Aligned_cols=37 Identities=16% Similarity=0.155 Sum_probs=29.3
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
.++++|++++.-.|.-++..+.+. .+.++..+|+...
T Consensus 215 ~~~vlva~SGGvDS~vll~ll~~~---lg~~v~av~vd~g 251 (511)
T PRK00074 215 DKKVILGLSGGVDSSVAAVLLHKA---IGDQLTCVFVDHG 251 (511)
T ss_pred CCcEEEEeCCCccHHHHHHHHHHH---hCCceEEEEEeCC
Confidence 489999999999998877777653 2567999999655
No 139
>PHA02031 putative DnaG-like primase
Probab=61.48 E-value=15 Score=27.78 Aligned_cols=36 Identities=14% Similarity=-0.136 Sum_probs=31.7
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEE
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHI 54 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v 54 (179)
++|++++|++....+|...|++++...+..+.++.+
T Consensus 207 ~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~vv~l 242 (266)
T PHA02031 207 PRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQVIIT 242 (266)
T ss_pred CCEEEEeCCCHHHHHHHHHHHHHHHHcCCceEEEEC
Confidence 789999999999999999999998887777776665
No 140
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=61.34 E-value=62 Score=26.48 Aligned_cols=74 Identities=19% Similarity=0.177 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhhcCCceEEEEEec-c--ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYW-G--DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~-g--~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
++..+.+.+.+++.++++...... + +-.....+.++..++|.||+.....+.- +..-.+++..++||+++-
T Consensus 22 ~~~~~~~~~~l~~~~~~vv~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~tf~~~------~~~~~~~~~~~~Pvll~a 95 (452)
T cd00578 22 EEYAREVADLLNELPVEVVDKPEVTGTPDEARKAAEEFNEANCDGLIVWMHTFGPA------KMWIAGLSELRKPVLLLA 95 (452)
T ss_pred HHHHHHHHHHHhcCCceEEecCcccCCHHHHHHHHHHHhhcCCcEEEEcccccccH------HHHHHHHHhcCCCEEEEe
Confidence 444445555555555554432211 1 2245555777777899999976654432 233455678899999995
Q ss_pred CCC
Q 041485 172 DPS 174 (179)
Q Consensus 172 ~~~ 174 (179)
...
T Consensus 96 ~~~ 98 (452)
T cd00578 96 TQF 98 (452)
T ss_pred CCC
Confidence 433
No 141
>COG1691 NCAIR mutase (PurE)-related proteins [General function prediction only]
Probab=61.06 E-value=66 Score=23.93 Aligned_cols=62 Identities=21% Similarity=0.210 Sum_probs=39.8
Q ss_pred HhhcCCceEEEEEecc--ChhHHHH--HHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 104 ASKQKHVSVVAKLYWG--DARDKLC--EAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 104 ~~~~~~~~~~~~~~~g--~~~~~i~--~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
.++..|.++......| ...+-+. +..+..+.+.+|+-.--.+.+. |+ +.--.+|||+-+|..
T Consensus 139 tae~lG~ev~~~~DvGVAGiHRLl~~l~r~~~~~~~~lIVvAGMEGaLP-----sv---vagLvD~PVIavPTs 204 (254)
T COG1691 139 TAEELGVEVQKVYDVGVAGIHRLLSALKRLKIEDADVLIVVAGMEGALP-----SV---VAGLVDVPVIAVPTS 204 (254)
T ss_pred HHHHhCceEEEEEeeccchHHhhhhHHHHHHhhCCCeEEEEcccccchH-----HH---HHhccCCCeEecccc
Confidence 4455687777766665 4555555 5567778999988754333333 32 344568999999853
No 142
>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=61.05 E-value=55 Score=23.74 Aligned_cols=47 Identities=13% Similarity=0.121 Sum_probs=30.6
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhC---CCCEEEEecCCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAM---KLDSLVMGSRGL 144 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~---~~dlvVlg~~~~ 144 (179)
.+.+++.++..|+.-.+.+..|+..+.|-+...+. .+|+|++-....
T Consensus 83 ~~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K~ 132 (205)
T PF01596_consen 83 AEIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFDFVFIDADKR 132 (205)
T ss_dssp HHHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTGG
T ss_pred HHHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCceeEEEEccccc
Confidence 34444555555553344466698888888887754 699999997643
No 143
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=60.65 E-value=94 Score=25.53 Aligned_cols=33 Identities=24% Similarity=0.019 Sum_probs=19.1
Q ss_pred EEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEe
Q 041485 22 GVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIK 55 (179)
Q Consensus 22 Lv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~ 55 (179)
++...++--+..+...|..+.+ .+-.+.++...
T Consensus 100 lvG~~GsGKTTtaakLA~~L~~-~g~kV~lV~~D 132 (437)
T PRK00771 100 LVGLQGSGKTTTAAKLARYFKK-KGLKVGLVAAD 132 (437)
T ss_pred EECCCCCcHHHHHHHHHHHHHH-cCCeEEEecCC
Confidence 3344455566667777766553 45566666543
No 144
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=60.57 E-value=33 Score=25.29 Aligned_cols=74 Identities=15% Similarity=0.175 Sum_probs=40.3
Q ss_pred HHHHHHHHHhhcCCceEEEEEec-----cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYW-----GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.....+++.+++.|.+|.+.-.. ++..+.|..+.++++++-|.+-..+.-.+.+ ....+.....||+-++
T Consensus 49 saMRhfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~~-----~l~~~~~~~~i~~~~~ 123 (224)
T PF04244_consen 49 SAMRHFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLEQ-----RLESLAQQLGIPLEVL 123 (224)
T ss_dssp HHHHHHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHHH-----HHHH----SSS-EEEE
T ss_pred HHHHHHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHHH-----HHHhhhcccCCceEEe
Confidence 44455666677789998886655 3567899999999999999987655434333 3355777788999999
Q ss_pred cCCC
Q 041485 171 KDPS 174 (179)
Q Consensus 171 ~~~~ 174 (179)
+.+.
T Consensus 124 ~~~~ 127 (224)
T PF04244_consen 124 EDPH 127 (224)
T ss_dssp --TT
T ss_pred CCCC
Confidence 8764
No 145
>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=60.37 E-value=7.7 Score=24.14 Aligned_cols=65 Identities=11% Similarity=0.146 Sum_probs=36.5
Q ss_pred HHhhcCCceEEEEE-eccCh-hH----HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEE
Q 041485 103 AASKQKHVSVVAKL-YWGDA-RD----KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 103 ~~~~~~~~~~~~~~-~~g~~-~~----~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVl 168 (179)
+.+++.|+++...+ ..+.+ .. .+.+..++.++|+||.-..+...... -.|....+++-...+|++
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 34567788744322 22333 22 49999999999999987664332221 135555666667777764
No 146
>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=60.34 E-value=60 Score=23.23 Aligned_cols=34 Identities=21% Similarity=0.207 Sum_probs=25.4
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
++++.+++...|..++..+.+ .+.++..++...+
T Consensus 1 kv~v~~SGGkDS~~al~~a~~----~G~~v~~l~~~~~ 34 (194)
T cd01994 1 KVVALISGGKDSCYALYRALE----EGHEVVALLNLTP 34 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCEEEEEEEEec
Confidence 478899999999988888877 3556666666544
No 147
>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=60.29 E-value=15 Score=25.09 Aligned_cols=61 Identities=13% Similarity=0.114 Sum_probs=35.7
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhh
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLA 161 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~ 161 (179)
+.+.+.+++.|++++...........+.+..++ +|.|+++--....+.+.+.++....+++
T Consensus 3 ~~~~~~f~~~g~~v~~l~~~~~~~~~~~~~i~~--ad~I~~~GG~~~~l~~~l~~t~l~~~i~ 63 (154)
T PF03575_consen 3 EKFRKAFRKLGFEVDQLDLSDRNDADILEAIRE--ADAIFLGGGDTFRLLRQLKETGLDEAIR 63 (154)
T ss_dssp HHHHHHHHHCT-EEEECCCTSCGHHHHHHHHHH--SSEEEE--S-HHHHHHHHHHTTHHHHHH
T ss_pred HHHHHHHHHCCCEEEEEeccCCChHHHHHHHHh--CCEEEECCCCHHHHHHHHHhCCHHHHHH
Confidence 456667777888866654445455688888888 9999998654444444444444444444
No 148
>PRK14057 epimerase; Provisional
Probab=59.95 E-value=32 Score=25.92 Aligned_cols=43 Identities=19% Similarity=0.140 Sum_probs=29.8
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+.+++...+.+.++...+ .|......+..+.+-++|.+|+|+.
T Consensus 181 ~~lr~~~~~~~~~~~IeV-DGGI~~~ti~~l~~aGad~~V~GSa 223 (254)
T PRK14057 181 AQLLCLLGDKREGKIIVI-DGSLTQDQLPSLIAQGIDRVVSGSA 223 (254)
T ss_pred HHHHHHHHhcCCCceEEE-ECCCCHHHHHHHHHCCCCEEEEChH
Confidence 344455555666655545 4667777777888889999999964
No 149
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=59.36 E-value=87 Score=24.74 Aligned_cols=96 Identities=14% Similarity=0.103 Sum_probs=59.9
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
-++|.|+++--....-..|.++- ..|-.+.+.....-+ ....+
T Consensus 142 il~vGVNG~GKTTTIaKLA~~l~-~~g~~VllaA~DTFR------------------------------------AaAiE 184 (340)
T COG0552 142 ILFVGVNGVGKTTTIAKLAKYLK-QQGKSVLLAAGDTFR------------------------------------AAAIE 184 (340)
T ss_pred EEEEecCCCchHhHHHHHHHHHH-HCCCeEEEEecchHH------------------------------------HHHHH
Confidence 45667788777776666666544 445554443332221 24455
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHH---HHHHHhCCCCEEEEecCCCcccccccc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKL---CEAVEAMKLDSLVMGSRGLGTIQRVLL 152 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i---~~~a~~~~~dlvVlg~~~~~~~~~~~~ 152 (179)
++..+.+..|+.+-..-..+||+-.+ +++|+..++|.|++-+-+|-+-..-++
T Consensus 185 QL~~w~er~gv~vI~~~~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~nLM 240 (340)
T COG0552 185 QLEVWGERLGVPVISGKEGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLM 240 (340)
T ss_pred HHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCchhHH
Confidence 66667777788776644334776544 457889999999999887765554444
No 150
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=59.35 E-value=91 Score=24.98 Aligned_cols=89 Identities=9% Similarity=0.063 Sum_probs=52.2
Q ss_pred eEEEeecCC---ccHHHHHHHHHHHhcC-CCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhH
Q 041485 20 SIGVALDFS---KGSKLALKWAIDNLLE-KGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQ 95 (179)
Q Consensus 20 ~ILv~vd~s---~~s~~al~~a~~la~~-~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (179)
++++|-.+. .....+++.-.+.++. ....+.+++...... .+
T Consensus 217 ~~i~p~HG~i~~~~~~~~~~~Y~~~~~~~~~~kv~IvY~S~~Gn----------------------------------Te 262 (394)
T PRK11921 217 DMICPSHGVIWRDNPLQIVEKYLEWAANYQENQVTILYDTMWNS----------------------------------TR 262 (394)
T ss_pred CEEEcCCccEEeCCHHHHHHHHHHHhhcCCcCcEEEEEECCchH----------------------------------HH
Confidence 466664432 2344556654444444 556787777765542 14
Q ss_pred HHHHHHHHHhh--cCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCC
Q 041485 96 DVLDMLDAASK--QKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 96 ~~~~~~~~~~~--~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~ 144 (179)
++.+.+.+.++ ..|++++..-........+.....+ +|.||+|+...
T Consensus 263 ~mA~~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~~--~d~ii~GspT~ 311 (394)
T PRK11921 263 RMAEAIAEGIKKANKDVTVKLYNSAKSDKNDIITEVFK--SKAILVGSSTI 311 (394)
T ss_pred HHHHHHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHHh--CCEEEEECCCc
Confidence 55555666665 5677776544444445556555555 99999998753
No 151
>PRK02628 nadE NAD synthetase; Reviewed
Probab=59.18 E-value=1.2e+02 Score=26.51 Aligned_cols=46 Identities=13% Similarity=0.105 Sum_probs=32.1
Q ss_pred HHHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCCC---CEEEEEEE
Q 041485 8 LIFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEKG---DTLYIIHI 54 (179)
Q Consensus 8 ~~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~---~~l~ll~v 54 (179)
+..+..+.. .++++|++++...|.-++-.+.+.....+ ..+..++.
T Consensus 352 l~~~~~~~~-~~~vvvglSGGiDSal~l~l~~~a~~~lg~~~~~v~~v~m 400 (679)
T PRK02628 352 LAQRLRATG-LKKVVIGISGGLDSTHALLVAAKAMDRLGLPRKNILAYTM 400 (679)
T ss_pred HHHHHHHcC-CCeEEEECCCCHHHHHHHHHHHHHHHhhCCCcceEEEEEC
Confidence 455555555 79999999999888877777766544333 55666666
No 152
>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase. This model represents geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The active enzyme is reported to be a homopentamer in Methanobacterium thermoautotrophicum but is reported to be a homodimer in Thermoplasma acidophilum.
Probab=59.10 E-value=28 Score=25.29 Aligned_cols=48 Identities=13% Similarity=0.193 Sum_probs=29.0
Q ss_pred HHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 125 LCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 125 i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
+...+.+.+.|.+++|.+. .....-+......+=++.++||++.|...
T Consensus 16 ia~~v~~~gtDaI~VGGS~--gvt~~~~~~~v~~ik~~~~lPvilfp~~~ 63 (205)
T TIGR01769 16 IAKNAKDAGTDAIMVGGSL--GIVESNLDQTVKKIKKITNLPVILFPGNV 63 (205)
T ss_pred HHHHHHhcCCCEEEEcCcC--CCCHHHHHHHHHHHHhhcCCCEEEECCCc
Confidence 4556677789999998552 12211122333444334789999988654
No 153
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=58.58 E-value=80 Score=24.10 Aligned_cols=43 Identities=16% Similarity=0.111 Sum_probs=31.0
Q ss_pred HHHHHhhcCCceEEEEEecc----ChhHHHHHHHHhCCCCEEEEecC
Q 041485 100 MLDAASKQKHVSVVAKLYWG----DARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g----~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.++...+..++++....... .....+.+..++.++|+||+..+
T Consensus 129 dl~~~v~~~~IPfhhip~~~~~k~e~E~~~~~ll~~~~~DlvVLARY 175 (287)
T COG0788 129 DLRPLVERFDIPFHHIPVTKENKAEAEARLLELLEEYGADLVVLARY 175 (287)
T ss_pred HHHHHHHHcCCCeeeccCCCCcchHHHHHHHHHHHHhCCCEEeehhh
Confidence 34556677788777654432 34567888899999999999865
No 154
>PRK14974 cell division protein FtsY; Provisional
Probab=58.53 E-value=90 Score=24.63 Aligned_cols=50 Identities=18% Similarity=0.252 Sum_probs=30.1
Q ss_pred HHHHHhhcCCceEEEEEeccChhH---HHHHHHHhCCCCEEEEecCCCccccc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARD---KLCEAVEAMKLDSLVMGSRGLGTIQR 149 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~---~i~~~a~~~~~dlvVlg~~~~~~~~~ 149 (179)
++...+...++.+......+++.. ..+++++..++|+|++-+.++.+...
T Consensus 186 qL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~~~~ 238 (336)
T PRK14974 186 QLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGRMHTDA 238 (336)
T ss_pred HHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHhCCCCEEEEECCCccCCcH
Confidence 445555556666543332345544 33456677789999999887765443
No 155
>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=57.53 E-value=87 Score=24.18 Aligned_cols=35 Identities=20% Similarity=0.123 Sum_probs=26.7
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
+++|+++|.-.|.-++..+.+. .+.++..+|+...
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~---lG~~v~aV~vd~g 35 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA---IGDRLTCVFVDNG 35 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH---hCCcEEEEEecCC
Confidence 5889999998888777776652 3567889998655
No 156
>PLN02476 O-methyltransferase
Probab=57.35 E-value=72 Score=24.42 Aligned_cols=48 Identities=15% Similarity=0.125 Sum_probs=33.3
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHH---hCCCCEEEEecCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVE---AMKLDSLVMGSRG 143 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~---~~~~dlvVlg~~~ 143 (179)
+..+.+++.+++.|+.-.+.+..|+..+.+-+... ...+|+|++....
T Consensus 154 e~~~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K 204 (278)
T PLN02476 154 NSLEVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADK 204 (278)
T ss_pred HHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCH
Confidence 44455556666677765566777988887776543 2469999999764
No 157
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=57.22 E-value=29 Score=25.04 Aligned_cols=35 Identities=17% Similarity=0.119 Sum_probs=27.2
Q ss_pred CCeEEEeecCCccHHH-HHHHHHHHhcCCCCEEEEEE
Q 041485 18 NRSIGVALDFSKGSKL-ALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~-al~~a~~la~~~~~~l~ll~ 53 (179)
.++|++++.++-.+.+ +++.+..+. +.|.+++++-
T Consensus 5 ~k~IllgVTGsiaa~k~a~~lir~L~-k~G~~V~vv~ 40 (196)
T PRK08305 5 GKRIGFGLTGSHCTYDEVMPEIEKLV-DEGAEVTPIV 40 (196)
T ss_pred CCEEEEEEcCHHHHHHHHHHHHHHHH-hCcCEEEEEE
Confidence 5899999999999998 577777764 4577776654
No 158
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=57.13 E-value=23 Score=26.41 Aligned_cols=20 Identities=25% Similarity=0.331 Sum_probs=13.3
Q ss_pred HHHhhcCCCCEEEEcCCCCC
Q 041485 157 NHVLANASCPVTIVKDPSAA 176 (179)
Q Consensus 157 ~~il~~~~~pVlvv~~~~~~ 176 (179)
-+.|...+||+++||.+..+
T Consensus 82 f~~L~~~~~p~~~vPG~~Da 101 (255)
T PF14582_consen 82 FRILGELGVPVFVVPGNMDA 101 (255)
T ss_dssp HHHHHCC-SEEEEE--TTS-
T ss_pred HHHHHhcCCcEEEecCCCCc
Confidence 46788999999999987654
No 159
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=57.12 E-value=1.1e+02 Score=25.05 Aligned_cols=29 Identities=14% Similarity=-0.005 Sum_probs=19.1
Q ss_pred cCCccHHHHHHHHHHHh-cCCCCEEEEEEE
Q 041485 26 DFSKGSKLALKWAIDNL-LEKGDTLYIIHI 54 (179)
Q Consensus 26 d~s~~s~~al~~a~~la-~~~~~~l~ll~v 54 (179)
.|.--+..+...|..++ ...+..+.++..
T Consensus 230 tGvGKTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 230 TGVGKTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 34555667778888877 445667777765
No 160
>PF13362 Toprim_3: Toprim domain
Probab=56.62 E-value=45 Score=20.54 Aligned_cols=38 Identities=24% Similarity=0.221 Sum_probs=29.8
Q ss_pred CCCeEEEeecCCcc--HHHHHHHHHHHhcCCCCEEEEEEE
Q 041485 17 NNRSIGVALDFSKG--SKLALKWAIDNLLEKGDTLYIIHI 54 (179)
Q Consensus 17 ~~~~ILv~vd~s~~--s~~al~~a~~la~~~~~~l~ll~v 54 (179)
..++|+|..|.+.. ...+.+.+.+.+...+..+.++.-
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p 79 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP 79 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC
Confidence 47899999999988 778888887777777776666654
No 161
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=56.42 E-value=68 Score=24.03 Aligned_cols=47 Identities=13% Similarity=0.048 Sum_probs=32.2
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHh----CCCCEEEEecCCCc
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA----MKLDSLVMGSRGLG 145 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~----~~~dlvVlg~~~~~ 145 (179)
+.+++.+...|+.-.+.+..|+..+.+-+.... ..+|+|++-.....
T Consensus 118 ~~Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDadK~~ 168 (247)
T PLN02589 118 ELGLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDADKDN 168 (247)
T ss_pred HHHHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcccEEEecCCHHH
Confidence 345555566676555667779888887776643 57999999876443
No 162
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=56.36 E-value=46 Score=22.37 Aligned_cols=44 Identities=18% Similarity=0.183 Sum_probs=32.9
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCC
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~ 144 (179)
.+...++..|.++.. .-..-+.+.+++.|.+.++|+|.++....
T Consensus 22 iv~~~lr~~G~eVi~-LG~~vp~e~i~~~a~~~~~d~V~lS~~~~ 65 (137)
T PRK02261 22 ILDRALTEAGFEVIN-LGVMTSQEEFIDAAIETDADAILVSSLYG 65 (137)
T ss_pred HHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEcCccc
Confidence 345566777877654 22347889999999999999999987543
No 163
>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=56.07 E-value=89 Score=23.81 Aligned_cols=78 Identities=17% Similarity=0.215 Sum_probs=42.9
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcC-CCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANA-SCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~-~~pVlvv~~ 172 (179)
+..+.+.+.... .+.+-.-+...+.. ..+.+.+++.++|-+++.........+--+-..-..|+..+ ++||++...
T Consensus 58 ~~~~~~~~~~~~-~~~viagv~~~~~~~ai~~a~~a~~~Gad~v~~~~P~y~~~~~~~i~~~~~~v~~a~~~lpi~iYn~ 136 (288)
T cd00954 58 QIAEIVAEAAKG-KVTLIAHVGSLNLKESQELAKHAEELGYDAISAITPFYYKFSFEEIKDYYREIIAAAASLPMIIYHI 136 (288)
T ss_pred HHHHHHHHHhCC-CCeEEeccCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCCCCCHHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 444444444432 33333323223343 44457799999999998654322222111123446678888 799999865
Q ss_pred CC
Q 041485 173 PS 174 (179)
Q Consensus 173 ~~ 174 (179)
+.
T Consensus 137 P~ 138 (288)
T cd00954 137 PA 138 (288)
T ss_pred cc
Confidence 43
No 164
>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=56.05 E-value=49 Score=24.57 Aligned_cols=52 Identities=17% Similarity=0.243 Sum_probs=32.4
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
...+..++.+.+.+.|.+++|.+. ....+..+...+-+..+.||++.|....
T Consensus 19 ~~~~~~~~~~~~~gtDai~VGGS~----~~~~~d~vv~~ik~~~~lPvilfPg~~~ 70 (230)
T PF01884_consen 19 PNPEEALEAACESGTDAIIVGGSD----TGVTLDNVVALIKRVTDLPVILFPGSPS 70 (230)
T ss_dssp S-HHHHHHHHHCTT-SEEEEE-ST----HCHHHHHHHHHHHHHSSS-EEEETSTCC
T ss_pred CCcHHHHHHHHhcCCCEEEECCCC----CccchHHHHHHHHhcCCCCEEEeCCChh
Confidence 344566666778899999999776 1122344555566668899999987653
No 165
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=55.95 E-value=74 Score=22.88 Aligned_cols=67 Identities=7% Similarity=0.037 Sum_probs=38.7
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEec----CCCcccccccccchhHHHhhcCC-CCEEEEcC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGS----RGLGTIQRVLLGSVSNHVLANAS-CPVTIVKD 172 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~----~~~~~~~~~~~gs~~~~il~~~~-~pVlvv~~ 172 (179)
+.+...+...+..++. +..-+...+....++...+|+++|.- ...++. .....+.++.| ++|+++-.
T Consensus 14 ~gl~~~L~~~~~~~~v-v~~~~~~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~------~~i~~i~~~~p~~~iivlt~ 85 (207)
T PRK15411 14 LGLTGYLLSRGVKKRE-INDIETVDDLAIACDSLRPSVVFINEDCFIHDASNS------QRIKQIINQHPNTLFIVFMA 85 (207)
T ss_pred HHHHHHHHhCCCcceE-EEecCCHHHHHHHHhccCCCEEEEeCcccCCCCChH------HHHHHHHHHCCCCeEEEEEC
Confidence 3445555444433332 22334445555677778899999993 322211 25667776666 89988854
No 166
>PRK00919 GMP synthase subunit B; Validated
Probab=55.51 E-value=97 Score=24.10 Aligned_cols=38 Identities=21% Similarity=0.114 Sum_probs=30.5
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.++++|++++.-.|.-++..+.+. .+.+++.+++....
T Consensus 21 ~~kVlVa~SGGVDSsvla~la~~~---lG~~v~aV~vD~G~ 58 (307)
T PRK00919 21 DGKAIIALSGGVDSSVAAVLAHRA---IGDRLTPVFVDTGL 58 (307)
T ss_pred CCCEEEEecCCHHHHHHHHHHHHH---hCCeEEEEEEECCC
Confidence 389999999999998887766652 46789999998764
No 167
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=55.38 E-value=76 Score=22.87 Aligned_cols=84 Identities=13% Similarity=-0.026 Sum_probs=48.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
|+||.|.+.++.....++-.++.-. .....+.+ +......
T Consensus 1 m~ki~vl~sg~gs~~~~ll~~~~~~-~~~~~I~~--vvs~~~~------------------------------------- 40 (200)
T PRK05647 1 MKRIVVLASGNGSNLQAIIDACAAG-QLPAEIVA--VISDRPD------------------------------------- 40 (200)
T ss_pred CceEEEEEcCCChhHHHHHHHHHcC-CCCcEEEE--EEecCcc-------------------------------------
Confidence 3678888888877777766665322 23344444 3222210
Q ss_pred HHHHHHHhhcCCceEEEEEec-----cChhHHHHHHHHhCCCCEEEEecC
Q 041485 98 LDMLDAASKQKHVSVVAKLYW-----GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~-----g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
..+...+++.|+++...-.. ......+.+..++.++|++|+...
T Consensus 41 -~~~~~~a~~~gIp~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~iv~~~~ 89 (200)
T PRK05647 41 -AYGLERAEAAGIPTFVLDHKDFPSREAFDAALVEALDAYQPDLVVLAGF 89 (200)
T ss_pred -chHHHHHHHcCCCEEEECccccCchhHhHHHHHHHHHHhCcCEEEhHHh
Confidence 01345567778775431111 122457778888889999988654
No 168
>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=55.35 E-value=89 Score=23.63 Aligned_cols=78 Identities=15% Similarity=0.119 Sum_probs=43.7
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
++..+.+.+.+. ..+.+-.-+...+. ...+.+.+++.++|.+++.........+--+-..-..|+..+++||++...
T Consensus 56 ~~l~~~~~~~~~-~~~~vi~gv~~~~~~~~~~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~~~~~~ia~~~~~pi~lYn~ 134 (284)
T cd00950 56 EAVIEAVVEAVN-GRVPVIAGTGSNNTAEAIELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKAIAEATDLPVILYNV 134 (284)
T ss_pred HHHHHHHHHHhC-CCCcEEeccCCccHHHHHHHHHHHHHcCCCEEEEcccccCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 344455555443 23333333322233 344557799999998888865332222111123456788888999999864
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
+
T Consensus 135 P 135 (284)
T cd00950 135 P 135 (284)
T ss_pred h
Confidence 3
No 169
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=55.23 E-value=72 Score=23.48 Aligned_cols=53 Identities=15% Similarity=0.177 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCccccc
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQR 149 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~ 149 (179)
++..+.+++.+++.|+.-.+.+.. |+..+.+.+ -....+|+|++-.-. .....
T Consensus 94 ~e~~~~A~~n~~~ag~~~~i~~~~~gdal~~l~~-~~~~~fDliFIDadK-~~yp~ 147 (219)
T COG4122 94 EERAEIARENLAEAGVDDRIELLLGGDALDVLSR-LLDGSFDLVFIDADK-ADYPE 147 (219)
T ss_pred HHHHHHHHHHHHHcCCcceEEEEecCcHHHHHHh-ccCCCccEEEEeCCh-hhCHH
Confidence 355566677777888765565666 688888887 334569999998653 33443
No 170
>COG3360 Uncharacterized conserved protein [Function unknown]
Probab=54.60 E-value=35 Score=20.02 Aligned_cols=44 Identities=14% Similarity=0.036 Sum_probs=33.5
Q ss_pred hcCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 14 MASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 14 m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
|+- ||+|.+.-........|++-|+.-|...=..|...-|.+..
T Consensus 3 ~hv-YK~IelvGtSp~S~d~Ai~~Ai~RA~~t~~~l~wfeV~~~r 46 (71)
T COG3360 3 HHV-YKKIELVGTSPTSIDAAIANAIARAADTLDNLDWFEVVETR 46 (71)
T ss_pred cce-EEEEEEEecCCccHHHHHHHHHHHHHhhhhcceEEEEEeec
Confidence 444 88888776666667788899988888877788888887754
No 171
>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=54.29 E-value=43 Score=19.62 Aligned_cols=34 Identities=26% Similarity=0.350 Sum_probs=25.5
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYI 51 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~l 51 (179)
.++|.++.|.+.....+...+.+.+...+..+.+
T Consensus 43 ~~~vii~~D~D~~G~~~~~~~~~~~~~~~~~~~i 76 (79)
T cd01029 43 ARTVILAFDNDEAGKKAAARALELLLALGGRVRV 76 (79)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEE
Confidence 3899999999999887877777776655544443
No 172
>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=53.97 E-value=73 Score=22.82 Aligned_cols=48 Identities=17% Similarity=0.045 Sum_probs=35.1
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQ 148 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~ 148 (179)
.+...++..|.++.. +-.+-|.+.+++.+++.++|+|.++........
T Consensus 103 ~v~~~l~~~G~~vi~-LG~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~ 150 (197)
T TIGR02370 103 IVVTMLRANGFDVID-LGRDVPIDTVVEKVKKEKPLMLTGSALMTTTMY 150 (197)
T ss_pred HHHHHHHhCCcEEEE-CCCCCCHHHHHHHHHHcCCCEEEEccccccCHH
Confidence 345566777877654 234578899999999999999999876444443
No 173
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=53.52 E-value=99 Score=23.61 Aligned_cols=77 Identities=13% Similarity=0.192 Sum_probs=43.4
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
+..+.+.+.... .+.+-.-+...+..+ .+.+.+++.++|.+++-........+--+-..-..|+..++.||++...+
T Consensus 61 ~~~~~~~~~~~~-~~~viagvg~~~t~~ai~~a~~a~~~Gad~v~v~~P~y~~~~~~~l~~~f~~va~a~~lPv~iYn~P 139 (293)
T PRK04147 61 QVLEIVAEEAKG-KVKLIAQVGSVNTAEAQELAKYATELGYDAISAVTPFYYPFSFEEICDYYREIIDSADNPMIVYNIP 139 (293)
T ss_pred HHHHHHHHHhCC-CCCEEecCCCCCHHHHHHHHHHHHHcCCCEEEEeCCcCCCCCHHHHHHHHHHHHHhCCCCEEEEeCc
Confidence 444444444432 334333332223444 44578999999999998653222221111123466788899999999643
No 174
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.36 E-value=1.4e+02 Score=25.15 Aligned_cols=119 Identities=12% Similarity=0.008 Sum_probs=71.0
Q ss_pred HHHHHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHH
Q 041485 6 NKLIFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEV 85 (179)
Q Consensus 6 ~~~~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (179)
+-+....+...+|--.+|.|++---|......|.++... .+.++-+..+...+
T Consensus 367 RdI~sar~~krPYVi~fvGVNGVGKSTNLAKIayWLlqN---kfrVLIAACDTFRs------------------------ 419 (587)
T KOG0781|consen 367 RDIMSARRRKRPYVISFVGVNGVGKSTNLAKIAYWLLQN---KFRVLIAACDTFRS------------------------ 419 (587)
T ss_pred HHHHHHHhcCCCeEEEEEeecCccccchHHHHHHHHHhC---CceEEEEeccchhh------------------------
Confidence 334444455555667788889988888888888888743 34555555554211
Q ss_pred HHHhhhhhhHHHHHHHHHHhhcCCceEEE-EEecc----ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhH
Q 041485 86 MKQYEVDLDQDVLDMLDAASKQKHVSVVA-KLYWG----DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSN 157 (179)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~g----~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~ 157 (179)
..-++.+-+.+.+..+. +..++. +-..| .++..-++||+.+++|.|.|.+-+|-+-...++++.+.
T Consensus 420 ---GAvEQLrtHv~rl~~l~---~~~v~lfekGYgkd~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l~k 490 (587)
T KOG0781|consen 420 ---GAVEQLRTHVERLSALH---GTMVELFEKGYGKDAAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAK 490 (587)
T ss_pred ---hHHHHHHHHHHHHHHhc---cchhHHHhhhcCCChHHHHHHHHHHHHhcCCCEEEEeccccccCChhHHHHHHH
Confidence 11122233333333222 111111 00112 45677888999999999999998887777777777654
No 175
>PRK05920 aromatic acid decarboxylase; Validated
Probab=52.78 E-value=33 Score=24.90 Aligned_cols=35 Identities=11% Similarity=0.070 Sum_probs=28.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
.++|++++.++-.+.++++....+.+. +.+++++-
T Consensus 3 ~krIllgITGsiaa~ka~~lvr~L~~~-g~~V~vi~ 37 (204)
T PRK05920 3 MKRIVLAITGASGAIYGVRLLECLLAA-DYEVHLVI 37 (204)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHHHHC-CCEEEEEE
Confidence 489999999999998888888887654 67766655
No 176
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=52.63 E-value=71 Score=21.73 Aligned_cols=72 Identities=14% Similarity=0.134 Sum_probs=45.0
Q ss_pred hhhHHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEE
Q 041485 92 DLDQDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTI 169 (179)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlv 169 (179)
...+++.+.+++.+.+.|+++++. ..+-.-+|++...+ .++|-+|+..-..++.+- -....+...++|++=
T Consensus 25 ~tl~~i~~~~~~~a~~~g~~v~~~--QSN~EGelid~I~~a~~~~dgiIINpga~thtS~-----Ai~DAl~~~~~P~vE 97 (140)
T PF01220_consen 25 TTLEDIEQKCKETAAELGVEVEFF--QSNHEGELIDWIHEARDDVDGIIINPGAYTHTSI-----AIRDALKAISIPVVE 97 (140)
T ss_dssp SHHHHHHHHHHHHHHHTTEEEEEE--E-SSHHHHHHHHHHHTCTTSEEEEE-GGGGHT-H-----HHHHHHHCCTS-EEE
T ss_pred CCHHHHHHHHHHHHHHCCCeEEEE--ecCCHHHHHHHHHHHHhhCCEEEEccchhccccH-----HHHHHHHcCCCCEEE
Confidence 455677888888888888776654 45555566655443 248999998654443321 224577788899876
Q ss_pred E
Q 041485 170 V 170 (179)
Q Consensus 170 v 170 (179)
|
T Consensus 98 V 98 (140)
T PF01220_consen 98 V 98 (140)
T ss_dssp E
T ss_pred E
Confidence 6
No 177
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=52.59 E-value=1.2e+02 Score=24.42 Aligned_cols=108 Identities=14% Similarity=0.029 Sum_probs=58.8
Q ss_pred cCCccHHHHHHHHHHHhcC---CCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHH
Q 041485 26 DFSKGSKLALKWAIDNLLE---KGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLD 102 (179)
Q Consensus 26 d~s~~s~~al~~a~~la~~---~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (179)
.|+--...+...|..+... .+..+.++++..... ...+++.
T Consensus 183 tGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~------------------------------------aa~eQL~ 226 (388)
T PRK12723 183 TGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRI------------------------------------GAKKQIQ 226 (388)
T ss_pred CCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccH------------------------------------HHHHHHH
Confidence 4455555666677665532 466788887765431 2333456
Q ss_pred HHhhcCCceEEEEEeccChhHHHHHH-HHhCCCCEEEEecCCCcccccccccchhHHHhhcCC---CCEEEEcCCC
Q 041485 103 AASKQKHVSVVAKLYWGDARDKLCEA-VEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANAS---CPVTIVKDPS 174 (179)
Q Consensus 103 ~~~~~~~~~~~~~~~~g~~~~~i~~~-a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~---~pVlvv~~~~ 174 (179)
.+++..++++.... ....+... .+..++|+|++-.-++++.....+. -...++.... -.+||++...
T Consensus 227 ~~a~~lgvpv~~~~----~~~~l~~~L~~~~~~DlVLIDTaGr~~~~~~~l~-el~~~l~~~~~~~e~~LVlsat~ 297 (388)
T PRK12723 227 TYGDIMGIPVKAIE----SFKDLKEEITQSKDFDLVLVDTIGKSPKDFMKLA-EMKELLNACGRDAEFHLAVSSTT 297 (388)
T ss_pred HHhhcCCcceEeeC----cHHHHHHHHHHhCCCCEEEEcCCCCCccCHHHHH-HHHHHHHhcCCCCeEEEEEcCCC
Confidence 66666677654322 22333332 2336699999998887764322222 2234455443 2456666543
No 178
>PRK14561 hypothetical protein; Provisional
Probab=52.50 E-value=84 Score=22.46 Aligned_cols=32 Identities=19% Similarity=0.151 Sum_probs=21.4
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
+|+|.+++...|..++..+.++ ..+.++++..
T Consensus 2 kV~ValSGG~DSslll~~l~~~-----~~v~a~t~~~ 33 (194)
T PRK14561 2 KAGVLFSGGKDSSLAAILLERF-----YDVELVTVNF 33 (194)
T ss_pred EEEEEEechHHHHHHHHHHHhc-----CCeEEEEEec
Confidence 4899999988888776655433 3355666543
No 179
>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=52.45 E-value=69 Score=21.51 Aligned_cols=34 Identities=15% Similarity=0.088 Sum_probs=22.1
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
.++|++++...|..++..+.+.. +.++..+++..
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~~---~~~v~~v~~~~ 36 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEKY---GLNPLAVTVDN 36 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHHh---CCceEEEEeCC
Confidence 47888888888887777665532 22555566643
No 180
>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=52.35 E-value=36 Score=21.95 Aligned_cols=43 Identities=14% Similarity=0.221 Sum_probs=28.6
Q ss_pred hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCC-CCEEEEcCC
Q 041485 122 RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANAS-CPVTIVKDP 173 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~-~pVlvv~~~ 173 (179)
.....+.|++.++..||+-+.. |..+..+.+.-| |||+.+-+.
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 4566777888888888887552 344556666656 999888554
No 181
>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=52.27 E-value=65 Score=21.52 Aligned_cols=42 Identities=21% Similarity=0.198 Sum_probs=30.3
Q ss_pred HHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
+...++..|+++.. .-..-+.+.+++.|.++++|+|.+++-.
T Consensus 19 v~~~L~~~GfeVid-LG~~v~~e~~v~aa~~~~adiVglS~L~ 60 (128)
T cd02072 19 LDHAFTEAGFNVVN-LGVLSPQEEFIDAAIETDADAILVSSLY 60 (128)
T ss_pred HHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 34455677877543 2224678999999999999999998643
No 182
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=52.06 E-value=64 Score=21.01 Aligned_cols=49 Identities=10% Similarity=0.072 Sum_probs=36.5
Q ss_pred hHHHHHHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 4 TLNKLIFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 4 ~~~~~~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
.+.+|...-.-.+ .+.|.++++++.+......|-.++.+..+.+++=+.
T Consensus 44 ~i~~L~~ri~~~~-i~EVIlA~~pt~EGe~Ta~yi~~~l~~~~~kvsRlA 92 (112)
T cd01025 44 NIDKLLERIAKGQ-VKEVILATNPTVEGEATALYIAKLLKDFGVKVTRLA 92 (112)
T ss_pred CHHHHHHHHhcCC-CcEEEEecCCCchHHHHHHHHHHHHhHcCCCeEEEE
Confidence 3455555544433 799999999999999999999998887776666443
No 183
>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=51.74 E-value=66 Score=21.67 Aligned_cols=42 Identities=24% Similarity=0.199 Sum_probs=30.8
Q ss_pred HHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
+...++..|+++.. .-..-+.+.+++.|+++++|+|.+++-.
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 44456777877553 2224678999999999999999998653
No 184
>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=51.64 E-value=87 Score=22.43 Aligned_cols=72 Identities=21% Similarity=0.222 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+...+...+++.|+.+......+++ ....++.+...++|.+|+......... ....+.+..+|++.+..
T Consensus 15 ~~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~-------~~~~l~~~~ip~v~~~~ 87 (264)
T cd01537 15 AQVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT-------IVKLARKAGIPVVLVDR 87 (264)
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh-------HHHHhhhcCCCEEEecc
Confidence 355556666666678776655444443 344444455568999998754322211 23556778899998865
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 88 ~ 88 (264)
T cd01537 88 D 88 (264)
T ss_pred C
Confidence 4
No 185
>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=51.62 E-value=81 Score=22.99 Aligned_cols=68 Identities=15% Similarity=0.143 Sum_probs=42.2
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcC-CCCEEEE
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANA-SCPVTIV 170 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~-~~pVlvv 170 (179)
.+...++..|.++.. ....-|.+.+++.+++.++|+|.++....+.... +....+.+-... +++|++-
T Consensus 107 iv~~~l~~~G~~Vi~-LG~~vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~--~~~~i~~L~~~~~~~~i~vG 175 (213)
T cd02069 107 LVGVILSNNGYEVID-LGVMVPIEKILEAAKEHKADIIGLSGLLVPSLDE--MVEVAEEMNRRGIKIPLLIG 175 (213)
T ss_pred HHHHHHHhCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEccchhccHHH--HHHHHHHHHhcCCCCeEEEE
Confidence 345556677877654 2234789999999999999999998664333332 233444443332 2555543
No 186
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=51.51 E-value=2e+02 Score=26.83 Aligned_cols=97 Identities=10% Similarity=0.088 Sum_probs=63.3
Q ss_pred HHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHH
Q 041485 9 IFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQ 88 (179)
Q Consensus 9 ~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (179)
...|....+|.|+++.=-|---..-|++.|+. |-..|-++.++- |..
T Consensus 607 k~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFk-AV~~GKQVAvLV---PTT----------------------------- 653 (1139)
T COG1197 607 KRDMESGKPMDRLICGDVGFGKTEVAMRAAFK-AVMDGKQVAVLV---PTT----------------------------- 653 (1139)
T ss_pred HHHhccCCcchheeecCcCCcHHHHHHHHHHH-HhcCCCeEEEEc---ccH-----------------------------
Confidence 33344444567766554455566677877776 444554554442 221
Q ss_pred hhhhhhHHHHHHHHHHhhcCCceEEEEEec--cChhHHHHHHHHhCCCCEEEEecC
Q 041485 89 YEVDLDQDVLDMLDAASKQKHVSVVAKLYW--GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
-.++++.+.+++++...+++++..-+. ..-.+.|++..++.++|.|| |+|
T Consensus 654 ---lLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvI-GTH 705 (1139)
T COG1197 654 ---LLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVI-GTH 705 (1139)
T ss_pred ---HhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEE-ech
Confidence 013688888999999888888876554 46678899999999999765 554
No 187
>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=51.13 E-value=56 Score=20.06 Aligned_cols=71 Identities=11% Similarity=0.177 Sum_probs=42.3
Q ss_pred HHHHHHHHHhhcCCc-eEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcC-CCCEEEEcCC
Q 041485 96 DVLDMLDAASKQKHV-SVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANA-SCPVTIVKDP 173 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~-~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~-~~pVlvv~~~ 173 (179)
...+.+...++..|+ .+. .-+...+..+..+...+|++++...-.. .... ....++-... .+|++++-..
T Consensus 9 ~~~~~l~~~l~~~~~~~v~----~~~~~~~~~~~~~~~~~d~iiid~~~~~-~~~~---~~~~~i~~~~~~~~ii~~t~~ 80 (112)
T PF00072_consen 9 EIRELLEKLLERAGYEEVT----TASSGEEALELLKKHPPDLIIIDLELPD-GDGL---ELLEQIRQINPSIPIIVVTDE 80 (112)
T ss_dssp HHHHHHHHHHHHTTEEEEE----EESSHHHHHHHHHHSTESEEEEESSSSS-SBHH---HHHHHHHHHTTTSEEEEEESS
T ss_pred HHHHHHHHHHHhCCCCEEE----EECCHHHHHHHhcccCceEEEEEeeecc-cccc---ccccccccccccccEEEecCC
Confidence 334445556666676 333 2234566667778889999999966433 2221 3445554444 4899988654
Q ss_pred C
Q 041485 174 S 174 (179)
Q Consensus 174 ~ 174 (179)
.
T Consensus 81 ~ 81 (112)
T PF00072_consen 81 D 81 (112)
T ss_dssp T
T ss_pred C
Confidence 3
No 188
>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=51.00 E-value=84 Score=22.04 Aligned_cols=30 Identities=20% Similarity=0.232 Sum_probs=22.0
Q ss_pred EEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 112 VVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 112 ~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+...+.-|-..+.|.+|++. ++|.+.+|+-
T Consensus 128 v~ie~SGGI~~~ni~~ya~~-gvD~isvg~~ 157 (169)
T PF01729_consen 128 VKIEASGGITLENIAEYAKT-GVDVISVGSL 157 (169)
T ss_dssp SEEEEESSSSTTTHHHHHHT-T-SEEEECHH
T ss_pred EEEEEECCCCHHHHHHHHhc-CCCEEEcChh
Confidence 55556567778889999966 5899999963
No 189
>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=50.90 E-value=1.1e+02 Score=23.27 Aligned_cols=49 Identities=16% Similarity=0.166 Sum_probs=27.3
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHH---HHHHHhCCCCEEEEecCCCcccc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKL---CEAVEAMKLDSLVMGSRGLGTIQ 148 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i---~~~a~~~~~dlvVlg~~~~~~~~ 148 (179)
.+..+.+..++.+.......++...+ +..+...++|+|++-+.++.+..
T Consensus 118 ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~~~~D~ViIDT~G~~~~d 169 (272)
T TIGR00064 118 QLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQNK 169 (272)
T ss_pred HHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHHCCCCEEEEeCCCCCcch
Confidence 34444455554433211123454433 34556678999999988876543
No 190
>PRK00211 sulfur relay protein TusC; Validated
Probab=50.59 E-value=56 Score=21.36 Aligned_cols=39 Identities=8% Similarity=0.026 Sum_probs=25.8
Q ss_pred CCeEEEeecCCcc----HHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKG----SKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~----s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
|++|++.+..+|+ ++.+++.|+..+.. +.++.++...+.
T Consensus 1 M~ki~~i~~~~Pyg~~~~~eaLd~ala~~a~-~~~v~vff~~Dg 43 (119)
T PRK00211 1 MKRIAFVFRQAPHGTASGREGLDALLATSAF-TEDIGVFFIDDG 43 (119)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHHHHHhcc-cCCeeEEEEhhh
Confidence 4679999987665 55666666664433 447888877664
No 191
>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=50.46 E-value=1.1e+02 Score=23.24 Aligned_cols=78 Identities=13% Similarity=0.115 Sum_probs=43.2
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+..+.+.+.... .+.+-.-+...+.. -.+.+.+++.++|.+++.........+--+-..-..|.+.++.||++...
T Consensus 54 ~~~~~~~~~~~~~-~~~vi~gv~~~s~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~i~~~~~~i~~~~~~pi~lYn~ 132 (285)
T TIGR00674 54 KKVIEFVVDLVNG-RVPVIAGTGSNATEEAISLTKFAEDVGADGFLVVTPYYNKPTQEGLYQHFKAIAEEVDLPIILYNV 132 (285)
T ss_pred HHHHHHHHHHhCC-CCeEEEeCCCccHHHHHHHHHHHHHcCCCEEEEcCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 3444445554432 34444333222333 33557789999999998764322222111112345678888999999865
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
+
T Consensus 133 P 133 (285)
T TIGR00674 133 P 133 (285)
T ss_pred c
Confidence 4
No 192
>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=50.42 E-value=58 Score=24.05 Aligned_cols=44 Identities=20% Similarity=0.286 Sum_probs=29.4
Q ss_pred hhHHHHHH---HHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 121 ARDKLCEA---VEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 121 ~~~~i~~~---a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
..+.+.+. .++.++|+|||-+=+.+.-.+ ..+-+.+.+||++-+
T Consensus 163 ~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r-------~~~~~~~g~PVlLsr 209 (221)
T PF07302_consen 163 DEEELAAAARELAEQGADLIVLDCMGYTQEMR-------DIVQRALGKPVLLSR 209 (221)
T ss_pred CHHHHHHHHHHHHhcCCCEEEEECCCCCHHHH-------HHHHHHhCCCEEeHH
Confidence 34555554 445689999999877654332 456667889998743
No 193
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=50.38 E-value=65 Score=20.58 Aligned_cols=69 Identities=12% Similarity=0.130 Sum_probs=43.8
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCC--CCEEEEc
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANAS--CPVTIVK 171 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~--~pVlvv~ 171 (179)
..+...+++.|.++...- ...+.+.+.+.+.+.++|+|.+......... .-.....+.+..+ +++++-.
T Consensus 17 ~~~~~~l~~~G~~v~~l~-~~~~~~~~~~~i~~~~pdiV~iS~~~~~~~~---~~~~~~~~~~~~p~~~~ivvGG 87 (125)
T cd02065 17 NIVAIALRDNGFEVIDLG-VDVPPEEIVEAAKEEDADVVGLSALSTTHME---AMKLVIEALKELGIDIPVVVGG 87 (125)
T ss_pred HHHHHHHHHCCCEEEEcC-CCCCHHHHHHHHHHcCCCEEEEecchHhHHH---HHHHHHHHHHhcCCCCeEEEeC
Confidence 345555677788766542 2457788888888899999999876433321 1234456666665 5555543
No 194
>PRK09875 putative hydrolase; Provisional
Probab=50.11 E-value=66 Score=24.79 Aligned_cols=50 Identities=12% Similarity=0.108 Sum_probs=38.3
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCC--CEEEEecCCC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKL--DSLVMGSRGL 144 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~--dlvVlg~~~~ 144 (179)
++.++.......+.|..+.++...++...++++..++.++ +.||+|+-..
T Consensus 138 ~kvl~Aaa~a~~~TG~pi~~Ht~~~~~g~e~l~il~e~Gvd~~rvvi~H~d~ 189 (292)
T PRK09875 138 EKVFIAAALAHNQTGRPISTHTSFSTMGLEQLALLQAHGVDLSRVTVGHCDL 189 (292)
T ss_pred HHHHHHHHHHHHHHCCcEEEcCCCccchHHHHHHHHHcCcCcceEEEeCCCC
Confidence 4666666666667788888887667777778889888888 8899997653
No 195
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=49.97 E-value=1.5e+02 Score=24.62 Aligned_cols=89 Identities=13% Similarity=0.106 Sum_probs=56.3
Q ss_pred cCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHh
Q 041485 26 DFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAAS 105 (179)
Q Consensus 26 d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (179)
|.--..-.||.+|++-...- +.++++.++..... ..........+.++.+.+.+
T Consensus 11 DLR~~DN~aL~~A~~~~~~~---~~~vfi~~~~~~~~-----------------------~~~~~~~Fl~~sL~~L~~~L 64 (461)
T COG0415 11 DLRLTDNAALAAACQSGQPV---IIAVFILDPEQLGH-----------------------ASPRHAAFLLQSLQALQQSL 64 (461)
T ss_pred ccccCChHHHHHHHhcCCCc---eEEEEEechhhccc-----------------------cCHHHHHHHHHHHHHHHHHH
Confidence 44445566788887755332 26667766653210 00112233446666677777
Q ss_pred hcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 106 KQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 106 ~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.+.|++.- +..|++...+.+++++.+++.|+-...
T Consensus 65 ~~~gi~L~--v~~~~~~~~l~~~~~~~~~~~v~~n~~ 99 (461)
T COG0415 65 AELGIPLL--VREGDPEQVLPELAKQLAATTVFWNRD 99 (461)
T ss_pred HHcCCceE--EEeCCHHHHHHHHHHHhCcceEEeeee
Confidence 77776544 667999999999999998888887754
No 196
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=49.96 E-value=47 Score=26.02 Aligned_cols=53 Identities=23% Similarity=0.370 Sum_probs=34.5
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-Ccccc-cccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-LGTIQ-RVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-~~~~~-~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
.+.++.++..++ +|+||+|..+ .+.+. -++++.+.+ .++++.-|++.+.+-..
T Consensus 178 ~a~~eaveAI~~--AD~IviGPgSl~TSIlP~Lllp~I~e-aLr~~~ap~i~v~n~~~ 232 (323)
T COG0391 178 SAAPEAVEAIKE--ADLIVIGPGSLFTSILPILLLPGIAE-ALRETVAPIVYVCNLMT 232 (323)
T ss_pred CCCHHHHHHHHh--CCEEEEcCCccHhhhchhhchhHHHH-HHHhCCCCEEEeccCCC
Confidence 556788888888 9999999763 22222 233444544 55668888887765443
No 197
>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases []. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) [, ]. It is also found in NodP nodulation protein P from Rhizobium meliloti (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.
Probab=49.79 E-value=80 Score=21.46 Aligned_cols=35 Identities=20% Similarity=0.122 Sum_probs=24.8
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
+|+|.+++...|...+..+.+..... .++++....
T Consensus 1 ~i~vs~SGGKDS~v~l~l~~~~~~~~----~vv~~dtg~ 35 (174)
T PF01507_consen 1 NIVVSFSGGKDSTVMLHLAREAGRKV----PVVFIDTGY 35 (174)
T ss_dssp SEEEE--SSHHHHHHHHHHHHHHTTC----EEEEEE-ST
T ss_pred CeEEEecCCHHHHHHHHHHHHhcCCC----cEEEEecCc
Confidence 47889999999999999988877553 577775543
No 198
>PRK13059 putative lipid kinase; Reviewed
Probab=49.60 E-value=1.2e+02 Score=23.25 Aligned_cols=69 Identities=19% Similarity=0.092 Sum_probs=37.1
Q ss_pred HHHHHHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc-CCCCEEEEcCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN-ASCPVTIVKDP 173 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~-~~~pVlvv~~~ 173 (179)
.+.+.+.+++.+.++...... +... .....+...++|.||+. -+-+.+. .+...++.. .++|+-++|..
T Consensus 21 ~~~i~~~l~~~g~~~~~~~~~~~~~~-~~~~~~~~~~~d~vi~~-GGDGTv~-----evv~gl~~~~~~~~lgviP~G 91 (295)
T PRK13059 21 LDKVIRIHQEKGYLVVPYRISLEYDL-KNAFKDIDESYKYILIA-GGDGTVD-----NVVNAMKKLNIDLPIGILPVG 91 (295)
T ss_pred HHHHHHHHHHCCcEEEEEEccCcchH-HHHHHHhhcCCCEEEEE-CCccHHH-----HHHHHHHhcCCCCcEEEECCC
Confidence 344556667777765543222 2222 33334445567877765 2333333 344555543 45899999853
No 199
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=49.45 E-value=32 Score=25.72 Aligned_cols=22 Identities=32% Similarity=0.297 Sum_probs=10.4
Q ss_pred HHHHHHHHHhhcCCceEEEEEecc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWG 119 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g 119 (179)
..++.+.+.+.+.+++ ..+..|
T Consensus 26 ~~l~~l~~~~~~~~~D--~lli~G 47 (253)
T TIGR00619 26 AFLDDLLEFAKAEQID--ALLVAG 47 (253)
T ss_pred HHHHHHHHHHHHcCCC--EEEECC
Confidence 3445555555554433 334444
No 200
>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=49.35 E-value=1.2e+02 Score=23.21 Aligned_cols=75 Identities=15% Similarity=0.074 Sum_probs=42.3
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
+..+.+.+... ..+.+-..+.. +.. -.+.+.+++.++|.+++-.........--+-..-..|+..+++||++...
T Consensus 57 ~l~~~~~~~~~-~~~pvi~gv~~-~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~~~pi~lYn~ 133 (289)
T cd00951 57 QVVRAAVEETA-GRVPVLAGAGY-GTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKSTDLGVIVYNR 133 (289)
T ss_pred HHHHHHHHHhC-CCCCEEEecCC-CHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 44444444442 23444443432 333 44557799999999998754332222111112345678888999999963
No 201
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=48.87 E-value=57 Score=24.66 Aligned_cols=69 Identities=19% Similarity=0.252 Sum_probs=45.2
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHH---HHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEE
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEA---VEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTI 169 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~---a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlv 169 (179)
...+.+.+.+.+.|+++......||-.+.|.+. +.+. +|+||+. -+-++-.+ .=+.+.+.+....|+.+
T Consensus 21 tNa~~la~~L~~~G~~v~~~~~VgD~~~~I~~~l~~a~~r-~D~vI~t-GGLGPT~D---DiT~e~vAka~g~~lv~ 92 (255)
T COG1058 21 TNAAFLADELTELGVDLARITTVGDNPDRIVEALREASER-ADVVITT-GGLGPTHD---DLTAEAVAKALGRPLVL 92 (255)
T ss_pred chHHHHHHHHHhcCceEEEEEecCCCHHHHHHHHHHHHhC-CCEEEEC-CCcCCCcc---HhHHHHHHHHhCCCccc
Confidence 445667788889999999988889888777764 5555 9999985 33333222 12445555555555543
No 202
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=48.64 E-value=1.6e+02 Score=24.51 Aligned_cols=89 Identities=9% Similarity=0.069 Sum_probs=51.9
Q ss_pred eEEEeecCC---ccHHHHHHHHHHHhcC-CCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhH
Q 041485 20 SIGVALDFS---KGSKLALKWAIDNLLE-KGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQ 95 (179)
Q Consensus 20 ~ILv~vd~s---~~s~~al~~a~~la~~-~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (179)
++++|-.+. .....+++.-.+.+.. ....+.+++.....+ .+
T Consensus 221 ~~i~p~HG~i~r~~~~~~l~~Y~~~~~~~~~~kv~IvY~S~~Gn----------------------------------Te 266 (479)
T PRK05452 221 DMIATSHGVVWRDNPTQIVELYLKWAADYQEDRITIFYDTMSNN----------------------------------TR 266 (479)
T ss_pred CEEECCCCceEeCCHHHHHHHHHHHhhccCcCcEEEEEECCccH----------------------------------HH
Confidence 456664332 3455566665555555 566777777755432 14
Q ss_pred HHHHHHHHHhhcC--CceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCC
Q 041485 96 DVLDMLDAASKQK--HVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 96 ~~~~~~~~~~~~~--~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~ 144 (179)
++.+.+.+-+++. |++++..-........|...+.+ +|.|++|+...
T Consensus 267 ~mA~~ia~gl~~~g~gv~v~~~~v~~~~~~~i~~~~~~--ad~vilGspT~ 315 (479)
T PRK05452 267 MMADAIAQGIAEVDPRVAVKIFNVARSDKNEILTNVFR--SKGVLVGSSTM 315 (479)
T ss_pred HHHHHHHHHHHhhCCCceEEEEECCCCCHHHHHhHHhh--CCEEEEECCcc
Confidence 5566666666654 55555443334444555555544 89999998753
No 203
>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=48.51 E-value=1.3e+02 Score=23.53 Aligned_cols=101 Identities=19% Similarity=0.197 Sum_probs=58.8
Q ss_pred EEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHH
Q 041485 21 IGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDM 100 (179)
Q Consensus 21 ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (179)
+.|=+-+++. ..+..|..++...+....=+..-.|... ..-...|..++.. .+...++++.
T Consensus 69 ~~vQl~gsdp--~~l~eaA~~~~~~g~~~IdlN~GCP~~~----V~~~g~Ga~Ll~~-------------p~lv~~iv~a 129 (323)
T COG0042 69 VAVQLGGSDP--ELLAEAAKIAEELGADIIDLNCGCPSPK----VVKGGAGAALLKN-------------PELLAEIVKA 129 (323)
T ss_pred EEEEecCCCH--HHHHHHHHHHHhcCCCEEeeeCCCChHH----hcCCCcchhhcCC-------------HHHHHHHHHH
Confidence 4455555554 5577777778777766555566555421 1112222222211 1223466666
Q ss_pred HHHHhhcCCceEEEEEeccC-----hhHHHHHHHHhCCCCEEEEecC
Q 041485 101 LDAASKQKHVSVVAKLYWGD-----ARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~-----~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+.+... .+.++++++.|- ....+.+.+.+.+++.+.+-.+
T Consensus 130 ~~~av~--~iPVTVKiRlG~d~~~~~~~~ia~~~~~~g~~~ltVHgR 174 (323)
T COG0042 130 MVEAVG--DIPVTVKIRLGWDDDDILALEIARILEDAGADALTVHGR 174 (323)
T ss_pred HHHhhC--CCCeEEEEecccCcccccHHHHHHHHHhcCCCEEEEecc
Confidence 666654 466666666652 2457899999999999999544
No 204
>PRK11106 queuosine biosynthesis protein QueC; Provisional
Probab=48.43 E-value=1.1e+02 Score=22.68 Aligned_cols=36 Identities=17% Similarity=0.132 Sum_probs=24.2
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
++++|.+++.-.|..++.++.+ .+..+..+++....
T Consensus 2 ~kvvVl~SGG~DSt~~l~~a~~----~~~~v~alt~dygq 37 (231)
T PRK11106 2 KRAVVVFSGGQDSTTCLIQALQ----QYDEVHCVTFDYGQ 37 (231)
T ss_pred CcEEEEeeCcHHHHHHHHHHHh----cCCeEEEEEEEeCC
Confidence 5678888887777777766644 13467777776654
No 205
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=48.29 E-value=57 Score=22.20 Aligned_cols=54 Identities=15% Similarity=0.208 Sum_probs=37.2
Q ss_pred hhHHHHHHHHhCCCCEEEEecCC-Cccccc---ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSRG-LGTIQR---VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~~-~~~~~~---~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
..+.|.+.+++.+++.||+|-.- ..+-.+ ...-..++.+-.+.++||.++-+..
T Consensus 41 ~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~~~~~~f~~~L~~r~~lpv~l~DERl 98 (141)
T COG0816 41 DFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRAELARKFAERLKKRFNLPVVLWDERL 98 (141)
T ss_pred hHHHHHHHHHHhCCCEEEEecCcCCCCCcchhHHHHHHHHHHHHHhcCCCEEEEcCcc
Confidence 57888899999999999999652 111111 1123466777888889999886543
No 206
>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=48.25 E-value=90 Score=23.98 Aligned_cols=47 Identities=19% Similarity=0.194 Sum_probs=37.1
Q ss_pred HHHHHHHHHhhcCCceEEEE-EeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 96 DVLDMLDAASKQKHVSVVAK-LYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~-~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+-++.+.+..++.++++.-. +.+....+.|.+..+++++|.||+-.|
T Consensus 116 ~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGH 163 (287)
T PF05582_consen 116 EYLNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGH 163 (287)
T ss_pred HHHHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCc
Confidence 55566667777888877764 444688999999999999999999765
No 207
>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=48.09 E-value=1.1e+02 Score=22.52 Aligned_cols=72 Identities=14% Similarity=0.134 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
......+.+.+++.|.++......+++. ...++.....++|-||+......... ... +.+....+||+++-.
T Consensus 15 ~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~-----~~i-~~~~~~~iPvV~~~~ 88 (282)
T cd06318 15 AALTEAAKAHAKALGYELISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV-----PAV-AAAKAAGVPVVVVDS 88 (282)
T ss_pred HHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH-----HHH-HHHHHCCCCEEEecC
Confidence 4566667777777888776544334543 34566677888999999753211111 111 334566789998854
No 208
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=48.02 E-value=1.5e+02 Score=24.01 Aligned_cols=47 Identities=15% Similarity=0.157 Sum_probs=39.3
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
+.+.+.+.+-+.+.|+.+...-...+...+|.+.+.+ ++-+|+|+..
T Consensus 261 ~~ma~aiaegl~~~gv~v~~~~~~~~~~~eI~~~i~~--a~~~vvGsPT 307 (388)
T COG0426 261 EKMAQAIAEGLMKEGVDVEVINLEDADPSEIVEEILD--AKGLVVGSPT 307 (388)
T ss_pred HHHHHHHHHHhhhcCCceEEEEcccCCHHHHHHHHhh--cceEEEecCc
Confidence 4667778888888999999877777788888888888 9999999875
No 209
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=47.79 E-value=76 Score=20.63 Aligned_cols=46 Identities=15% Similarity=0.174 Sum_probs=33.8
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGT 146 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~ 146 (179)
.+...++..|.++...- ...+.+.+++.+.+.++|.|+++......
T Consensus 18 ~~~~~l~~~G~~vi~lG-~~vp~e~~~~~a~~~~~d~V~iS~~~~~~ 63 (122)
T cd02071 18 VIARALRDAGFEVIYTG-LRQTPEEIVEAAIQEDVDVIGLSSLSGGH 63 (122)
T ss_pred HHHHHHHHCCCEEEECC-CCCCHHHHHHHHHHcCCCEEEEcccchhh
Confidence 45556777787766422 23778899999999999999998765433
No 210
>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=47.58 E-value=1.4e+02 Score=23.60 Aligned_cols=34 Identities=18% Similarity=0.088 Sum_probs=23.7
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
+|+|++++.-.|..++..+.+ .+..+..+|+...
T Consensus 1 kVlValSGGvDSsvla~lL~~----~g~~v~~v~i~~~ 34 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKE----QGYEVIGVFMKNW 34 (349)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEecc
Confidence 478899988888876655544 3566878877543
No 211
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=47.39 E-value=45 Score=21.67 Aligned_cols=41 Identities=17% Similarity=0.347 Sum_probs=31.0
Q ss_pred HhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 130 EAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 130 ~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
-+.+++.||+|+...+.+. ++.-+....++-.|-|.+.|.+
T Consensus 58 lee~~E~ivvGTG~~G~l~---l~~ea~e~~r~k~~~vi~~pT~ 98 (121)
T COG1504 58 LEEGPEVIVVGTGQSGMLE---LSEEAREFFRKKGCEVIELPTP 98 (121)
T ss_pred HhcCCcEEEEecCceeEEE---eCHHHHHHHHhcCCeEEEeCCH
Confidence 3467999999976554433 4667788899999999998854
No 212
>COG1036 Archaeal flavoproteins [Energy production and conversion]
Probab=47.38 E-value=32 Score=24.08 Aligned_cols=62 Identities=21% Similarity=0.262 Sum_probs=35.6
Q ss_pred EeccChhHHHHHHHHhCCCCEEEEecCCCccccccccc---c-hhHHHh--hcCCCCEEEEcCCCCCC
Q 041485 116 LYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLG---S-VSNHVL--ANASCPVTIVKDPSAAH 177 (179)
Q Consensus 116 ~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~g---s-~~~~il--~~~~~pVlvv~~~~~~~ 177 (179)
+..|....-|..-.+-.++|++++..-..+.....-.| + +++.++ .+..+||+++|.+....
T Consensus 71 ~e~~ansPfi~GrlqlGkYD~llvaPaTsNTvAKIa~GIADtLVTNAVaqa~Kg~VPvyivP~D~k~G 138 (187)
T COG1036 71 VEIGANSPFIAGRLQLGKYDFLLVAPATSNTVAKIAYGIADTLVTNAVAQAGKGKVPVYIVPVDYKEG 138 (187)
T ss_pred eecCCCCCceecceecccccEEEEcccccchHHHHHhhhHHHHHHHHHHHhcCCCCcEEEecccccCC
Confidence 33454444455555667799999986543333322222 1 233333 34569999999877654
No 213
>PF03740 PdxJ: Pyridoxal phosphate biosynthesis protein PdxJ; InterPro: IPR004569 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised [, , ]. This entry represents PdxJ, which catalyses the condensation of 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one and 1-deoxy-D-xylulose-5-phosphate to form pyridoxine-5'-phosphate. The product of the PdxJ reaction is then oxidized by PdxH to pyridoxal 5'-phosphate.; GO: 0008615 pyridoxine biosynthetic process, 0005737 cytoplasm; PDB: 3F4N_B 3O6D_A 3O6C_A 1M5W_G 1IXQ_D 1IXP_B 1IXN_A 1HO4_C 1HO1_A 1IXO_D ....
Probab=47.02 E-value=95 Score=23.24 Aligned_cols=72 Identities=11% Similarity=0.047 Sum_probs=44.8
Q ss_pred HHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCceEEEE
Q 041485 36 KWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHVSVVAK 115 (179)
Q Consensus 36 ~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 (179)
-.|+.++...|++-..+|..++.+.- ...-+..+++.+... ++
T Consensus 25 v~aA~~a~~aGAdgITvHlReDrRHI--------------------------------~d~Dv~~L~~~~~~~-lN---- 67 (239)
T PF03740_consen 25 VEAARIAEEAGADGITVHLREDRRHI--------------------------------QDRDVRRLRELVKTP-LN---- 67 (239)
T ss_dssp HHHHHHHHHTT-SEEEEEB-TT-SSS---------------------------------HHHHHHHHHH-SSE-EE----
T ss_pred HHHHHHHHHcCCCEEEeccCCCcCcC--------------------------------CHHHHHHHHHHcccC-EE----
Confidence 34566777899999999999987522 134445555555432 33
Q ss_pred EeccChhHHHHHHHHhCCCCEEEEecCCCc
Q 041485 116 LYWGDARDKLCEAVEAMKLDSLVMGSRGLG 145 (179)
Q Consensus 116 ~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~ 145 (179)
.++.+.+++++.|.+.++|.+.+-...+.
T Consensus 68 -lE~a~t~e~~~ia~~~kP~~vtLVPE~r~ 96 (239)
T PF03740_consen 68 -LEMAPTEEMVDIALKVKPDQVTLVPEKRE 96 (239)
T ss_dssp -EEEESSHHHHHHHHHH--SEEEEE--SGG
T ss_pred -eccCCCHHHHHHHHhCCcCEEEECCCCCC
Confidence 34788899999999999999999875443
No 214
>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=46.80 E-value=1.3e+02 Score=23.05 Aligned_cols=77 Identities=10% Similarity=0.011 Sum_probs=44.7
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHH--HHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcC-CCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDK--LCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANA-SCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~--i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~-~~pVlvv~~ 172 (179)
+..+.+.+... ..+.+-..+...+..+. +.+.|++.++|.+++.........+--+-..-..|+..+ +.||++...
T Consensus 57 ~l~~~~~~~~~-g~~pvi~gv~~~~t~~ai~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~lpv~iYn~ 135 (294)
T TIGR02313 57 QAIENAIDQIA-GRIPFAPGTGALNHDETLELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVPDFPIIIYNI 135 (294)
T ss_pred HHHHHHHHHhC-CCCcEEEECCcchHHHHHHHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhccCCCEEEEeC
Confidence 44444444433 23555444433344444 557899999999999875333322211223446688888 799999964
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
+
T Consensus 136 P 136 (294)
T TIGR02313 136 P 136 (294)
T ss_pred c
Confidence 4
No 215
>TIGR00930 2a30 K-Cl cotransporter.
Probab=46.76 E-value=2.3e+02 Score=25.95 Aligned_cols=95 Identities=17% Similarity=0.077 Sum_probs=56.4
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
++||.+.........++++..+. +.+.-+.+.|+...+... . .++++...+
T Consensus 577 qiLvl~~~p~~~~~Ll~f~~~l~-~~~gl~i~~~v~~~~~~~-----------------~-----------~~~~~~~~~ 627 (953)
T TIGR00930 577 QCLVLTGPPVCRPALLDFASQFT-KGKGLMICGSVIQGPRLE-----------------C-----------VKEAQAAEA 627 (953)
T ss_pred eEEEEeCCCcCcHHHHHHHHHhc-cCCcEEEEEEEecCchhh-----------------h-----------HHHHHHHHH
Confidence 79999988888888999999988 333466677887654210 0 011122233
Q ss_pred HHHHHhhcCCceEEEEEec-cChhHHHHHHHHh-----CCCCEEEEecCC
Q 041485 100 MLDAASKQKHVSVVAKLYW-GDARDKLCEAVEA-----MKLDSLVMGSRG 143 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~-----~~~dlvVlg~~~ 143 (179)
.+.+..+..+++.-+.+.. .+..+.+....+. .++..|+||.+.
T Consensus 628 ~~~~~~~~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~ 677 (953)
T TIGR00930 628 KIQTWLEKNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKK 677 (953)
T ss_pred HHHHHHHHhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCcc
Confidence 3444455555544443333 3566666665554 457788888653
No 216
>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=46.73 E-value=1.1e+02 Score=25.03 Aligned_cols=48 Identities=17% Similarity=0.272 Sum_probs=34.8
Q ss_pred hHHHHHHHHhCCCCEEEEecC-CCcccccccccchhHHHhhcCCCCEEEE
Q 041485 122 RDKLCEAVEAMKLDSLVMGSR-GLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~~-~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+.|++.+++.++|++|.|.- +.+... .--|.++..|-.+..+|++.-
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPaFNagrYG-~acg~va~aV~e~~~IP~vt~ 113 (431)
T TIGR01918 65 VARVLEMLKDKEPDIFIAGPAFNAGRYG-VACGEICKVVQDKLNVPAVTS 113 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCccCCccHH-HHHHHHHHHHHHhhCCCeEEE
Confidence 367889999999999999954 222222 224667777888899999864
No 217
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=46.70 E-value=25 Score=23.96 Aligned_cols=47 Identities=19% Similarity=0.186 Sum_probs=27.1
Q ss_pred hhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
..+.+.+.++++++|.|++.-.... ...+ ...-..+++.+|+|.++|
T Consensus 129 ~~~~l~~~~~~~~id~v~ial~~~~-~~~i---~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 129 DLDDLPELVREHDIDEVIIALPWSE-EEQI---KRIIEELENHGVRVRVVP 175 (175)
T ss_dssp -GGGHHHHHHHHT--EEEE--TTS--HHHH---HHHHHHHHTTT-EEEE--
T ss_pred CHHHHHHHHHhCCCCEEEEEcCccC-HHHH---HHHHHHHHhCCCEEEEeC
Confidence 3588999999999999999865422 2211 123456788889999987
No 218
>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=46.70 E-value=86 Score=20.92 Aligned_cols=29 Identities=14% Similarity=0.151 Sum_probs=24.2
Q ss_pred ccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 29 KGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 29 ~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
..+...++++.+.++..+.++.++.+.+.
T Consensus 14 ~~t~~l~~~~~~~l~~~g~e~~~i~l~~~ 42 (152)
T PF03358_consen 14 SNTRKLAEAVAEQLEEAGAEVEVIDLADY 42 (152)
T ss_dssp SHHHHHHHHHHHHHHHTTEEEEEEECTTS
T ss_pred CHHHHHHHHHHHHHHHcCCEEEEEecccc
Confidence 56788899999988888999999987665
No 219
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=46.53 E-value=1.2e+02 Score=22.66 Aligned_cols=72 Identities=8% Similarity=0.043 Sum_probs=44.1
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.++.+.+.+.+++.|+++......+++ ....++.....++|-+|++........ ..-..+...++|++++..
T Consensus 42 ~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~------~~l~~~~~~~ipvV~~~~ 115 (295)
T PRK10653 42 VSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAVG------NAVKMANQANIPVITLDR 115 (295)
T ss_pred HHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH------HHHHHHHHCCCCEEEEcc
Confidence 466777777888888877654333344 334455566778998888754321111 112456667899998854
No 220
>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=46.48 E-value=1.3e+02 Score=22.98 Aligned_cols=78 Identities=9% Similarity=0.110 Sum_probs=43.2
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcC-CCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANA-SCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~-~~pVlvv~~ 172 (179)
+..+.+.+.... .+.+-.-+...+.. ..+.+.+++.++|.+++..........--+-..-..|+..+ +.||++...
T Consensus 58 ~~~~~~~~~~~~-~~pvi~gv~~~~t~~~i~la~~a~~~Gad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~~lpv~lYn~ 136 (290)
T TIGR00683 58 EIFRIAKDEAKD-QIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSFPEIKHYYDTIIAETGGLNMIVYSI 136 (290)
T ss_pred HHHHHHHHHhCC-CCcEEEecCCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCCCHHHHHHHHHHHHhhCCCCCEEEEeC
Confidence 444445554432 34444434333343 44557899999999999764322222111112335566666 699999965
Q ss_pred CC
Q 041485 173 PS 174 (179)
Q Consensus 173 ~~ 174 (179)
+.
T Consensus 137 P~ 138 (290)
T TIGR00683 137 PF 138 (290)
T ss_pred cc
Confidence 53
No 221
>PHA02546 47 endonuclease subunit; Provisional
Probab=46.47 E-value=36 Score=26.67 Aligned_cols=15 Identities=13% Similarity=0.073 Sum_probs=7.2
Q ss_pred HHHHHHHHHhhcCCc
Q 041485 96 DVLDMLDAASKQKHV 110 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~ 110 (179)
..++.+.+.+.+.++
T Consensus 26 ~~l~~ii~~a~~~~v 40 (340)
T PHA02546 26 KFIKQAIEYSKAHGI 40 (340)
T ss_pred HHHHHHHHHHHHcCC
Confidence 344445555554444
No 222
>TIGR00639 PurN phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent. In phylogenetic analyses, the member from Saccharomyces cerevisiae shows a long branch length but membership in the family, while the formyltetrahydrofolate deformylases form a closely related outgroup.
Probab=46.46 E-value=1.1e+02 Score=21.93 Aligned_cols=41 Identities=12% Similarity=0.085 Sum_probs=26.1
Q ss_pred HHhhcCCceEEEEEec-----cChhHHHHHHHHhCCCCEEEEecCC
Q 041485 103 AASKQKHVSVVAKLYW-----GDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 103 ~~~~~~~~~~~~~~~~-----g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
+.+++.|+++...-.. .....++.+..++.++|++|+....
T Consensus 44 ~~A~~~gip~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~iv~~~~~ 89 (190)
T TIGR00639 44 ERAAQAGIPTFVLSLKDFPSREAFDQAIIEELRAHEVDLVVLAGFM 89 (190)
T ss_pred HHHHHcCCCEEEECccccCchhhhhHHHHHHHHhcCCCEEEEeCcc
Confidence 4556667765541111 1235678888888999999987553
No 223
>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=46.06 E-value=1.3e+02 Score=22.74 Aligned_cols=63 Identities=11% Similarity=0.171 Sum_probs=32.0
Q ss_pred hhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCccccccc--ccc-hhHHHhhcCCCCEEEEcCC
Q 041485 105 SKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVL--LGS-VSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 105 ~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~--~gs-~~~~il~~~~~pVlvv~~~ 173 (179)
+.+.|++++.... ..+..+++. ++|.+++|...-..-.... .|+ ...-+.++..+||+++-+.
T Consensus 154 L~~~gi~v~~i~d-----~~~~~~m~~-~vd~VliGad~v~~nG~v~nk~Gt~~~a~~Ak~~~vPv~v~~~~ 219 (282)
T PF01008_consen 154 LAEAGIPVTLIPD-----SAVGYVMPR-DVDKVLIGADAVLANGGVVNKVGTLQLALAAKEFNVPVYVLAES 219 (282)
T ss_dssp HHHTT-EEEEE-G-----GGHHHHHHC-TESEEEEE-SEEETTS-EEEETTHHHHHHHHHHTT-EEEEE--G
T ss_pred hhhcceeEEEEec-----hHHHHHHHH-hCCeeEEeeeEEecCCCEeehhhHHHHHHHHHhhCCCEEEEccc
Confidence 3456888775432 223344444 7999999987422222111 344 2334566778999999543
No 224
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=45.98 E-value=1.3e+02 Score=22.82 Aligned_cols=115 Identities=14% Similarity=0.151 Sum_probs=66.3
Q ss_pred eEEEeecC-C-ccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 20 SIGVALDF-S-KGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 20 ~ILv~vd~-s-~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
++++...+ + +....++++|.++.. .+.++...+...++.... +..| + .++-
T Consensus 27 ~~~~iaGPCsie~~~~~~~~A~~lk~-~g~~~~r~~~~kpRTs~~-----s~~G--------~-------------g~~g 79 (266)
T PRK13398 27 EKIIIAGPCAVESEEQMVKVAEKLKE-LGVHMLRGGAFKPRTSPY-----SFQG--------L-------------GEEG 79 (266)
T ss_pred CEEEEEeCCcCCCHHHHHHHHHHHHH-cCCCEEEEeeecCCCCCC-----ccCC--------c-------------HHHH
Confidence 44444433 3 345566888887665 677777788777654211 0000 0 1344
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
+..+.+.+++.|+.+-+.+..-...+.+ .+. +|.+-+|+..-.... .... +.....||++=+..
T Consensus 80 l~~l~~~~~~~Gl~~~te~~d~~~~~~l----~~~-vd~~kIga~~~~n~~------LL~~-~a~~gkPV~lk~G~ 143 (266)
T PRK13398 80 LKILKEVGDKYNLPVVTEVMDTRDVEEV----ADY-ADMLQIGSRNMQNFE------LLKE-VGKTKKPILLKRGM 143 (266)
T ss_pred HHHHHHHHHHcCCCEEEeeCChhhHHHH----HHh-CCEEEECcccccCHH------HHHH-HhcCCCcEEEeCCC
Confidence 5567777788899988877655444444 334 689999877533211 1122 34567788776543
No 225
>PRK00509 argininosuccinate synthase; Provisional
Probab=45.78 E-value=1.6e+02 Score=23.87 Aligned_cols=38 Identities=13% Similarity=0.254 Sum_probs=29.9
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
+++|+|++++.-.|.-++.++.+. .+.+++.+++....
T Consensus 2 ~~kVvva~SGGlDSsvla~~l~e~---lG~eViavt~d~Gq 39 (399)
T PRK00509 2 KKKVVLAYSGGLDTSVIIKWLKET---YGCEVIAFTADVGQ 39 (399)
T ss_pred CCeEEEEEcCCHHHHHHHHHHHHh---hCCeEEEEEEecCC
Confidence 478999999998888888877663 36788888886654
No 226
>PRK08417 dihydroorotase; Provisional
Probab=45.77 E-value=44 Score=26.67 Aligned_cols=26 Identities=8% Similarity=-0.013 Sum_probs=22.8
Q ss_pred HHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 33 LALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 33 ~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.++..++.+|+..+++++++|+....
T Consensus 182 ~~v~~~~~la~~~~~~lhi~hvS~~~ 207 (386)
T PRK08417 182 KEVAKMKELAKFYKNKVLFDTLALPR 207 (386)
T ss_pred HHHHHHHHHHHHhCCCEEEEeCCCHH
Confidence 46889999999999999999997764
No 227
>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=45.66 E-value=1.3e+02 Score=22.98 Aligned_cols=48 Identities=21% Similarity=0.185 Sum_probs=36.6
Q ss_pred HHHHHHHHHhhcCCceEEEE-EeccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 96 DVLDMLDAASKQKHVSVVAK-LYWGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~-~~~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
+-++.+.+..++.++++.-. +.+....+.|....++.++|.||+-.|.
T Consensus 115 ~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 115 EYLRKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred HHHHHHHHHHHHhCCceEEEEecchhchHHHHHHHHHhCCCEEEEeCch
Confidence 45555666777778876654 4457889999999999999999997653
No 228
>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=45.53 E-value=1.2e+02 Score=22.12 Aligned_cols=39 Identities=13% Similarity=0.107 Sum_probs=22.5
Q ss_pred hhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhh
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLA 161 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~ 161 (179)
....+.+...+ +|.|+++--....+.+.+.++...++++
T Consensus 73 ~~~~~~~~l~~--ad~I~~~GG~~~~~~~~l~~t~l~~~l~ 111 (217)
T cd03145 73 NDPEVVARLRD--ADGIFFTGGDQLRITSALGGTPLLDALR 111 (217)
T ss_pred CCHHHHHHHHh--CCEEEEeCCcHHHHHHHHcCChHHHHHH
Confidence 34456666666 8888888655444444444544444443
No 229
>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=45.44 E-value=97 Score=21.59 Aligned_cols=44 Identities=20% Similarity=0.247 Sum_probs=28.4
Q ss_pred hhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
....+++.+...++|+|++|-.. +.-..+ ..+...+.+.+|++.
T Consensus 87 ~~~~i~~~I~~~~pdiv~vglG~--PkQE~~----~~~~~~~l~~~v~~~ 130 (171)
T cd06533 87 EEEEIIERINASGADILFVGLGA--PKQELW----IARHKDRLPVPVAIG 130 (171)
T ss_pred hHHHHHHHHHHcCCCEEEEECCC--CHHHHH----HHHHHHHCCCCEEEE
Confidence 34558889999999999999652 122222 244556667776664
No 230
>COG0608 RecJ Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]
Probab=45.44 E-value=1.8e+02 Score=24.20 Aligned_cols=87 Identities=9% Similarity=0.054 Sum_probs=58.9
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
.++|+|..|.+.....+--......++.+..+.+.....-... . -
T Consensus 36 ~~~I~I~~d~DaDGitS~ail~~~L~~~g~~~~~~ip~~~~~~--------------------------------~-g-- 80 (491)
T COG0608 36 GEKILIYGDYDADGITSAAILAKALRRLGADVDYYIPNRFEEG--------------------------------Y-G-- 80 (491)
T ss_pred CCEEEEEEecCcccHHHHHHHHHHHHHcCCceEEEeCCCcccc--------------------------------c-h--
Confidence 5899999998877666666667777777766555444332210 0 0
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.+ ......+.+.-+.+..|.....-+.++++.+.|.||.-+|
T Consensus 81 --~~-~~~~~~~~~liItvD~G~~~~~~i~~~~~~g~~vIVtDHH 122 (491)
T COG0608 81 --AI-RKLKEEGADLIITVDNGSGSLEEIARAKELGIDVIVTDHH 122 (491)
T ss_pred --HH-HHHHhcCCCEEEEECCCcccHHHHHHHHhCCCcEEEECCC
Confidence 11 1334556666666777988888888888889999999877
No 231
>PRK08185 hypothetical protein; Provisional
Probab=45.24 E-value=86 Score=24.08 Aligned_cols=57 Identities=11% Similarity=-0.069 Sum_probs=42.8
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.-.....+++.|++.+..+|+..+.+.......-+......+..++++||.+-=++.
T Consensus 22 n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~vPV~lHLDHg 78 (283)
T PRK08185 22 DSCFLRAVVEEAEANNAPAIIAIHPNELDFLGDNFFAYVRERAKRSPVPFVIHLDHG 78 (283)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeCcchhhhccHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 347889999999999999999887654332223366778889999999998765444
No 232
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=45.23 E-value=1.3e+02 Score=25.52 Aligned_cols=67 Identities=12% Similarity=0.156 Sum_probs=42.9
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHH---HHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLC---EAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~---~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
++.+.+.+.+.+++..+++.+..+...+.+. +.....++|.||-. |+++..|=.+.++||+-++-
T Consensus 24 ~l~~~~~~i~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~~ 91 (538)
T PRK15424 24 RLFELFRDISLEFDHLANITPIQLGFEKAVTYIRKRLATERCDAIIAA------------GSNGAYLKSRLSVPVILIKP 91 (538)
T ss_pred HHHHHHHHHHHhcCCCceEEehhhhHHHHHHHHHHHHhhCCCcEEEEC------------chHHHHHHhhCCCCEEEecC
Confidence 5666777777777766666655553333333 33445678887742 44556666778999999875
Q ss_pred CC
Q 041485 173 PS 174 (179)
Q Consensus 173 ~~ 174 (179)
.+
T Consensus 92 s~ 93 (538)
T PRK15424 92 SG 93 (538)
T ss_pred CH
Confidence 43
No 233
>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=45.21 E-value=1.4e+02 Score=23.04 Aligned_cols=78 Identities=12% Similarity=0.040 Sum_probs=44.3
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcC-CCCEEEEc
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANA-SCPVTIVK 171 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~-~~pVlvv~ 171 (179)
++..+.+.+... -.+.+-.-+...+. ...+.+.|++.++|-+++-.........--+=..-..|...+ ++||++..
T Consensus 64 ~~v~~~~~~~~~-grvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~lPv~iYn 142 (309)
T cd00952 64 QAFVATVVETVA-GRVPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEMAIAIYA 142 (309)
T ss_pred HHHHHHHHHHhC-CCCCEEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCCCcEEEEc
Confidence 355555555543 23554444433334 444557899999998888754322222111112346688888 59999996
Q ss_pred CC
Q 041485 172 DP 173 (179)
Q Consensus 172 ~~ 173 (179)
.+
T Consensus 143 ~P 144 (309)
T cd00952 143 NP 144 (309)
T ss_pred Cc
Confidence 54
No 234
>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=45.00 E-value=1.3e+02 Score=24.68 Aligned_cols=48 Identities=15% Similarity=0.264 Sum_probs=34.8
Q ss_pred hHHHHHHHHhCCCCEEEEecC-CCcccccccccchhHHHhhcCCCCEEEE
Q 041485 122 RDKLCEAVEAMKLDSLVMGSR-GLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~~-~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+.|++.+++.++|++|.|.- +.+... .--|.++..|-.+..+|++.-
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPaFNagrYG-~acg~va~aV~e~~~IP~vta 113 (431)
T TIGR01917 65 KAKVLEMIKGANPDIFIAGPAFNAGRYG-MAAGAITKAVQDELGIKAFTA 113 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCccCCccHH-HHHHHHHHHHHHhhCCCeEEE
Confidence 367889999999999999954 222222 224667777888899999864
No 235
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=44.90 E-value=1.3e+02 Score=22.51 Aligned_cols=73 Identities=10% Similarity=0.041 Sum_probs=50.7
Q ss_pred HHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCceEEEE
Q 041485 36 KWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHVSVVAK 115 (179)
Q Consensus 36 ~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 (179)
-.++.++...|+.-.-+|..++.+-- ..+-+..+++.+.. .++
T Consensus 27 v~aA~~a~~aGAdgITvHlReDrRHI--------------------------------~d~Dv~~L~~~~~~-~lN---- 69 (239)
T PRK05265 27 VRAALIAEQAGADGITVHLREDRRHI--------------------------------RDRDVRLLRETLKT-ELN---- 69 (239)
T ss_pred HHHHHHHHHcCCCEEEecCCCCcccC--------------------------------CHHHHHHHHHhcCC-CEE----
Confidence 34566677789998899999887522 12333444444432 222
Q ss_pred EeccChhHHHHHHHHhCCCCEEEEecCCCcc
Q 041485 116 LYWGDARDKLCEAVEAMKLDSLVMGSRGLGT 146 (179)
Q Consensus 116 ~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~ 146 (179)
.++.+.+++++.|.+.++|.+.+....+..
T Consensus 70 -lE~a~~~em~~ia~~~kP~~vtLVPE~r~E 99 (239)
T PRK05265 70 -LEMAATEEMLDIALEVKPHQVTLVPEKREE 99 (239)
T ss_pred -eccCCCHHHHHHHHHCCCCEEEECCCCCCC
Confidence 358899999999999999999999765443
No 236
>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=44.81 E-value=73 Score=21.28 Aligned_cols=60 Identities=7% Similarity=0.044 Sum_probs=38.7
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhh
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLA 161 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~ 161 (179)
..+...++..|+++...-. -.+.+.+++.+.+.++|.|++++..-+.... +..+...+-.
T Consensus 20 ~iv~~~l~~~GfeVi~lg~-~~s~e~~v~aa~e~~adii~iSsl~~~~~~~--~~~~~~~L~~ 79 (132)
T TIGR00640 20 KVIATAYADLGFDVDVGPL-FQTPEEIARQAVEADVHVVGVSSLAGGHLTL--VPALRKELDK 79 (132)
T ss_pred HHHHHHHHhCCcEEEECCC-CCCHHHHHHHHHHcCCCEEEEcCchhhhHHH--HHHHHHHHHh
Confidence 3455666777877654322 2567789999999999999998765333332 3455555444
No 237
>PRK10481 hypothetical protein; Provisional
Probab=44.79 E-value=1.3e+02 Score=22.32 Aligned_cols=62 Identities=15% Similarity=0.112 Sum_probs=38.5
Q ss_pred HHHHhhcCCceEEEEEec--cChhHHHHHHHH---hCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 101 LDAASKQKHVSVVAKLYW--GDARDKLCEAVE---AMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~--g~~~~~i~~~a~---~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+++... |+++...... ....+.+.+.++ ..++|+||+++-+.+. .....+-+....||+.-
T Consensus 146 ~~kw~~~-G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~-------~~~~~le~~lg~PVI~~ 212 (224)
T PRK10481 146 AQKWQVL-QKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ-------RHRDLLQKALDVPVLLS 212 (224)
T ss_pred HHHHHhc-CCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH-------HHHHHHHHHHCcCEEcH
Confidence 3344433 6665543322 134456666666 5689999999987653 12356777888998753
No 238
>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=44.76 E-value=1.5e+02 Score=23.24 Aligned_cols=28 Identities=18% Similarity=0.291 Sum_probs=21.6
Q ss_pred CccHHHHHHHHHHHhcCCCCEEEEEEEe
Q 041485 28 SKGSKLALKWAIDNLLEKGDTLYIIHIK 55 (179)
Q Consensus 28 s~~s~~al~~a~~la~~~~~~l~ll~v~ 55 (179)
.+.+.+..++|+++|++.+.+++++|=.
T Consensus 140 r~~~eRi~r~AF~~A~~r~~~Vt~v~Ka 167 (322)
T TIGR02088 140 REGSERIARFAFNLAKERNRKVTCVHKA 167 (322)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEeCC
Confidence 4567888999999998887776666543
No 239
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=44.61 E-value=66 Score=22.06 Aligned_cols=70 Identities=16% Similarity=0.188 Sum_probs=44.0
Q ss_pred hHHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 94 DQDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+++.+.+.+.+.+.|+++++.. .+-.-+|++..++ .++|-||+..-..++.+- -....+...++|++=|
T Consensus 28 l~~i~~~~~~~a~~~g~~v~~~Q--SN~EGelId~I~~a~~~~dgiiINpga~THtSi-----Al~DAl~~~~~P~VEV 99 (146)
T PRK05395 28 LADIEALLEEEAAELGVELEFFQ--SNHEGELIDRIHEARDGADGIIINPGAYTHTSV-----ALRDALAAVSIPVIEV 99 (146)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEe--eCcHHHHHHHHHhcccCCcEEEECchHHHHHHH-----HHHHHHHcCCCCEEEE
Confidence 35677777788888887776543 4445555555443 258999998654443221 2245677778888766
No 240
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=44.60 E-value=95 Score=21.31 Aligned_cols=70 Identities=17% Similarity=0.166 Sum_probs=43.2
Q ss_pred hHHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 94 DQDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+++.+.+.+.+.+.++++++.. .+-.-+|++..++ .+.|-||+..-..++.+- -....+...++|++=|
T Consensus 28 l~~i~~~~~~~a~~~g~~~~~~Q--SN~EGelId~i~~a~~~~dgiIINpga~THtSi-----Al~DAl~~~~~P~VEV 99 (146)
T PRK13015 28 LADVEALCRAAAEALGLEVEFRQ--SNHEGELIDWIHEARGDVAGIVINPGAYTHTSV-----AIRDALAALELPVIEV 99 (146)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEe--eCcHHHHHHHHHHhhhcCCEEEEcchHHhhhHH-----HHHHHHHcCCCCEEEE
Confidence 35677778888888887766543 4444445544333 347999997654443221 2245667788898766
No 241
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=44.53 E-value=1.7e+02 Score=23.79 Aligned_cols=50 Identities=6% Similarity=0.093 Sum_probs=26.0
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCccccc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQR 149 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~ 149 (179)
++...++..++.+.......+..+.|.......++|+|++-+.++++...
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 45556666666554311111222222222223568999999888766443
No 242
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=44.43 E-value=1.1e+02 Score=21.40 Aligned_cols=51 Identities=22% Similarity=0.217 Sum_probs=30.7
Q ss_pred hHHHHHHHHhhcCCCCeEEEeecCCccHHHH----HHHHHHHhcCCCC-EEEEEEE
Q 041485 4 TLNKLIFFFKMASNNRSIGVALDFSKGSKLA----LKWAIDNLLEKGD-TLYIIHI 54 (179)
Q Consensus 4 ~~~~~~~~~~m~~~~~~ILv~vd~s~~s~~a----l~~a~~la~~~~~-~l~ll~v 54 (179)
+|.+++.+..-.+..++|.|-+|+..-+... ++...+.+...|. .+.-++.
T Consensus 8 ~~~~~~~~~~~~~~~~riAvfID~~Nv~~~~~~~d~~~i~~~ls~~G~i~~~R~Y~ 63 (160)
T TIGR00288 8 SLKEYISIKKKRKGEKKIGLLVDGPNMLRKEFNIDLDEIREILSEYGDIKIGKVLL 63 (160)
T ss_pred chhhheEeccccCCCCcEEEEEeCCccChhhhccCHHHHHHHHHhcCCeEEEEEEe
Confidence 4444444433333468999999998777665 5666666666553 3444444
No 243
>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=44.26 E-value=1.4e+02 Score=22.53 Aligned_cols=79 Identities=15% Similarity=0.133 Sum_probs=45.5
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
++..+.+.+... ..+.+-.-+...+. ...+.+.+++.++|-+++..........--+-..-..|+..+++||++...
T Consensus 53 ~~l~~~~~~~~~-~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~~~~pi~iYn~ 131 (281)
T cd00408 53 KEVIEAVVEAVA-GRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADASDLPVILYNI 131 (281)
T ss_pred HHHHHHHHHHhC-CCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 344555555543 23444433333233 344556799999999999765433322211223446688888999999865
Q ss_pred CC
Q 041485 173 PS 174 (179)
Q Consensus 173 ~~ 174 (179)
+.
T Consensus 132 P~ 133 (281)
T cd00408 132 PG 133 (281)
T ss_pred cc
Confidence 43
No 244
>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=44.25 E-value=82 Score=20.00 Aligned_cols=42 Identities=19% Similarity=0.081 Sum_probs=29.4
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.+...+++.|.++...- .....+.+.+.+++.++|+|.++..
T Consensus 19 ~la~~l~~~G~~v~~~d-~~~~~~~l~~~~~~~~pd~V~iS~~ 60 (121)
T PF02310_consen 19 YLAAYLRKAGHEVDILD-ANVPPEELVEALRAERPDVVGISVS 60 (121)
T ss_dssp HHHHHHHHTTBEEEEEE-SSB-HHHHHHHHHHTTCSEEEEEES
T ss_pred HHHHHHHHCCCeEEEEC-CCCCHHHHHHHHhcCCCcEEEEEcc
Confidence 34555666788766432 1234589999999999999999874
No 245
>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=44.00 E-value=21 Score=25.85 Aligned_cols=46 Identities=13% Similarity=0.143 Sum_probs=28.8
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+..+.+++...+.+..+...+ .|......+..+.+-++|.+|+|+.
T Consensus 151 ~KI~~l~~~~~~~~~~~~I~v-DGGI~~~~~~~~~~aGad~~V~Gs~ 196 (201)
T PF00834_consen 151 EKIRELRKLIPENGLDFEIEV-DGGINEENIKQLVEAGADIFVAGSA 196 (201)
T ss_dssp HHHHHHHHHHHHHTCGSEEEE-ESSESTTTHHHHHHHT--EEEESHH
T ss_pred HHHHHHHHHHHhcCCceEEEE-ECCCCHHHHHHHHHcCCCEEEECHH
Confidence 334455566666565555545 4667667777777788999999963
No 246
>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=43.96 E-value=1.5e+02 Score=22.77 Aligned_cols=74 Identities=15% Similarity=0.111 Sum_probs=41.4
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
+..+.+.+.... .+.+-..+. .+.. -++.+.+++.++|.+++-........+--+-..-..|+..+++||++..
T Consensus 62 ~v~~~~~~~~~g-~~pvi~gv~-~~t~~ai~~a~~a~~~Gadav~~~pP~y~~~s~~~i~~~f~~v~~a~~~pvilYn 137 (296)
T TIGR03249 62 QVVEIAVSTAKG-KVPVYTGVG-GNTSDAIEIARLAEKAGADGYLLLPPYLINGEQEGLYAHVEAVCESTDLGVIVYQ 137 (296)
T ss_pred HHHHHHHHHhCC-CCcEEEecC-ccHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhccCCCEEEEe
Confidence 444444444332 344444443 2333 3455779999999998865432222111112244667888899999986
No 247
>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=43.68 E-value=1.3e+02 Score=22.26 Aligned_cols=72 Identities=18% Similarity=0.103 Sum_probs=44.7
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.++.+.+.+.+++.|.++......++.. ..+++.....++|-+|+-........ +. -..+....+||+++-.
T Consensus 16 ~~~~~gi~~~a~~~gy~~~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~-----~~-~~~~~~~~iPvV~~d~ 89 (280)
T cd06315 16 LGVGEGVREAAKAIGWNLRILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ-----AE-LELAQKAGIPVVGWHA 89 (280)
T ss_pred HHHHHHHHHHHHHcCcEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH-----HH-HHHHHHCCCCEEEecC
Confidence 4666777778888887765543333443 35677788889999999643211111 11 1345567899999954
No 248
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=43.49 E-value=1.3e+02 Score=22.14 Aligned_cols=47 Identities=13% Similarity=0.070 Sum_probs=29.9
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh---CCCCEEEEecC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA---MKLDSLVMGSR 142 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~---~~~dlvVlg~~ 142 (179)
+..+.+++.+...++.-.+.+..|+..+.+-+.... ..+|+|++...
T Consensus 104 ~~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~ 153 (234)
T PLN02781 104 EAYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDFAFVDAD 153 (234)
T ss_pred HHHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCC
Confidence 334445555555666544566678887776665443 46999999854
No 249
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=43.42 E-value=94 Score=22.80 Aligned_cols=44 Identities=14% Similarity=0.149 Sum_probs=28.6
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.+.+++...+.+.++...+ .|....+-+..+.+.++|.+|+|+.
T Consensus 154 I~~l~~~~~~~~~~~~I~v-dGGI~~eni~~l~~aGAd~vVvGSa 197 (220)
T PRK08883 154 LRAVRKMIDESGRDIRLEI-DGGVKVDNIREIAEAGADMFVAGSA 197 (220)
T ss_pred HHHHHHHHHhcCCCeeEEE-ECCCCHHHHHHHHHcCCCEEEEeHH
Confidence 3444555555565555545 4555566666777788999999964
No 250
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=43.25 E-value=1.3e+02 Score=22.11 Aligned_cols=70 Identities=9% Similarity=0.152 Sum_probs=44.0
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHh--hcCCCCEEEEcCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVL--ANASCPVTIVKDP 173 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il--~~~~~pVlvv~~~ 173 (179)
.+.+.+...++..|..+.+.. -..+..+.++.. +|+|++...-. ...++ .....+= .....||+++-..
T Consensus 11 ~i~~~l~~~L~~~g~~v~~~~----~~~~a~~~~~~~-~dlviLD~~lP-~~dG~---~~~~~iR~~~~~~~PIi~Lta~ 81 (229)
T COG0745 11 ELAELLKEYLEEEGYEVDVAA----DGEEALEAAREQ-PDLVLLDLMLP-DLDGL---ELCRRLRAKKGSGPPIIVLTAR 81 (229)
T ss_pred HHHHHHHHHHHHCCCEEEEEC----CHHHHHHHHhcC-CCEEEEECCCC-CCCHH---HHHHHHHhhcCCCCcEEEEECC
Confidence 566677788888898776532 226667777777 99999986532 22221 1222222 3466889999765
Q ss_pred C
Q 041485 174 S 174 (179)
Q Consensus 174 ~ 174 (179)
.
T Consensus 82 ~ 82 (229)
T COG0745 82 D 82 (229)
T ss_pred C
Confidence 4
No 251
>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=43.24 E-value=1.3e+02 Score=21.93 Aligned_cols=72 Identities=17% Similarity=0.198 Sum_probs=43.1
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+..+.+.+.+++.|.++......+++ ....++.+...++|-+|+.......... .. ..+....+||+.+..
T Consensus 15 ~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~-----~~-~~~~~~~ipvV~~~~ 88 (267)
T cd06322 15 IELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA-----AI-AKAKKAGIPVITVDI 88 (267)
T ss_pred HHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH-----HH-HHHHHCCCCEEEEcc
Confidence 466666777777788777654433344 3345555667789999996432211111 11 234566899999854
No 252
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase. tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.
Probab=42.96 E-value=1.7e+02 Score=23.23 Aligned_cols=34 Identities=15% Similarity=0.093 Sum_probs=26.0
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
++|+|++++.-.|.-++..+.+ .+.++..+|+..
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~G~~V~~v~~~~ 34 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----QGYEVVGVFMKN 34 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----cCCeEEEEEEEc
Confidence 4799999999888877766655 356888888853
No 253
>PRK13054 lipid kinase; Reviewed
Probab=42.66 E-value=1.5e+02 Score=22.62 Aligned_cols=67 Identities=15% Similarity=0.219 Sum_probs=38.5
Q ss_pred HHHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc---CCCCEEEEcCC
Q 041485 101 LDAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN---ASCPVTIVKDP 173 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~---~~~pVlvv~~~ 173 (179)
+...+.+.+.+++..... ..-+..+.+.+...++|.||+..- -+.+.. +...++.. ..+|+-++|..
T Consensus 23 ~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vvv~GG-DGTl~e-----vv~~l~~~~~~~~~~lgiiP~G 93 (300)
T PRK13054 23 AVGLLREEGHTLHVRVTWEKGDAARYVEEALALGVATVIAGGG-DGTINE-----VATALAQLEGDARPALGILPLG 93 (300)
T ss_pred HHHHHHHcCCEEEEEEecCCCcHHHHHHHHHHcCCCEEEEECC-ccHHHH-----HHHHHHhhccCCCCcEEEEeCC
Confidence 344566677776654332 234566666665666888877633 333333 34455532 35889999854
No 254
>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=42.66 E-value=1.5e+02 Score=22.47 Aligned_cols=73 Identities=16% Similarity=0.085 Sum_probs=43.7
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
....+.+.+.+++.|.++...-..++.. ..+++.....++|-||+......... ... +-+....+||+++-.
T Consensus 14 ~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~-----~~l-~~~~~~~iPvV~~d~ 87 (302)
T TIGR02634 14 QKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLS-----NAV-QEAKDEGIKVVAYDR 87 (302)
T ss_pred HHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHH-----HHH-HHHHHCCCeEEEecC
Confidence 3555667777777787765543333443 35666777788999998754321111 111 234567789998854
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 88 ~ 88 (302)
T TIGR02634 88 L 88 (302)
T ss_pred c
Confidence 3
No 255
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=42.52 E-value=60 Score=25.78 Aligned_cols=43 Identities=19% Similarity=0.213 Sum_probs=37.2
Q ss_pred CCCeEEEeecCCccHHHHHHHHHHHhcCCCC-EEEEEEEeCCCC
Q 041485 17 NNRSIGVALDFSKGSKLALKWAIDNLLEKGD-TLYIIHIKLPQG 59 (179)
Q Consensus 17 ~~~~ILv~vd~s~~s~~al~~a~~la~~~~~-~l~ll~v~~~~~ 59 (179)
.+.+|.|..++...|.-.|+.++++++..+- ++.|+|+.-...
T Consensus 26 ~f~~VcVSFSGGKDS~lmLhL~~~~ar~~~~~~i~VlfiD~E~Q 69 (407)
T COG3969 26 TFPRVCVSFSGGKDSGLMLHLVAEVARENGRDKISVLFIDWEAQ 69 (407)
T ss_pred cCCeEEEEecCCCchhHHHHHHHHHHHHhCCCceEEEEEcchhh
Confidence 4689999999999999999999999999664 899999976654
No 256
>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=42.49 E-value=1.2e+02 Score=21.20 Aligned_cols=80 Identities=15% Similarity=0.072 Sum_probs=51.9
Q ss_pred HHHHHHHHHHhcCCCCEEEEEEEe--CCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCC
Q 041485 32 KLALKWAIDNLLEKGDTLYIIHIK--LPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKH 109 (179)
Q Consensus 32 ~~al~~a~~la~~~~~~l~ll~v~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (179)
..-+..++++|+..+++...++.. ..... .. .....+...+.++.+.+.+.+.|
T Consensus 70 ~~~~~~~i~~a~~lg~~~i~~~~g~~~~~~~--------------~~----------~~~~~~~~~~~l~~l~~~a~~~g 125 (213)
T PF01261_consen 70 LEYLKKAIDLAKRLGAKYIVVHSGRYPSGPE--------------DD----------TEENWERLAENLRELAEIAEEYG 125 (213)
T ss_dssp HHHHHHHHHHHHHHTBSEEEEECTTESSSTT--------------SS----------HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHhCCCceeecCcccccccC--------------CC----------HHHHHHHHHHHHHHHHhhhhhhc
Confidence 567888899999999999888865 11110 00 01122334567777788888889
Q ss_pred ceEEEEEeccCh---h---HHHHHHHHhCCCC
Q 041485 110 VSVVAKLYWGDA---R---DKLCEAVEAMKLD 135 (179)
Q Consensus 110 ~~~~~~~~~g~~---~---~~i~~~a~~~~~d 135 (179)
+.+..+...+.. . +.+.+.++..+.+
T Consensus 126 v~i~lE~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (213)
T PF01261_consen 126 VRIALENHPGPFSETPFSVEEIYRLLEEVDSP 157 (213)
T ss_dssp SEEEEE-SSSSSSSEESSHHHHHHHHHHHTTT
T ss_pred ceEEEecccCccccchhhHHHHHHHHhhcCCC
Confidence 888877655433 3 7888888886654
No 257
>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=42.45 E-value=98 Score=20.82 Aligned_cols=43 Identities=14% Similarity=0.103 Sum_probs=27.2
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEec
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMGS 141 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg~ 141 (179)
..+.+.+++.|.++......+|-.+.|.+..++ .++|+||..-
T Consensus 30 ~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~DliIttG 74 (144)
T TIGR00177 30 PLLAALLEEAGFNVSRLGIVPDDPEEIREILRKAVDEADVVLTTG 74 (144)
T ss_pred HHHHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHHhCCCEEEECC
Confidence 345566667788777665566555556554332 2699999863
No 258
>PRK00779 ornithine carbamoyltransferase; Provisional
Probab=42.08 E-value=1.6e+02 Score=22.79 Aligned_cols=42 Identities=10% Similarity=0.200 Sum_probs=26.4
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
|......+.+...+ +|+||+-....+ ....+..++++||+=-
T Consensus 85 gEsl~Dt~~~l~~~-~D~iv~R~~~~~---------~~~~~a~~~~vPVINa 126 (304)
T PRK00779 85 GEPIEDTARVLSRY-VDAIMIRTFEHE---------TLEELAEYSTVPVING 126 (304)
T ss_pred CcCHHHHHHHHHHh-CCEEEEcCCChh---------HHHHHHHhCCCCEEeC
Confidence 44445555555555 999999644322 3456778889997643
No 259
>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=41.86 E-value=68 Score=19.99 Aligned_cols=45 Identities=13% Similarity=0.198 Sum_probs=28.7
Q ss_pred HHHHHHHhhcCCceEEEEEecc-ChhHHHH-HHHHhCCCCEEEEecCCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWG-DARDKLC-EAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g-~~~~~i~-~~a~~~~~dlvVlg~~~~ 144 (179)
.+.+++.+++.|+++++..... .+...+. +.... +|+||+.....
T Consensus 18 a~~L~~aa~~~g~~~~ve~~~~~g~~~~l~~~~i~~--Ad~vi~~~~~~ 64 (96)
T cd05569 18 AEALEKAAKKLGWEIKVETQGSLGIENELTAEDIAE--ADAVILAADVP 64 (96)
T ss_pred HHHHHHHHHHCCCeEEEEEecCcCccCcCCHHHHhh--CCEEEEecCCC
Confidence 3567777888898877765443 2333333 44555 99999987643
No 260
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=41.46 E-value=1.1e+02 Score=22.92 Aligned_cols=51 Identities=20% Similarity=0.287 Sum_probs=35.1
Q ss_pred cChhHHHH-HHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 119 GDARDKLC-EAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 119 g~~~~~i~-~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
|....++. ...++.++|.||.=.++..+... --...+...+||+++.++..
T Consensus 179 GPfs~e~n~al~~~~~i~~lVtK~SG~~g~~e------Ki~AA~~lgi~vivI~RP~~ 230 (249)
T PF02571_consen 179 GPFSKELNRALFRQYGIDVLVTKESGGSGFDE------KIEAARELGIPVIVIKRPPE 230 (249)
T ss_pred CCCCHHHHHHHHHHcCCCEEEEcCCCchhhHH------HHHHHHHcCCeEEEEeCCCC
Confidence 54445554 34888999999997766553222 23578899999999976554
No 261
>PRK00766 hypothetical protein; Provisional
Probab=41.35 E-value=91 Score=22.51 Aligned_cols=58 Identities=21% Similarity=0.220 Sum_probs=40.1
Q ss_pred CceEEEEEecc-ChhHHHHHHHHh----CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 109 HVSVVAKLYWG-DARDKLCEAVEA----MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 109 ~~~~~~~~~~g-~~~~~i~~~a~~----~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
|+-+......| |..+.|.+..+. .++.+|++..-..++++=. ....+-+.+..||++|
T Consensus 42 Gv~~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFNvv----D~~~l~~~tg~PVI~V 104 (194)
T PRK00766 42 GVLSRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFNVV----DIEELYRETGLPVIVV 104 (194)
T ss_pred eEEEEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeEEe----cHHHHHHHHCCCEEEE
Confidence 44445544456 888999998876 3566888875555554422 3467888999999999
No 262
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=40.96 E-value=92 Score=19.61 Aligned_cols=48 Identities=19% Similarity=0.340 Sum_probs=32.4
Q ss_pred HHHHHHHHHHhhcCCceEEEEEec-----------c-ChhHHHHHHHHhCCCCEEEEecC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYW-----------G-DARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~-----------g-~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
++.++.+..+++..|..+...+.. | .-.++|.+.++..++|+||....
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~ 66 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNE 66 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCC
Confidence 455556666666666654433322 3 34688999999999999999743
No 263
>cd01297 D-aminoacylase D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics.
Probab=40.96 E-value=1.9e+02 Score=23.28 Aligned_cols=53 Identities=17% Similarity=0.047 Sum_probs=35.9
Q ss_pred hHHHHHHHHhhcCCCCeEEEeecCC-ccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 4 TLNKLIFFFKMASNNRSIGVALDFS-KGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 4 ~~~~~~~~~~m~~~~~~ILv~vd~s-~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.+..+....++.+ ..|.+..+.. ..-..+++.++.+++..+.++++.|+....
T Consensus 200 ~l~~~~~~a~~~g--~~v~~H~e~~~~~e~~av~~~~~~a~~~g~r~~i~H~ss~~ 253 (415)
T cd01297 200 ELVALARVAARYG--GVYQTHVRYEGDSILEALDELLRLGRETGRPVHISHLKSAG 253 (415)
T ss_pred HHHHHHHHHHHcC--CEEEEEECcccccHHHHHHHHHHHHHHhCCCEEEEEEecCC
Confidence 3444444444443 4455566543 345668999999999999999999997664
No 264
>PRK13055 putative lipid kinase; Reviewed
Probab=40.91 E-value=1.7e+02 Score=22.80 Aligned_cols=72 Identities=13% Similarity=0.049 Sum_probs=42.6
Q ss_pred HHHHHHHHHhhcCCceEEEEEec--cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc-CCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYW--GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN-ASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~-~~~pVlvv~~ 172 (179)
+..+.+.+.+.+.+++++..... +..+..+.+.+...++|.||+..- -+.+.. +...++.. ...|+-++|.
T Consensus 20 ~~~~~i~~~l~~~g~~~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~GG-DGTl~e-----vvngl~~~~~~~~LgiiP~ 93 (334)
T PRK13055 20 KNVADILDILEQAGYETSAFQTTPEPNSAKNEAKRAAEAGFDLIIAAGG-DGTINE-----VVNGIAPLEKRPKMAIIPA 93 (334)
T ss_pred HHHHHHHHHHHHcCCeEEEEEeecCCccHHHHHHHHhhcCCCEEEEECC-CCHHHH-----HHHHHhhcCCCCcEEEECC
Confidence 44556667777888877764433 235566676666667888877633 333332 33444432 3467888885
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 94 G 94 (334)
T PRK13055 94 G 94 (334)
T ss_pred C
Confidence 3
No 265
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=40.88 E-value=81 Score=19.99 Aligned_cols=48 Identities=10% Similarity=0.110 Sum_probs=35.0
Q ss_pred hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 122 RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.+..++..+..++-+||+.+.-....+ +..++-..-+.+||+..+...
T Consensus 24 ~k~tiK~lk~gkaKliiiAsN~P~~~k-----~~ieyYAkLs~ipV~~y~Gt~ 71 (100)
T COG1911 24 SKRTIKSLKLGKAKLIIIASNCPKELK-----EDIEYYAKLSDIPVYVYEGTS 71 (100)
T ss_pred hHHHHHHHHcCCCcEEEEecCCCHHHH-----HHHHHHHHHcCCcEEEecCCc
Confidence 466778888999999999876544333 344666667789999988654
No 266
>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=40.85 E-value=2e+02 Score=24.28 Aligned_cols=67 Identities=19% Similarity=0.215 Sum_probs=39.4
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHH---HHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEA---VEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~---a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+.+.+.+.+.+.+-.++..+..|+..+.+... ....++|.||-. |+++..|=.+.++||+-++-
T Consensus 14 ~l~~~~~~i~~~~~~~~~~~v~~~~~~~~~~~a~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~~ 81 (526)
T TIGR02329 14 RLFDLFRDIAPEFDHRANITPIQLGFEDAVREIRQRLGAERCDVVVAG------------GSNGAYLKSRLSLPVIVIKP 81 (526)
T ss_pred HHHHHHHHHHHhCCCCceEEEEeccHHHHHHHHHHHHHhCCCcEEEEC------------chHHHHHHHhCCCCEEEecC
Confidence 344555566655543334445556655544433 445678877742 34455566678899998875
Q ss_pred CC
Q 041485 173 PS 174 (179)
Q Consensus 173 ~~ 174 (179)
.+
T Consensus 82 s~ 83 (526)
T TIGR02329 82 TG 83 (526)
T ss_pred Ch
Confidence 43
No 267
>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=40.66 E-value=80 Score=25.64 Aligned_cols=12 Identities=17% Similarity=0.274 Sum_probs=9.3
Q ss_pred CCCCEEEEcCCC
Q 041485 163 ASCPVTIVKDPS 174 (179)
Q Consensus 163 ~~~pVlvv~~~~ 174 (179)
..+||+++..+.
T Consensus 109 ~~iPVf~I~GNH 120 (405)
T TIGR00583 109 VAIPVFSIHGNH 120 (405)
T ss_pred CCCCEEEEcCCC
Confidence 579999997554
No 268
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=40.64 E-value=1.6e+02 Score=22.37 Aligned_cols=78 Identities=13% Similarity=0.089 Sum_probs=44.1
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+.++.+.+.... .+.+-..+...+.. -...+.+++.++|-+++.........+--+-..-..|+..++.||++...
T Consensus 57 ~~~~~~~~~~~~~-~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~~~pv~lYn~ 135 (292)
T PRK03170 57 EELIRAVVEAVNG-RVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEATDLPIILYNV 135 (292)
T ss_pred HHHHHHHHHHhCC-CCcEEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 3444555554432 34444444333343 34446789999999998754322222111123446688888999999964
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
+
T Consensus 136 P 136 (292)
T PRK03170 136 P 136 (292)
T ss_pred c
Confidence 4
No 269
>TIGR00559 pdxJ pyridoxine 5'-phosphate synthase. PdxJ is required in the biosynthesis of pyridoxine (vitamin B6), a precursor to the enzyme cofactor pyridoxal phosphate. ECOCYC describes the predicted reaction equation as 1-amino-propan-2-one-3-phosphate + deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The product of that reaction is oxidized by PdxH to pyridoxal 5'-phosphate.
Probab=40.63 E-value=1.5e+02 Score=22.11 Aligned_cols=72 Identities=10% Similarity=0.034 Sum_probs=50.1
Q ss_pred HHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCceEEEEE
Q 041485 37 WAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHVSVVAKL 116 (179)
Q Consensus 37 ~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 116 (179)
.|+.+|...|+.-.-+|..++.+-- ..+-+..+++.+.. .++
T Consensus 25 ~aA~~a~~aGAdgITvHlReDrRHI--------------------------------~d~Dv~~l~~~~~~-~lN----- 66 (237)
T TIGR00559 25 RAALIAEQAGADGITVHLREDRRHI--------------------------------QDRDVYDLKEALTT-PFN----- 66 (237)
T ss_pred HHHHHHHHcCCCEEEecCCCCcCcC--------------------------------CHHHHHHHHHHcCC-CEE-----
Confidence 4556677889998899999887521 12333344444422 223
Q ss_pred eccChhHHHHHHHHhCCCCEEEEecCCCcc
Q 041485 117 YWGDARDKLCEAVEAMKLDSLVMGSRGLGT 146 (179)
Q Consensus 117 ~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~ 146 (179)
.++.+.+++++.|.+.++|.+.+-...+..
T Consensus 67 lE~a~~~emi~ia~~vkP~~vtLVPEkr~E 96 (237)
T TIGR00559 67 IEMAPTEEMIRIAEEIKPEQVTLVPEARDE 96 (237)
T ss_pred eccCCCHHHHHHHHHcCCCEEEECCCCCCC
Confidence 358899999999999999999998765443
No 270
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=40.53 E-value=1.2e+02 Score=20.77 Aligned_cols=66 Identities=11% Similarity=0.119 Sum_probs=42.3
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEE
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVl 168 (179)
.+.+.+++.|+++...-.. ...+++++.|.+++.|.|++++..-.+.. ++....+.+-..-.-+++
T Consensus 31 via~~l~d~GfeVi~~g~~-~tp~e~v~aA~~~dv~vIgvSsl~g~h~~--l~~~lve~lre~G~~~i~ 96 (143)
T COG2185 31 VIARALADAGFEVINLGLF-QTPEEAVRAAVEEDVDVIGVSSLDGGHLT--LVPGLVEALREAGVEDIL 96 (143)
T ss_pred HHHHHHHhCCceEEecCCc-CCHHHHHHHHHhcCCCEEEEEeccchHHH--HHHHHHHHHHHhCCcceE
Confidence 4566778888886653322 45588889999999999999876533322 344455554444445555
No 271
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=40.22 E-value=1.5e+02 Score=21.85 Aligned_cols=57 Identities=16% Similarity=0.005 Sum_probs=38.5
Q ss_pred HHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHH
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHV 159 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~i 159 (179)
+.+..++.|..+=..+..+.+.+.+..+... +|+|.+=+-..+...+.|..+..++|
T Consensus 102 ~l~~Ir~~g~k~GlalnP~T~~~~i~~~l~~--vD~VlvMtV~PGf~GQ~fi~~~l~KI 158 (223)
T PRK08745 102 TIQLIKSHGCQAGLVLNPATPVDILDWVLPE--LDLVLVMSVNPGFGGQAFIPSALDKL 158 (223)
T ss_pred HHHHHHHCCCceeEEeCCCCCHHHHHHHHhh--cCEEEEEEECCCCCCccccHHHHHHH
Confidence 3345556666666666668899999999887 88776665555666666666655554
No 272
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=40.15 E-value=53 Score=18.95 Aligned_cols=26 Identities=12% Similarity=-0.020 Sum_probs=20.6
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcC
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLE 44 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~ 44 (179)
++|.++.|.+.....+.+...+....
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~~~l~~ 73 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLAELLKP 73 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHHHHhhh
Confidence 67999999999988887777666543
No 273
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=40.05 E-value=39 Score=23.21 Aligned_cols=19 Identities=26% Similarity=0.468 Sum_probs=8.9
Q ss_pred HHHHHHHHhCCCCEEEEec
Q 041485 123 DKLCEAVEAMKLDSLVMGS 141 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg~ 141 (179)
+.+.++++++++|+|++|.
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 3444556666666666643
No 274
>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=39.95 E-value=1.5e+02 Score=21.73 Aligned_cols=72 Identities=17% Similarity=0.141 Sum_probs=42.4
Q ss_pred HHHHHHHHHHhhcCCceEEEEEec--cChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYW--GDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~--g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+..+.+.+.+++.|.++...... +++. ...++.....++|-+|+......... +.. ..+....+||+.+
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~-----~~~-~~~~~~~iPvV~~ 88 (275)
T cd06320 15 RSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV-----PAV-ERAKKKGIPVVNV 88 (275)
T ss_pred HHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH-----HHH-HHHHHCCCeEEEE
Confidence 355666777777788777665432 2332 34455566678999888643222111 111 3455678999988
Q ss_pred cC
Q 041485 171 KD 172 (179)
Q Consensus 171 ~~ 172 (179)
..
T Consensus 89 ~~ 90 (275)
T cd06320 89 ND 90 (275)
T ss_pred CC
Confidence 54
No 275
>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=39.73 E-value=1.6e+02 Score=22.17 Aligned_cols=71 Identities=15% Similarity=0.079 Sum_probs=39.9
Q ss_pred HHHHHHHHHhhc--CCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 96 DVLDMLDAASKQ--KHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 96 ~~~~~~~~~~~~--~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
.+.+.+.+.+.+ .++.+......+++. ..+++.+...++|-+|+......... .. -+.+....+||+++-
T Consensus 16 ~~~~gi~~~a~~~~~g~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~-----~~-~~~~~~~giPvV~~~ 89 (303)
T cd01539 16 LVRKNLEDIQKENGGKVEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ-----TV-INKAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHHHHhhCCCeeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH-----HH-HHHHHHCCCCEEEeC
Confidence 455555666666 565555443333443 24555567778999888643211111 12 234566789999885
Q ss_pred C
Q 041485 172 D 172 (179)
Q Consensus 172 ~ 172 (179)
.
T Consensus 90 ~ 90 (303)
T cd01539 90 R 90 (303)
T ss_pred C
Confidence 3
No 276
>PRK07627 dihydroorotase; Provisional
Probab=39.69 E-value=69 Score=26.03 Aligned_cols=26 Identities=12% Similarity=0.184 Sum_probs=23.0
Q ss_pred HHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 33 LALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 33 ~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.++..++.+|+..+++++++|+....
T Consensus 213 ~av~r~~~la~~~~~~~hi~HvSs~~ 238 (425)
T PRK07627 213 IALHTIFELMRVTGARVHLARLSSAA 238 (425)
T ss_pred HHHHHHHHHHHHHCCcEEEEeCCCHH
Confidence 47899999999999999999997764
No 277
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=39.44 E-value=2.1e+02 Score=23.39 Aligned_cols=94 Identities=7% Similarity=-0.016 Sum_probs=51.6
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
-++|-+..+.++.....++...+.++..+..+........... ....
T Consensus 174 W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~---------------------------------~~d~ 220 (458)
T cd06375 174 WTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRSAD---------------------------------RKSY 220 (458)
T ss_pred CeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCC---------------------------------HHHH
Confidence 5788888887777777777777777666644433222221100 0122
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~ 144 (179)
...+.++....+.++-+..........+++.+.+.+.+...+|+.+.
T Consensus 221 ~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~~~wigs~~~ 267 (458)
T cd06375 221 DSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNASFTWVASDGW 267 (458)
T ss_pred HHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCcEEEEEeccc
Confidence 22222222223444333333345566777888888888778876643
No 278
>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=39.35 E-value=2e+02 Score=23.07 Aligned_cols=99 Identities=10% Similarity=0.029 Sum_probs=62.4
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDV 97 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (179)
.++|-+..+.++.....++...+.++..|..+............ .. .....
T Consensus 172 w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~----------------~~-------------~~~~~ 222 (403)
T cd06361 172 WNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSD----------------NT-------------KLNRI 222 (403)
T ss_pred CcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCc----------------ch-------------hHHHH
Confidence 68888888888889888888888888777655443333221100 00 00122
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCc
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLG 145 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~ 145 (179)
...+.+..+..+.++-+..........+++.+++.+.+.+.+|+.+..
T Consensus 223 ~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~~~~wigs~~w~ 270 (403)
T cd06361 223 IRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNINKVWIASDNWS 270 (403)
T ss_pred HHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCCCeEEEEECccc
Confidence 223334444556555544444567788889999999999999977643
No 279
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=39.23 E-value=1.3e+02 Score=20.92 Aligned_cols=45 Identities=13% Similarity=0.105 Sum_probs=29.6
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.-.+.|++.+...++|+|++|-.. +....+ ..+.....+.+|++.
T Consensus 88 ~~~~~i~~~I~~~~pdiv~vglG~--PkQE~~----~~~~~~~l~~~v~i~ 132 (172)
T PF03808_consen 88 EEEEAIINRINASGPDIVFVGLGA--PKQERW----IARHRQRLPAGVIIG 132 (172)
T ss_pred hhHHHHHHHHHHcCCCEEEEECCC--CHHHHH----HHHHHHHCCCCEEEE
Confidence 567889999999999999999652 112222 244556666665554
No 280
>PRK08005 epimerase; Validated
Probab=39.05 E-value=1.5e+02 Score=21.61 Aligned_cols=58 Identities=10% Similarity=-0.025 Sum_probs=39.5
Q ss_pred HHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHh
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVL 160 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il 160 (179)
+.+..++.|..+=..+..+.+.+.+..+... +|+|.+=+-..+...+.|.....++|-
T Consensus 98 ~l~~Ik~~G~k~GlAlnP~Tp~~~i~~~l~~--vD~VlvMsV~PGf~GQ~f~~~~~~KI~ 155 (210)
T PRK08005 98 ILADIRAIGAKAGLALNPATPLLPYRYLALQ--LDALMIMTSEPDGRGQQFIAAMCEKVS 155 (210)
T ss_pred HHHHHHHcCCcEEEEECCCCCHHHHHHHHHh--cCEEEEEEecCCCccceecHHHHHHHH
Confidence 3445556676666666668899999999887 887766665555566667666555554
No 281
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=38.74 E-value=1.8e+02 Score=22.31 Aligned_cols=56 Identities=14% Similarity=0.056 Sum_probs=41.2
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCccccc-ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLGTIQR-VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~-~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
-.....+++.|++.+..+|+..+.+.-.... .+++.......+++++||.+-=++.
T Consensus 28 ~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~~~~~~~~~~~a~~~~vpv~lHlDH~ 84 (281)
T PRK06806 28 MEMVMGAIKAAEELNSPIILQIAEVRLNHSPLHLIGPLMVAAAKQAKVPVAVHFDHG 84 (281)
T ss_pred HHHHHHHHHHHHHhCCCEEEEcCcchhccCChHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 4788999999999999999887664322222 2456677788999999998765544
No 282
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=38.38 E-value=1.5e+02 Score=22.87 Aligned_cols=59 Identities=10% Similarity=0.114 Sum_probs=42.9
Q ss_pred EeccChhHHHHHHHHhCCCCEEEEecCCCccccc-ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 116 LYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQR-VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 116 ~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~-~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
+..-.....+++.|++.+..+|+.-+.+.-.... -.+......+..+.++||.+-=++.
T Consensus 25 ~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~A~~~~VPV~lHLDHg 84 (284)
T PRK09195 25 IHNLETMQVVVETAAELHSPVIIAGTPGTFSYAGTEYLLAIVSAAAKQYHHPLALHLDHH 84 (284)
T ss_pred eCCHHHHHHHHHHHHHhCCCEEEEcChhHHhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 3345889999999999999999987664322222 1356678889999999998765544
No 283
>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=38.35 E-value=1.5e+02 Score=21.41 Aligned_cols=72 Identities=13% Similarity=0.087 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.++.+.+.+.+.+.|..+.......++. ...++.+...++|-+|++......... .-..+...++|++.+-.
T Consensus 15 ~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~------~l~~l~~~~ipvv~~~~ 88 (268)
T cd06323 15 VTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVP------AVKAANEAGIPVFTIDR 88 (268)
T ss_pred HHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHH------HHHHHHHCCCcEEEEcc
Confidence 3555666666777787776543333443 244455566789998886432111011 11334566899998844
No 284
>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=38.22 E-value=69 Score=26.02 Aligned_cols=65 Identities=12% Similarity=0.227 Sum_probs=0.0
Q ss_pred EEEEecc---ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCCCCCC
Q 041485 113 VAKLYWG---DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPSAAHG 178 (179)
Q Consensus 113 ~~~~~~g---~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~~~~ 178 (179)
+..+..| +..+.|.+..+..++++|++-+.--+.+.+--+.+++..+ +...+||+.|..++...+
T Consensus 63 E~d~V~Gg~~kL~~~I~~~~~~~~p~~I~V~ttC~~~~IGdDi~~v~~~~-~~~~~~vi~v~t~gf~g~ 130 (427)
T cd01971 63 ETEIVFGGEDRLRELIKSTLSIIDADLFVVLTGCIAEIIGDDVGAVVSEF-QEGGAPIVYLETGGFKGN 130 (427)
T ss_pred ccceEeCCHHHHHHHHHHHHHhCCCCEEEEEcCCcHHHhhcCHHHHHHHh-hhcCCCEEEEECCCcCcc
No 285
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=38.09 E-value=1.6e+02 Score=21.51 Aligned_cols=71 Identities=13% Similarity=0.053 Sum_probs=41.3
Q ss_pred HHHHHHHHHhhc-CCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQ-KHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~-~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
++.+.+.+.+++ .++.+.+....+++. ...++.....++|-+|+.......... .-..+.+.++|++++..
T Consensus 16 ~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~------~~~~l~~~~iPvv~~~~ 89 (272)
T cd06301 16 LLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATAP------IVKAANAAGIPLVYVNR 89 (272)
T ss_pred HHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHH------HHHHHHHCCCeEEEecC
Confidence 455555666666 676666543334443 344455666789999987543221111 12345778899998854
No 286
>KOG3076 consensus 5'-phosphoribosylglycinamide formyltransferase [Carbohydrate transport and metabolism]
Probab=38.09 E-value=1.5e+02 Score=21.38 Aligned_cols=35 Identities=11% Similarity=0.012 Sum_probs=25.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcC-CCCEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLE-KGDTLYII 52 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~-~~~~l~ll 52 (179)
.+++.|-++++.....|+--+.+--.. .++++.++
T Consensus 6 r~rvavliSGtGsNlqaLid~~r~~~l~~~a~Vvlv 41 (206)
T KOG3076|consen 6 RARVAVLISGTGSNLQALIDATRDGSLGPNADVVLV 41 (206)
T ss_pred ceeEEEEEecCchhHHHHHHhhcCCCcCCCceEEEE
Confidence 578899999998888888777765544 35555444
No 287
>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=37.76 E-value=1.1e+02 Score=19.40 Aligned_cols=63 Identities=8% Similarity=0.086 Sum_probs=38.9
Q ss_pred hhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 105 SKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 105 ~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
+.+.|+.++...........|.+..++.++|+||--..+... .-.|-...+..-...+|++.-
T Consensus 39 l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~~~~~---~~~~~~iRR~Av~~~ipl~T~ 101 (110)
T cd01424 39 LQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPSGKRA---IRDGFSIRRAALEYKVPYFTT 101 (110)
T ss_pred HHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCCCCcc---CccHHHHHHHHHHhCCCEEec
Confidence 345677766543322344779999999999999986543321 112334455666667888743
No 288
>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=37.71 E-value=1.7e+02 Score=21.78 Aligned_cols=73 Identities=21% Similarity=0.117 Sum_probs=43.5
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+.+.+.+.+.+.|.++......+++. ..+++.+...++|-+|+.......... . -+.+....+||+.+-.
T Consensus 15 ~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~-----~-l~~l~~~~ipvV~~~~ 88 (288)
T cd01538 15 IRDRPNFEAALKELGAEVIVQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALAS-----A-VEKAADAGIPVIAYDR 88 (288)
T ss_pred HHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHH-----H-HHHHHHCCCCEEEECC
Confidence 4666677777777888777654444443 345555566789999886532211111 1 1234556799999854
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 89 ~ 89 (288)
T cd01538 89 L 89 (288)
T ss_pred C
Confidence 3
No 289
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=37.47 E-value=1.5e+02 Score=22.36 Aligned_cols=53 Identities=13% Similarity=0.145 Sum_probs=34.5
Q ss_pred eccChhHHHH-HHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 117 YWGDARDKLC-EAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 117 ~~g~~~~~i~-~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
..|....++. ...+++++|.||.=.++.++... ---...+...+||++|.++.
T Consensus 180 ~~gPfs~e~n~al~~~~~i~~lVtK~SG~~Gg~~-----eKi~AA~~lgi~vivI~RP~ 233 (256)
T TIGR00715 180 MRGPFSEELEKALLREYRIDAVVTKASGEQGGEL-----EKVKAAEALGINVIRIARPQ 233 (256)
T ss_pred EeCCCCHHHHHHHHHHcCCCEEEEcCCCCccchH-----HHHHHHHHcCCcEEEEeCCC
Confidence 3454444444 45888999999987665542211 11257888999999996554
No 290
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=37.45 E-value=1.6e+02 Score=21.24 Aligned_cols=72 Identities=18% Similarity=0.155 Sum_probs=41.8
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.++.+.+.+.+++.++++.+....+++. ...++.....++|.+|+......... -....+....+|++.+..
T Consensus 15 ~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~------~~~~~l~~~~ip~V~~~~ 88 (267)
T cd01536 15 QAMNKGAEAAAKELGVELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT------PALKKANAAGIPVVTVDS 88 (267)
T ss_pred HHHHHHHHHHHHhcCceEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH------HHHHHHHHCCCcEEEecC
Confidence 4566666666776787777655444443 23444444457999988754221111 012345667899998854
No 291
>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=37.38 E-value=1.6e+02 Score=21.30 Aligned_cols=69 Identities=13% Similarity=0.177 Sum_probs=40.3
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
...+.+.+.+++.|..+.......++. ..+++.....++|.+|+....... . . ..+.+...++|++++-
T Consensus 16 ~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-~-----~-~~~~~~~~~ipvV~~~ 86 (266)
T cd06282 16 ECVQGIQEEARAAGYSLLLATTDYDAEREADAVETLLRQRVDGLILTVADAAT-S-----P-ALDLLDAERVPYVLAY 86 (266)
T ss_pred HHHHHHHHHHHHCCCEEEEeeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCc-h-----H-HHHHHhhCCCCEEEEe
Confidence 455566666677787777654333433 244555556789999986432111 1 1 1244566788988774
No 292
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=37.30 E-value=1.9e+02 Score=22.07 Aligned_cols=52 Identities=15% Similarity=0.074 Sum_probs=27.5
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccc
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRV 150 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~ 150 (179)
+++...++..++++.......+..+.+....+..++|+|++-..++.+....
T Consensus 120 ~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~~~~ 171 (270)
T PRK06731 120 QQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASE 171 (270)
T ss_pred HHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCcCCHH
Confidence 3444555555655443221122333333333335789999998887764433
No 293
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=37.30 E-value=2e+02 Score=22.41 Aligned_cols=52 Identities=13% Similarity=0.158 Sum_probs=36.7
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
.++....++..|.+.+-++-|+-..++.... |....+-|++..+|+.+++..
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 5677778888887766545555445444433 677788899999999998764
No 294
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=37.15 E-value=1.1e+02 Score=20.77 Aligned_cols=70 Identities=17% Similarity=0.160 Sum_probs=43.2
Q ss_pred hHHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 94 DQDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+++.+.+.+.+.+.|+++++.. .+..-+|++..++ .+.|-||+..-..++.+- -....+....+|++=|
T Consensus 26 l~~i~~~l~~~a~~~g~~v~~~Q--SN~Egelid~I~~a~~~~dgiIINpga~THtSv-----Ai~DAl~~~~~P~VEV 97 (140)
T cd00466 26 LADIEALLRELAAELGVEVEFFQ--SNHEGELIDWIHEARDGADGIIINPGAYTHTSI-----ALRDALAAVSIPVIEV 97 (140)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEe--eCcHHHHHHHHHHhhccCcEEEEcchHHHHHHH-----HHHHHHHcCCCCEEEE
Confidence 35677777788887887776543 4444455554333 258999998654433221 2245667778888766
No 295
>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=36.98 E-value=1.6e+02 Score=21.25 Aligned_cols=74 Identities=18% Similarity=0.168 Sum_probs=39.3
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccC----hhHHHHHHHHhCCCCEEEEecCCCcc--cccccccchhHHHhhcCCCCEE
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGD----ARDKLCEAVEAMKLDSLVMGSRGLGT--IQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~----~~~~i~~~a~~~~~dlvVlg~~~~~~--~~~~~~gs~~~~il~~~~~pVl 168 (179)
.++++.+++.+. +.+.+.+..|. ....+++...+.++|.|.+....... .....+ .....+.+..++||+
T Consensus 112 ~eii~~v~~~~~---~~v~vk~r~~~~~~~~~~~~~~~l~~~Gvd~i~v~~~~~~~~~~~~~~~-~~~~~i~~~~~ipvi 187 (231)
T cd02801 112 AEIVRAVREAVP---IPVTVKIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSGPADW-DYIAEIKEAVSIPVI 187 (231)
T ss_pred HHHHHHHHHhcC---CCEEEEEeeccCCchHHHHHHHHHHHhCCCEEEECCCCHHHcCCCCCCH-HHHHHHHhCCCCeEE
Confidence 355555544433 44444444331 34566677777889999885442111 111111 123456667789988
Q ss_pred EEcC
Q 041485 169 IVKD 172 (179)
Q Consensus 169 vv~~ 172 (179)
....
T Consensus 188 ~~Gg 191 (231)
T cd02801 188 ANGD 191 (231)
T ss_pred EeCC
Confidence 7643
No 296
>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=36.97 E-value=1.1e+02 Score=22.60 Aligned_cols=18 Identities=22% Similarity=0.278 Sum_probs=9.0
Q ss_pred HHHHHHHHhCCCCEEEEe
Q 041485 123 DKLCEAVEAMKLDSLVMG 140 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg 140 (179)
+.+.+.+++.++|+||+.
T Consensus 21 e~l~~~~~~~~~D~vv~~ 38 (224)
T cd07388 21 EKLVGLAPETGADAIVLI 38 (224)
T ss_pred HHHHHHHhhcCCCEEEEC
Confidence 444444544555555554
No 297
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=36.96 E-value=1.8e+02 Score=22.43 Aligned_cols=57 Identities=19% Similarity=0.188 Sum_probs=41.4
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCccccc-ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQR-VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~-~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.-.....+++.|++.+..+|+..+.+...... -.+......+..++++||.+-=++.
T Consensus 27 n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~~~~~~~~~~~A~~~~VPValHLDH~ 84 (284)
T PRK12857 27 NMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGIEYISAMVRTAAEKASVPVALHLDHG 84 (284)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEechhHhhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 34788999999999999999987664322221 2345667788899999998865544
No 298
>PF13155 Toprim_2: Toprim-like
Probab=36.89 E-value=99 Score=18.79 Aligned_cols=37 Identities=27% Similarity=0.313 Sum_probs=27.9
Q ss_pred HHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCCC
Q 041485 9 IFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEKG 46 (179)
Q Consensus 9 ~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~ 46 (179)
........ .++|.+++|.+.....+.+.........+
T Consensus 39 ~~~l~~~~-~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 39 IKFLKENP-YKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHhCC-CCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 33333343 58899999999999999998887776654
No 299
>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=36.89 E-value=1.8e+02 Score=23.08 Aligned_cols=57 Identities=14% Similarity=0.096 Sum_probs=41.9
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCccc-ccc---------------cccchhHHHhhcCCCCEEEEcCCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTI-QRV---------------LLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~-~~~---------------~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.-...+.+++.|++.+..+|+.-+.+.... ... .+......+..++++||.+-=++.
T Consensus 25 n~e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~VPValHLDHg 97 (345)
T cd00946 25 SSSTINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAAHHVRSMAEHYGVPVVLHTDHC 97 (345)
T ss_pred CHHHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 347899999999999999999887652211 211 356677788999999998765544
No 300
>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=36.88 E-value=1.4e+02 Score=20.78 Aligned_cols=43 Identities=19% Similarity=0.253 Sum_probs=28.1
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEe
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMG 140 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg 140 (179)
...+.+.+.+.|+++......+|-.+.|.+..++ ..+|+||..
T Consensus 21 ~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~~~~~~dlVItt 65 (170)
T cd00885 21 AAFLAKELAELGIEVYRVTVVGDDEDRIAEALRRASERADLVITT 65 (170)
T ss_pred HHHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 3456667778888887766666666555555332 358988886
No 301
>PRK06801 hypothetical protein; Provisional
Probab=36.77 E-value=1.9e+02 Score=22.25 Aligned_cols=57 Identities=12% Similarity=-0.066 Sum_probs=43.2
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCccccc-ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQR-VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~-~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.-.....+++.|++.+..+|+..+.+...... ..+......+..++++||.+-=++.
T Consensus 27 n~e~~~avi~AAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~a~~~~vpV~lHlDH~ 84 (286)
T PRK06801 27 DSHFLRALFAAAKQERSPFIINIAEVHFKYISLESLVEAVKFEAARHDIPVVLNLDHG 84 (286)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEeCcchhhcCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 34788999999999999999988765433222 3366788889999999998865544
No 302
>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=36.75 E-value=1e+02 Score=20.91 Aligned_cols=19 Identities=5% Similarity=0.177 Sum_probs=9.3
Q ss_pred HHHHHHhCCCCEEEEecCC
Q 041485 125 LCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 125 i~~~a~~~~~dlvVlg~~~ 143 (179)
..+.++..+...|++...+
T Consensus 121 ~~dl~~~~~~~vilV~~~~ 139 (166)
T TIGR00347 121 TADLIKLLQLPVILVVRVK 139 (166)
T ss_pred HHHHHHHhCCCEEEEECCC
Confidence 3344555555555555443
No 303
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=36.57 E-value=1.2e+02 Score=20.63 Aligned_cols=70 Identities=16% Similarity=0.267 Sum_probs=43.7
Q ss_pred hHHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 94 DQDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+++.+.+.+.+.+.|+++++. ..+..-+|++..++ .++|-||+..-..++.+- -....+....+|++=|
T Consensus 26 l~di~~~~~~~a~~~g~~v~~~--QSN~EGelId~i~~a~~~~dgiIINpga~THtSi-----Al~DAl~~~~~P~vEV 97 (141)
T TIGR01088 26 LEEIVEIIETFAAQLNVELEFF--QSNSEGQLIDKIHEAEGQYDGIIINPGALTHTSV-----ALRDALAAVSLPVVEV 97 (141)
T ss_pred HHHHHHHHHHHHHHcCCEEEEE--eeCcHHHHHHHHHhccccCCEEEEcChHHhhhHH-----HHHHHHHcCCCCEEEE
Confidence 3566777778888778776654 44555555555444 247999998654443221 1244567778888766
No 304
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=36.14 E-value=1.8e+02 Score=22.42 Aligned_cols=57 Identities=9% Similarity=0.122 Sum_probs=41.5
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCccc-ccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTI-QRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~-~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.-...+.+++.|++.+..+|+.-+.+.... ..-++......+.+++++||-+-=++.
T Consensus 27 n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~a~~~~VPValHLDH~ 84 (284)
T PRK12737 27 NLETLQVVVETAAELRSPVILAGTPGTFSYAGTDYIVAIAEVAARKYNIPLALHLDHH 84 (284)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEcCccHHhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 347889999999999999999876543221 112355677889999999998865544
No 305
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=36.13 E-value=1.4e+02 Score=21.66 Aligned_cols=58 Identities=16% Similarity=0.080 Sum_probs=42.1
Q ss_pred HHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhH
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSN 157 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~ 157 (179)
...+.+..++.|..+-..+..|.+.+.|..++.. .|++.+=+-..+...+.|+.+...
T Consensus 101 ~~~lv~~ir~~Gmk~G~alkPgT~Ve~~~~~~~~--~D~vLvMtVePGFGGQkFme~mm~ 158 (224)
T KOG3111|consen 101 PAELVEKIREKGMKVGLALKPGTPVEDLEPLAEH--VDMVLVMTVEPGFGGQKFMEDMMP 158 (224)
T ss_pred HHHHHHHHHHcCCeeeEEeCCCCcHHHHHHhhcc--ccEEEEEEecCCCchhhhHHHHHH
Confidence 4456677778888888888889999999999987 787776665555555666655333
No 306
>COG1926 Predicted phosphoribosyltransferases [General function prediction only]
Probab=35.99 E-value=1.8e+02 Score=21.46 Aligned_cols=119 Identities=12% Similarity=0.065 Sum_probs=63.4
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcc-cccccC--CCCCCCCCch----hhhhHHHHHHhhh
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDES-RNLLWS--DTGSPLIPLE----EFRDQEVMKQYEV 91 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~-~~~~~~--~~~~~~~~~~----~~~~~~~~~~~~~ 91 (179)
+.|+.++-. ..+--|.++|+..++++.++-|.....+.. .+.+.. .+|....... .....+..+...+
T Consensus 26 ~~iVlaLpR-----GGvpva~evA~~lga~ldvliVrKiG~P~n~E~aiGAvae~g~~v~n~~~~~~~~i~~~~i~~~~~ 100 (220)
T COG1926 26 DVIVLALPR-----GGVPVAFEVAQALGAPLDVLIVRKIGAPGNPELAIGAVAEGGDVVLNYDVVRSLGIDDAYIEAAAA 100 (220)
T ss_pred CcEEEEecC-----CCchHHHHHHHHhCCCeeEEEEeecCCCCCchhceeeeccCCcEecchhhhhhccCCHHHHHHHHH
Confidence 446666643 367888999999999999999977543211 111111 1110011111 1112344444444
Q ss_pred hhhHHHHHHHHHHhhcCC---ceEEEE--Eec----cChhHHHHHHHHhCCCCEEEEecC
Q 041485 92 DLDQDVLDMLDAASKQKH---VSVVAK--LYW----GDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~---~~~~~~--~~~----g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
++.+++.+.-....+... .+..+. +.. |.....-++.++..++.-||+...
T Consensus 101 ~e~~El~rrr~~yr~~~~~~~~~g~~VIlVDDGiATGatm~aAi~~~r~~~~~~IviAVP 160 (220)
T COG1926 101 RERKELLRRREAYRGGRPVPSLKGRTVILVDDGIATGATMKAAVRALRAKGPKEIVIAVP 160 (220)
T ss_pred HHHHHHHHHHHHHcCCCCCCCCCCCEEEEEeCCcchhHHHHHHHHHHHhcCCceEEEEcc
Confidence 444454444444433332 233332 222 455667778899999999998754
No 307
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=35.94 E-value=82 Score=26.42 Aligned_cols=25 Identities=4% Similarity=0.108 Sum_probs=14.0
Q ss_pred cChhHHHHHHHH-hCCCCEEEEecCC
Q 041485 119 GDARDKLCEAVE-AMKLDSLVMGSRG 143 (179)
Q Consensus 119 g~~~~~i~~~a~-~~~~dlvVlg~~~ 143 (179)
|+-...+++.++ +.++++|.+...+
T Consensus 101 GDDi~~v~~~~~~~~~~pVi~v~t~~ 126 (513)
T CHL00076 101 QEDLQNFVDRASIESDSDVILADVNH 126 (513)
T ss_pred hcCHHHHHHHhhcccCCCEEEeCCCC
Confidence 555555555554 3556666666553
No 308
>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=35.84 E-value=74 Score=19.46 Aligned_cols=43 Identities=21% Similarity=0.326 Sum_probs=25.5
Q ss_pred HHHHHHhhcCCceEEEEEecc-ChhHHHH-HHHHhCCCCEEEEecCC
Q 041485 99 DMLDAASKQKHVSVVAKLYWG-DARDKLC-EAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g-~~~~~i~-~~a~~~~~dlvVlg~~~ 143 (179)
+.+.+.+.+.|+++.++.... .+...+. +.+.. +|++|+....
T Consensus 18 e~L~~aA~~~G~~i~VE~qg~~g~~~~lt~~~i~~--Ad~viia~d~ 62 (85)
T TIGR00829 18 EALEKAAKKRGWEVKVETQGSVGAQNALTAEDIAA--ADGVILAADR 62 (85)
T ss_pred HHHHHHHHHCCCeEEEEecCCcCccCCCCHHHHHh--CCEEEEeccC
Confidence 445566677787777665432 2223332 33555 8999998664
No 309
>PF05716 AKAP_110: A-kinase anchor protein 110 kDa (AKAP 110); InterPro: IPR018292 This family consists of several mammalian protein kinase A anchoring protein 3 (PRKA3) or A-kinase anchor protein 110 kDa (AKAP 110) sequences. Agents that increase intracellular cAMP are potent stimulators of sperm motility. Anchoring inhibitor peptides, designed to disrupt the interaction of the cAMP-dependent protein kinase A (PKA) with A kinase-anchoring proteins (AKAPs), are potent inhibitors of sperm motility. PKA anchoring is a key biochemical mechanism controlling motility. AKAP110 shares compartments with both RI and RII isoforms of PKA and may function as a regulator of both motility- and head-associated functions such as capacitation and the acrosome reaction []. This entry represents a sub group of the A-kinase anschor 110kDa protein.
Probab=35.81 E-value=1e+02 Score=26.22 Aligned_cols=78 Identities=13% Similarity=0.073 Sum_probs=50.2
Q ss_pred CeEEEeecCCc-cHH-HHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHH
Q 041485 19 RSIGVALDFSK-GSK-LALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQD 96 (179)
Q Consensus 19 ~~ILv~vd~s~-~s~-~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (179)
..++|..+... ... .-|+.++++.......|-.+|+..... ...+
T Consensus 587 ~~liVnN~~~~~~v~d~QLrAVLQWIAASEl~VP~LYF~~~~e---------------------------------~~le 633 (685)
T PF05716_consen 587 PLLIVNNDDLTDCVQDKQLRAVLQWIAASELNVPMLYFRKDDE---------------------------------GNLE 633 (685)
T ss_pred CeEEEEecCCCCCCCcHHHHHHHHHHHHhhcCCceEEEecCcH---------------------------------HHHH
Confidence 34555544433 323 568888887777888888888876641 1123
Q ss_pred HHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLD 135 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~d 135 (179)
-+-.+...+++.+.. .|+...++++|++..+.|
T Consensus 634 KL~qvs~ra~EKgwk------VGDLLQAVLkYcke~Q~d 666 (685)
T PF05716_consen 634 KLPQVSARAREKGWK------VGDLLQAVLKYCKERQLD 666 (685)
T ss_pred HHHHHHHHHHHcCCc------HHHHHHHHHHHHHHHhhh
Confidence 334455555665643 599999999999986544
No 310
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=35.81 E-value=1.4e+02 Score=20.24 Aligned_cols=63 Identities=11% Similarity=-0.006 Sum_probs=36.2
Q ss_pred hhcC-CceEEEEEecc-ChhHHHHHHHHhCCCCEEEEec--CCCcccccccccchhHHHhhcCCCCEEE
Q 041485 105 SKQK-HVSVVAKLYWG-DARDKLCEAVEAMKLDSLVMGS--RGLGTIQRVLLGSVSNHVLANASCPVTI 169 (179)
Q Consensus 105 ~~~~-~~~~~~~~~~g-~~~~~i~~~a~~~~~dlvVlg~--~~~~~~~~~~~gs~~~~il~~~~~pVlv 169 (179)
+++. |++++..+... .-...|.+..++.++|+||--. .++.... --|....+..-...+|++.
T Consensus 45 L~~~~Gi~v~~vi~~~~gg~~~i~~~I~~g~i~lVInt~dp~~~~~~~--~D~~~IRR~Av~~~IP~~T 111 (142)
T PRK05234 45 IQEATGLDVTRLLSGPLGGDQQIGALIAEGKIDMLIFFRDPLTAQPHD--PDVKALLRLADVWNIPVAT 111 (142)
T ss_pred HHhccCCeeEEEEcCCCCCchhHHHHHHcCceeEEEEecCCCCCCccc--chHHHHHHHHHHcCCCEEc
Confidence 3455 88777653220 0236799999999999998754 2222211 1233344555555677654
No 311
>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=35.57 E-value=1.8e+02 Score=21.29 Aligned_cols=72 Identities=13% Similarity=0.039 Sum_probs=41.0
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+.+.+...+++.|.++......+++.+ ..++.+...++|-+|++......... .-..+....+||+++-.
T Consensus 15 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~------~l~~~~~~~ipvV~~~~ 88 (277)
T cd06319 15 QIMGRGVKSKAKALGYDAVELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAVT------LLKLAAQAKIPVVIADI 88 (277)
T ss_pred HHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHH------HHHHHHHCCCCEEEEec
Confidence 35666666777777877655433344432 33334445679999886532211111 12345667899988853
No 312
>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=35.36 E-value=47 Score=19.78 Aligned_cols=34 Identities=18% Similarity=0.143 Sum_probs=22.6
Q ss_pred eEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcc
Q 041485 111 SVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGT 146 (179)
Q Consensus 111 ~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~ 146 (179)
.+......|+.+..-.+ ...++|++|++......
T Consensus 17 ~i~~i~LfGS~arg~~~--~~SDiDl~vi~~~~~~~ 50 (93)
T cd05403 17 GVEKVYLFGSYARGDAR--PDSDIDLLVIFDDPLDP 50 (93)
T ss_pred CccEEEEEeeeecCCCC--CCCCeeEEEEeCCCCCH
Confidence 45555666877665444 45679999999775543
No 313
>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=35.27 E-value=1.6e+02 Score=20.86 Aligned_cols=21 Identities=14% Similarity=0.208 Sum_probs=17.4
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q 041485 123 DKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg~~~ 143 (179)
..+..+|++++++.|++|.+.
T Consensus 101 ~~a~~~A~~~g~~~v~~G~~~ 121 (201)
T TIGR00364 101 SIAASYAEALGAEAVITGVCE 121 (201)
T ss_pred HHHHHHHHHCCCCEEEEEecc
Confidence 445688999999999999763
No 314
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=35.22 E-value=2e+02 Score=21.77 Aligned_cols=67 Identities=16% Similarity=0.160 Sum_probs=37.5
Q ss_pred HHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccc--cccchhHH-HhhcCCCCEEEEcCCC
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRV--LLGSVSNH-VLANASCPVTIVKDPS 174 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~--~~gs~~~~-il~~~~~pVlvv~~~~ 174 (179)
+.+.+.+.|++++... .. .+...+.+ +|.+++|...-..-... ..|+..-. +.++..+||+++-...
T Consensus 126 ~a~~L~~~GI~vtli~--Ds---a~~~~m~~--vd~VlvGAd~V~~nG~v~nkvGT~~~Al~A~~~~vPv~V~~~s~ 195 (253)
T PRK06372 126 MAKLLVKSGIDVVLLT--DA---SMCEAVLN--VDAVIVGSDSVLYDGGLIHKNGTFPLALCARYLKKPFYSLTISM 195 (253)
T ss_pred HHHHHHHCCCCEEEEe--hh---HHHHHHHh--CCEEEECccEEecCCCEeehhhHHHHHHHHHHcCCCEEEEeecc
Confidence 3344456688876432 22 22223444 99999998753222222 23554333 4477779999985543
No 315
>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=34.74 E-value=2e+02 Score=22.11 Aligned_cols=57 Identities=11% Similarity=0.121 Sum_probs=42.2
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCccccc-ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQR-VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~-~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.-...+.+++.|++.+..+|+.-+.+.-.... ..+......+.+++++||-+-=+++
T Consensus 25 n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValHLDHg 82 (282)
T TIGR01858 25 NLETIQAVVETAAEMRSPVILAGTPGTFKHAGTEYIVALCSAASTTYNMPLALHLDHH 82 (282)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeCccHHhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 34788999999999999999987664322222 2356678889999999998865544
No 316
>PF01515 PTA_PTB: Phosphate acetyl/butaryl transferase; InterPro: IPR002505 This entry contains both phosphate acetyltransferase 2.3.1.8 from EC: Acetyl-CoA + phosphate = CoA + acetyl phosphate and phosphate butaryltransferase 2.3.1.19 from EC: Butanoyl-CoA + phosphate = CoA + butanoyl phosphate These enzymes catalyse the transfer of an acetyl or butaryl group to orthophosphate.; GO: 0016746 transferase activity, transferring acyl groups, 0008152 metabolic process; PDB: 2AF3_D 1QZT_D 2AF4_D 1VMI_A 3UF6_B 3U9E_A 3TNG_A 4E4R_A 1R5J_A 1YCO_A ....
Probab=34.61 E-value=1.1e+02 Score=24.01 Aligned_cols=49 Identities=14% Similarity=0.013 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhcCCceEEEEEe-ccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLY-WGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
++..+.+.++.+..|++.+..-. ..++...=...++..++|.++.|..+
T Consensus 77 ~~y~~~~~~lr~rKG~~~~~a~~~~~~~~~~a~~mv~~G~aD~lv~G~~~ 126 (319)
T PF01515_consen 77 EEYAEEYYELRQRKGMTPEEARREVRDPNYFAAMMVRLGDADALVKGLIH 126 (319)
T ss_dssp HHHHHHHHHHHTTCTS-HHHHHHHTTSHHHHHHHHHHTTSSSEEEE-SSS
T ss_pred HHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHcCCCCEEecCCCC
Confidence 55666666666666765443111 12666666778999999999999764
No 317
>PTZ00323 NAD+ synthase; Provisional
Probab=34.58 E-value=2.2e+02 Score=22.05 Aligned_cols=40 Identities=8% Similarity=-0.028 Sum_probs=25.3
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCC-CEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKG-DTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~-~~l~ll~v~~~ 57 (179)
.++++|++++.-.|.-++-.+.+.....+ ....++.+..+
T Consensus 46 ~~~vVVglSGGVDSav~aaLa~~alg~~~~~~~~~~~v~~P 86 (294)
T PTZ00323 46 LKGCVTSVSGGIDSAVVLALCARAMRMPNSPIQKNVGLCQP 86 (294)
T ss_pred CCcEEEECCCCHHHHHHHHHHHHHhccccCCceEEEEEECC
Confidence 68899999998888877766666443323 22344444433
No 318
>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=34.35 E-value=1.8e+02 Score=23.89 Aligned_cols=52 Identities=15% Similarity=0.039 Sum_probs=38.0
Q ss_pred hhhhhHHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEec
Q 041485 90 EVDLDQDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGS 141 (179)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~ 141 (179)
..+...+.++.+.+.++..|..+.+.-......+.|.+.+++.+...|+.|.
T Consensus 45 ~~~~ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~k 96 (432)
T TIGR00273 45 VLENLDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSK 96 (432)
T ss_pred HHhhHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 3345567777777777777877665443346677788899999999999984
No 319
>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=34.26 E-value=1.8e+02 Score=21.13 Aligned_cols=70 Identities=11% Similarity=0.152 Sum_probs=40.4
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
....+.+.+.+.+.|.++.......+. ...+.+.....++|-||+...... . . -+.+...++||+++-.
T Consensus 18 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~---~-----~-~~~l~~~~ipvV~~~~ 88 (268)
T cd06277 18 SEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGIST---E-----Y-IKEIKELGIPFVLVDH 88 (268)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCCCh---H-----H-HHHHhhcCCCEEEEcc
Confidence 355555666667778776654433332 223455556678999998653211 1 1 2335566789888854
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 89 ~ 89 (268)
T cd06277 89 Y 89 (268)
T ss_pred C
Confidence 3
No 320
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=34.24 E-value=2.3e+02 Score=22.15 Aligned_cols=72 Identities=8% Similarity=-0.035 Sum_probs=41.7
Q ss_pred HHHHHHHHHhhcCCceEEEEE-eccChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKL-YWGDARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~-~~g~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+.+.+.+.+++.|+.+.+.. ..++... .+++.....++|.|++.......+. .... -+....+||+.+-.
T Consensus 40 ~~~~Gi~~aa~~~G~~v~~~~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~-----~~l~-~a~~~gIpVV~~d~ 113 (336)
T PRK15408 40 SGGNGAKEAGKELGVDVTYDGPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLC-----PALK-RAMQRGVKVLTWDS 113 (336)
T ss_pred HHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHH-----HHHH-HHHHCCCeEEEeCC
Confidence 445556666677787776522 1234433 3555666778999999643322212 1222 24566899999865
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 114 ~ 114 (336)
T PRK15408 114 D 114 (336)
T ss_pred C
Confidence 4
No 321
>PRK07369 dihydroorotase; Provisional
Probab=34.23 E-value=2.5e+02 Score=22.75 Aligned_cols=26 Identities=15% Similarity=0.229 Sum_probs=20.9
Q ss_pred HHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 33 LALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 33 ~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.++..++.+|+..+++++++|+....
T Consensus 214 ~av~r~~~la~~~~~~~hi~HvSs~~ 239 (418)
T PRK07369 214 TALAALLELVAAIGTPVHLMRISTAR 239 (418)
T ss_pred HHHHHHHHHHHHHCCcEEEEeCCCHH
Confidence 45778888888889999999987654
No 322
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=34.19 E-value=1.9e+02 Score=21.35 Aligned_cols=42 Identities=19% Similarity=0.212 Sum_probs=29.3
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+.+++...+.+ ++..++ .|.........+..-++|.+|.|+.
T Consensus 158 ~~lr~~~~~~~-~~~IeV-DGGI~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 158 RELRAMIDERL-DILIEV-DGGINLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred HHHHHHhcccC-CeEEEE-eCCcCHHHHHHHHHcCCCEEEEEEE
Confidence 34444444444 444444 5778888888888889999999984
No 323
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=34.17 E-value=2.3e+02 Score=22.15 Aligned_cols=47 Identities=19% Similarity=0.169 Sum_probs=27.5
Q ss_pred HHhhcCCceEEEEEeccChhHH---HHHHHHhCCCCEEEEecCCCccccc
Q 041485 103 AASKQKHVSVVAKLYWGDARDK---LCEAVEAMKLDSLVMGSRGLGTIQR 149 (179)
Q Consensus 103 ~~~~~~~~~~~~~~~~g~~~~~---i~~~a~~~~~dlvVlg~~~~~~~~~ 149 (179)
.+....++.+.......++... .+..+...++|+|++-+.++.+...
T Consensus 163 ~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~~~~~D~ViIDTaGr~~~~~ 212 (318)
T PRK10416 163 VWGERVGVPVIAQKEGADPASVAFDAIQAAKARGIDVLIIDTAGRLHNKT 212 (318)
T ss_pred HHHHHcCceEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCCcCCH
Confidence 3344445555433222355432 2345667889999999988776544
No 324
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=33.88 E-value=2.2e+02 Score=21.91 Aligned_cols=75 Identities=16% Similarity=0.120 Sum_probs=42.2
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
+..+.+.+.... .+.+-.-+. ++.. -.+.+.+++.++|-+++..........--+-..-..|...++.||++...
T Consensus 64 ~~~~~~~~~~~~-~~pvi~gv~-~~t~~~i~~~~~a~~~Gadav~~~pP~y~~~~~~~i~~~f~~va~~~~lpi~lYn~ 140 (303)
T PRK03620 64 QVVRAAVETTAG-RVPVIAGAG-GGTAQAIEYAQAAERAGADGILLLPPYLTEAPQEGLAAHVEAVCKSTDLGVIVYNR 140 (303)
T ss_pred HHHHHHHHHhCC-CCcEEEecC-CCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHHhCCCCEEEEcC
Confidence 444444444432 344444342 2333 33446788999999988754322222111223446688889999999864
No 325
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=33.86 E-value=91 Score=18.87 Aligned_cols=20 Identities=10% Similarity=0.219 Sum_probs=10.8
Q ss_pred HHHHHHHHhCCCCEEEEecC
Q 041485 123 DKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg~~ 142 (179)
+...+..++.++-+||++..
T Consensus 17 ~~v~kai~~gkaklViiA~D 36 (82)
T PRK13602 17 KQTVKALKRGSVKEVVVAED 36 (82)
T ss_pred HHHHHHHHcCCeeEEEEECC
Confidence 44445555555666666544
No 326
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=33.73 E-value=1.8e+02 Score=20.99 Aligned_cols=73 Identities=18% Similarity=0.171 Sum_probs=48.0
Q ss_pred HHHHHHHHHHhhcCCceEEEE-EeccChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 95 QDVLDMLDAASKQKHVSVVAK-LYWGDARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~-~~~g~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
....+.+.+.+++.+..+.+. ...+++.. ..++.+-..++|.||+........... ..+ +....+||+.+-
T Consensus 14 ~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~-----l~~-~~~~gIpvv~~d 87 (257)
T PF13407_consen 14 QQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPF-----LEK-AKAAGIPVVTVD 87 (257)
T ss_dssp HHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHH-----HHH-HHHTTSEEEEES
T ss_pred HHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHH-----HHH-HhhcCceEEEEe
Confidence 466677778888888888875 44455543 334556677899999987654443322 233 556689999986
Q ss_pred CC
Q 041485 172 DP 173 (179)
Q Consensus 172 ~~ 173 (179)
..
T Consensus 88 ~~ 89 (257)
T PF13407_consen 88 SD 89 (257)
T ss_dssp ST
T ss_pred cc
Confidence 54
No 327
>PF03668 ATP_bind_2: P-loop ATPase protein family; InterPro: IPR005337 This entry represents UPF0042 nucleotide-binding proteins. This is a family of putative P-loop ATPases [], as they contain an ATP-binding site and display ATPase and GTPase activities.; GO: 0005524 ATP binding
Probab=33.65 E-value=2.2e+02 Score=21.93 Aligned_cols=54 Identities=22% Similarity=0.268 Sum_probs=32.8
Q ss_pred HHHHHHHHhh-cCCCCeEEEeecCCc-cHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 5 LNKLIFFFKM-ASNNRSIGVALDFSK-GSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 5 ~~~~~~~~~m-~~~~~~ILv~vd~s~-~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
+.+++.-... ....+++-+++|.-. .....+..++.-.+..+..+.+++.....
T Consensus 37 l~~l~~~~~~~~~~~~~~Ai~iD~R~~~~~~~~~~~~~~l~~~~~~~~ilFLdA~d 92 (284)
T PF03668_consen 37 LPQLIELLAQSNSKIEKVAIVIDIRSREFFEDLFEALDELRKKGIDVRILFLDASD 92 (284)
T ss_pred HHHHHHHHHhcCCCCceEEEEEeCCChHHHHHHHHHHHHHHhcCCceEEEEEECCh
Confidence 4444444431 234789999999744 33444555555555567788888875543
No 328
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=33.60 E-value=1.5e+02 Score=22.80 Aligned_cols=56 Identities=18% Similarity=0.156 Sum_probs=41.7
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCccccc--ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLGTIQR--VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~--~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
-...++|++.|++.+...||=.+.+...... ..+-.....++.+.++||.+--++.
T Consensus 28 lE~~~AileaA~e~~sPvIiq~S~g~~~y~gg~~~~~~~v~~~a~~~~vPV~lHlDHg 85 (286)
T COG0191 28 LETLQAILEAAEEEKSPVIIQFSEGAAKYAGGADSLAHMVKALAEKYGVPVALHLDHG 85 (286)
T ss_pred HHHHHHHHHHHHHhCCCEEEEecccHHHHhchHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 3789999999999999999988765332222 2334567788889999998876554
No 329
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=33.43 E-value=46 Score=27.07 Aligned_cols=23 Identities=17% Similarity=0.343 Sum_probs=20.5
Q ss_pred ChhHHHHHHHHhCCCCEEEEecC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+-.+.|+++|++.++||+|+|..
T Consensus 50 ~~~~~lv~fA~~~~idl~vVGPE 72 (428)
T COG0151 50 TDHEALVAFAKEKNVDLVVVGPE 72 (428)
T ss_pred cCHHHHHHHHHHcCCCEEEECCc
Confidence 45789999999999999999975
No 330
>PRK08392 hypothetical protein; Provisional
Probab=33.41 E-value=1.8e+02 Score=21.05 Aligned_cols=68 Identities=10% Similarity=-0.056 Sum_probs=43.3
Q ss_pred HHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCC
Q 041485 97 VLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCP 166 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~p 166 (179)
..+.+.+.+.+.|..+++......|...+++.+++.+. .+++|+-.+.+..=-.+ ..+..+++.+.++
T Consensus 138 ~~~~i~~~~~~~g~~lEiNt~~~~p~~~~l~~~~~~G~-~~~igSDAH~~~~vg~~-~~a~~~~~~~g~~ 205 (215)
T PRK08392 138 ELKEILDLAEAYGKAFEISSRYRVPDLEFIRECIKRGI-KLTFASDAHRPEDVGNV-SWSLKVFKKAGGK 205 (215)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCCCHHHHHHHHHcCC-EEEEeCCCCChHHCCcH-HHHHHHHHHcCCC
Confidence 34555566667777666655556778889999999886 58999865443210001 2456677776654
No 331
>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=32.97 E-value=1.5e+02 Score=19.56 Aligned_cols=42 Identities=14% Similarity=0.169 Sum_probs=24.7
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEe
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMG 140 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg 140 (179)
..+.+.+++.|.++.......|-.+.|.+..++ .++|+||..
T Consensus 21 ~~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~~~dliitt 64 (135)
T smart00852 21 PALAELLTELGIEVTRYVIVPDDKEAIKEALREALERADLVITT 64 (135)
T ss_pred HHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHhCCCEEEEc
Confidence 345666777887766654445555545444322 248888775
No 332
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=32.61 E-value=1.5e+02 Score=20.15 Aligned_cols=49 Identities=18% Similarity=0.244 Sum_probs=23.4
Q ss_pred HHHHHHHHhCCCCEEEEecCC-CcccccccccchhHHHhhcC-CCCEEEEc
Q 041485 123 DKLCEAVEAMKLDSLVMGSRG-LGTIQRVLLGSVSNHVLANA-SCPVTIVK 171 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg~~~-~~~~~~~~~gs~~~~il~~~-~~pVlvv~ 171 (179)
..+.++++++++|-||+-.+. ++.+.+--.|--.+.++.-. .|+|-++.
T Consensus 51 ~~f~kl~~dy~Vd~VvIk~R~~KGKfAGga~~FKmEaaIQL~~~~~V~lvs 101 (138)
T PF11215_consen 51 FTFAKLMEDYKVDKVVIKERATKGKFAGGAVGFKMEAAIQLIDDVEVELVS 101 (138)
T ss_pred HHHHHHHHHcCCCEEEEEecccCCCccCCchhHHHHHHHHhcCCCcEEEEC
Confidence 344556677777777776442 22221111111334444444 46666664
No 333
>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=32.47 E-value=1.1e+02 Score=17.91 Aligned_cols=35 Identities=23% Similarity=0.266 Sum_probs=26.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
.+.+++.++.+.++...++ +++.++..++++..+.
T Consensus 47 ~~d~~i~iS~sg~t~~~~~-~~~~a~~~g~~ii~it 81 (87)
T cd04795 47 KGDVVIALSYSGRTEELLA-ALEIAKELGIPVIAIT 81 (87)
T ss_pred CCCEEEEEECCCCCHHHHH-HHHHHHHcCCeEEEEe
Confidence 5789999999988877555 5566777788766654
No 334
>PRK13337 putative lipid kinase; Reviewed
Probab=32.34 E-value=2.3e+02 Score=21.68 Aligned_cols=69 Identities=14% Similarity=0.047 Sum_probs=38.2
Q ss_pred HHHHHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc-CCCCEEEEcCC
Q 041485 99 DMLDAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN-ASCPVTIVKDP 173 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~-~~~pVlvv~~~ 173 (179)
..+.+.+++.+.+++..... ..-+..+.+.+.+.+.|.||+..- -+.+.. +...++.. ...|+-++|..
T Consensus 22 ~~~~~~l~~~~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~GG-DGTl~~-----vv~gl~~~~~~~~lgiiP~G 92 (304)
T PRK13337 22 PDVLQKLEQAGYETSAHATTGPGDATLAAERAVERKFDLVIAAGG-DGTLNE-----VVNGIAEKENRPKLGIIPVG 92 (304)
T ss_pred HHHHHHHHHcCCEEEEEEecCCCCHHHHHHHHHhcCCCEEEEEcC-CCHHHH-----HHHHHhhCCCCCcEEEECCc
Confidence 34455667777776654433 344555555555566787776533 333332 33334322 34688888854
No 335
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=32.29 E-value=2.9e+02 Score=22.79 Aligned_cols=82 Identities=11% Similarity=0.079 Sum_probs=45.1
Q ss_pred ecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHH
Q 041485 25 LDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAA 104 (179)
Q Consensus 25 vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (179)
..++--+..+...|.......+..+.++....... ...+.+...
T Consensus 231 ptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~------------------------------------aA~eQLk~y 274 (432)
T PRK12724 231 PTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRI------------------------------------AAIEQLKRY 274 (432)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhh------------------------------------hHHHHHHHH
Confidence 34555566777777766555566666665433221 112244445
Q ss_pred hhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcc
Q 041485 105 SKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGT 146 (179)
Q Consensus 105 ~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~ 146 (179)
+...++.+... .....+.+.++..++|+|++-+.++++
T Consensus 275 Ae~lgvp~~~~----~~~~~l~~~l~~~~~D~VLIDTaGr~~ 312 (432)
T PRK12724 275 ADTMGMPFYPV----KDIKKFKETLARDGSELILIDTAGYSH 312 (432)
T ss_pred HHhcCCCeeeh----HHHHHHHHHHHhCCCCEEEEeCCCCCc
Confidence 55556544321 113455555556778888888766554
No 336
>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=32.20 E-value=2e+02 Score=20.89 Aligned_cols=70 Identities=16% Similarity=0.208 Sum_probs=42.5
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
++...+.+.+++.|.++......+++. ..+++.....++|-+|+....... ..-+-+....+||+++-..
T Consensus 16 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~--------~~~~~~~~~~ipvV~~~~~ 87 (264)
T cd06274 16 RIAKRLEALARERGYQLLIACSDDDPETERETVETLIARQVDALIVAGSLPPD--------DPYYLCQKAGLPVVALDRP 87 (264)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCch--------HHHHHHHhcCCCEEEecCc
Confidence 555556666777787776654444443 356666777889988886542211 1122345667899988543
No 337
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=32.17 E-value=2.4e+02 Score=21.81 Aligned_cols=72 Identities=13% Similarity=0.024 Sum_probs=43.5
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+.+.+.+.+.+.|..+......+++ ....++.....++|-+|+.......... .-+.+.+..+||+++..
T Consensus 41 ~~~~~gi~~~a~~~g~~l~i~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~------~l~~~~~~~iPvV~id~ 114 (330)
T PRK10355 41 QKDRDIFVKKAESLGAKVFVQSANGNEETQMSQIENMINRGVDVLVIIPYNGQVLSN------VIKEAKQEGIKVLAYDR 114 (330)
T ss_pred HHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHH------HHHHHHHCCCeEEEECC
Confidence 466667777778888777764433343 3344555667789999997432211111 12345666799998854
No 338
>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=32.08 E-value=1.4e+02 Score=24.32 Aligned_cols=56 Identities=11% Similarity=0.036 Sum_probs=38.0
Q ss_pred hhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCCCC
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPSAA 176 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~~ 176 (179)
..+.|.+.+++.++|=||.-..........-.......+.....+|+|.+-.+...
T Consensus 338 R~~~l~~l~ke~~aDGVI~~~~~~C~~~~~e~~~~~~~l~e~~GIP~L~iE~D~~d 393 (413)
T TIGR02260 338 RVDLLEKYINEYEADGLLINSIKSCNSFSAGQLLMMREIEKRTGKPAAFIETDLVD 393 (413)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCcchhhhHHHHHHHHHHcCCCEEEEEcCCCC
Confidence 56778999999999999998665443332212223455556689999999655443
No 339
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=31.70 E-value=2.2e+02 Score=21.22 Aligned_cols=69 Identities=14% Similarity=0.139 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhhcCCceEEEEEecc---------ChhHHHHHHHH---hCCCCEEEEecCCCcccccccccchhHHHhhc
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWG---------DARDKLCEAVE---AMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN 162 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g---------~~~~~i~~~a~---~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~ 162 (179)
.+.-+.+.+.+++.|+++......| -..+.|.+.++ .-++|.|++...+...+. +...+=+.
T Consensus 131 ~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifisCTnLrt~~------vi~~lE~~ 204 (239)
T TIGR02990 131 PETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFLSCTALRAAT------CAQRIEQA 204 (239)
T ss_pred HHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEEeCCCchhHH------HHHHHHHH
Confidence 5666677778888887765542221 23455566655 567999999876543322 33455555
Q ss_pred CCCCEEE
Q 041485 163 ASCPVTI 169 (179)
Q Consensus 163 ~~~pVlv 169 (179)
...||+-
T Consensus 205 lGkPVls 211 (239)
T TIGR02990 205 IGKPVVT 211 (239)
T ss_pred HCCCEEE
Confidence 6667653
No 340
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=31.60 E-value=1.2e+02 Score=19.35 Aligned_cols=38 Identities=11% Similarity=0.219 Sum_probs=29.9
Q ss_pred CCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEe
Q 041485 17 NNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIK 55 (179)
Q Consensus 17 ~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~ 55 (179)
....+++.++.+..+...++.+. .++..+.++.++.-.
T Consensus 52 ~~~d~vi~is~sg~~~~~~~~~~-~ak~~g~~vi~iT~~ 89 (131)
T PF01380_consen 52 DPDDLVIIISYSGETRELIELLR-FAKERGAPVILITSN 89 (131)
T ss_dssp STTEEEEEEESSSTTHHHHHHHH-HHHHTTSEEEEEESS
T ss_pred cccceeEeeeccccchhhhhhhH-HHHhcCCeEEEEeCC
Confidence 36899999999999988777666 888899988555543
No 341
>PRK09061 D-glutamate deacylase; Validated
Probab=31.56 E-value=3.1e+02 Score=22.95 Aligned_cols=52 Identities=17% Similarity=0.091 Sum_probs=32.7
Q ss_pred HHHHHHHHhhcCCCCeEEEeecCCc-----cHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 5 LNKLIFFFKMASNNRSIGVALDFSK-----GSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 5 ~~~~~~~~~m~~~~~~ILv~vd~s~-----~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
+..+...-.+.+ ..|.+-++... ....+++.++++++..+.++++.|+....
T Consensus 201 L~~l~~~A~~~g--~~v~~H~e~~~~~~~~~e~~av~~~i~lA~~~G~rv~IsHlss~g 257 (509)
T PRK09061 201 YLELARLAARAG--VPTYTHVRYLSNVDPRSSVDAYQELIAAAAETGAHMHICHVNSTS 257 (509)
T ss_pred HHHHHHHHHHcC--CEEEEEecCcccCCchhHHHHHHHHHHHHHHhCCCEEEEeeccCC
Confidence 334444444443 45555555432 13467888899998888889888886653
No 342
>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=31.51 E-value=1.9e+02 Score=22.09 Aligned_cols=57 Identities=21% Similarity=0.154 Sum_probs=41.8
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCccccc-ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQR-VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~-~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
.-...+.+++.|++.+..+|+--+.+...... ..+......+..++++||.+-=++.
T Consensus 22 n~e~~~avi~AAe~~~sPvIi~~~~~~~~~~~~~~~~~~~~~~a~~~~VPV~lHLDH~ 79 (276)
T cd00947 22 NLETLKAILEAAEETRSPVILQISEGAIKYAGLELLVAMVKAAAERASVPVALHLDHG 79 (276)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 34789999999999999998877654322222 2356677788889999998875554
No 343
>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=31.49 E-value=2.6e+02 Score=21.97 Aligned_cols=68 Identities=19% Similarity=0.232 Sum_probs=33.7
Q ss_pred HHHHHHHhhcCCceEEEEEeccC----hhHHHHHHHHhCCCCEEE-EecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 98 LDMLDAASKQKHVSVVAKLYWGD----ARDKLCEAVEAMKLDSLV-MGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~g~----~~~~i~~~a~~~~~dlvV-lg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+.+.+.+++.++.+.+.+..|. ....+.+.+++.++|.|| +|.-. .+ ..+.-+......|++.||.
T Consensus 38 ~~~v~~~l~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs--~~------D~aK~ia~~~~~p~i~VPT 109 (349)
T cd08550 38 RPRFEAALAKSIIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGGK--TL------DTAKAVADRLDKPIVIVPT 109 (349)
T ss_pred HHHHHHHHHhcCCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCcH--HH------HHHHHHHHHcCCCEEEeCC
Confidence 34455555555655544444443 234455667777788766 44211 11 1112222233577877775
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 110 t 110 (349)
T cd08550 110 I 110 (349)
T ss_pred c
Confidence 4
No 344
>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=31.47 E-value=2.1e+02 Score=20.93 Aligned_cols=70 Identities=14% Similarity=0.173 Sum_probs=41.3
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
.+.+.+.+.+++.|.++.+.....+..+.+.+.....++|-||+-..... . ..-+-+...++||+++...
T Consensus 27 ~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~--~------~~~~~~~~~~ipvV~~~~~ 96 (275)
T cd06295 27 SLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ--D------PLPERLAETGLPFVVWGRP 96 (275)
T ss_pred HHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC--h------HHHHHHHhCCCCEEEECCc
Confidence 45555666677778776654433333456666666778998777432211 1 1123456678999988543
No 345
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=31.37 E-value=96 Score=23.45 Aligned_cols=53 Identities=11% Similarity=0.143 Sum_probs=37.7
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCCCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPSAA 176 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~~ 176 (179)
--.+.+.++.+++++|+||=.+|.... ..+.++-++.+...+|.+-..+++..
T Consensus 53 l~~e~l~~~l~e~~i~llIDATHPyAa----~iS~Na~~aake~gipy~r~eRP~~~ 105 (257)
T COG2099 53 LGAEGLAAFLREEGIDLLIDATHPYAA----RISQNAARAAKETGIPYLRLERPPWA 105 (257)
T ss_pred CCHHHHHHHHHHcCCCEEEECCChHHH----HHHHHHHHHHHHhCCcEEEEECCccc
Confidence 456788888888888888887774321 24567777888888888887655543
No 346
>PRK06850 hypothetical protein; Provisional
Probab=31.24 E-value=3.2e+02 Score=23.05 Aligned_cols=38 Identities=18% Similarity=0.196 Sum_probs=26.4
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCC-----CCEEEEEEEeC
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEK-----GDTLYIIHIKL 56 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~-----~~~l~ll~v~~ 56 (179)
+.+.|++++...|..++..+.+..... ..++++++...
T Consensus 35 ~P~vV~fSGGKDStavL~Lv~~Al~~lp~e~r~k~v~Vi~~DT 77 (507)
T PRK06850 35 RPWVIGYSGGKDSTAVLQLVWNALAGLPPEKRTKPVYVISSDT 77 (507)
T ss_pred CCeEEeCCCCchHHHHHHHHHHHHHhcchhccCCcEEEEECCC
Confidence 557899999999999988887654321 23566666544
No 347
>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=31.20 E-value=2.4e+02 Score=21.48 Aligned_cols=66 Identities=12% Similarity=0.271 Sum_probs=37.2
Q ss_pred HHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc---CCCCEEEEcCC
Q 041485 102 DAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN---ASCPVTIVKDP 173 (179)
Q Consensus 102 ~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~---~~~pVlvv~~~ 173 (179)
.+.+++.+++++..... ..-+..+.+.+...+.|.||+. -+-+.+.. +...++.+ .++|+-++|-.
T Consensus 20 ~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vv~~-GGDGTi~e-----v~ngl~~~~~~~~~~lgiiP~G 89 (293)
T TIGR03702 20 VGDLRDEGIQLHVRVTWEKGDAQRYVAEALALGVSTVIAG-GGDGTLRE-----VATALAQIRDDAAPALGLLPLG 89 (293)
T ss_pred HHHHHHCCCeEEEEEecCCCCHHHHHHHHHHcCCCEEEEE-cCChHHHH-----HHHHHHhhCCCCCCcEEEEcCC
Confidence 34556667776654332 3446667766656667877764 33333332 33445432 34688888853
No 348
>TIGR01334 modD putative molybdenum utilization protein ModD. The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.
Probab=31.19 E-value=2.4e+02 Score=21.60 Aligned_cols=34 Identities=12% Similarity=0.092 Sum_probs=23.6
Q ss_pred CceEEEEEeccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 109 HVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 109 ~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
..++...+.-|-..+.+..|++. ++|.+++|+-.
T Consensus 233 ~~~~~leasGGI~~~ni~~ya~~-GvD~is~gal~ 266 (277)
T TIGR01334 233 DHIPTLAAAGGINPENIADYIEA-GIDLFITSAPY 266 (277)
T ss_pred CCCEEEEEECCCCHHHHHHHHhc-CCCEEEeCcce
Confidence 33445545456667788888776 69999999753
No 349
>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=31.15 E-value=2.1e+02 Score=20.93 Aligned_cols=78 Identities=8% Similarity=0.005 Sum_probs=47.5
Q ss_pred hhHHHHHHHHHHhhcCCceEEEEEeccCh----------hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc
Q 041485 93 LDQDVLDMLDAASKQKHVSVVAKLYWGDA----------RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN 162 (179)
Q Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~----------~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~ 162 (179)
...+.+..+.+.+++.++.+-.+...-+. .....+.+.+.++|.|=...... .....---....+++..
T Consensus 109 ~~~~~i~~v~~~~~~~gl~vIlE~~l~~~~~~~~~~~~~I~~a~ria~e~GaD~vKt~tg~~-~~~t~~~~~~~~~~~~~ 187 (236)
T PF01791_consen 109 EVIEEIAAVVEECHKYGLKVILEPYLRGEEVADEKKPDLIARAARIAAELGADFVKTSTGKP-VGATPEDVELMRKAVEA 187 (236)
T ss_dssp HHHHHHHHHHHHHHTSEEEEEEEECECHHHBSSTTHHHHHHHHHHHHHHTT-SEEEEE-SSS-SCSHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHhcCCcEEEEEEecCchhhcccccHHHHHHHHHHHHHhCCCEEEecCCcc-ccccHHHHHHHHHHHHh
Confidence 34566677888888888877666332212 24555678889999998876522 11111112345678888
Q ss_pred CCCC----EEEEc
Q 041485 163 ASCP----VTIVK 171 (179)
Q Consensus 163 ~~~p----Vlvv~ 171 (179)
++|| |.+-.
T Consensus 188 ~~~p~~~~Vk~sG 200 (236)
T PF01791_consen 188 APVPGKVGVKASG 200 (236)
T ss_dssp HSSTTTSEEEEES
T ss_pred cCCCcceEEEEeC
Confidence 8899 77654
No 350
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=31.10 E-value=2.5e+02 Score=21.79 Aligned_cols=63 Identities=13% Similarity=0.188 Sum_probs=35.9
Q ss_pred HHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccc--cccch-hHHHhhcCCCCEEEEcC
Q 041485 103 AASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRV--LLGSV-SNHVLANASCPVTIVKD 172 (179)
Q Consensus 103 ~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~--~~gs~-~~~il~~~~~pVlvv~~ 172 (179)
+.+.+.|++++.... + .+...+.+ +|.+++|...-..-... ..|+. ..-+.++...||+++-+
T Consensus 165 ~~L~~~GI~vtlI~D-s----av~~~m~~--vd~VivGAd~v~~nG~v~nkiGT~~~A~~Ak~~~vPv~V~a~ 230 (310)
T PRK08535 165 KELAEYGIPVTLIVD-S----AVRYFMKD--VDKVVVGADAITANGAVINKIGTSQIALAAHEARVPFMVAAE 230 (310)
T ss_pred HHHHHCCCCEEEEeh-h----HHHHHHHh--CCEEEECccEEecCCCEEeHHhHHHHHHHHHHhCCCEEEecc
Confidence 344566888775442 2 22223344 99999998743222222 23443 33345677899999844
No 351
>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=30.97 E-value=1.4e+02 Score=22.03 Aligned_cols=51 Identities=14% Similarity=0.225 Sum_probs=30.5
Q ss_pred hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcC-CCCEEEEcCCCC
Q 041485 122 RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANA-SCPVTIVKDPSA 175 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~-~~pVlvv~~~~~ 175 (179)
...+.+.|.+.+.|.+++|.+..-. . -+..+...+-+.. +.||++-|....
T Consensus 14 ~~~~~~~~~~~gtdai~vGGS~~v~-~--~~~~~~~~ik~~~~~~Pvilfp~~~~ 65 (219)
T cd02812 14 DEEIAKLAEESGTDAIMVGGSDGVS-S--TLDNVVRLIKRIRRPVPVILFPSNPE 65 (219)
T ss_pred HHHHHHHHHhcCCCEEEECCccchh-h--hHHHHHHHHHHhcCCCCEEEeCCCcc
Confidence 4567777887889999999764221 1 1222323233333 389999887653
No 352
>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=30.93 E-value=2.2e+02 Score=20.98 Aligned_cols=71 Identities=20% Similarity=0.077 Sum_probs=42.1
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.+.+.+.+.+++.|..+.+....+++. ...++.+...++|-||+......... .... -+....+||+++-.
T Consensus 16 ~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~-----~~i~-~~~~~~iPvV~~~~ 88 (272)
T cd06313 16 QGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLT-----EAVQ-KAIARGIPVIDMGT 88 (272)
T ss_pred HHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhH-----HHHH-HHHHCCCcEEEeCC
Confidence 555666667777888777654444443 34455566788999999643211111 1112 24456889999854
No 353
>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=30.91 E-value=2.1e+02 Score=20.88 Aligned_cols=72 Identities=11% Similarity=0.034 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
....+.+.+.+++.|.++......++.. ..+++.....++|-+|+.......... . -+.+....+||+++-.
T Consensus 15 ~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~-----~-i~~~~~~~iPvV~~~~ 88 (273)
T cd06309 15 TAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDP-----V-LKEAKAAGIPVILVDR 88 (273)
T ss_pred HHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchH-----H-HHHHHHCCCCEEEEec
Confidence 4666777788888888877644333333 344555666789999986532211111 1 1335566899999864
No 354
>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=30.69 E-value=1.1e+02 Score=21.62 Aligned_cols=9 Identities=11% Similarity=0.316 Sum_probs=4.8
Q ss_pred EEEEecCCC
Q 041485 136 SLVMGSRGL 144 (179)
Q Consensus 136 lvVlg~~~~ 144 (179)
.++.|.+..
T Consensus 80 ~~~~GNHD~ 88 (223)
T cd00840 80 FIIAGNHDS 88 (223)
T ss_pred EEecCCCCC
Confidence 445666653
No 355
>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=30.64 E-value=1.2e+02 Score=24.27 Aligned_cols=26 Identities=12% Similarity=0.381 Sum_probs=15.7
Q ss_pred cChhHHHHHHHH-hCCCCEEEEecCCC
Q 041485 119 GDARDKLCEAVE-AMKLDSLVMGSRGL 144 (179)
Q Consensus 119 g~~~~~i~~~a~-~~~~dlvVlg~~~~ 144 (179)
|+-.+.+++.++ +.++.++.+...+.
T Consensus 103 GdDi~~v~~~~~~~~~~~vi~v~t~gf 129 (406)
T cd01967 103 GDDIEAVAKEASKELGIPVIPVNCEGF 129 (406)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCCe
Confidence 555566655544 45677777766543
No 356
>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=30.58 E-value=1.8e+02 Score=19.83 Aligned_cols=74 Identities=18% Similarity=0.186 Sum_probs=44.5
Q ss_pred HHHHHHHHHHhhcCCc---eEEEEEecc--ChhHHHHHHHHhCCCCEEE-Eec--CCCcccccccccchhHHHhh---cC
Q 041485 95 QDVLDMLDAASKQKHV---SVVAKLYWG--DARDKLCEAVEAMKLDSLV-MGS--RGLGTIQRVLLGSVSNHVLA---NA 163 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~---~~~~~~~~g--~~~~~i~~~a~~~~~dlvV-lg~--~~~~~~~~~~~gs~~~~il~---~~ 163 (179)
..+++.+.+.+...|+ ++++.-..| ...-.+-..++..++|.+| +|. ++.+...++.-.+++..+++ +.
T Consensus 19 ~~ll~~a~~~l~~~g~~~~~i~~~~VPGa~ElP~a~~~l~~~~~~Davi~lG~VI~G~T~H~~~v~~~v~~gl~~lsl~~ 98 (144)
T PF00885_consen 19 DRLLEGALEELKRHGVAEENIEVIRVPGAFELPLAAKRLAESGRYDAVIALGCVIRGETDHFEYVANAVSRGLMDLSLEY 98 (144)
T ss_dssp HHHHHHHHHHHHHTTTTGGCEEEEEESSGGGHHHHHHHHHHCSTESEEEEEEEEE--SSTHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCccceEEEEcCCHHHHHHHHHHHhcccCccEEEEeccccCCCchHHHHHHHHHHHHHHHHhccC
Confidence 4666667777777776 677766667 4556666778888888766 452 66665555544445544443 23
Q ss_pred CCCEE
Q 041485 164 SCPVT 168 (179)
Q Consensus 164 ~~pVl 168 (179)
..||.
T Consensus 99 ~~PV~ 103 (144)
T PF00885_consen 99 GIPVI 103 (144)
T ss_dssp TSEEE
T ss_pred CccEE
Confidence 45654
No 357
>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=30.58 E-value=2.6e+02 Score=21.78 Aligned_cols=33 Identities=12% Similarity=-0.052 Sum_probs=18.2
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLY 50 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ 50 (179)
.++|-+..+.+.......+.....++..+.++.
T Consensus 140 ~~kvaiv~~~~~~g~~~~~~~~~~~~~~G~~vv 172 (351)
T cd06334 140 GKKIALVYHDSPFGKEPIEALKALAEKLGFEVV 172 (351)
T ss_pred CCeEEEEeCCCccchhhHHHHHHHHHHcCCeee
Confidence 466666666555555555555555555554443
No 358
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=30.56 E-value=47 Score=28.02 Aligned_cols=22 Identities=14% Similarity=0.336 Sum_probs=19.8
Q ss_pred ChhHHHHHHHHhCCCCEEEEec
Q 041485 120 DARDKLCEAVEAMKLDSLVMGS 141 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~ 141 (179)
...++|+..|++++.|||++|.
T Consensus 39 ~tFeEIl~iA~e~~VDmiLlGG 60 (646)
T KOG2310|consen 39 VTFEEILEIAQENDVDMILLGG 60 (646)
T ss_pred HHHHHHHHHHHhcCCcEEEecC
Confidence 3568999999999999999996
No 359
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=30.49 E-value=1.9e+02 Score=23.12 Aligned_cols=50 Identities=12% Similarity=0.217 Sum_probs=35.9
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
......-++.+++.++|.|.|.-.- .....+ ....++++..++||+++..
T Consensus 33 a~ng~~a~~~~~~~~PDVi~ld~em-p~mdgl---~~l~~im~~~p~pVimvss 82 (350)
T COG2201 33 ARNGREAIDKVKKLKPDVITLDVEM-PVMDGL---EALRKIMRLRPLPVIMVSS 82 (350)
T ss_pred cCCHHHHHHHHHhcCCCEEEEeccc-ccccHH---HHHHHHhcCCCCcEEEEec
Confidence 3455666777888899999998652 223322 3457899999999999965
No 360
>PRK13606 LPPG:FO 2-phospho-L-lactate transferase; Provisional
Probab=30.48 E-value=1.1e+02 Score=23.78 Aligned_cols=46 Identities=20% Similarity=0.406 Sum_probs=30.0
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-Cccccc-ccccchhHHHhhcCCCCEEEE
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-LGTIQR-VLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-~~~~~~-~~~gs~~~~il~~~~~pVlvv 170 (179)
.+..+.++...+ +|+||+|..+ .+...- +...-+.+.+ ++.||+.|
T Consensus 174 ~a~p~vl~AI~~--AD~IiiGPgnp~TSI~P~L~v~gi~eAL---~~a~vV~V 221 (303)
T PRK13606 174 KPAPGVLEAIEE--ADAVIIGPSNPVTSIGPILAVPGIREAL---TEAPVVAV 221 (303)
T ss_pred CCCHHHHHHHHh--CCEEEECCCccHHhhchhccchhHHHHH---hCCCEEEE
Confidence 467788888888 9999999763 222222 3344455555 77888844
No 361
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=30.47 E-value=2.8e+02 Score=22.14 Aligned_cols=57 Identities=18% Similarity=0.123 Sum_probs=40.7
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCccc-cc---cc------------ccchhHHHhhcCCCCEEEEcCCCC
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLGTI-QR---VL------------LGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~~~-~~---~~------------~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
-.....+++.|++.+..+|+..+.+.... .. .. +......+.+++++||.+-=++..
T Consensus 31 ~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~VPValHLDHg~ 103 (350)
T PRK09197 31 TDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGVKDDGQGAAVLGAIAGAKHVHEVAEHYGVPVILHTDHCA 103 (350)
T ss_pred HHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCCCCEEEECCCCC
Confidence 47889999999999999999876642221 10 11 345677888999999988755543
No 362
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=30.36 E-value=1.8e+02 Score=19.76 Aligned_cols=41 Identities=22% Similarity=0.146 Sum_probs=25.4
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHh----CCCCEEEEe
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEA----MKLDSLVMG 140 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~----~~~dlvVlg 140 (179)
.+...+++.|.++.......|-.+.|.+..++ .++|+||..
T Consensus 24 ~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVitt 68 (152)
T cd00886 24 ALVELLEEAGHEVVAYEIVPDDKDEIREALIEWADEDGVDLILTT 68 (152)
T ss_pred HHHHHHHHcCCeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 45666777888766655555444555544332 269999886
No 363
>TIGR00421 ubiX_pad polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases. In E.coli, the protein UbiX (3-octaprenyl-4-hydroxybenzoate carboxy-lyase) has been shown to be involved in the third step of ubiquinone biosynthesis. It catalyzes the reaction [3-octaprenyl-4-hydroxybenzoate = 2-octaprenylphenol + CO2]. The knockout of the homologous protein in yeast confers sensitivity to phenylacrylic acid. Members are not restricted to ubiquinone-synthesizing species. This family represents a distinct clade within the flavoprotein family of Pfam model pfam02441.
Probab=30.35 E-value=90 Score=22.12 Aligned_cols=34 Identities=15% Similarity=0.041 Sum_probs=26.3
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEE
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHI 54 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v 54 (179)
+|++++.++-.+.++.+....+.+ .+.+++++.-
T Consensus 1 ~illgvtGsiaa~ka~~lir~L~~-~g~~V~vv~T 34 (181)
T TIGR00421 1 RIVVAMTGASGVIYGIRLLEVLKE-AGVEVHLVIS 34 (181)
T ss_pred CEEEEEECHHHHHHHHHHHHHHHH-CCCEEEEEEC
Confidence 589999999999999998888754 4666655543
No 364
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=30.21 E-value=1.4e+02 Score=24.04 Aligned_cols=26 Identities=23% Similarity=0.521 Sum_probs=15.9
Q ss_pred cChhHHHHHHHH-hCCCCEEEEecCCC
Q 041485 119 GDARDKLCEAVE-AMKLDSLVMGSRGL 144 (179)
Q Consensus 119 g~~~~~i~~~a~-~~~~dlvVlg~~~~ 144 (179)
|+-.+.+++.++ +.++.++.+.+.+.
T Consensus 102 GdDi~~v~~~~~~~~~~~vi~v~t~gf 128 (410)
T cd01968 102 GDDIDAVCKTASEKFGIPVIPVHSPGF 128 (410)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCCc
Confidence 656666666554 34677777766553
No 365
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=30.10 E-value=1.7e+02 Score=22.02 Aligned_cols=50 Identities=16% Similarity=0.242 Sum_probs=33.7
Q ss_pred cChhHHHH-HHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 119 GDARDKLC-EAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 119 g~~~~~i~-~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
|....++. ...++.++|.||.-.++..+... --...+...+||+++.++.
T Consensus 175 gPfs~e~n~aL~~~~~i~~lVtK~SG~~g~~e------Ki~AA~~lgi~vivI~RP~ 225 (248)
T PRK08057 175 GPFSLELERALLRQHRIDVVVTKNSGGAGTEA------KLEAARELGIPVVMIARPA 225 (248)
T ss_pred CCCCHHHHHHHHHHcCCCEEEEcCCCchhhHH------HHHHHHHcCCeEEEEeCCC
Confidence 43344444 45888999999987665442222 1367889999999997554
No 366
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=30.09 E-value=2.3e+02 Score=20.98 Aligned_cols=38 Identities=21% Similarity=0.215 Sum_probs=28.3
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQG 59 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~ 59 (179)
+++.+|.+++...|...+-||.+ .+..++.+++....+
T Consensus 2 ~~kavvl~SGG~DStt~l~~a~~----~~~ev~alsfdYGQr 39 (222)
T COG0603 2 MKKAVVLLSGGLDSTTCLAWAKK----EGYEVHALTFDYGQR 39 (222)
T ss_pred CceEEEEccCChhHHHHHHHHHh----cCCEEEEEEeeCCCC
Confidence 46778888888888877777665 557888888877654
No 367
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=30.09 E-value=2.4e+02 Score=21.27 Aligned_cols=38 Identities=11% Similarity=0.053 Sum_probs=23.4
Q ss_pred hhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+.+.+.... +|++|.. .+.+- .. +-.+.+|++++|.
T Consensus 231 ~~~~m~~lm~~--aDl~Is~-~G~T~----------~E-~~a~g~P~i~i~~ 268 (279)
T TIGR03590 231 DVENMAELMNE--ADLAIGA-AGSTS----------WE-RCCLGLPSLAICL 268 (279)
T ss_pred CHHHHHHHHHH--CCEEEEC-CchHH----------HH-HHHcCCCEEEEEe
Confidence 34567778888 8999884 22221 12 2244688888864
No 368
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=29.93 E-value=2.6e+02 Score=21.56 Aligned_cols=78 Identities=18% Similarity=0.159 Sum_probs=46.1
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
+..+.+.+.... .+.+-.-+...+. +.++.+.|++.++|-+++-..-.....+--+=..-..|+..++.|+++...+
T Consensus 61 ~v~~~~v~~~~g-rvpviaG~g~~~t~eai~lak~a~~~Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~~lPvilYN~P 139 (299)
T COG0329 61 EVLEAVVEAVGG-RVPVIAGVGSNSTAEAIELAKHAEKLGADGILVVPPYYNKPSQEGLYAHFKAIAEAVDLPVILYNIP 139 (299)
T ss_pred HHHHHHHHHHCC-CCcEEEecCCCcHHHHHHHHHHHHhcCCCEEEEeCCCCcCCChHHHHHHHHHHHHhcCCCEEEEeCc
Confidence 444455555432 2333333322233 4556688999999999988654333332222234467888999999998644
Q ss_pred C
Q 041485 174 S 174 (179)
Q Consensus 174 ~ 174 (179)
.
T Consensus 140 ~ 140 (299)
T COG0329 140 S 140 (299)
T ss_pred c
Confidence 3
No 369
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=29.77 E-value=1.9e+02 Score=19.80 Aligned_cols=17 Identities=18% Similarity=-0.119 Sum_probs=7.7
Q ss_pred cCCccHHHHHHHHHHHh
Q 041485 26 DFSKGSKLALKWAIDNL 42 (179)
Q Consensus 26 d~s~~s~~al~~a~~la 42 (179)
.++--+..+...+..++
T Consensus 9 ~G~GKTt~~~~la~~~~ 25 (173)
T cd03115 9 QGVGKTTTAAKLALYLK 25 (173)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 33444444455554444
No 370
>PLN02496 probable phosphopantothenoylcysteine decarboxylase
Probab=29.65 E-value=1.3e+02 Score=22.07 Aligned_cols=35 Identities=11% Similarity=-0.209 Sum_probs=27.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHI 54 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v 54 (179)
.++||+++.+|-.+.++.+....+- + +.++.++--
T Consensus 19 ~k~IllgVtGSIAAyk~~~lvr~L~-~-g~~V~VvmT 53 (209)
T PLN02496 19 KPRILLAASGSVAAIKFGNLCHCFS-E-WAEVRAVVT 53 (209)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHhc-C-CCeEEEEEC
Confidence 5889999999999999988777764 3 666665543
No 371
>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=29.34 E-value=1.6e+02 Score=18.99 Aligned_cols=59 Identities=5% Similarity=-0.068 Sum_probs=35.8
Q ss_pred CCceEEEEEec--cChhHHHHHHHHhCCCCEEEEecC--CCcccccccccchhHHHhhcCCCCEEE
Q 041485 108 KHVSVVAKLYW--GDARDKLCEAVEAMKLDSLVMGSR--GLGTIQRVLLGSVSNHVLANASCPVTI 169 (179)
Q Consensus 108 ~~~~~~~~~~~--g~~~~~i~~~a~~~~~dlvVlg~~--~~~~~~~~~~gs~~~~il~~~~~pVlv 169 (179)
.|+.++.. .. ..-...|.+..++.++|+||--.. ++.+. .--|....+..-...+|++.
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 57777665 32 122367999999999999987654 22221 11234445556666677654
No 372
>TIGR01430 aden_deam adenosine deaminase. This family includes the experimentally verified adenosine deaminases of mammals and E. coli. Other members of this family are predicted also to be adenosine deaminase, an enzyme of nucleotide degradation. This family is distantly related to AMP deaminase.
Probab=29.28 E-value=2.7e+02 Score=21.48 Aligned_cols=37 Identities=8% Similarity=-0.031 Sum_probs=19.8
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLD 135 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~d 135 (179)
..+.+.+++.|+.+..+..+......+.......+++
T Consensus 175 ~~~~~~A~~~g~~i~~Ha~E~~~~~~~~~~~~~~g~~ 211 (324)
T TIGR01430 175 VRAFAIARELGLHLTVHAGELGGPESVREALDDLGAT 211 (324)
T ss_pred HHHHHHHHHCCCCeEEecCCCCChHHHHHHHHHcCch
Confidence 3444555667777777776543333444444444444
No 373
>cd07402 MPP_GpdQ Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain. GpdQ (glycerophosphodiesterase Q, also known as Rv0805 in Mycobacterium tuberculosis) is a binuclear metallophosphoesterase from Enterobacter aerogenes that catalyzes the hydrolysis of mono-, di-, and triester substrates, including some organophosphate pesticides and products of the degradation of nerve agents. The GpdQ homolog, Rv0805, has 2',3'-cyclic nucleotide phosphodiesterase activity. GpdQ and Rv0805 belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosa
Probab=29.27 E-value=1.5e+02 Score=21.39 Aligned_cols=11 Identities=27% Similarity=0.404 Sum_probs=4.8
Q ss_pred hcCCCCEEEEc
Q 041485 161 ANASCPVTIVK 171 (179)
Q Consensus 161 ~~~~~pVlvv~ 171 (179)
...++|++.++
T Consensus 67 ~~~~~p~~~v~ 77 (240)
T cd07402 67 AALPIPVYLLP 77 (240)
T ss_pred hhcCCCEEEeC
Confidence 33344444444
No 374
>cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed,
Probab=29.25 E-value=2.5e+02 Score=21.03 Aligned_cols=72 Identities=8% Similarity=0.028 Sum_probs=50.2
Q ss_pred HHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCceEEEEE
Q 041485 37 WAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHVSVVAKL 116 (179)
Q Consensus 37 ~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 116 (179)
.++.++...|+.-.-+|..++.+-- ..+-...+++.+. ..++
T Consensus 25 ~aA~~a~~aGAdgITvHlReDrRHI--------------------------------~d~Dv~~L~~~~~-~~lN----- 66 (234)
T cd00003 25 EAALLAEKAGADGITVHLREDRRHI--------------------------------QDRDVRLLRELVR-TELN----- 66 (234)
T ss_pred HHHHHHHHcCCCEEEecCCCCcCcC--------------------------------CHHHHHHHHHHcC-CCEE-----
Confidence 4566677889998889998887521 1233344444443 1222
Q ss_pred eccChhHHHHHHHHhCCCCEEEEecCCCcc
Q 041485 117 YWGDARDKLCEAVEAMKLDSLVMGSRGLGT 146 (179)
Q Consensus 117 ~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~ 146 (179)
.++.+.+++++.|.+.+++.+.+-...+..
T Consensus 67 lE~a~t~em~~ia~~~kP~~vtLVPEkr~E 96 (234)
T cd00003 67 LEMAPTEEMLEIALEVKPHQVTLVPEKREE 96 (234)
T ss_pred eccCCCHHHHHHHHHCCCCEEEECCCCCCC
Confidence 358899999999999999999999765443
No 375
>PRK13794 hypothetical protein; Provisional
Probab=29.18 E-value=3.4e+02 Score=22.64 Aligned_cols=37 Identities=22% Similarity=0.193 Sum_probs=28.6
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.+++|++++...|...+..+.+.. +.++.++++....
T Consensus 248 ~~v~vs~SGGKDS~v~L~L~~~~~---~~~~~vvfiDTG~ 284 (479)
T PRK13794 248 KPVTVAYSGGKDSLATLLLALKAL---GINFPVLFNDTGL 284 (479)
T ss_pred CCEEEEecchHHHHHHHHHHHHHh---CCCeEEEEEECCC
Confidence 679999999999988888776654 4567888886553
No 376
>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=28.95 E-value=1.3e+02 Score=19.19 Aligned_cols=38 Identities=21% Similarity=0.169 Sum_probs=28.6
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
.+.+++.++.+.++...++ +++.|+..++++..+.-..
T Consensus 46 ~~d~~I~iS~sG~t~e~~~-~~~~a~~~g~~vi~iT~~~ 83 (126)
T cd05008 46 EDTLVIAISQSGETADTLA-ALRLAKEKGAKTVAITNVV 83 (126)
T ss_pred CCcEEEEEeCCcCCHHHHH-HHHHHHHcCCeEEEEECCC
Confidence 5789999999998887554 5556877888777666543
No 377
>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed
Probab=28.94 E-value=3e+02 Score=21.98 Aligned_cols=20 Identities=15% Similarity=0.091 Sum_probs=12.3
Q ss_pred hhHHHHHHHHhCCCCEEEEecC
Q 041485 121 ARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 121 ~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
...++..+-.. +|++++|.+
T Consensus 309 ~~~el~~~y~~--aDi~~v~~S 328 (425)
T PRK05749 309 TMGELGLLYAI--ADIAFVGGS 328 (425)
T ss_pred cHHHHHHHHHh--CCEEEECCC
Confidence 34456666666 788777543
No 378
>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=28.70 E-value=2.3e+02 Score=20.61 Aligned_cols=69 Identities=17% Similarity=0.237 Sum_probs=40.7
Q ss_pred HHHHHHHHHhhcCCceEEEEEec-cC------hhHHH---HHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYW-GD------ARDKL---CEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASC 165 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~-g~------~~~~i---~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~ 165 (179)
+....+.+.+++.++.+-..... |- ..+.+ .+.+.+.++|.|-.+... .. ....++...+++
T Consensus 109 ~~i~~v~~~~~~~g~~~iie~~~~g~~~~~~~~~~~i~~~~~~a~~~GaD~Ik~~~~~--~~------~~~~~i~~~~~~ 180 (235)
T cd00958 109 EELARVAAEAHKYGLPLIAWMYPRGPAVKNEKDPDLIAYAARIGAELGADIVKTKYTG--DA------ESFKEVVEGCPV 180 (235)
T ss_pred HHHHHHHHHHHHcCCCEEEEEeccCCcccCccCHHHHHHHHHHHHHHCCCEEEecCCC--CH------HHHHHHHhcCCC
Confidence 44556666667777765543322 10 11222 344777899998885321 11 345778888999
Q ss_pred CEEEEcC
Q 041485 166 PVTIVKD 172 (179)
Q Consensus 166 pVlvv~~ 172 (179)
||++...
T Consensus 181 pvv~~GG 187 (235)
T cd00958 181 PVVIAGG 187 (235)
T ss_pred CEEEeCC
Confidence 9877643
No 379
>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=28.70 E-value=1.5e+02 Score=21.86 Aligned_cols=50 Identities=14% Similarity=0.264 Sum_probs=31.2
Q ss_pred hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 122 RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
..++++.+.+.+.|.+++|.+..-.... +.... ..+++...||++.|...
T Consensus 16 ~~~~~~~~~~~gtdai~vGGS~~vt~~~--~~~~v-~~ik~~~lPvilfp~~~ 65 (223)
T TIGR01768 16 ADEIAKAAAESGTDAILIGGSQGVTYEK--TDTLI-EALRRYGLPIILFPSNP 65 (223)
T ss_pred cHHHHHHHHhcCCCEEEEcCCCcccHHH--HHHHH-HHHhccCCCEEEeCCCc
Confidence 4457777778889999999764211111 12222 34555669999988654
No 380
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=28.70 E-value=2.3e+02 Score=20.57 Aligned_cols=72 Identities=19% Similarity=0.158 Sum_probs=41.0
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+.+.+...+.+.|+.+......+++.. .+++.+...++|-+|+.......... . -..+....+||+++-.
T Consensus 16 ~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~-----~-l~~~~~~~iPvV~~~~ 89 (275)
T cd06317 16 TTYNKAFQAAAEEDGVEVIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIP-----G-LRKAKQAGIPVVITNS 89 (275)
T ss_pred HHHHHHHHHHHHhcCCEEEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCccccHH-----H-HHHHHHCCCcEEEeCC
Confidence 35555666666667877665443334432 34444556689999886432211111 1 1335667899988854
No 381
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=28.55 E-value=2.4e+02 Score=20.60 Aligned_cols=72 Identities=17% Similarity=0.159 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhhcC---CceEEEEEec--cChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCE
Q 041485 95 QDVLDMLDAASKQK---HVSVVAKLYW--GDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPV 167 (179)
Q Consensus 95 ~~~~~~~~~~~~~~---~~~~~~~~~~--g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pV 167 (179)
..+.+.+.+.+.+. |..++..+.. ++.. ...++.+...++|-||+.......... . -..+....+||
T Consensus 15 ~~~~~~i~~~~~~~~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~-----~-l~~~~~~~iPv 88 (272)
T cd06300 15 AQMLDEFKAQAKELKKAGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNP-----V-IEEACEAGIPV 88 (272)
T ss_pred HHHHHHHHHHHHhhhccCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHH-----H-HHHHHHCCCeE
Confidence 35555666666666 7655554443 2332 344444556689999997543221111 1 23455678999
Q ss_pred EEEcC
Q 041485 168 TIVKD 172 (179)
Q Consensus 168 lvv~~ 172 (179)
+++..
T Consensus 89 v~~~~ 93 (272)
T cd06300 89 VSFDG 93 (272)
T ss_pred EEEec
Confidence 98854
No 382
>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=28.53 E-value=2.2e+02 Score=23.02 Aligned_cols=16 Identities=31% Similarity=0.449 Sum_probs=9.0
Q ss_pred hhHHHhhcCCCCEEEE
Q 041485 155 VSNHVLANASCPVTIV 170 (179)
Q Consensus 155 ~~~~il~~~~~pVlvv 170 (179)
....++..+.+|+++.
T Consensus 179 ~vk~V~~av~vPLIL~ 194 (389)
T TIGR00381 179 VLEDVLQAVDVPIVIG 194 (389)
T ss_pred HHHHHHHhCCCCEEEe
Confidence 4455555555666555
No 383
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=28.50 E-value=1e+02 Score=21.97 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=26.5
Q ss_pred HHHHHHH----hCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEE
Q 041485 124 KLCEAVE----AMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 124 ~i~~~a~----~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVl 168 (179)
.+.+.++ ..++|.||+|..+.+.+.. ....+....+.||+
T Consensus 162 ~~~~~~~~l~~~~~~d~iiLgCt~l~~~~~-----~~~~l~~~~gipVi 205 (216)
T PF01177_consen 162 ILAEAARELIKEDGADAIILGCTHLPLLLG-----AIEALEEELGIPVI 205 (216)
T ss_dssp HHHHHHHHHHHCTTSSEEEEESTTGGGGHH-----HHHHHHHTCSSEEE
T ss_pred HHHHHHHHHhccCCCCEEEECCCchHHHHH-----HHHhhcccCCCEEE
Confidence 4555565 7899999999876654322 23555666677775
No 384
>PRK12457 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=28.32 E-value=2.8e+02 Score=21.38 Aligned_cols=43 Identities=14% Similarity=0.166 Sum_probs=26.7
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
++-++.+.+..++.|+.+.+.+..-.-.+.+.++ +|++=+|.+
T Consensus 73 eeGL~iL~~vk~~~GlpvvTeV~~~~~~~~~ae~-----vDilQIgAr 115 (281)
T PRK12457 73 DEGLRIFEEVKARFGVPVITDVHEVEQAAPVAEV-----ADVLQVPAF 115 (281)
T ss_pred HHHHHHHHHHHHHHCCceEEEeCCHHHHHHHhhh-----CeEEeeCch
Confidence 3555666777777899888877554333333322 677777764
No 385
>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=28.20 E-value=1.3e+02 Score=24.35 Aligned_cols=26 Identities=19% Similarity=0.482 Sum_probs=15.9
Q ss_pred cChhHHHHHHHH-hCCCCEEEEecCCC
Q 041485 119 GDARDKLCEAVE-AMKLDSLVMGSRGL 144 (179)
Q Consensus 119 g~~~~~i~~~a~-~~~~dlvVlg~~~~ 144 (179)
|+-.+.+++.++ +.++.++.+.+.+.
T Consensus 105 GdDi~~v~~~~~~~~~~pvi~v~t~gf 131 (426)
T cd01972 105 GDDVESVVEELEDEIGIPVVALHCEGF 131 (426)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCcc
Confidence 555566666554 45677777766543
No 386
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=28.07 E-value=2.5e+02 Score=20.75 Aligned_cols=36 Identities=8% Similarity=0.150 Sum_probs=28.3
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.+|+|++++...|...+..+.+. +..+.++++....
T Consensus 41 ~~i~vs~SGGKDS~vlL~L~~~~----~~~i~vvfiDTG~ 76 (241)
T PRK02090 41 GRLALVSSFGAEDAVLLHLVAQV----DPDIPVIFLDTGY 76 (241)
T ss_pred CCEEEEecCCHHHHHHHHHHHhc----CCCCcEEEecCCC
Confidence 56999999999999988888774 4467778876554
No 387
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=28.00 E-value=2.8e+02 Score=21.27 Aligned_cols=159 Identities=10% Similarity=-0.038 Sum_probs=77.8
Q ss_pred ChhhHHHHHHHHhhcCCCCeEEEeecCCcc----HHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCC-C
Q 041485 1 DWKTLNKLIFFFKMASNNRSIGVALDFSKG----SKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPL-I 75 (179)
Q Consensus 1 ~~~~~~~~~~~~~m~~~~~~ILv~vd~s~~----s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~-~ 75 (179)
++++++.++..-...+ .-+++-+..+.. .......+...|+..+.+ ..+|............-...+-... +
T Consensus 27 n~e~~~avi~aAe~~~--~Pvii~~~~~~~~~~~~~~~~~~~~~~a~~~~vp-v~lHlDH~~~~e~i~~Al~~G~tsVm~ 103 (281)
T PRK06806 27 NMEMVMGAIKAAEELN--SPIILQIAEVRLNHSPLHLIGPLMVAAAKQAKVP-VAVHFDHGMTFEKIKEALEIGFTSVMF 103 (281)
T ss_pred CHHHHHHHHHHHHHhC--CCEEEEcCcchhccCChHHHHHHHHHHHHHCCCC-EEEECCCCCCHHHHHHHHHcCCCEEEE
Confidence 3566666666666664 556666654332 122334455556655555 3466655443211000000110001 1
Q ss_pred CchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCceEEEEEec-c-------------ChhHHHHHHHHhCCCCEEEE--
Q 041485 76 PLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHVSVVAKLYW-G-------------DARDKLCEAVEAMKLDSLVM-- 139 (179)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-g-------------~~~~~i~~~a~~~~~dlvVl-- 139 (179)
.......+ .--+....+.+.++..|+.++.+... | ...++..+.+++.++|.|-+
T Consensus 104 d~s~~~~~---------eni~~t~~v~~~a~~~gv~veaE~ghlG~~d~~~~~~g~s~t~~eea~~f~~~tg~DyLAvai 174 (281)
T PRK06806 104 DGSHLPLE---------ENIQKTKEIVELAKQYGATVEAEIGRVGGSEDGSEDIEMLLTSTTEAKRFAEETDVDALAVAI 174 (281)
T ss_pred cCCCCCHH---------HHHHHHHHHHHHHHHcCCeEEEEeeeECCccCCcccccceeCCHHHHHHHHHhhCCCEEEEcc
Confidence 11111111 11233445677777778777655332 2 12344455666678999999
Q ss_pred ecCCCccccccccc-chhHHHhhcCCCCEEEEc
Q 041485 140 GSRGLGTIQRVLLG-SVSNHVLANASCPVTIVK 171 (179)
Q Consensus 140 g~~~~~~~~~~~~g-s~~~~il~~~~~pVlvv~ 171 (179)
|+-..+.-..--+| ....++.+.+++|+.++.
T Consensus 175 G~~hg~~~~~~~l~~~~L~~i~~~~~iPlV~hG 207 (281)
T PRK06806 175 GNAHGMYNGDPNLRFDRLQEINDVVHIPLVLHG 207 (281)
T ss_pred CCCCCCCCCCCccCHHHHHHHHHhcCCCEEEEC
Confidence 75422221110111 245667778889998876
No 388
>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=27.98 E-value=1.8e+02 Score=19.12 Aligned_cols=42 Identities=17% Similarity=0.089 Sum_probs=24.2
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEe
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMG 140 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg 140 (179)
..+.+.+++.|.++.......|-.+.|.+..++ .++|+||..
T Consensus 22 ~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvitt 65 (133)
T cd00758 22 PALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVLTT 65 (133)
T ss_pred HHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEEEC
Confidence 345556677787776654445444444444322 238988885
No 389
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=27.86 E-value=2.6e+02 Score=21.18 Aligned_cols=43 Identities=21% Similarity=0.156 Sum_probs=28.7
Q ss_pred hcCCCCeEEEeecCCcc-HHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 14 MASNNRSIGVALDFSKG-SKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 14 m~~~~~~ILv~vd~s~~-s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
+....++|.|.+|.+.. +...++...+.++..+.++..+.+..
T Consensus 127 l~P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~v~~ 170 (294)
T PF04392_consen 127 LFPDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIPVPS 170 (294)
T ss_dssp HSTT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEEESS
T ss_pred hCCCCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEecCc
Confidence 33336999999988765 66778888888888888877766633
No 390
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=27.80 E-value=3.1e+02 Score=21.69 Aligned_cols=96 Identities=9% Similarity=0.103 Sum_probs=0.0
Q ss_pred HHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCceEEE
Q 041485 35 LKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHVSVVA 114 (179)
Q Consensus 35 l~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 114 (179)
+...++.|...+-.+.++....-+. .+=.+.....+.+.|++++.
T Consensus 157 al~~l~~A~~~gk~f~V~v~EsRP~-----------------------------------~qG~rlta~eL~~~GI~vtl 201 (329)
T PRK06371 157 ALAPIRIAHRNGKNIFVFVDETRPR-----------------------------------LQGARLTAWELAQEGIDHAI 201 (329)
T ss_pred HHHHHHHHHHcCCeeEEEECCCCCc-----------------------------------chHHHHHHHHHHHCCCCEEE
Q ss_pred EEeccChhHHHHHHHHhCCCCEEEEecCCCccccccc--ccchhHHHh-hcCCCCEEEE
Q 041485 115 KLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVL--LGSVSNHVL-ANASCPVTIV 170 (179)
Q Consensus 115 ~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~--~gs~~~~il-~~~~~pVlvv 170 (179)
.. ...+-.++...++|++++|...-..-.... .|+-.-.++ ++-.+|++++
T Consensus 202 I~-----Dsa~~~~M~~~~Vd~VivGAd~I~aNG~v~NKiGT~~lAl~Ak~~~VPfyV~ 255 (329)
T PRK06371 202 IA-----DNAAGYFMRKKEIDLVIVGADRIASNGDFANKIGTYEKAVLAKVNGIPFYVA 255 (329)
T ss_pred Ec-----ccHHHHHhhhcCCCEEEECccEEecCCCEeehhhHHHHHHHHHHcCCCEEEe
No 391
>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=27.73 E-value=1.9e+02 Score=19.25 Aligned_cols=46 Identities=17% Similarity=0.110 Sum_probs=28.5
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh--CCCCEEEEec
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA--MKLDSLVMGS 141 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~--~~~dlvVlg~ 141 (179)
.....+.+.+++.|.++.......|-.+.|.+..+. .+.|+||.--
T Consensus 17 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~D~VittG 64 (144)
T PF00994_consen 17 SNGPFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDRADLVITTG 64 (144)
T ss_dssp HHHHHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHTTSEEEEES
T ss_pred hHHHHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhccCCEEEEcC
Confidence 344556777778898887665555555555554332 2369988753
No 392
>PRK03670 competence damage-inducible protein A; Provisional
Probab=27.72 E-value=2.3e+02 Score=21.34 Aligned_cols=44 Identities=18% Similarity=0.108 Sum_probs=31.0
Q ss_pred HHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHh---CCCCEEEEe
Q 041485 97 VLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEA---MKLDSLVMG 140 (179)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~---~~~dlvVlg 140 (179)
....+.+.+.+.|+++......+|-.+.|.+..+. ..+|+||..
T Consensus 21 N~~~la~~L~~~G~~v~~~~iV~Dd~~~I~~~l~~a~~~~~DlVItt 67 (252)
T PRK03670 21 NSAFIAQKLTEKGYWVRRITTVGDDVEEIKSVVLEILSRKPEVLVIS 67 (252)
T ss_pred hHHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhhCCCCEEEEC
Confidence 34456677788899988777777777777766443 347988886
No 393
>cd07392 MPP_PAE1087 Pyrobaculum aerophilum PAE1087 and related proteins, metallophosphatase domain. PAE1087 is an uncharacterized Pyrobaculum aerophilum protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordina
Probab=27.69 E-value=1e+02 Score=21.10 Aligned_cols=16 Identities=25% Similarity=0.335 Sum_probs=8.9
Q ss_pred HHhhcCCCCEEEEcCC
Q 041485 158 HVLANASCPVTIVKDP 173 (179)
Q Consensus 158 ~il~~~~~pVlvv~~~ 173 (179)
..+...++|+++|+.+
T Consensus 46 ~~l~~~~~p~~~v~GN 61 (188)
T cd07392 46 NLLLAIGVPVLAVPGN 61 (188)
T ss_pred HHHHhcCCCEEEEcCC
Confidence 3445556666666543
No 394
>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=27.60 E-value=2.3e+02 Score=20.19 Aligned_cols=71 Identities=20% Similarity=0.257 Sum_probs=42.3
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
....+.+.+.+.+.++++.+.....++ ....++.+...++|.+|+.....+... -..+...++||+.+-.
T Consensus 15 ~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~--------~~~~~~~~ipvv~~~~ 86 (264)
T cd06267 15 AELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL--------LEELAALGIPVVLVDR 86 (264)
T ss_pred HHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH--------HHHHHHcCCCEEEecc
Confidence 345555666666667776655444444 234555566678999998755322211 2346677899888854
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 87 ~ 87 (264)
T cd06267 87 P 87 (264)
T ss_pred c
Confidence 3
No 395
>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=27.55 E-value=74 Score=22.48 Aligned_cols=26 Identities=23% Similarity=0.323 Sum_probs=13.2
Q ss_pred HHHHHHHhCCCCEEEEecCCCccccc
Q 041485 124 KLCEAVEAMKLDSLVMGSRGLGTIQR 149 (179)
Q Consensus 124 ~i~~~a~~~~~dlvVlg~~~~~~~~~ 149 (179)
...+.|+..++..|++.....+...+
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 34455666666666666554444333
No 396
>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=27.53 E-value=2.1e+02 Score=19.76 Aligned_cols=41 Identities=7% Similarity=0.041 Sum_probs=24.6
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHH----HhCCCCEEEEe
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAV----EAMKLDSLVMG 140 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a----~~~~~dlvVlg 140 (179)
.+...+++.|.++.......|-.+.|.+.. ...++|+||..
T Consensus 26 ~l~~~L~~~G~~v~~~~iv~Dd~~~i~~~l~~~~~~~~~DlVItt 70 (163)
T TIGR02667 26 YLVERLTEAGHRLADRAIVKDDIYQIRAQVSAWIADPDVQVILIT 70 (163)
T ss_pred HHHHHHHHCCCeEEEEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 345556677887766555554444444432 23569999885
No 397
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=27.52 E-value=2.8e+02 Score=21.06 Aligned_cols=17 Identities=6% Similarity=-0.041 Sum_probs=8.4
Q ss_pred HHHHHHHhCCCCEEEEe
Q 041485 124 KLCEAVEAMKLDSLVMG 140 (179)
Q Consensus 124 ~i~~~a~~~~~dlvVlg 140 (179)
.++.-+++.++|.|+++
T Consensus 180 ~~v~~~~~~~pd~v~~~ 196 (336)
T cd06360 180 SYLAQIPDDVPDAVFVF 196 (336)
T ss_pred HHHHHHHhcCCCEEEEe
Confidence 33333444456666654
No 398
>PRK09271 flavodoxin; Provisional
Probab=27.50 E-value=1.1e+02 Score=20.89 Aligned_cols=46 Identities=9% Similarity=0.060 Sum_probs=22.2
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+++.+.+.+.+...|+.++..-........+ .....++|.|++|+.
T Consensus 15 e~~A~~ia~~l~~~g~~v~~~~~~~~~~~~~--~~~~~~~d~vilgt~ 60 (160)
T PRK09271 15 REVAREIEERCEEAGHEVDWVETDVQTLAEY--PLDPEDYDLYLLGTW 60 (160)
T ss_pred HHHHHHHHHHHHhCCCeeEEEeccccccccc--ccCcccCCEEEEECc
Confidence 4555566666666676654322111111111 112234788888875
No 399
>PRK13057 putative lipid kinase; Reviewed
Probab=27.41 E-value=2.8e+02 Score=21.02 Aligned_cols=68 Identities=21% Similarity=0.224 Sum_probs=38.5
Q ss_pred HHHHHHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 98 LDMLDAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 98 ~~~~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
.+.+.+.+++.++++...... ..-+..+.+.+ ..++|+||+..- -+.+. .+...++ ..++|+.++|..
T Consensus 15 ~~~i~~~l~~~g~~~~~~~t~~~~~a~~~~~~~-~~~~d~iiv~GG-DGTv~-----~v~~~l~-~~~~~lgiiP~G 83 (287)
T PRK13057 15 LAAARAALEAAGLELVEPPAEDPDDLSEVIEAY-ADGVDLVIVGGG-DGTLN-----AAAPALV-ETGLPLGILPLG 83 (287)
T ss_pred HHHHHHHHHHcCCeEEEEecCCHHHHHHHHHHH-HcCCCEEEEECc-hHHHH-----HHHHHHh-cCCCcEEEECCC
Confidence 345566677778776655443 33344455443 345788777532 23333 3344443 457899999854
No 400
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=27.31 E-value=1.4e+02 Score=24.53 Aligned_cols=25 Identities=24% Similarity=0.521 Sum_probs=14.5
Q ss_pred cChhHHHHHHHH-hCCCCEEEEecCC
Q 041485 119 GDARDKLCEAVE-AMKLDSLVMGSRG 143 (179)
Q Consensus 119 g~~~~~i~~~a~-~~~~dlvVlg~~~ 143 (179)
|+-.+.+++.++ +.++.++.+.+.+
T Consensus 137 GdDi~~v~~e~~~~~~~~vi~v~t~g 162 (456)
T TIGR01283 137 GDDLEAVCKAAAEKTGIPVIPVDSEG 162 (456)
T ss_pred cCCHHHHHHHHHHHhCCCEEEEECCC
Confidence 555555655544 3566677666554
No 401
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=27.31 E-value=2.4e+02 Score=20.29 Aligned_cols=70 Identities=11% Similarity=0.109 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.++++.+.+.+.+.|.++.......++.. ..++.....++|.+|+...... ......+....+||+++-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~--------~~~~~~~~~~~ipvv~~~~ 86 (259)
T cd01542 15 SRTVKGILAALYENGYQMLLMNTNFSIEKEIEALELLARQKVDGIILLATTIT--------DEHREAIKKLNVPVVVVGQ 86 (259)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC--------HHHHHHHhcCCCCEEEEec
Confidence 35666677777777877765433334432 3444455678999998643211 1112345556788888854
No 402
>PRK12581 oxaloacetate decarboxylase; Provisional
Probab=27.31 E-value=3.7e+02 Score=22.45 Aligned_cols=48 Identities=13% Similarity=0.072 Sum_probs=24.2
Q ss_pred ChhhHHHHHHHHhhcCCCCeEEEe---ecCCccHHHHHHHHHHHhcCCCCEE
Q 041485 1 DWKTLNKLIFFFKMASNNRSIGVA---LDFSKGSKLALKWAIDNLLEKGDTL 49 (179)
Q Consensus 1 ~~~~~~~~~~~~~m~~~~~~ILv~---vd~s~~s~~al~~a~~la~~~~~~l 49 (179)
+|+-|+.+-....-.. ..-++.+ +.-.++....++..++.|...|..+
T Consensus 71 pwerlr~~r~~~~nt~-lqmLlRG~n~vgy~~ypddvv~~fv~~a~~~Gidi 121 (468)
T PRK12581 71 PWERLRTLKKGLPNTR-LQMLLRGQNLLGYRHYADDIVDKFISLSAQNGIDV 121 (468)
T ss_pred HHHHHHHHHHhCCCCc-eeeeeccccccCccCCcchHHHHHHHHHHHCCCCE
Confidence 3555555444332221 2223333 2334555667777777776666554
No 403
>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=27.20 E-value=2.5e+02 Score=20.39 Aligned_cols=70 Identities=17% Similarity=0.222 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
.++...+.+.+++.|.++.+....++. ....++.....++|.||+....... .. -+-+....+||+.+-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-------~~-~~~~~~~~ipvV~i~~ 86 (270)
T cd06296 15 SEVLRGVEEAAAAAGYDVVLSESGRRTSPERQWVERLSARRTDGVILVTPELTS-------AQ-RAALRRTGIPFVVVDP 86 (270)
T ss_pred HHHHHHHHHHHHHcCCeEEEecCCCchHHHHHHHHHHHHcCCCEEEEecCCCCh-------HH-HHHHhcCCCCEEEEec
Confidence 355566666777778777665444433 3345566677789988876442211 11 2334556789998854
No 404
>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=27.10 E-value=2.8e+02 Score=21.00 Aligned_cols=76 Identities=13% Similarity=0.119 Sum_probs=42.6
Q ss_pred HHHHHHHHHhhcCCceEEEEEeccChh--HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWGDAR--DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
++.+.+.+... ..+.+-.-+...+.. -++.+.+++.++|.+++..........--+-..-..|...++.|+++...
T Consensus 58 ~l~~~~~~~~~-~~~~vi~gv~~~st~~~i~~a~~a~~~Gad~v~v~~P~~~~~s~~~l~~y~~~ia~~~~~pi~iYn~ 135 (289)
T PF00701_consen 58 ELLEIVVEAAA-GRVPVIAGVGANSTEEAIELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIADATDLPIIIYNN 135 (289)
T ss_dssp HHHHHHHHHHT-TSSEEEEEEESSSHHHHHHHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHHHHSSSEEEEEEB
T ss_pred HHHHHHHHHcc-CceEEEecCcchhHHHHHHHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHHhhcCCCEEEEEC
Confidence 44444444443 245554444333443 44456799999998877654322222211223446788889999999864
No 405
>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=27.08 E-value=1.3e+02 Score=24.44 Aligned_cols=26 Identities=12% Similarity=0.093 Sum_probs=15.1
Q ss_pred cChhHHHHHHHH-hCCCCEEEEecCCC
Q 041485 119 GDARDKLCEAVE-AMKLDSLVMGSRGL 144 (179)
Q Consensus 119 g~~~~~i~~~a~-~~~~dlvVlg~~~~ 144 (179)
|+-.+.+++.++ +.++.++.+.+.+.
T Consensus 101 GdDi~~v~~~~~~~~~~~vi~v~t~gf 127 (430)
T cd01981 101 QEDLQNFVRAAGLSSKSPVLPLDVNHY 127 (430)
T ss_pred hhCHHHHHHHhhhccCCCeEEecCCCc
Confidence 555566665554 34566776666554
No 406
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=27.07 E-value=2.8e+02 Score=21.12 Aligned_cols=48 Identities=19% Similarity=0.275 Sum_probs=26.2
Q ss_pred HHHHHHhCCCCEEEEecCCCcccccccccc---------h-hHHHhhcCCCCEEEEcCC
Q 041485 125 LCEAVEAMKLDSLVMGSRGLGTIQRVLLGS---------V-SNHVLANASCPVTIVKDP 173 (179)
Q Consensus 125 i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs---------~-~~~il~~~~~pVlvv~~~ 173 (179)
.++.|-+...+.+|+-+.=.+ ..+.+... . ...=+.+.+||||++-..
T Consensus 144 tv~Lasr~~~~alVL~SPf~S-~~rv~~~~~~~~~~~d~f~~i~kI~~i~~PVLiiHgt 201 (258)
T KOG1552|consen 144 TVDLASRYPLAAVVLHSPFTS-GMRVAFPDTKTTYCFDAFPNIEKISKITCPVLIIHGT 201 (258)
T ss_pred hhhHhhcCCcceEEEeccchh-hhhhhccCcceEEeeccccccCcceeccCCEEEEecc
Confidence 567766666889998653111 11111110 0 012255677999999644
No 407
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=26.91 E-value=1.5e+02 Score=24.59 Aligned_cols=26 Identities=23% Similarity=0.526 Sum_probs=15.4
Q ss_pred cChhHHHHHHHH-hCCCCEEEEecCCC
Q 041485 119 GDARDKLCEAVE-AMKLDSLVMGSRGL 144 (179)
Q Consensus 119 g~~~~~i~~~a~-~~~~dlvVlg~~~~ 144 (179)
|+-.+.+++.++ +.++.++.+.+.+.
T Consensus 135 GdDi~~v~~~~~~~~~~pvi~v~t~Gf 161 (475)
T PRK14478 135 GDDIDAVCKRAAEKFGIPVIPVNSPGF 161 (475)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCCc
Confidence 555566655544 45677777765543
No 408
>PRK06683 hypothetical protein; Provisional
Probab=26.81 E-value=1.5e+02 Score=17.93 Aligned_cols=44 Identities=16% Similarity=0.184 Sum_probs=22.6
Q ss_pred HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEc
Q 041485 123 DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
+..++..+..++-+|+++..-.....+ ......+...+|+..++
T Consensus 17 ~~v~kaik~gkaklViiA~Da~~~~~~-----~i~~~~~~~~Vpv~~~~ 60 (82)
T PRK06683 17 KRTLEAIKNGIVKEVVIAEDADMRLTH-----VIIRTALQHNIPITKVE 60 (82)
T ss_pred HHHHHHHHcCCeeEEEEECCCCHHHHH-----HHHHHHHhcCCCEEEEC
Confidence 445556666667777776543222221 11334555566666554
No 409
>PRK08005 epimerase; Validated
Probab=26.74 E-value=2e+02 Score=20.97 Aligned_cols=25 Identities=20% Similarity=0.206 Sum_probs=20.7
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.|.....-+..+.+-++|.+|+|+.
T Consensus 169 DGGI~~~~i~~l~~aGad~~V~Gsa 193 (210)
T PRK08005 169 DGGITLRAARLLAAAGAQHLVIGRA 193 (210)
T ss_pred ECCCCHHHHHHHHHCCCCEEEEChH
Confidence 4777778888888889999999954
No 410
>TIGR01391 dnaG DNA primase, catalytic core. This protein contains a CHC2 zinc finger (Pfam:PF01807) and a Toprim domain (Pfam:PF01751).
Probab=26.74 E-value=1.3e+02 Score=24.42 Aligned_cols=35 Identities=29% Similarity=0.269 Sum_probs=29.1
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEE
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIH 53 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~ 53 (179)
++|+++.|++.....|...+++.+...+..+.++.
T Consensus 301 ~~vvl~~D~D~aG~~aa~r~~~~l~~~g~~v~v~~ 335 (415)
T TIGR01391 301 DEIILCFDGDKAGRKAALRAIELLLPLGINVKVIK 335 (415)
T ss_pred CeEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEEE
Confidence 58999999999999999999888877776666553
No 411
>PRK12388 fructose-1,6-bisphosphatase II-like protein; Reviewed
Probab=26.67 E-value=3.2e+02 Score=21.49 Aligned_cols=81 Identities=21% Similarity=0.150 Sum_probs=52.9
Q ss_pred CCeEEE------eecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhh
Q 041485 18 NRSIGV------ALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEV 91 (179)
Q Consensus 18 ~~~ILv------~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (179)
|.+|.| .+|.+.+-..-++...+-....-..++++-...++-
T Consensus 119 M~KiavGp~~~G~idl~~p~~~Nl~~vA~algk~v~dltV~vLdRpRH-------------------------------- 166 (321)
T PRK12388 119 MKKLVVNRLAAGAIDLSLPLADNLRNVARALGKPLDKLRMVTLDKPRL-------------------------------- 166 (321)
T ss_pred eeeeeECcccCCeecCCCCHHHHHHHHHHHcCCChhHeEEEEEcCchH--------------------------------
Confidence 456666 567777777777777775544556788777765541
Q ss_pred hhhHHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEE
Q 041485 92 DLDQDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLV 138 (179)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvV 138 (179)
+.+.+..++.|.++.. ...||+.-.|.-...+.++|+++
T Consensus 167 -------~~lI~eiR~~GarI~L-i~DGDVa~ai~~~~~~s~vD~~~ 205 (321)
T PRK12388 167 -------SAAIEEATQLGVKVFA-LPDGDVAASVLTCWQDNPYDVMY 205 (321)
T ss_pred -------HHHHHHHHHcCCeEEE-eccccHHHHHHHhCCCCCeeEEE
Confidence 2334455666777664 33578888888777777788754
No 412
>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=26.65 E-value=1.2e+02 Score=21.17 Aligned_cols=47 Identities=17% Similarity=0.038 Sum_probs=26.6
Q ss_pred HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 123 DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
-..+..+-..++||+|++..++......-+...... .-...+|||+.
T Consensus 83 ~~~l~~al~~~~DLlivNkFGk~Ea~G~Glr~~i~~-A~~~giPVLt~ 129 (159)
T PF10649_consen 83 SAALRRALAEGADLLIVNKFGKQEAEGRGLRDEIAA-ALAAGIPVLTA 129 (159)
T ss_pred HHHHHHHHhcCCCEEEEcccHHhhhcCCCHHHHHHH-HHHCCCCEEEE
Confidence 334445566679999999876544443222222222 22446888876
No 413
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=26.63 E-value=2.5e+02 Score=20.36 Aligned_cols=72 Identities=15% Similarity=0.081 Sum_probs=40.6
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+.+.+.+.+++.|..+......+++.. ..++..-..++|-+|+.......... . -.-+...++||+.+-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~-----~-i~~~~~~~ipvV~~~~ 88 (273)
T cd06305 15 QAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKP-----W-VKRALDAGIPVVAFDV 88 (273)
T ss_pred HHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHH-----H-HHHHHHcCCCEEEecC
Confidence 35556667777777887766443344433 33344445579999886432111111 1 1234566789888854
No 414
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=26.55 E-value=2.7e+02 Score=20.66 Aligned_cols=58 Identities=9% Similarity=-0.066 Sum_probs=37.1
Q ss_pred HHHHhhcCCc--eEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHh
Q 041485 101 LDAASKQKHV--SVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVL 160 (179)
Q Consensus 101 ~~~~~~~~~~--~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il 160 (179)
..+..++.|. .+=..+..+.+.+.+..+... +|+|.+=+-..+...+.|..+..++|-
T Consensus 108 ~l~~Ik~~g~~~kaGlalnP~Tp~~~i~~~l~~--vD~VLiMtV~PGfgGQ~f~~~~l~KI~ 167 (228)
T PRK08091 108 TIEWLAKQKTTVLIGLCLCPETPISLLEPYLDQ--IDLIQILTLDPRTGTKAPSDLILDRVI 167 (228)
T ss_pred HHHHHHHCCCCceEEEEECCCCCHHHHHHHHhh--cCEEEEEEECCCCCCccccHHHHHHHH
Confidence 3345556666 555555567899999999988 887766555555555666655444443
No 415
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=26.45 E-value=3e+02 Score=21.19 Aligned_cols=59 Identities=12% Similarity=0.144 Sum_probs=42.1
Q ss_pred EeccChhHHHHHHHHhCCCCEEEEecCCCcc-cccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 116 LYWGDARDKLCEAVEAMKLDSLVMGSRGLGT-IQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 116 ~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~-~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
+..-...+.+++.|++.+..+|+..+.+.-. .....+......+..++++||.+-=++.
T Consensus 25 ~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValHLDHg 84 (286)
T PRK12738 25 IHNAETIQAILEVCSEMRSPVILAGTPGTFKHIALEEIYALCSAYSTTYNMPLALHLDHH 84 (286)
T ss_pred eCCHHHHHHHHHHHHHHCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 3345789999999999999999986553221 2222345677888999999998865444
No 416
>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=26.43 E-value=1.4e+02 Score=23.24 Aligned_cols=46 Identities=22% Similarity=0.349 Sum_probs=29.0
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCC-Cccccc-ccccchhHHHhhcCCCCEEEE
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRG-LGTIQR-VLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~-~~~~~~-~~~gs~~~~il~~~~~pVlvv 170 (179)
.+..+.++..++ +|+||+|..+ .+...- +...-+ ...+++ .||+-|
T Consensus 171 ~a~peal~AI~~--AD~IIlGPgsp~TSI~P~LlVpgI-reAL~~--a~vV~V 218 (297)
T TIGR01819 171 SIAPKVLEAIRK--EDNILIGPSNPITSIGPILSLPGI-REALRD--KKVVAV 218 (297)
T ss_pred CCCHHHHHHHHh--CCEEEECCCccHHHhhhhcCchhH-HHHHHc--CCEEEE
Confidence 667888888888 9999999763 222222 223334 445555 677755
No 417
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=26.36 E-value=2.5e+02 Score=20.22 Aligned_cols=69 Identities=10% Similarity=0.181 Sum_probs=41.0
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccCh--hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDA--RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
....+.+.+.+++.|..+.......++ ...+++.....++|-+|+....... . ....+ ...+||+++..
T Consensus 15 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~-------~-~~~~~-~~~ipvv~~~~ 85 (267)
T cd06284 15 SEILKGIEDEAREAGYGVLLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPP-------T-ALTAL-AKLPPIVQACE 85 (267)
T ss_pred HHHHHHHHHHHHHcCCeEEEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCH-------H-HHHHH-hcCCCEEEEec
Confidence 456666777777788777654433444 3455667777889988884332111 0 12223 33789988853
No 418
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=26.28 E-value=4.8e+02 Score=23.38 Aligned_cols=147 Identities=14% Similarity=0.086 Sum_probs=75.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCC--CCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhH
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEK--GDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQ 95 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~--~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (179)
--+||.++...+.-...++...-..... ...+.++|..+-..................+ . .......+..
T Consensus 443 ~Lril~cl~~~~~is~~i~~le~~~~~~~~p~~v~~lhlveL~~~~~~~li~h~~~~~~~~--~------~~s~~~~~i~ 514 (769)
T KOG1650|consen 443 ELRILTCLHGPENISGIINLLELSSGSLESPLSVYALHLVELVGRATPLLISHKLRKNGRV--E------SRSSSSDQIN 514 (769)
T ss_pred ceEEEEEecCCCcchHHHHHHHHcCCCCCCCcceeeeeeeecccccchhhhhhhhcccccc--c------cccccchhhH
Confidence 3589999988777666565554443333 4567788887753211100000000000000 0 0000000111
Q ss_pred HHHHHHHHHhhcCCceEEEEEe---ccChhHHHHHHHHhCCCCEEEEecCCCcc----ccc--ccccchhHHHhhcCCCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLY---WGDARDKLCEAVEAMKLDSLVMGSRGLGT----IQR--VLLGSVSNHVLANASCP 166 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~---~g~~~~~i~~~a~~~~~dlvVlg~~~~~~----~~~--~~~gs~~~~il~~~~~p 166 (179)
...+.+.+.. ..++.+..-.. .....+.|+..|.+.+.+++++.-+.+-. ... .-+.+....+++++||.
T Consensus 515 ~aF~~f~~~~-~~~v~v~~~Ta~s~~~~m~edic~la~~~~~~liilpfhk~~~~~~~~e~~~~~~r~in~~vl~~aPCS 593 (769)
T KOG1650|consen 515 VAFEAFEKLS-QEGVMVRTFTALSPEKLMHEDICTLALDKGVSLIILPFHKHWSDGGTLESDDPAIRELNRNVLKNAPCS 593 (769)
T ss_pred HHHHHHHHhc-CCcEEEEeehhhCChhhchhhhhHHHHhhCCcEEEeehhhhccCCCceecCcHHHHHHHHHHHhcCCCe
Confidence 2222222211 23444333221 13667888898999999999999764311 111 11235778999999999
Q ss_pred EEEEcCC
Q 041485 167 VTIVKDP 173 (179)
Q Consensus 167 Vlvv~~~ 173 (179)
|-+.=+.
T Consensus 594 VgIlvdR 600 (769)
T KOG1650|consen 594 VGILVDR 600 (769)
T ss_pred EEEEEec
Confidence 9887543
No 419
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase. The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
Probab=26.23 E-value=3.3e+02 Score=21.52 Aligned_cols=65 Identities=8% Similarity=0.129 Sum_probs=37.3
Q ss_pred HHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccc--cccchhHH-HhhcCCCCEEEEcC
Q 041485 103 AASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRV--LLGSVSNH-VLANASCPVTIVKD 172 (179)
Q Consensus 103 ~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~--~~gs~~~~-il~~~~~pVlvv~~ 172 (179)
..+.+.|++++... .+ .+--.++..++|++++|...-...... -.|+..-. +.++..+|++++-+
T Consensus 200 ~~L~~~GI~vtlI~--Ds---av~~~m~~~~vd~VivGAd~v~~nG~v~nkiGT~~lA~~Ak~~~vPfyV~a~ 267 (331)
T TIGR00512 200 WELVQEGIPATLIT--DS---MAAHLMKHGEVDAVIVGADRIAANGDTANKIGTYQLAVLAKHHGVPFYVAAP 267 (331)
T ss_pred HHHHHCCCCEEEEc--cc---HHHHHhcccCCCEEEEcccEEecCCCEeehhhHHHHHHHHHHhCCCEEEecc
Confidence 33456688877433 22 222334455799999998743222222 23554333 44777799999854
No 420
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=26.14 E-value=1.7e+02 Score=24.33 Aligned_cols=50 Identities=14% Similarity=0.183 Sum_probs=27.6
Q ss_pred HHHHHHHHHhhcCCceEEEEEe------ccChhHHHHHHHH-hCCCCEEEEecCCCc
Q 041485 96 DVLDMLDAASKQKHVSVVAKLY------WGDARDKLCEAVE-AMKLDSLVMGSRGLG 145 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~------~g~~~~~i~~~a~-~~~~dlvVlg~~~~~ 145 (179)
+..+.+.+..+++..++-+.+- .|+-.+.+.+.++ +.++..|.+.+.+..
T Consensus 84 ~L~~~i~ei~~~~~p~~ifv~~TC~t~iIGdDle~va~~~~~~~gipVV~v~~~Gf~ 140 (457)
T CHL00073 84 ELKRLCLQIKKDRNPSVIVWIGTCTTEIIKMDLEGMAPKLEAEIGIPIVVARANGLD 140 (457)
T ss_pred HHHHHHHHHHHhCCCCEEEEEccCcHHhhccCHHHHHHHHHHhhCCCEEEEeCCCcc
Confidence 4444455555555433333221 2555666665544 678999988876543
No 421
>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=26.13 E-value=2.4e+02 Score=19.90 Aligned_cols=21 Identities=10% Similarity=0.094 Sum_probs=18.0
Q ss_pred hHHHHHHHHhCCCCEEEEecC
Q 041485 122 RDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~~ 142 (179)
.+.+++.+...++|+|++|-.
T Consensus 89 ~~~i~~~I~~s~~dil~VglG 109 (177)
T TIGR00696 89 RKAALAKIARSGAGIVFVGLG 109 (177)
T ss_pred HHHHHHHHHHcCCCEEEEEcC
Confidence 367889999999999999954
No 422
>PF04260 DUF436: Protein of unknown function (DUF436) ; InterPro: IPR006340 Members of this family are uncharacterised proteins of about 180 amino acids from the Bacillus/Clostridium group of Gram-positive bacteria, found in no more than one copy per genome. ; PDB: 1V8D_C.
Probab=25.95 E-value=2.4e+02 Score=19.88 Aligned_cols=112 Identities=12% Similarity=0.138 Sum_probs=59.2
Q ss_pred HHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCc
Q 041485 31 SKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHV 110 (179)
Q Consensus 31 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 110 (179)
...+++-.++.+.....++.++-...... .....| .....+..+.+.+.+.+.+.+.|+
T Consensus 3 ~~~~~~El~~~a~l~~g~i~VvGcSTSEV------~G~~IG---------------t~~s~eva~ai~~~l~~~~~~~gi 61 (172)
T PF04260_consen 3 LRQALEELLEQANLKPGQIFVVGCSTSEV------AGERIG---------------TASSLEVAEAIFEALLEVLKERGI 61 (172)
T ss_dssp HHHHHHHHHHHS---TT-EEEEEE-HHHH------HTT----------------------HHHHHHHHHHHHHHHHTTT-
T ss_pred HHHHHHHHHHhcCCCCCCEEEEeeeHHHc------CCcccC---------------CCCcHHHHHHHHHHHHHHHHHcCc
Confidence 34567777777777777888887765432 111112 111234457888889999999999
Q ss_pred eEEEEEecc-ChhHHHH-HHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEE
Q 041485 111 SVVAKLYWG-DARDKLC-EAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTI 169 (179)
Q Consensus 111 ~~~~~~~~g-~~~~~i~-~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlv 169 (179)
..-+..++- +.+=.+. +.++.++.+.|-+=...+.+ ||.+...-++.+.||++
T Consensus 62 ~LA~QcCEHlNRALvvEr~~a~~~~le~V~VvP~~~AG------Gs~a~~Ay~~f~dPV~V 116 (172)
T PF04260_consen 62 YLAFQCCEHLNRALVVEREVAEKYGLEEVTVVPVPHAG------GSMATAAYEHFKDPVVV 116 (172)
T ss_dssp EEEEE--GGGTT-EEEEHHHHHHHT--EEE-B-BTTBB-------HHHHHHHHHSSSEEEE
T ss_pred EEEEEchhhhhHHHHhhHHHHhHcCCceEEEEccCCCC------cHHHHHHHHhcCCCeEE
Confidence 888777663 3332222 34566666666554332222 67778888888899876
No 423
>TIGR02127 pyrF_sub2 orotidine 5'-phosphate decarboxylase, subfamily 2. This model represents orotidine 5'-monophosphate decarboxylase, the PyrF protein of pyrimidine nucleotide biosynthesis. See TIGR01740 for a related but distinct subfamily of the same enzyme.
Probab=25.94 E-value=3e+02 Score=20.88 Aligned_cols=47 Identities=9% Similarity=0.013 Sum_probs=31.4
Q ss_pred HHHHHHHhhcCCCCeEEEeecCCcc----------HHHHHHHHHHHhcCCCCEEEEEEE
Q 041485 6 NKLIFFFKMASNNRSIGVALDFSKG----------SKLALKWAIDNLLEKGDTLYIIHI 54 (179)
Q Consensus 6 ~~~~~~~~m~~~~~~ILv~vd~s~~----------s~~al~~a~~la~~~~~~l~ll~v 54 (179)
.+|....... ...+.|.+|+.+. .....+|..+++...+..+..+.+
T Consensus 3 ~kl~~~~~~~--~s~lcvglDp~~~~~~~~~~~~~~~~~~~f~~~ii~~l~~~v~~vK~ 59 (261)
T TIGR02127 3 DRLNERILAR--RSPLCVGLDPRLELLPEWGLPSSAAGLQAFCLRIIDATAEYAAVVKP 59 (261)
T ss_pred HHHHHHHHHh--CCCEEEEECCChhhcccccccchHHHHHHHHHHHHHhcCCcceEEec
Confidence 4455554444 4778999999774 334458888999888877655444
No 424
>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=25.76 E-value=1.6e+02 Score=20.41 Aligned_cols=70 Identities=10% Similarity=0.061 Sum_probs=31.4
Q ss_pred hcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcc-c---ccccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 106 KQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGT-I---QRVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 106 ~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~-~---~~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
+..|++--..+...++......+++++++.++-++...... . ..-.+-....-+++..+-||+|.=..+.
T Consensus 29 ~~L~LKTII~L~~e~~~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~aL~~ild~~n~PvLiHC~~G~ 102 (164)
T PF03162_consen 29 ERLGLKTIINLRPEPPSQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEALEIILDPRNYPVLIHCNHGK 102 (164)
T ss_dssp HHHT-SEEEE--SS---HHHHHHHHHTT-EEEE-------GGG----HHHHHHHHHHHH-GGG-SEEEE-SSSS
T ss_pred HHCCCceEEEecCCCCCHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHHHHHHhCCCCCCEEEEeCCCC
Confidence 33466544444444566777779999999999998764332 1 1111112224466777899999865443
No 425
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=25.74 E-value=1.5e+02 Score=21.33 Aligned_cols=40 Identities=10% Similarity=0.017 Sum_probs=32.9
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
...+++.++.|..+.. +..+++.|+..|+++..+.-....
T Consensus 109 ~gDvli~iS~SG~s~~-v~~a~~~Ak~~G~~vI~IT~~~~s 148 (196)
T PRK10886 109 AGDVLLAISTRGNSRD-IVKAVEAAVTRDMTIVALTGYDGG 148 (196)
T ss_pred CCCEEEEEeCCCCCHH-HHHHHHHHHHCCCEEEEEeCCCCC
Confidence 6889999999988886 666778899999998888776544
No 426
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=25.73 E-value=3.6e+02 Score=21.77 Aligned_cols=36 Identities=17% Similarity=0.151 Sum_probs=28.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
.+++++.+++.-.|.-|.....+ .|.++..+|+...
T Consensus 180 ~gkvlvllSGGiDSpVAa~ll~k----rG~~V~~v~f~~g 215 (381)
T PRK08384 180 QGKVVALLSGGIDSPVAAFLMMK----RGVEVIPVHIYMG 215 (381)
T ss_pred CCcEEEEEeCChHHHHHHHHHHH----cCCeEEEEEEEeC
Confidence 58999999999888866554444 6999999999543
No 427
>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=25.70 E-value=3.2e+02 Score=21.16 Aligned_cols=75 Identities=13% Similarity=0.079 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhhcCCceEEEEEecc-----ChhHHHHHHHHhCCCCEEEEecCCCc-ccccccccchhHHHhhcCCCCEE
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWG-----DARDKLCEAVEAMKLDSLVMGSRGLG-TIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g-----~~~~~i~~~a~~~~~dlvVlg~~~~~-~~~~~~~gs~~~~il~~~~~pVl 168 (179)
.++++.+++.. ++.+.+++..| .....+++.+.+.++|.|.+..+... ....-..=.....+-...++||+
T Consensus 120 ~ei~~~vr~~~---~~pv~vKir~g~~~~~~~~~~~a~~l~~~G~d~i~vh~r~~~~~~~~~~~~~~i~~i~~~~~ipvi 196 (319)
T TIGR00737 120 GKIVKAVVDAV---DIPVTVKIRIGWDDAHINAVEAARIAEDAGAQAVTLHGRTRAQGYSGEANWDIIARVKQAVRIPVI 196 (319)
T ss_pred HHHHHHHHhhc---CCCEEEEEEcccCCCcchHHHHHHHHHHhCCCEEEEEcccccccCCCchhHHHHHHHHHcCCCcEE
Confidence 45555554443 45555555433 12356667778888999998543211 11110011244566777889998
Q ss_pred EEcC
Q 041485 169 IVKD 172 (179)
Q Consensus 169 vv~~ 172 (179)
....
T Consensus 197 ~nGg 200 (319)
T TIGR00737 197 GNGD 200 (319)
T ss_pred EeCC
Confidence 7653
No 428
>TIGR00857 pyrC_multi dihydroorotase, multifunctional complex type. All proteins described by this model should represent active and inactive dihydroorotase per se and functionally equivalent domains of multifunctional proteins from higher eukaryotes, but exclude related proteins such as allantoinase.
Probab=25.66 E-value=1.6e+02 Score=23.75 Aligned_cols=26 Identities=19% Similarity=0.231 Sum_probs=22.6
Q ss_pred HHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 33 LALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 33 ~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.++..++.+|+..+++++++|+....
T Consensus 199 ~ai~~~~~la~~~~~~~~i~Hvs~~~ 224 (411)
T TIGR00857 199 VAVARLLELAKHAGCPVHICHISTKE 224 (411)
T ss_pred HHHHHHHHHHHHHCCCEEEEeCCCHH
Confidence 57888999999999999999997754
No 429
>smart00807 AKAP_110 A-kinase anchor protein 110 kDa. This family consists of several mammalian protein kinase A anchoring protein 3 (PRKA3) or A-kinase anchor protein 110 kDa (AKAP 110) sequences. Agents that increase intracellular cAMP are potent stimulators of sperm motility. Anchoring inhibitor peptides, designed to disrupt the interaction of the cAMP-dependent protein kinase A (PKA) with A kinase-anchoring proteins (AKAPs), are potent inhibitors of sperm motility. PKA anchoring is a key biochemical mechanism controlling motility. AKAP110 shares compartments with both RI and RII isoforms of PKA and may function as a regulator of both motility- and head-associated functions such as capacitation and the acrosome reaction PUBMED:10319321.
Probab=25.63 E-value=1.6e+02 Score=25.23 Aligned_cols=77 Identities=16% Similarity=0.088 Sum_probs=46.4
Q ss_pred EEEeecCCccHH-HHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 21 IGVALDFSKGSK-LALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 21 ILv~vd~s~~s~-~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
|+.-.|.++... .-|+..+++.......+-.+|....... ..+-+-
T Consensus 756 IV~N~dlep~~qDkQLrAvLQWIAASE~nVP~LYF~~s~e~---------------------------------~~eKLl 802 (851)
T smart00807 756 IVSNHNLTDTVQNKQLQAVLQWVAASELNVPILYFAGDDEG---------------------------------IQEKLL 802 (851)
T ss_pred EEEeccCCccccchhhhhHHHHHHHhhcCCceEEEecCcch---------------------------------HHHHHH
Confidence 333445555544 4566666555555555666777666421 123333
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCE
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDS 136 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dl 136 (179)
.+...+.+.|.. .|+..+++++|+++.+.|=
T Consensus 803 qVSaka~EKGws------VGDLLQaVlkY~KerQ~DE 833 (851)
T smart00807 803 QLSAKAVEKGYS------VGEVLQSVLRYEKERQLDE 833 (851)
T ss_pred HHHHHHHHcCcc------HHHHHHHHHHHHHHhchhh
Confidence 455555565643 5999999999999987765
No 430
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=25.58 E-value=3.7e+02 Score=21.82 Aligned_cols=37 Identities=16% Similarity=0.170 Sum_probs=27.6
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
-.++|+.+++.=.|.- |..++.+.|.++..+|...++
T Consensus 175 ~Gk~l~LlSGGIDSPV----A~~l~mkRG~~v~~v~f~~~p 211 (383)
T COG0301 175 QGKVLLLLSGGIDSPV----AAWLMMKRGVEVIPVHFGNPP 211 (383)
T ss_pred CCcEEEEEeCCCChHH----HHHHHHhcCCEEEEEEEcCCC
Confidence 3677888877666653 556677799999999996654
No 431
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=25.53 E-value=3.6e+02 Score=21.75 Aligned_cols=33 Identities=6% Similarity=-0.096 Sum_probs=24.0
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLY 50 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ 50 (179)
.++|-+..+.+......++...+.++..+..+.
T Consensus 172 w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~ 204 (452)
T cd06362 172 WTYVSTVASEGNYGEKGIEAFEKLAAERGICIA 204 (452)
T ss_pred CcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEE
Confidence 578888888777777777777777776665544
No 432
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=25.49 E-value=1.4e+02 Score=22.47 Aligned_cols=37 Identities=16% Similarity=0.063 Sum_probs=30.2
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCC-CEEEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKG-DTLYIIHI 54 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~-~~l~ll~v 54 (179)
..-+++.+|+|..|....+...+++...+ -++.++-.
T Consensus 156 vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~N 193 (255)
T COG3640 156 VDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLN 193 (255)
T ss_pred CCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEe
Confidence 45789999999999999999999998888 55555544
No 433
>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=25.46 E-value=3e+02 Score=20.79 Aligned_cols=70 Identities=20% Similarity=0.349 Sum_probs=37.2
Q ss_pred HHHHHHHHHhhcCCceEEEEEec--cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCC-CCEEEEcC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYW--GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANAS-CPVTIVKD 172 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~-~pVlvv~~ 172 (179)
+..+.+.+.+.+.++++...... |+. ..+.+.+.+.++|.||+..- -+.+. .+...+..... .|+-++|.
T Consensus 19 ~~~~~i~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~d~ivv~GG-DGTl~-----~v~~~l~~~~~~~~lgiiP~ 91 (293)
T TIGR00147 19 KPLREVIMLLREEGMEIHVRVTWEKGDA-ARYVEEARKFGVDTVIAGGG-DGTIN-----EVVNALIQLDDIPALGILPL 91 (293)
T ss_pred HHHHHHHHHHHHCCCEEEEEEecCcccH-HHHHHHHHhcCCCEEEEECC-CChHH-----HHHHHHhcCCCCCcEEEEcC
Confidence 34445666677778776654433 333 34444444556887777532 23333 23344444333 46667875
No 434
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=25.43 E-value=2.6e+02 Score=20.02 Aligned_cols=38 Identities=13% Similarity=0.088 Sum_probs=29.2
Q ss_pred EEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 21 IGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 21 ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
|.+...........++.+++-++..++++.++++.+..
T Consensus 6 I~gs~r~~G~t~~l~~~~~~g~~~~G~E~~~i~v~~~~ 43 (207)
T COG0655 6 INGSPRSNGNTAKLAEAVLEGAEEAGAEVEIIRLPEKN 43 (207)
T ss_pred EEecCCCCCcHHHHHHHHHHHHHHcCCEEEEEEecCCC
Confidence 33333335667888999999999899999999998764
No 435
>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=25.11 E-value=2.7e+02 Score=20.16 Aligned_cols=72 Identities=8% Similarity=0.098 Sum_probs=41.0
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhH--HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARD--KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+.+.+.+.+++.|.++.......++.+ ..++.....++|-||+-...... . ....+.....+||+++..
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 35556666677777877665433334433 44555666789988886432211 0 112233345789998865
Q ss_pred C
Q 041485 173 P 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 88 ~ 88 (269)
T cd06275 88 G 88 (269)
T ss_pred c
Confidence 4
No 436
>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=24.91 E-value=3.3e+02 Score=21.09 Aligned_cols=65 Identities=17% Similarity=0.207 Sum_probs=34.1
Q ss_pred HHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCccc-ccccccchhHHHhhcCCCCEEEEc
Q 041485 103 AASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTI-QRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 103 ~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~-~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
+.++..|+.+-..+ ++. ...+.+.+.++|.|++-.+..+.. ...-.-....++.+..++||+.-.
T Consensus 103 ~~lk~~g~~v~~~v--~s~--~~a~~a~~~GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~~iPviaaG 168 (307)
T TIGR03151 103 PRLKENGVKVIPVV--ASV--ALAKRMEKAGADAVIAEGMESGGHIGELTTMALVPQVVDAVSIPVIAAG 168 (307)
T ss_pred HHHHHcCCEEEEEc--CCH--HHHHHHHHcCCCEEEEECcccCCCCCCCcHHHHHHHHHHHhCCCEEEEC
Confidence 33444465543322 333 345677788999999833211111 111011344566677789987654
No 437
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=24.77 E-value=1.9e+02 Score=21.46 Aligned_cols=45 Identities=13% Similarity=0.228 Sum_probs=28.0
Q ss_pred HHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCC
Q 041485 127 EAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 127 ~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
+.+.+.+.|.+++|.+.. ....-+..+. ..+++.+.||++.|...
T Consensus 26 ~~~~~~gtdai~vGGS~~--vt~~~~~~~v-~~ik~~~lPvilfp~~~ 70 (232)
T PRK04169 26 EAICESGTDAIIVGGSDG--VTEENVDELV-KAIKEYDLPVILFPGNI 70 (232)
T ss_pred HHHHhcCCCEEEEcCCCc--cchHHHHHHH-HHHhcCCCCEEEeCCCc
Confidence 566677899999996641 1111122232 34555889999988655
No 438
>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=24.58 E-value=1.1e+02 Score=23.04 Aligned_cols=47 Identities=11% Similarity=0.212 Sum_probs=29.3
Q ss_pred HHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 123 DKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 123 ~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
....+..++.++|++|+-+.+. ...+ +.-+..++....+|++++.+.
T Consensus 49 ~~~~~~~~~~~pdf~I~isPN~-~~PG---P~~ARE~l~~~~iP~IvI~D~ 95 (276)
T PF01993_consen 49 EVVTKMLKEWDPDFVIVISPNA-AAPG---PTKAREMLSAKGIPCIVISDA 95 (276)
T ss_dssp HHHHHHHHHH--SEEEEE-S-T-TSHH---HHHHHHHHHHSSS-EEEEEEG
T ss_pred HHHHHHHHhhCCCEEEEECCCC-CCCC---cHHHHHHHHhCCCCEEEEcCC
Confidence 4444556788999999986642 2221 356788998999999999653
No 439
>cd04726 KGPDC_HPS 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for L-ascorbate utilization in some eubacteria. HPS catalyzes the formation of D-arabino-3-hexulose-6-phosphate from D-ribulose 5-phosphate and formaldehyde in microorganisms that can use formaldehyde as a carbon source. Both catalyze reactions that involve the Mg2+-assisted formation and stabilization of 1,2-enediolate reaction intermediates.
Probab=24.57 E-value=2.6e+02 Score=19.68 Aligned_cols=72 Identities=11% Similarity=0.006 Sum_probs=34.8
Q ss_pred HHHHHHhhcCCceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccc-cccccchhHHHhhcCCCCEEEEcC
Q 041485 99 DMLDAASKQKHVSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQ-RVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~-~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
+.+.+.+++.|+.+-..+.. .++.+.+ . +...++|.+.++....+... ....-....++....++|+.+...
T Consensus 93 ~~~i~~~~~~g~~~~v~~~~~~t~~e~~-~-~~~~~~d~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~GG 166 (202)
T cd04726 93 KKAVKAAKKYGKEVQVDLIGVEDPEKRA-K-LLKLGVDIVILHRGIDAQAAGGWWPEDDLKKVKKLLGVKVAVAGG 166 (202)
T ss_pred HHHHHHHHHcCCeEEEEEeCCCCHHHHH-H-HHHCCCCEEEEcCcccccccCCCCCHHHHHHHHhhcCCCEEEECC
Confidence 33445555667766543233 4544444 4 66668999888521111110 000011223333335688888764
No 440
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=24.55 E-value=1.6e+02 Score=21.83 Aligned_cols=53 Identities=26% Similarity=0.365 Sum_probs=33.7
Q ss_pred ChhHHHHHHHHhCCCCEEEEecCCCcccccccccc--hhH-----HHhhcCCCCEEEEcCCCCC
Q 041485 120 DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGS--VSN-----HVLANASCPVTIVKDPSAA 176 (179)
Q Consensus 120 ~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs--~~~-----~il~~~~~pVlvv~~~~~~ 176 (179)
+..+.+.+.+.+.++|++|++-. -+ .+.+|. .+. ..+.....||+.||.+-..
T Consensus 17 ~~~~k~~~~~~~~~~D~lviaGD-lt---~~~~~~~~~~~~~~~~e~l~~~~~~v~avpGNcD~ 76 (226)
T COG2129 17 DSLKKLLNAAADIRADLLVIAGD-LT---YFHFGPKEVAEELNKLEALKELGIPVLAVPGNCDP 76 (226)
T ss_pred HHHHHHHHHHhhccCCEEEEecc-ee---hhhcCchHHHHhhhHHHHHHhcCCeEEEEcCCCCh
Confidence 34688888888888999999843 22 111222 111 3456677999999876543
No 441
>PLN00096 isocitrate dehydrogenase (NADP+); Provisional
Probab=24.49 E-value=1e+02 Score=24.89 Aligned_cols=36 Identities=11% Similarity=0.022 Sum_probs=27.7
Q ss_pred EEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 22 GVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 22 Lv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
+...+..+++....++|+++|...+-+|+++|=...
T Consensus 169 ~~~~N~~~si~RiAr~AF~~A~~r~~~Vt~v~KaNI 204 (393)
T PLN00096 169 VTYHNPLDNVHHLARIFFGRCLDAGIVPYVVTKKTV 204 (393)
T ss_pred EEeccCHHHHHHHHHHHHHHHHHhCCcEEEEeCccc
Confidence 335567778889999999999888777777775444
No 442
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=24.34 E-value=2.2e+02 Score=18.86 Aligned_cols=34 Identities=15% Similarity=0.170 Sum_probs=23.7
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYII 52 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll 52 (179)
...+||.++.|-.+...++.+ +.|+..+..+..+
T Consensus 103 ~gDvli~iS~SG~s~~vi~a~-~~Ak~~G~~vIal 136 (138)
T PF13580_consen 103 PGDVLIVISNSGNSPNVIEAA-EEAKERGMKVIAL 136 (138)
T ss_dssp TT-EEEEEESSS-SHHHHHHH-HHHHHTT-EEEEE
T ss_pred CCCEEEEECCCCCCHHHHHHH-HHHHHCCCEEEEE
Confidence 688999999998888766544 4478888877665
No 443
>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=24.11 E-value=2.9e+02 Score=20.22 Aligned_cols=51 Identities=12% Similarity=0.077 Sum_probs=32.1
Q ss_pred hHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 122 RDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 122 ~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
...+.+.+.+.++|.+++..........-..-....++...+++||+....
T Consensus 151 ~~~~~~~l~~~G~d~i~v~~i~~~g~~~g~~~~~i~~i~~~~~~pvia~GG 201 (243)
T cd04731 151 AVEWAKEVEELGAGEILLTSMDRDGTKKGYDLELIRAVSSAVNIPVIASGG 201 (243)
T ss_pred HHHHHHHHHHCCCCEEEEeccCCCCCCCCCCHHHHHHHHhhCCCCEEEeCC
Confidence 345667778889998888554332211112224567788888999988754
No 444
>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=24.10 E-value=2.4e+02 Score=19.17 Aligned_cols=80 Identities=10% Similarity=0.034 Sum_probs=50.6
Q ss_pred HHHHHHHHHHhhcCCceEEEEEecc--ChhHHHHHHHHhCCCCEEEEecCCCcc-cccccccchhHHHhhcCCCCEEEEc
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWG--DARDKLCEAVEAMKLDSLVMGSRGLGT-IQRVLLGSVSNHVLANASCPVTIVK 171 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g--~~~~~i~~~a~~~~~dlvVlg~~~~~~-~~~~~~gs~~~~il~~~~~pVlvv~ 171 (179)
.+.+...+++.++.|.++...+.-+ ...+.+.+.....++|-++.-...... ....-......+++++.++.+++++
T Consensus 18 ~e~l~~A~~La~~~g~~v~av~~G~~~~~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~ 97 (164)
T PF01012_consen 18 LEALEAARRLAEALGGEVTAVVLGPAEEAAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLVLFG 97 (164)
T ss_dssp HHHHHHHHHHHHCTTSEEEEEEEETCCCHHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEE
T ss_pred HHHHHHHHHHHhhcCCeEEEEEEecchhhHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEEEEc
Confidence 5777888888888787777765443 345556666776889977776543211 1111234566778888888888887
Q ss_pred CCC
Q 041485 172 DPS 174 (179)
Q Consensus 172 ~~~ 174 (179)
...
T Consensus 98 ~t~ 100 (164)
T PF01012_consen 98 STS 100 (164)
T ss_dssp SSH
T ss_pred CcC
Confidence 643
No 445
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=24.01 E-value=81 Score=22.28 Aligned_cols=22 Identities=23% Similarity=0.125 Sum_probs=18.4
Q ss_pred eEEEeecCCccHHHHHHHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDN 41 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~l 41 (179)
++.+.+|++..++++++.|..-
T Consensus 1 kVIlvTDGD~~A~ravE~aa~~ 22 (180)
T PF14097_consen 1 KVILVTDGDEYAKRAVEIAAKN 22 (180)
T ss_pred CEEEEECChHHHHHHHHHHHHH
Confidence 4778899999999999988653
No 446
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=24.00 E-value=3.2e+02 Score=20.56 Aligned_cols=72 Identities=8% Similarity=0.179 Sum_probs=46.8
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhH-HHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARD-KLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~-~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
.++...+.+.+++.|..+-.....++... ..++...+.++|=+|+.+.... .. ....+... .+||+++-..
T Consensus 17 ~~ii~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s~~~~-~~------~l~~~~~~-~iPvV~~~~~ 88 (279)
T PF00532_consen 17 AEIIRGIEQEAREHGYQLLLCNTGDDEEKEEYIELLLQRRVDGIILASSEND-DE------ELRRLIKS-GIPVVLIDRY 88 (279)
T ss_dssp HHHHHHHHHHHHHTTCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEESSSCT-CH------HHHHHHHT-TSEEEEESS-
T ss_pred HHHHHHHHHHHHHcCCEEEEecCCCchHHHHHHHHHHhcCCCEEEEecccCC-hH------HHHHHHHc-CCCEEEEEec
Confidence 46777788888888987765443443332 5566788889999999854332 11 22445555 8999999765
Q ss_pred C
Q 041485 174 S 174 (179)
Q Consensus 174 ~ 174 (179)
.
T Consensus 89 ~ 89 (279)
T PF00532_consen 89 I 89 (279)
T ss_dssp S
T ss_pred c
Confidence 3
No 447
>PRK08349 hypothetical protein; Validated
Probab=23.99 E-value=2.7e+02 Score=19.75 Aligned_cols=33 Identities=18% Similarity=0.275 Sum_probs=26.1
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeC
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKL 56 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~ 56 (179)
++++.++|...|.-++..+.. .+..+..+|+..
T Consensus 2 ~~vvllSGG~DS~v~~~~l~~----~g~~v~av~~d~ 34 (198)
T PRK08349 2 KAVALLSSGIDSPVAIYLMLR----RGVEVYPVHFRQ 34 (198)
T ss_pred cEEEEccCChhHHHHHHHHHH----cCCeEEEEEEeC
Confidence 588999999888887765543 577899999975
No 448
>PRK00861 putative lipid kinase; Reviewed
Probab=23.97 E-value=3.3e+02 Score=20.73 Aligned_cols=57 Identities=16% Similarity=0.239 Sum_probs=32.9
Q ss_pred ceEEEEEec-cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 110 VSVVAKLYW-GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 110 ~~~~~~~~~-g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
.+++..... ...+..+.+.+...+.|+||+.. +-+.+.. +...++ ...+|+-++|..
T Consensus 33 ~~~~~~~t~~~~~a~~~a~~~~~~~~d~vv~~G-GDGTl~e-----vv~~l~-~~~~~lgviP~G 90 (300)
T PRK00861 33 MDLDIYLTTPEIGADQLAQEAIERGAELIIASG-GDGTLSA-----VAGALI-GTDIPLGIIPRG 90 (300)
T ss_pred CceEEEEccCCCCHHHHHHHHHhcCCCEEEEEC-ChHHHHH-----HHHHHh-cCCCcEEEEcCC
Confidence 445543333 34567777777667789877653 2333333 334443 346889898864
No 449
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=23.96 E-value=3.1e+02 Score=20.37 Aligned_cols=58 Identities=10% Similarity=0.066 Sum_probs=37.1
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHH
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHV 159 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~i 159 (179)
.+.+..++.|..+=..+..+.+.+.+..+... +|+|.+=+-..+...+.|......+|
T Consensus 99 ~~i~~Ik~~G~kaGlalnP~T~~~~l~~~l~~--vD~VLvMsV~PGf~GQ~fi~~~l~KI 156 (229)
T PRK09722 99 RLIDEIRRAGMKVGLVLNPETPVESIKYYIHL--LDKITVMTVDPGFAGQPFIPEMLDKI 156 (229)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCHHHHHHHHHh--cCEEEEEEEcCCCcchhccHHHHHHH
Confidence 34455566677666666668889999999988 78766555444555555555444443
No 450
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=23.91 E-value=1e+02 Score=21.62 Aligned_cols=71 Identities=11% Similarity=0.086 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchh---HHHhhcCCCCEEEEc
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVS---NHVLANASCPVTIVK 171 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~---~~il~~~~~pVlvv~ 171 (179)
+++.+.+...+.+.|..++..-.. .+.. ..-.++|.||+|.+-+.+..+.-+++.. ...|...|..++.|.
T Consensus 15 ~kIA~~iA~~L~e~g~qvdi~dl~-----~~~~-~~l~~ydavVIgAsI~~~h~~~~~~~Fv~k~~e~L~~kP~A~f~vn 88 (175)
T COG4635 15 RKIAEYIASHLRESGIQVDIQDLH-----AVEE-PALEDYDAVVIGASIRYGHFHEAVQSFVKKHAEALSTKPSAFFSVN 88 (175)
T ss_pred HHHHHHHHHHhhhcCCeeeeeehh-----hhhc-cChhhCceEEEecchhhhhhHHHHHHHHHHHHHHHhcCCceEEEee
Confidence 688888888888889888764322 1111 3456699999998643322222223322 345666676666664
No 451
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=23.88 E-value=2.2e+02 Score=23.34 Aligned_cols=53 Identities=19% Similarity=0.277 Sum_probs=38.1
Q ss_pred ChhHHHHHHHHh--CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 120 DARDKLCEAVEA--MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 120 ~~~~~i~~~a~~--~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
.....|.+..++ .++|.+|++-++++.+.. -...-.+.++...||++=|+...
T Consensus 128 ~~~~~ll~~~~~~l~~~~~vVLSDY~KG~L~~---~q~~I~~ar~~~~pVLvDPKg~D 182 (467)
T COG2870 128 EDENKLLEKIKNALKSFDALVLSDYAKGVLTN---VQKMIDLAREAGIPVLVDPKGKD 182 (467)
T ss_pred hhHHHHHHHHHHHhhcCCEEEEeccccccchh---HHHHHHHHHHcCCcEEECCCCcc
Confidence 345556655554 669999999998887664 23445688899999999886543
No 452
>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=23.86 E-value=1.7e+02 Score=20.27 Aligned_cols=39 Identities=15% Similarity=0.054 Sum_probs=29.9
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
.+.++|.++.|.++...++.+ +.|+..|+++..+.-...
T Consensus 101 ~~Dv~I~iS~SG~t~~~i~~~-~~ak~~Ga~vI~IT~~~~ 139 (177)
T cd05006 101 PGDVLIGISTSGNSPNVLKAL-EAAKERGMKTIALTGRDG 139 (177)
T ss_pred CCCEEEEEeCCCCCHHHHHHH-HHHHHCCCEEEEEeCCCC
Confidence 688999999999988766655 457888888877765543
No 453
>PF05902 4_1_CTD: 4.1 protein C-terminal domain (CTD); InterPro: IPR008379 There is a unique sequence domain at the C terminus of all known 4.1 proteins, known as the C-terminal domain (CTD). Mammalian CTDs are associated with a growing number of protein-protein interactions, although such activities have yet to be associated with invertebrate CTDs. Mammalian CTDs are generally defined by sequence alignment as encoded by exons 18-21. Comparison of known vertebrate 4.1 proteins with invertebrate 4.1 proteins indicates that mammalian 4.1 exon 19 represents a vertebrate adaptation that extends the sequence of the CTD with a Ser/Thr-rich sequence. The CTD was first described as a 22/24 kDa domain by chymotryptic digestion of erythrocyte 4.1 (4.1R). CTD is thought to represent an independent folding structure which has gained function since the divergence of vertebrates from invertebrates [].; GO: 0003779 actin binding, 0005198 structural molecule activity, 0005856 cytoskeleton
Probab=23.83 E-value=2e+02 Score=18.81 Aligned_cols=36 Identities=19% Similarity=0.133 Sum_probs=27.0
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCC--CEEEEEEE
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKG--DTLYIIHI 54 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~--~~l~ll~v 54 (179)
|||.+--|.+-.-.+||..|++-|+..+ ..++=+-|
T Consensus 71 KRIvITGD~DIDhDqaLa~aI~eAk~q~Pdm~Vtkvvv 108 (114)
T PF05902_consen 71 KRIVITGDADIDHDQALAQAIKEAKEQHPDMSVTKVVV 108 (114)
T ss_pred EEEEEecCCCcchHHHHHHHHHHHHHhCCCceEEEEEE
Confidence 7888888888777889999999998854 44443333
No 454
>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=23.81 E-value=3.2e+02 Score=20.61 Aligned_cols=31 Identities=10% Similarity=-0.098 Sum_probs=14.5
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCE
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDT 48 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~ 48 (179)
.+++.+..+.++.+....+.....++..+.+
T Consensus 137 ~~~vail~~~~~~g~~~~~~~~~~~~~~G~~ 167 (312)
T cd06346 137 YKSVATTYINNDYGVGLADAFTKAFEALGGT 167 (312)
T ss_pred CCeEEEEEccCchhhHHHHHHHHHHHHcCCE
Confidence 3455555555555444444444444444433
No 455
>PRK11891 aspartate carbamoyltransferase; Provisional
Probab=23.75 E-value=4.2e+02 Score=21.85 Aligned_cols=41 Identities=17% Similarity=0.249 Sum_probs=27.1
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEE
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTI 169 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlv 169 (179)
|........+...+ +|+||+-....+ ....+.+++.+||+=
T Consensus 169 GESi~DTarvLs~y-~D~IviR~~~~~---------~~~e~A~~s~vPVIN 209 (429)
T PRK11891 169 GESIYDTSRVMSGY-VDALVIRHPEQG---------SVAEFARATNLPVIN 209 (429)
T ss_pred CCCHHHHHHHHHHh-CCEEEEeCCchh---------HHHHHHHhCCCCEEE
Confidence 55556666666666 999999643322 446677888899763
No 456
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=23.72 E-value=2.5e+02 Score=20.26 Aligned_cols=62 Identities=23% Similarity=0.254 Sum_probs=34.1
Q ss_pred HHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCC--CCEEEE
Q 041485 101 LDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANAS--CPVTIV 170 (179)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~--~pVlvv 170 (179)
+.+.+++.+.++. +...+... + ...+..++|.||++.-.-++.. .| .+..++++.. .|+|-|
T Consensus 17 Lv~yl~~lg~~v~--V~rnd~~~-~-~~~~~~~pd~iviSPGPG~P~d---~G-~~~~~i~~~~~~~PiLGV 80 (191)
T COG0512 17 LVQYLRELGAEVT--VVRNDDIS-L-ELIEALKPDAIVISPGPGTPKD---AG-ISLELIRRFAGRIPILGV 80 (191)
T ss_pred HHHHHHHcCCceE--EEECCccC-H-HHHhhcCCCEEEEcCCCCChHH---cc-hHHHHHHHhcCCCCEEEE
Confidence 4455555563333 43444111 1 1666777999999865433332 22 3455666643 798865
No 457
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=23.62 E-value=3.9e+02 Score=21.46 Aligned_cols=98 Identities=9% Similarity=0.068 Sum_probs=0.0
Q ss_pred HHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHhhcCCceEEEEEe
Q 041485 38 AIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAASKQKHVSVVAKLY 117 (179)
Q Consensus 38 a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 117 (179)
.+..|...+-.++++....-+. .+=.+.....+.+.|++++...
T Consensus 191 ~i~~a~~~gk~f~V~v~EsRP~-----------------------------------~qG~rlta~eL~~~GIpvtlI~- 234 (363)
T PRK05772 191 PVKLAKALGMSVSVIAPETRPW-----------------------------------LQGSRLTVYELMEEGIKVTLIT- 234 (363)
T ss_pred HHHHHHHCCCeEEEEECCCCcc-----------------------------------chhHHHHHHHHHHCCCCEEEEe-
Q ss_pred ccChhHHHHHHHHhCCCCEEEEecCCCccccccc--ccchhHHHh-hcCCCCEEEEcCCCC
Q 041485 118 WGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVL--LGSVSNHVL-ANASCPVTIVKDPSA 175 (179)
Q Consensus 118 ~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~--~gs~~~~il-~~~~~pVlvv~~~~~ 175 (179)
...+--++...++|.+++|...-..-.... .|+-.-.++ ++..+|++++-+..+
T Consensus 235 ----Dsa~~~~m~~~~Vd~VivGAD~I~~NG~v~NKiGTy~lA~~Ak~~~vPfyV~ap~~k 291 (363)
T PRK05772 235 ----DTAVGLVMYKDMVNNVMVGADRILRDGHVFNKIGTFKEAVIAHELGIPFYALAPTST 291 (363)
T ss_pred ----hhHHHHHHhhcCCCEEEECccEEecCCCEeehhhhHHHHHHHHHhCCCEEEEccccc
No 458
>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=23.49 E-value=1.9e+02 Score=18.45 Aligned_cols=40 Identities=15% Similarity=0.109 Sum_probs=29.6
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.+.+++.++.+.++...++.+.. |+..++++.++.-....
T Consensus 47 ~~d~vi~iS~sG~t~~~~~~~~~-a~~~g~~vi~iT~~~~s 86 (128)
T cd05014 47 PGDVVIAISNSGETDELLNLLPH-LKRRGAPIIAITGNPNS 86 (128)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHH-HHHCCCeEEEEeCCCCC
Confidence 57899999999888876666555 77778887777665443
No 459
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=23.48 E-value=4.1e+02 Score=21.66 Aligned_cols=27 Identities=19% Similarity=0.118 Sum_probs=19.0
Q ss_pred EeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 116 LYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 116 ~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
+..+.-..++.+.++..++|+++=+++
T Consensus 360 v~~~~d~~e~~~~i~~~~pDliiG~s~ 386 (435)
T cd01974 360 VYPGKDLWHLRSLLFTEPVDLLIGNTY 386 (435)
T ss_pred EEECCCHHHHHHHHhhcCCCEEEECcc
Confidence 434555778888888889999665443
No 460
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=23.45 E-value=2.2e+02 Score=20.38 Aligned_cols=20 Identities=10% Similarity=0.235 Sum_probs=11.7
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q 041485 124 KLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 124 ~i~~~a~~~~~dlvVlg~~~ 143 (179)
...+.++..+...|++....
T Consensus 124 ~~adl~~~l~~pvilV~~~~ 143 (222)
T PRK00090 124 TLADLAKQLQLPVILVVGVK 143 (222)
T ss_pred cHHHHHHHhCCCEEEEECCC
Confidence 34456666666666665443
No 461
>PRK14057 epimerase; Provisional
Probab=23.44 E-value=3.3e+02 Score=20.61 Aligned_cols=48 Identities=8% Similarity=0.012 Sum_probs=32.9
Q ss_pred eEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHh
Q 041485 111 SVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVL 160 (179)
Q Consensus 111 ~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il 160 (179)
.+=..+..+.+.+.+..+... +|+|.+=+-..+...+.|..+..++|-
T Consensus 134 kaGlAlnP~Tp~e~i~~~l~~--vD~VLvMtV~PGfgGQ~Fi~~~l~KI~ 181 (254)
T PRK14057 134 IRGISLCPATPLDVIIPILSD--VEVIQLLAVNPGYGSKMRSSDLHERVA 181 (254)
T ss_pred eeEEEECCCCCHHHHHHHHHh--CCEEEEEEECCCCCchhccHHHHHHHH
Confidence 344445567899999999988 887766665556666667766555544
No 462
>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=23.37 E-value=3e+02 Score=22.01 Aligned_cols=44 Identities=9% Similarity=0.144 Sum_probs=24.9
Q ss_pred HHHHHHHH-hCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcC
Q 041485 123 DKLCEAVE-AMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKD 172 (179)
Q Consensus 123 ~~i~~~a~-~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~ 172 (179)
..+...+. ..+++.||+=-+..++.+-+ -..++...+|++.+.-
T Consensus 61 ~~~~~~an~~~~c~gvi~wMhTfSpakmw------I~gl~~l~kPllhl~t 105 (359)
T PF02610_consen 61 TRVCKEANADEDCDGVITWMHTFSPAKMW------IPGLQRLQKPLLHLHT 105 (359)
T ss_dssp HHHHHHHHH-TTEEEEEEEESS---THHH------HHHHHH--S-EEEEE-
T ss_pred HHHHHHhhccCCccEEeehhhhhccHHHH------HHHHHHhCCCeEEeec
Confidence 33444443 36799999887877766544 3578899999999853
No 463
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=23.31 E-value=4.1e+02 Score=21.56 Aligned_cols=41 Identities=7% Similarity=-0.107 Sum_probs=25.9
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
+++|++.+.--++.-+.--....+-+..+.+..++|-....
T Consensus 3 ~~Kv~~I~GTRPE~iKmapli~~~~~~~~~~~~vi~TGQH~ 43 (383)
T COG0381 3 MLKVLTIFGTRPEAIKMAPLVKALEKDPDFELIVIHTGQHR 43 (383)
T ss_pred ceEEEEEEecCHHHHHHhHHHHHHHhCCCCceEEEEecccc
Confidence 56788877777766665544445444455777777765443
No 464
>TIGR00644 recJ single-stranded-DNA-specific exonuclease RecJ. All proteins in this family are 5'-3' single-strand DNA exonucleases. These proteins are used in some aspects of mismatch repair, recombination, and recombinational repair.
Probab=23.24 E-value=4.6e+02 Score=22.17 Aligned_cols=35 Identities=14% Similarity=0.193 Sum_probs=24.7
Q ss_pred CceEEEEEeccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 109 HVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 109 ~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
+.+.-+.+-.|.....-.+++++.+.+.||+-+|.
T Consensus 111 ~~~LiI~vD~G~~~~~~~~~~~~~g~~vIviDHH~ 145 (539)
T TIGR00644 111 GVSLIITVDNGISAHEEIDYAKELGIDVIVTDHHE 145 (539)
T ss_pred CCCEEEEeCCCcccHHHHHHHHhcCCCEEEECCCC
Confidence 44455555567666555677888899999998774
No 465
>PF02729 OTCace_N: Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; InterPro: IPR006132 This entry contains two related enzymes: Aspartate carbamoyltransferase (2.1.3.2 from EC) (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides []. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals []) that also catalyzes other steps of the biosynthesis of pyrimidines. Ornithine carbamoyltransferase (2.1.3.3 from EC) (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [] (the arginine deaminase pathway). It has been shown [] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [], to be implicated in binding the phosphoryl group of carbamoyl phosphate and may also play a role in trimerization of the molecules []. The carboxyl-terminal, aspartate/ornithine-binding domain is is described by IPR006131 from INTERPRO. ; GO: 0016743 carboxyl- or carbamoyltransferase activity, 0006520 cellular amino acid metabolic process; PDB: 1ML4_A 2P2G_D 2I6U_A 2YFK_B 3D6N_B 3SDS_A 3GD5_A 3R7L_B 3R7F_A 3R7D_A ....
Probab=23.17 E-value=68 Score=21.72 Aligned_cols=40 Identities=15% Similarity=0.336 Sum_probs=26.3
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEE
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVT 168 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVl 168 (179)
|.......++...+ +|+||+-.... .....+..++.|||+
T Consensus 81 ~Esl~Dtar~ls~~-~D~iv~R~~~~---------~~~~~~a~~~~vPVI 120 (142)
T PF02729_consen 81 GESLEDTARVLSRY-VDAIVIRHPSH---------GALEELAEHSSVPVI 120 (142)
T ss_dssp SSEHHHHHHHHHHH-CSEEEEEESSH---------HHHHHHHHHCSSEEE
T ss_pred CCCHHHHHHHHHHh-hheEEEEeccc---------hHHHHHHHhccCCeE
Confidence 44555666666666 99999864432 234567888899986
No 466
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=23.15 E-value=1.5e+02 Score=16.65 Aligned_cols=25 Identities=28% Similarity=0.242 Sum_probs=17.9
Q ss_pred ccHHHHHHHHHHHhcCC-CCEEEEEEE
Q 041485 29 KGSKLALKWAIDNLLEK-GDTLYIIHI 54 (179)
Q Consensus 29 ~~s~~al~~a~~la~~~-~~~l~ll~v 54 (179)
+.-..|++.|.++|+.. +..| ++|-
T Consensus 26 ~Tk~eAi~~Ar~~a~~~~~~el-~Ih~ 51 (62)
T PF09954_consen 26 DTKAEAIEAARELAKNQGGGEL-IIHG 51 (62)
T ss_pred CcHHHHHHHHHHHHHhCCCcEE-EEEC
Confidence 45678999999999886 4444 4443
No 467
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=23.10 E-value=4e+02 Score=21.44 Aligned_cols=41 Identities=10% Similarity=0.016 Sum_probs=23.3
Q ss_pred HHHHHHhhcCCceEEEEE-eccCh----hHHHHHHHHhCCCCEEEE
Q 041485 99 DMLDAASKQKHVSVVAKL-YWGDA----RDKLCEAVEAMKLDSLVM 139 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~-~~g~~----~~~i~~~a~~~~~dlvVl 139 (179)
+.+.+.+++.|+.+...- ..++| .+...+.+++.++|.||-
T Consensus 67 ~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~Iia 112 (395)
T PRK15454 67 AGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIA 112 (395)
T ss_pred HHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEE
Confidence 344555556676654321 22333 445566678888887763
No 468
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=23.08 E-value=1.7e+02 Score=23.54 Aligned_cols=49 Identities=12% Similarity=0.167 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhcCCceEEEEEe------ccChhHHHHHHHH-hCCCCEEEEecCCC
Q 041485 96 DVLDMLDAASKQKHVSVVAKLY------WGDARDKLCEAVE-AMKLDSLVMGSRGL 144 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~------~g~~~~~i~~~a~-~~~~dlvVlg~~~~ 144 (179)
++.+.+.+..+....++-..+. .|+-.+.+++.++ +.++.+|.+.+.+.
T Consensus 74 ~L~~aI~ei~~~~~P~~I~V~sTCv~e~IGDDi~~v~~~~~~~~~~pvi~v~t~gf 129 (396)
T cd01979 74 ELDRVVTQIKRDRNPSVIFLIGSCTTEVIKMDLEGAAPRLSAEIGVPILVASASGL 129 (396)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCHHHHHhcCHHHHHHHHhhcCCCcEEEeeCCCc
Confidence 4444455555544433222221 2666677776655 45677777766553
No 469
>PRK13938 phosphoheptose isomerase; Provisional
Probab=23.07 E-value=2.9e+02 Score=19.82 Aligned_cols=40 Identities=18% Similarity=-0.041 Sum_probs=31.1
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
.+.+++.++.|.++... -.+++.|+..++++..+.-....
T Consensus 113 ~~DllI~iS~SG~t~~v-i~a~~~Ak~~G~~vI~iT~~~~s 152 (196)
T PRK13938 113 PGDTLFAISTSGNSMSV-LRAAKTARELGVTVVAMTGESGG 152 (196)
T ss_pred CCCEEEEEcCCCCCHHH-HHHHHHHHHCCCEEEEEeCCCCC
Confidence 68899999999888874 45666788899988877765443
No 470
>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=23.02 E-value=3e+02 Score=19.90 Aligned_cols=37 Identities=16% Similarity=0.152 Sum_probs=25.6
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
..++|+.+++.-.|.- |..+..+.|.++..+|+..++
T Consensus 3 ~gk~l~LlSGGiDSpV----Aa~lm~krG~~V~~l~f~~~~ 39 (197)
T PF02568_consen 3 QGKALALLSGGIDSPV----AAWLMMKRGCEVIALHFDSPP 39 (197)
T ss_dssp T-EEEEE-SSCCHHHH----HHHHHHCBT-EEEEEEEE-TT
T ss_pred CceEEEEecCCccHHH----HHHHHHHCCCEEEEEEEECCC
Confidence 4788999998887775 445566689999999998554
No 471
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=22.96 E-value=3.4e+02 Score=20.88 Aligned_cols=56 Identities=11% Similarity=0.106 Sum_probs=39.9
Q ss_pred cChhHHHHHHHHhCCCCEEEEecCCCccccc-ccccchhHHHhhcCCCCEEEEcCCC
Q 041485 119 GDARDKLCEAVEAMKLDSLVMGSRGLGTIQR-VLLGSVSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 119 g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~-~~~gs~~~~il~~~~~pVlvv~~~~ 174 (179)
-...+.+++.|++.+..+|+..+.+.-.... ..+......+..++.+||-+-=++.
T Consensus 28 ~e~~~avi~AAe~~~sPvIl~~~~~~~~~~g~~~~~~~~~~~A~~~~vPV~lHLDH~ 84 (283)
T PRK07998 28 LETTISILNAIERSGLPNFIQIAPTNAQLSGYDYIYEIVKRHADKMDVPVSLHLDHG 84 (283)
T ss_pred HHHHHHHHHHHHHhCCCEEEECcHhHHhhCCHHHHHHHHHHHHHHCCCCEEEECcCC
Confidence 3678899999999999999987654322222 2345577788899999998764443
No 472
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=22.93 E-value=4.2e+02 Score=21.61 Aligned_cols=131 Identities=14% Similarity=0.179 Sum_probs=72.2
Q ss_pred HHhcC-CCCEEEEEEEeCCCCCcccccccCCCCCCCCCc-hhhhhHHHHHHhhhhhhHHHHHHHHH---HhhcCC----c
Q 041485 40 DNLLE-KGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPL-EEFRDQEVMKQYEVDLDQDVLDMLDA---ASKQKH----V 110 (179)
Q Consensus 40 ~la~~-~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~----~ 110 (179)
++|+. +.+.+.-+.+.+.+-.. +..-..|-...+. .....-..++++.-+.-+.....+.. ...+.+ .
T Consensus 170 rLA~a~~pA~VvsliiSDVpGDd---~~~IASGPTv~D~tt~~DAlavl~ry~i~~p~~v~~~l~~~~~~t~~~~d~~~~ 246 (422)
T COG2379 170 RLAAAAKPAKVVSLIISDVPGDD---PSVIASGPTVPDPTTREDALAVLERYGIALPESVRAHLESERAETPKPGDERFA 246 (422)
T ss_pred HHHHhcCCCeEEEEEEccCCCCC---HhhcccCCCCCCCCchHHHHHHHHHhcccccHHHHHHHhhhcccCCCCCccccc
Confidence 45555 45788877777765422 1111222222222 12222334444443322233333331 111111 1
Q ss_pred eEEEEEec--cChhHHHHHHHHhCCCCEEEEecCCCcccc--cccccchhHHHhhcC---CCCEEEEcCC
Q 041485 111 SVVAKLYW--GDARDKLCEAVEAMKLDSLVMGSRGLGTIQ--RVLLGSVSNHVLANA---SCPVTIVKDP 173 (179)
Q Consensus 111 ~~~~~~~~--g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~--~~~~gs~~~~il~~~---~~pVlvv~~~ 173 (179)
+++.++.- ....+.+..+++..++..+|||..=.+..+ ..++.+++.++.++- .-|++++-..
T Consensus 247 ~v~~~iIasn~~sleaaa~~~~~~G~~a~Il~d~ieGEArevg~v~asiarev~~~g~Pf~~P~~llsGG 316 (422)
T COG2379 247 NVENRIIASNRLSLEAAASEARALGFKAVILGDTIEGEAREVGRVHASIAREVARRGRPFKKPVVLLSGG 316 (422)
T ss_pred cceeEEEechHHHHHHHHHHHHhcCCeeEEeeccccccHHHHHHHHHHHHHHHHHcCCCCCCCEEEEECC
Confidence 34444433 466788889999999999999986443333 456788999988887 6898888543
No 473
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=22.91 E-value=3.1e+02 Score=20.08 Aligned_cols=53 Identities=11% Similarity=-0.017 Sum_probs=33.2
Q ss_pred HHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccc
Q 041485 100 MLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGS 154 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs 154 (179)
.+.+..++.|..+=..+..+.+.+.+..+... +|+|.+=+-..+...+.|...
T Consensus 97 ~~l~~ik~~g~k~GlalnP~Tp~~~i~~~l~~--~D~vlvMtV~PGfgGq~fi~~ 149 (220)
T PRK08883 97 RTLQLIKEHGCQAGVVLNPATPLHHLEYIMDK--VDLILLMSVNPGFGGQSFIPH 149 (220)
T ss_pred HHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHh--CCeEEEEEecCCCCCceecHh
Confidence 34455566677666666668899999999888 776655433334444445444
No 474
>PRK10474 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=22.85 E-value=1.7e+02 Score=17.96 Aligned_cols=44 Identities=20% Similarity=0.197 Sum_probs=25.7
Q ss_pred HHHHHHhhcCCceEEEEEecc-ChhHHHH-HHHHhCCCCEEEEecCCC
Q 041485 99 DMLDAASKQKHVSVVAKLYWG-DARDKLC-EAVEAMKLDSLVMGSRGL 144 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g-~~~~~i~-~~a~~~~~dlvVlg~~~~ 144 (179)
+.+.+.+.+.|+.+.++.... .+...+. +.+.. +|+||+.....
T Consensus 4 eaL~~aA~~~G~~i~VEtqg~~g~~~~lt~~~i~~--Ad~VIia~d~~ 49 (88)
T PRK10474 4 EALESAAKAKGWEVKVETQGSIGLENELTAEDVAS--ADMVILTKDIG 49 (88)
T ss_pred HHHHHHHHHCCCeEEEEecCCcCcCCCCCHHHHHh--CCEEEEEecCC
Confidence 345566677787777655332 2233332 34555 89999986543
No 475
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=22.82 E-value=1.9e+02 Score=20.90 Aligned_cols=20 Identities=5% Similarity=0.132 Sum_probs=10.4
Q ss_pred hhHHHhhcCCCCEEEEcCCC
Q 041485 155 VSNHVLANASCPVTIVKDPS 174 (179)
Q Consensus 155 ~~~~il~~~~~pVlvv~~~~ 174 (179)
....+-.+...|++++-...
T Consensus 97 L~~~L~~~~~~~~iv~~H~p 116 (214)
T cd07399 97 ANEVLKKHPDRPAILTTHAY 116 (214)
T ss_pred HHHHHHHCCCCCEEEEeccc
Confidence 33333333447888775433
No 476
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=22.79 E-value=2.6e+02 Score=19.14 Aligned_cols=31 Identities=10% Similarity=0.032 Sum_probs=18.3
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEE
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTL 49 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l 49 (179)
..+++++..+..+...+....++++..+.++
T Consensus 116 D~vliv~~~~~~~~~~~~~~~~~l~~~~~~~ 146 (179)
T cd03110 116 DAALLVTEPTPSGLHDLERAVELVRHFGIPV 146 (179)
T ss_pred CEEEEEecCCcccHHHHHHHHHHHHHcCCCE
Confidence 4566666666666666666666655554443
No 477
>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=22.71 E-value=3.7e+02 Score=20.82 Aligned_cols=64 Identities=11% Similarity=0.240 Sum_probs=36.6
Q ss_pred HHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCccccccc--ccchh-HHHhhcCCCCEEEEcC
Q 041485 102 DAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVL--LGSVS-NHVLANASCPVTIVKD 172 (179)
Q Consensus 102 ~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~--~gs~~-~~il~~~~~pVlvv~~ 172 (179)
.+.+.+.|++++... .+ .+.-.+.+ +|.+++|...-..-...+ .|+.. .-+.++..+||+++-+
T Consensus 159 a~~L~~~gI~vtlI~--Ds---a~~~~m~~--vd~VivGad~v~~nG~v~nkiGT~~lA~~Ak~~~vPv~V~a~ 225 (301)
T TIGR00511 159 AKELRDYGIPVTLIV--DS---AVRYFMKE--VDHVVVGADAITANGALINKIGTSQLALAAREARVPFMVAAE 225 (301)
T ss_pred HHHHHHCCCCEEEEe--hh---HHHHHHHh--CCEEEECccEEecCCCEEEHHhHHHHHHHHHHhCCCEEEEcc
Confidence 344456788877543 22 22223444 999999987432222222 34433 3345677799999844
No 478
>COG0707 MurG UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]
Probab=22.67 E-value=4e+02 Score=21.23 Aligned_cols=101 Identities=22% Similarity=0.225 Sum_probs=56.5
Q ss_pred CeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHH
Q 041485 19 RSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVL 98 (179)
Q Consensus 19 ~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (179)
+..++.+.+|..+...-+...+........+.++|..-.. . .
T Consensus 183 ~~~ilV~GGS~Ga~~ln~~v~~~~~~l~~~~~v~~~~G~~-------------------------------------~-~ 224 (357)
T COG0707 183 KKTILVTGGSQGAKALNDLVPEALAKLANRIQVIHQTGKN-------------------------------------D-L 224 (357)
T ss_pred CcEEEEECCcchhHHHHHHHHHHHHHhhhCeEEEEEcCcc-------------------------------------h-H
Confidence 5566677788777764444444443433367888776553 1 2
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCCCC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDPSA 175 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~~~ 175 (179)
+.......+.+. +++.. ..+.+..+.+. +||+|.- .+-+.+.. +-....|+++||....
T Consensus 225 ~~~~~~~~~~~~-~~v~~----f~~dm~~~~~~--ADLvIsR-aGa~Ti~E----------~~a~g~P~IliP~p~~ 283 (357)
T COG0707 225 EELKSAYNELGV-VRVLP----FIDDMAALLAA--ADLVISR-AGALTIAE----------LLALGVPAILVPYPPG 283 (357)
T ss_pred HHHHHHHhhcCc-EEEee----HHhhHHHHHHh--ccEEEeC-CcccHHHH----------HHHhCCCEEEeCCCCC
Confidence 333344444454 33322 33446666666 7887763 33222222 3345799999987654
No 479
>TIGR00330 glpX fructose-1,6-bisphosphatase, class II. In E. coli, GlpX is found in the glpFKX operon together with a glycerol update protein and glycerol kinase.
Probab=22.65 E-value=3.8e+02 Score=21.02 Aligned_cols=81 Identities=20% Similarity=0.165 Sum_probs=52.3
Q ss_pred CCeEEE------eecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhh
Q 041485 18 NRSIGV------ALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEV 91 (179)
Q Consensus 18 ~~~ILv------~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (179)
|.+|.| .+|.+.+-..-++...+-....-..++++-...++-
T Consensus 119 M~KiavGp~~~G~vdl~~p~~~Nl~~vA~algk~~~dltV~vLdRpRH-------------------------------- 166 (321)
T TIGR00330 119 MEKLVVGPGAKGTIDLNLPLADNLRNVAKALGKPLSDLTVTILAKPRH-------------------------------- 166 (321)
T ss_pred eeeeeECcccCCeecCCCCHHHHHHHHHHHcCCChhHeEEEEEcCchH--------------------------------
Confidence 456666 567777766777777764444556777777655541
Q ss_pred hhhHHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEE
Q 041485 92 DLDQDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLV 138 (179)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvV 138 (179)
+.+.+..++.|.++.. +..||+.-.|.-.....++|+++
T Consensus 167 -------~~lI~eiR~~Gari~L-i~DGDVa~ai~~~~~~s~vD~~~ 205 (321)
T TIGR00330 167 -------DAVIAEMQQLGVRVFA-IPDGDVAASILTCMPDSEVDVLY 205 (321)
T ss_pred -------HHHHHHHHHcCCeEEE-eccccHHHHHHHhCCCCCeeEEE
Confidence 2334455666776664 33578888888777777788754
No 480
>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=22.60 E-value=2.4e+02 Score=18.61 Aligned_cols=40 Identities=18% Similarity=0.072 Sum_probs=33.5
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
.++|+|+-|....|....+.+..-....+.++..+.....
T Consensus 40 ~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g~~~t 79 (137)
T PF02878_consen 40 GSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIGLVPT 79 (137)
T ss_dssp SSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEEEB-H
T ss_pred CCeEEEEEcccCCHHHHHHHHHHHHhhcccccccccccCc
Confidence 6899999999999999999999999889999888884433
No 481
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=22.58 E-value=1.6e+02 Score=22.41 Aligned_cols=39 Identities=18% Similarity=0.183 Sum_probs=30.8
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
.+.++|+++.+.+....++.+ +.|+..|+++..+.-...
T Consensus 177 ~~Dv~i~iS~sG~t~e~i~~a-~~ak~~ga~vIaiT~~~~ 215 (281)
T COG1737 177 PGDVVIAISFSGYTREIVEAA-ELAKERGAKVIAITDSAD 215 (281)
T ss_pred CCCEEEEEeCCCCcHHHHHHH-HHHHHCCCcEEEEcCCCC
Confidence 688999999999999866655 558888888877766543
No 482
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.48 E-value=3.1e+02 Score=19.87 Aligned_cols=45 Identities=9% Similarity=-0.009 Sum_probs=33.4
Q ss_pred HHHHHHHhhcCCCCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEE
Q 041485 6 NKLIFFFKMASNNRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYI 51 (179)
Q Consensus 6 ~~~~~~~~m~~~~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~l 51 (179)
..|+..-.-. ..+.|.++++++-+...-..|-.++.+..+.+++=
T Consensus 124 ~~L~~Ri~~~-~v~EVIlAt~~tvEGe~Ta~yi~~~lk~~~ikvtR 168 (195)
T TIGR00615 124 AALLKRLQEE-SVKEVILATNPTVEGEATALYIARLLQPFGVKVTR 168 (195)
T ss_pred HHHHHHHhcC-CCcEEEEeCCCCchHHHHHHHHHHHhhhcCCcEEe
Confidence 3445444333 38999999999999999999999988776655553
No 483
>COG0156 BioF 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]
Probab=22.39 E-value=1.5e+02 Score=23.94 Aligned_cols=48 Identities=17% Similarity=0.065 Sum_probs=32.1
Q ss_pred ChhhHHHHHHHHhhcCCCCeEEEeecC--CccHH-HHHHHHHHHhcCCCCEE
Q 041485 1 DWKTLNKLIFFFKMASNNRSIGVALDF--SKGSK-LALKWAIDNLLEKGDTL 49 (179)
Q Consensus 1 ~~~~~~~~~~~~~m~~~~~~ILv~vd~--s~~s~-~al~~a~~la~~~~~~l 49 (179)
|+.-|+.++.+-.-... ++++|++|+ |-... .=|..-.++++++++-+
T Consensus 154 D~~~Le~~l~~~~~~~~-~~~~IvtegVfSMdGdiApL~~l~~L~~ky~a~L 204 (388)
T COG0156 154 DLDHLEALLEEARENGA-RRKLIVTEGVFSMDGDIAPLPELVELAEKYGALL 204 (388)
T ss_pred CHHHHHHHHHhhhccCC-CceEEEEeccccCCCCcCCHHHHHHHHHHhCcEE
Confidence 56677888877664433 789999985 43333 33777778888887543
No 484
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=22.38 E-value=2.5e+02 Score=18.85 Aligned_cols=72 Identities=15% Similarity=0.182 Sum_probs=33.6
Q ss_pred HHHHHHhhcCCceEEEEEeccCh----hHHHHHH-HHhCCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEEcCC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDA----RDKLCEA-VEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIVKDP 173 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~----~~~i~~~-a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv~~~ 173 (179)
..+...+.+.|+.+...+..|+- ..++++| .++-+...|++=-.+-..-+ .|+ ....++.++ .||++++..
T Consensus 15 ~~~~~~~~~~g~g~s~~vs~Gn~~dv~~~d~l~~~~~D~~t~~I~ly~E~~~d~~-~f~-~~~~~a~~~--KPVv~lk~G 90 (138)
T PF13607_consen 15 TAILDWAQDRGIGFSYVVSVGNEADVDFADLLEYLAEDPDTRVIVLYLEGIGDGR-RFL-EAARRAARR--KPVVVLKAG 90 (138)
T ss_dssp HHHHHHHHHTT-EESEEEE-TT-SSS-HHHHHHHHCT-SS--EEEEEES--S-HH-HHH-HHHHHHCCC--S-EEEEE--
T ss_pred HHHHHHHHHcCCCeeEEEEeCccccCCHHHHHHHHhcCCCCCEEEEEccCCCCHH-HHH-HHHHHHhcC--CCEEEEeCC
Confidence 34555666777777777766522 3444444 55566777777655433322 232 333444333 999999765
Q ss_pred C
Q 041485 174 S 174 (179)
Q Consensus 174 ~ 174 (179)
.
T Consensus 91 r 91 (138)
T PF13607_consen 91 R 91 (138)
T ss_dssp -
T ss_pred C
Confidence 4
No 485
>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=22.36 E-value=3.7e+02 Score=20.77 Aligned_cols=129 Identities=15% Similarity=0.089 Sum_probs=58.1
Q ss_pred eEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHH
Q 041485 20 SIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLD 99 (179)
Q Consensus 20 ~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (179)
.+.+=+-++.. .-+..|+.++...+....=+..-.|...- .-...|..++. + .+...+++.
T Consensus 55 p~~~Ql~g~~~--~~~~~aa~~~~~~~~~~IDlN~GCP~~~v----~~~g~Ga~Ll~--~-----------p~~~~~iv~ 115 (309)
T PF01207_consen 55 PLIVQLFGNDP--EDLAEAAEIVAELGFDGIDLNMGCPAPKV----TKGGAGAALLK--D-----------PDLLAEIVK 115 (309)
T ss_dssp TEEEEEE-S-H--HHHHHHHHHHCCTT-SEEEEEE---SHHH----HHCT-GGGGGC--------------HHHHHHHHH
T ss_pred ceeEEEeeccH--HHHHHHHHhhhccCCcEEeccCCCCHHHH----hcCCcChhhhc--C-----------hHHhhHHHH
Confidence 45555555543 33555666666666555555555554311 11111211111 1 012234444
Q ss_pred HHHHHhhcCCceEEEEEeccCh-----hHHHHHHHHhCCCCEEEEecCCCccc-ccccccchhHHHhhcCCCCEEEE
Q 041485 100 MLDAASKQKHVSVVAKLYWGDA-----RDKLCEAVEAMKLDSLVMGSRGLGTI-QRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~g~~-----~~~i~~~a~~~~~dlvVlg~~~~~~~-~~~~~gs~~~~il~~~~~pVlvv 170 (179)
.+.+. .++++++.++.|.- ...+++...+.+++.|.+-.+.+... .....=....++....++||+.-
T Consensus 116 ~~~~~---~~~pvsvKiR~g~~~~~~~~~~~~~~l~~~G~~~i~vH~Rt~~q~~~~~a~w~~i~~i~~~~~ipvi~N 189 (309)
T PF01207_consen 116 AVRKA---VPIPVSVKIRLGWDDSPEETIEFARILEDAGVSAITVHGRTRKQRYKGPADWEAIAEIKEALPIPVIAN 189 (309)
T ss_dssp HHHHH----SSEEEEEEESECT--CHHHHHHHHHHHHTT--EEEEECS-TTCCCTS---HHHHHHCHHC-TSEEEEE
T ss_pred hhhcc---cccceEEecccccccchhHHHHHHHHhhhcccceEEEecCchhhcCCcccchHHHHHHhhcccceeEEc
Confidence 44443 34666666666522 46677778889999999976532211 11111123456777888888764
No 486
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=22.23 E-value=3.3e+02 Score=20.17 Aligned_cols=43 Identities=16% Similarity=0.261 Sum_probs=29.3
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecC
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSR 142 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~ 142 (179)
..+++...+.+.++...+ .|.....-+..+.+-++|.+|+|++
T Consensus 157 ~~lr~~~~~~~~~~~IeV-DGGI~~~~i~~~~~aGad~~V~Gss 199 (229)
T PRK09722 157 AELKALRERNGLEYLIEV-DGSCNQKTYEKLMEAGADVFIVGTS 199 (229)
T ss_pred HHHHHHHHhcCCCeEEEE-ECCCCHHHHHHHHHcCCCEEEEChH
Confidence 344555556666666555 4556666777777788999999964
No 487
>TIGR02057 PAPS_reductase phosphoadenosine phosphosulfate reductase, thioredoxin dependent. Requiring thioredoxin as an electron donor, phosphoadenosine phosphosulfate reductase catalyzes the reduction of 3'-phosphoadenylylsulfate (PAPS) to sulfite and phospho-adenosine-phosphate (PAP). Found in enterobacteria, cyanobacteria, and yeast, PAPS reductase is related to a group of plant (TIGR00424) and bacterial (TIGR02055) enzymes preferring 5'-adenylylsulfate (APS) over PAPS as a substrate for reduction to sulfite.
Probab=22.20 E-value=3.3e+02 Score=20.03 Aligned_cols=39 Identities=10% Similarity=0.010 Sum_probs=30.9
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQG 59 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~ 59 (179)
..++.+..++...|.-.+..+.+.. +..+.++++.....
T Consensus 25 ~~~~~~s~S~Gkds~VlL~l~~~~~---~~~i~vv~vDTg~~ 63 (226)
T TIGR02057 25 PHGLVQTSAFGIQALVTLHLLSSIS---EPMIPVIFIDTLYH 63 (226)
T ss_pred CCCEEEEecCCHHHHHHHHHHHHhh---CCCCCEEEEeCCCC
Confidence 3679999999999999998888865 24588888877654
No 488
>PRK11815 tRNA-dihydrouridine synthase A; Provisional
Probab=22.16 E-value=3.9e+02 Score=20.94 Aligned_cols=47 Identities=15% Similarity=0.184 Sum_probs=25.5
Q ss_pred hHHHHHHHHHHhhcCCceEEEEEec-c-C---hhHHHHHHHHhCCCCEEEEec
Q 041485 94 DQDVLDMLDAASKQKHVSVVAKLYW-G-D---ARDKLCEAVEAMKLDSLVMGS 141 (179)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~-g-~---~~~~i~~~a~~~~~dlvVlg~ 141 (179)
..++++.+.+.. ...+.++.++.. + . ....+++.+.+.++|.+.+..
T Consensus 121 ~~eiv~avr~~v-~~pVsvKiR~g~~~~~t~~~~~~~~~~l~~aG~d~i~vh~ 172 (333)
T PRK11815 121 VADCVKAMKDAV-SIPVTVKHRIGIDDQDSYEFLCDFVDTVAEAGCDTFIVHA 172 (333)
T ss_pred HHHHHHHHHHHc-CCceEEEEEeeeCCCcCHHHHHHHHHHHHHhCCCEEEEcC
Confidence 345555555443 223344333322 2 1 134566777788999999864
No 489
>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=22.14 E-value=1e+02 Score=24.47 Aligned_cols=29 Identities=3% Similarity=-0.087 Sum_probs=22.1
Q ss_pred ccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 29 KGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 29 ~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
..+.+.+++|+++|+..+.+|+++|=...
T Consensus 163 ~~~eRI~r~AF~~A~~r~~~Vt~v~KaNv 191 (349)
T TIGR00169 163 PEIERIARVAFEMARKRRKKVTSVDKANV 191 (349)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEECCcc
Confidence 35778899999999887667777775444
No 490
>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=22.12 E-value=1.9e+02 Score=19.98 Aligned_cols=39 Identities=18% Similarity=0.082 Sum_probs=29.6
Q ss_pred CCeEEEeecCCccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 18 NRSIGVALDFSKGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 18 ~~~ILv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
.+.++|.++.+.++...++.+. .|+..|+++.++.-...
T Consensus 72 ~~Dv~I~iS~sG~t~~~i~~~~-~ak~~g~~ii~IT~~~~ 110 (179)
T TIGR03127 72 KGDLLIAISGSGETESLVTVAK-KAKEIGATVAAITTNPE 110 (179)
T ss_pred CCCEEEEEeCCCCcHHHHHHHH-HHHHCCCeEEEEECCCC
Confidence 5789999999988887665554 48888988877766443
No 491
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=22.06 E-value=4.7e+02 Score=21.82 Aligned_cols=70 Identities=17% Similarity=0.231 Sum_probs=41.4
Q ss_pred HHHHHHhhcCCceEEEEEecc-ChhHHHHHHHHhCCCCEEEEecCCCcccccccccchhHHHhhc------CCCCEEEEc
Q 041485 99 DMLDAASKQKHVSVVAKLYWG-DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGSVSNHVLAN------ASCPVTIVK 171 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g-~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~------~~~pVlvv~ 171 (179)
+.+...++..+++++...... .-+..+.+.+...++|.||+.. +-+.+.. +.+.++.. .++|+-++|
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 346667777788777654442 4556666666666788777652 3333333 33444432 358999998
Q ss_pred CCC
Q 041485 172 DPS 174 (179)
Q Consensus 172 ~~~ 174 (179)
...
T Consensus 207 aGT 209 (481)
T PLN02958 207 AGT 209 (481)
T ss_pred CcC
Confidence 543
No 492
>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=22.02 E-value=5.9e+02 Score=23.97 Aligned_cols=73 Identities=14% Similarity=0.110 Sum_probs=49.2
Q ss_pred HHHHHHHHHhhcCCceEEEEEecc--ChhHHHHHHHHh---CCCCEEEEecCCCcccccccccchhHHHhhcCCCCEEEE
Q 041485 96 DVLDMLDAASKQKHVSVVAKLYWG--DARDKLCEAVEA---MKLDSLVMGSRGLGTIQRVLLGSVSNHVLANASCPVTIV 170 (179)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~g--~~~~~i~~~a~~---~~~dlvVlg~~~~~~~~~~~~gs~~~~il~~~~~pVlvv 170 (179)
...+.+.+.+++.|+++-.....+ +..+.+.++-.. ..+|+||--..-...... ......++...++||+-.
T Consensus 89 ~~vdaLI~~LE~~G~nvipvf~~~~~~~~~~i~~~f~~~g~~~vDaIIn~~~f~l~~~~---~~~~~~~L~~LnVPVlq~ 165 (1098)
T PF02514_consen 89 AVVDALIRALEERGLNVIPVFCSSGPDSQEAIEDYFMDDGKPRVDAIINLTGFSLGGGP---AGGAIELLKELNVPVLQA 165 (1098)
T ss_pred HHHHHHHHHHHHCCCeEEEEEecCccchHHHHHHHHhhcCCCCceEEEEcCccccCCCC---cchhHHHHHHCCCCEEEe
Confidence 566778888888999887766554 556667777666 789988765432111100 112678999999999865
Q ss_pred c
Q 041485 171 K 171 (179)
Q Consensus 171 ~ 171 (179)
-
T Consensus 166 i 166 (1098)
T PF02514_consen 166 I 166 (1098)
T ss_pred e
Confidence 3
No 493
>PRK08194 tartrate dehydrogenase; Provisional
Probab=21.98 E-value=93 Score=24.75 Aligned_cols=29 Identities=14% Similarity=0.192 Sum_probs=22.5
Q ss_pred ccHHHHHHHHHHHhcCCCCEEEEEEEeCC
Q 041485 29 KGSKLALKWAIDNLLEKGDTLYIIHIKLP 57 (179)
Q Consensus 29 ~~s~~al~~a~~la~~~~~~l~ll~v~~~ 57 (179)
..+.+.+++|+++|++.+.+++++|=...
T Consensus 161 ~~~eRI~r~Af~~A~~r~~~Vt~v~KaNv 189 (352)
T PRK08194 161 KGTERAMRYAFELAAKRRKHVTSATKSNG 189 (352)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEeCcch
Confidence 45788899999999887667888775443
No 494
>KOG0785 consensus Isocitrate dehydrogenase, alpha subunit [Amino acid transport and metabolism]
Probab=21.98 E-value=3.2e+02 Score=21.51 Aligned_cols=30 Identities=10% Similarity=0.131 Sum_probs=23.6
Q ss_pred cHHHHHHHHHHHhcCC-CCEEEEEEEeCCCC
Q 041485 30 GSKLALKWAIDNLLEK-GDTLYIIHIKLPQG 59 (179)
Q Consensus 30 ~s~~al~~a~~la~~~-~~~l~ll~v~~~~~ 59 (179)
.|.+..++|++.|+.. ...++++|=...-+
T Consensus 179 AS~Ria~~AF~yAr~~~R~~vtvvHKaNImr 209 (365)
T KOG0785|consen 179 ASRRIAEYAFEYARQNGRKRVTVVHKANIMR 209 (365)
T ss_pred HHHHHHHHHHHHHHHcCCCceEEEehhhhhh
Confidence 4778899999999884 56799999766543
No 495
>PRK10550 tRNA-dihydrouridine synthase C; Provisional
Probab=21.96 E-value=3.9e+02 Score=20.81 Aligned_cols=75 Identities=16% Similarity=0.173 Sum_probs=45.3
Q ss_pred hHHHHHHHHHHhhcCCceEEEEEecc----ChhHHHHHHHHhCCCCEEEEecCCCcccccccccc-----hhHHHhhcCC
Q 041485 94 DQDVLDMLDAASKQKHVSVVAKLYWG----DARDKLCEAVEAMKLDSLVMGSRGLGTIQRVLLGS-----VSNHVLANAS 164 (179)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~g----~~~~~i~~~a~~~~~dlvVlg~~~~~~~~~~~~gs-----~~~~il~~~~ 164 (179)
..++++.+++.... ++.+.++++.| +....+.+.+.+.++|.|.+..+.+. +.+.|. ...++-+..+
T Consensus 119 ~~eiv~avr~~~~~-~~pVsvKiR~g~~~~~~~~~~a~~l~~~Gvd~i~Vh~Rt~~---~~y~g~~~~~~~i~~ik~~~~ 194 (312)
T PRK10550 119 IYQGAKAMREAVPA-HLPVTVKVRLGWDSGERKFEIADAVQQAGATELVVHGRTKE---DGYRAEHINWQAIGEIRQRLT 194 (312)
T ss_pred HHHHHHHHHHhcCC-CcceEEEEECCCCCchHHHHHHHHHHhcCCCEEEECCCCCc---cCCCCCcccHHHHHHHHhhcC
Confidence 34666666555421 35555555544 23457778888999999999644321 122232 3566777788
Q ss_pred CCEEEEcC
Q 041485 165 CPVTIVKD 172 (179)
Q Consensus 165 ~pVlvv~~ 172 (179)
+||+....
T Consensus 195 iPVi~nGd 202 (312)
T PRK10550 195 IPVIANGE 202 (312)
T ss_pred CcEEEeCC
Confidence 99887643
No 496
>PRK09358 adenosine deaminase; Provisional
Probab=21.88 E-value=3.9e+02 Score=20.77 Aligned_cols=38 Identities=8% Similarity=0.086 Sum_probs=22.0
Q ss_pred HHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCE
Q 041485 99 DMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDS 136 (179)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dl 136 (179)
..+.+.+++.|+.+..++.+......+.......+++.
T Consensus 185 ~~~~~~A~~~g~~~~~H~~E~~~~~~~~~al~~lg~~r 222 (340)
T PRK09358 185 ARAFDRARDAGLRLTAHAGEAGGPESIWEALDELGAER 222 (340)
T ss_pred HHHHHHHHHCCCCeEEcCCCCCchhHHHHHHHHcCCcc
Confidence 34455566678888888766433344444444445554
No 497
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=21.70 E-value=2.9e+02 Score=19.29 Aligned_cols=42 Identities=10% Similarity=0.120 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhhcCCceEEEEEeccChhHHHHHHHHhCCCCEEEEecCC
Q 041485 95 QDVLDMLDAASKQKHVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGSRG 143 (179)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~~~ 143 (179)
+++.+.+.+.++. |..++..-....... .-.++|.||+|+.-
T Consensus 15 ~~iA~~Ia~~l~~-g~~v~~~~~~~~~~~------~l~~yD~vIlGspi 56 (177)
T PRK11104 15 RKIASYIASELKE-GIQCDVVNLHRIEEP------DLSDYDRVVIGASI 56 (177)
T ss_pred HHHHHHHHHHhCC-CCeEEEEEhhhcCcc------CHHHCCEEEEECcc
Confidence 4566666677666 666554332221111 12338999999864
No 498
>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=21.65 E-value=3.2e+02 Score=19.70 Aligned_cols=38 Identities=18% Similarity=0.163 Sum_probs=17.7
Q ss_pred HHHHHhhcC-CceEEEEEeccChhHHHHHHHHhCCCCEEEEec
Q 041485 100 MLDAASKQK-HVSVVAKLYWGDARDKLCEAVEAMKLDSLVMGS 141 (179)
Q Consensus 100 ~~~~~~~~~-~~~~~~~~~~g~~~~~i~~~a~~~~~dlvVlg~ 141 (179)
.+.+.+... |.++....... ...+.+...+ +|.|+++-
T Consensus 50 ~~~~a~~~l~G~~~~~~~~~~--~~~~~~~l~~--ad~I~l~G 88 (212)
T cd03146 50 RFYAAFESLRGVEVSHLHLFD--TEDPLDALLE--ADVIYVGG 88 (212)
T ss_pred HHHHHHhhccCcEEEEEeccC--cccHHHHHhc--CCEEEECC
Confidence 344444444 55544322212 2333344444 77777765
No 499
>COG1619 LdcA Uncharacterized proteins, homologs of microcin C7 resistance protein MccF [Defense mechanisms]
Probab=21.62 E-value=4e+02 Score=20.88 Aligned_cols=94 Identities=16% Similarity=0.114 Sum_probs=62.6
Q ss_pred cCCccHHHHHHHHHHHhcCCCCEEEEEEEeCCCCCcccccccCCCCCCCCCchhhhhHHHHHHhhhhhhHHHHHHHHHHh
Q 041485 26 DFSKGSKLALKWAIDNLLEKGDTLYIIHIKLPQGDESRNLLWSDTGSPLIPLEEFRDQEVMKQYEVDLDQDVLDMLDAAS 105 (179)
Q Consensus 26 d~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (179)
..+.....+++.|++..+..|-++++-......-.. .....++..+.+.+.+
T Consensus 19 Ss~~~~~~~~~~a~~~L~~~G~~v~~~~~i~~~~~~----------------------------~a~s~~~R~~dL~~af 70 (313)
T COG1619 19 SSGATATDALKRAIQRLENLGFEVVFGEHILRRDQY----------------------------FAGSDEERAEDLMSAF 70 (313)
T ss_pred CcccchHHHHHHHHHHHHHcCCEEEechhhhhcccc----------------------------ccCCHHHHHHHHHHHh
Confidence 334446889999999999999777776655543210 0111245666777778
Q ss_pred hcCCceEEEEEeccChhHHHHHHHHh---CCCCEEEEecCCCccc
Q 041485 106 KQKHVSVVAKLYWGDARDKLCEAVEA---MKLDSLVMGSRGLGTI 147 (179)
Q Consensus 106 ~~~~~~~~~~~~~g~~~~~i~~~a~~---~~~dlvVlg~~~~~~~ 147 (179)
...++++-+-++-|.-...|+.+..- .+..-+++|.+.-+.+
T Consensus 71 ~d~~vk~Il~~rGGygs~rlLp~ld~~~i~~~pKifiGySDiTal 115 (313)
T COG1619 71 SDPDVKAILCVRGGYGSNRLLPYLDYDLIRNHPKIFIGYSDITAL 115 (313)
T ss_pred cCCCCeEEEEcccCCChhhhhhhcchHHHhcCCceEEEecHHHHH
Confidence 88888888878778777777765442 3477889997655443
No 500
>PRK09059 dihydroorotase; Validated
Probab=21.61 E-value=1.9e+02 Score=23.55 Aligned_cols=27 Identities=7% Similarity=0.003 Sum_probs=23.1
Q ss_pred HHHHHHHHHHhcCCCCEEEEEEEeCCC
Q 041485 32 KLALKWAIDNLLEKGDTLYIIHIKLPQ 58 (179)
Q Consensus 32 ~~al~~a~~la~~~~~~l~ll~v~~~~ 58 (179)
..++..++.+++..+++++++|+....
T Consensus 217 ~~av~r~~~la~~~~~~~hi~hvs~~~ 243 (429)
T PRK09059 217 VIPLERDLRLAALTRGRYHAAQISCAE 243 (429)
T ss_pred HHHHHHHHHHHHHHCCcEEEEecCCHH
Confidence 456888899999999999999997764
Done!