Query 031355
Match_columns 161
No_of_seqs 149 out of 1811
Neff 10.4
Searched_HMMs 46136
Date Fri Mar 29 12:55:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031355.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031355hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15456 universal stress prot 100.0 4E-28 8.6E-33 158.7 15.8 140 5-155 1-142 (142)
2 PRK15005 universal stress prot 100.0 1.1E-27 2.4E-32 156.8 16.2 142 5-155 1-144 (144)
3 PRK09982 universal stress prot 100.0 1.7E-27 3.7E-32 155.7 13.9 141 4-158 1-141 (142)
4 cd01989 STK_N The N-terminal d 100.0 8E-27 1.7E-31 153.1 14.8 142 8-157 1-146 (146)
5 PRK15118 universal stress glob 100.0 9.4E-27 2E-31 152.5 14.4 142 4-159 1-142 (144)
6 PRK10116 universal stress prot 99.9 1.2E-25 2.5E-30 146.9 14.2 141 4-158 1-141 (142)
7 PF00582 Usp: Universal stress 99.9 1.4E-25 3.1E-30 145.0 11.9 137 5-155 1-140 (140)
8 cd01988 Na_H_Antiporter_C The 99.9 5.7E-24 1.2E-28 137.0 15.9 131 8-155 1-132 (132)
9 PRK11175 universal stress prot 99.9 2E-24 4.4E-29 157.4 14.2 146 4-157 1-147 (305)
10 cd01987 USP_OKCHK USP domain i 99.9 4.9E-24 1.1E-28 136.2 12.5 123 8-155 1-124 (124)
11 PRK11175 universal stress prot 99.9 3.2E-22 6.9E-27 145.9 15.2 144 4-157 150-301 (305)
12 COG0589 UspA Universal stress 99.9 9.6E-21 2.1E-25 124.6 16.8 150 3-157 2-153 (154)
13 cd00293 USP_Like Usp: Universa 99.9 7.8E-21 1.7E-25 121.4 15.7 130 8-154 1-130 (130)
14 PRK12652 putative monovalent c 99.7 1.3E-15 2.8E-20 112.3 15.2 106 3-126 2-122 (357)
15 PRK10490 sensor protein KdpD; 99.5 1.7E-12 3.7E-17 106.6 15.0 128 3-157 247-375 (895)
16 COG2205 KdpD Osmosensitive K+ 99.4 5.8E-12 1.3E-16 99.5 13.5 130 4-159 246-377 (890)
17 cd01984 AANH_like Adenine nucl 98.7 9.2E-08 2E-12 56.9 7.4 84 9-153 1-85 (86)
18 PLN03159 cation/H(+) antiporte 98.1 6.4E-05 1.4E-09 62.1 12.4 149 6-157 458-616 (832)
19 PLN03159 cation/H(+) antiporte 97.9 0.00074 1.6E-08 56.0 14.7 144 6-156 630-794 (832)
20 TIGR02432 lysidine_TilS_N tRNA 97.4 0.0055 1.2E-07 41.7 10.6 94 8-129 1-111 (189)
21 PF01171 ATP_bind_3: PP-loop f 96.8 0.021 4.5E-07 38.7 8.8 93 8-128 1-107 (182)
22 cd01992 PP-ATPase N-terminal d 96.7 0.041 8.9E-07 37.2 10.0 94 8-129 1-108 (185)
23 PRK12342 hypothetical protein; 96.4 0.054 1.2E-06 38.8 9.0 100 15-152 33-140 (254)
24 PRK03359 putative electron tra 95.8 0.38 8.2E-06 34.6 11.2 101 15-151 34-142 (256)
25 PF01012 ETF: Electron transfe 95.8 0.2 4.3E-06 33.3 9.2 87 8-127 1-100 (164)
26 COG0037 MesJ tRNA(Ile)-lysidin 95.4 0.087 1.9E-06 38.5 7.0 96 7-131 22-134 (298)
27 COG2086 FixA Electron transfer 95.2 0.34 7.5E-06 34.9 9.1 102 13-152 33-142 (260)
28 TIGR00591 phr2 photolyase PhrI 94.9 0.38 8.2E-06 37.5 9.4 90 15-126 33-122 (454)
29 PF00875 DNA_photolyase: DNA p 94.7 0.45 9.8E-06 31.6 8.3 113 18-155 12-124 (165)
30 PRK06029 3-octaprenyl-4-hydrox 94.6 0.43 9.4E-06 32.6 8.0 36 6-46 1-36 (185)
31 PRK07313 phosphopantothenoylcy 94.3 0.4 8.7E-06 32.6 7.4 35 6-46 1-35 (182)
32 PRK05579 bifunctional phosphop 94.3 0.65 1.4E-05 35.7 9.2 39 2-46 2-40 (399)
33 COG0041 PurE Phosphoribosylcar 94.2 0.56 1.2E-05 30.8 7.4 67 82-157 19-89 (162)
34 cd01993 Alpha_ANH_like_II This 93.4 1.6 3.5E-05 29.3 10.8 40 8-50 1-40 (185)
35 TIGR01162 purE phosphoribosyla 93.0 0.88 1.9E-05 30.1 6.9 70 80-158 13-86 (156)
36 PRK10660 tilS tRNA(Ile)-lysidi 92.8 1.6 3.5E-05 34.0 9.3 42 5-50 14-55 (436)
37 TIGR02113 coaC_strep phosphopa 92.6 0.92 2E-05 30.7 6.9 34 7-46 1-34 (177)
38 PRK10696 tRNA 2-thiocytidine b 92.4 3 6.5E-05 30.0 11.2 96 5-129 28-143 (258)
39 PRK13982 bifunctional SbtC-lik 92.0 1.3 2.9E-05 34.8 7.9 36 5-46 69-104 (475)
40 KOG1650 Predicted K+/H+-antipo 91.8 1.6 3.5E-05 36.5 8.6 106 6-127 614-722 (769)
41 TIGR00421 ubiX_pad polyprenyl 91.7 2.6 5.6E-05 28.7 8.2 34 8-47 1-34 (181)
42 TIGR03556 photolyase_8HDF deox 91.6 2.5 5.3E-05 33.3 9.2 86 18-126 14-99 (471)
43 PF02441 Flavoprotein: Flavopr 90.7 0.81 1.8E-05 29.1 4.8 33 7-45 1-33 (129)
44 PRK08305 spoVFB dipicolinate s 90.5 2 4.3E-05 29.6 6.8 37 4-46 3-40 (196)
45 PF00448 SRP54: SRP54-type pro 90.4 4.3 9.3E-05 27.9 9.5 112 9-154 5-120 (196)
46 PF00731 AIRC: AIR carboxylase 90.3 2.3 4.9E-05 28.0 6.6 70 80-158 15-88 (150)
47 PRK05253 sulfate adenylyltrans 90.1 6.1 0.00013 29.3 9.9 41 5-50 26-66 (301)
48 PF13167 GTP-bdg_N: GTP-bindin 89.6 3.1 6.8E-05 25.1 7.0 68 77-152 6-84 (95)
49 COG1066 Sms Predicted ATP-depe 89.4 4.3 9.3E-05 31.4 8.3 110 9-155 96-217 (456)
50 PRK02929 L-arabinose isomerase 89.2 7.1 0.00015 31.1 9.7 76 74-156 24-105 (499)
51 cd01985 ETF The electron trans 88.9 5.3 0.00012 26.9 10.4 23 106-128 80-102 (181)
52 TIGR02765 crypto_DASH cryptoch 88.9 6.7 0.00015 30.4 9.4 93 17-126 13-105 (429)
53 PF03652 UPF0081: Uncharacteri 88.8 1.4 3E-05 28.5 4.8 56 103-158 37-97 (135)
54 TIGR00268 conserved hypothetic 88.1 7.8 0.00017 27.8 9.7 36 5-49 11-46 (252)
55 TIGR02852 spore_dpaB dipicolin 87.1 7.6 0.00017 26.6 8.3 34 7-46 1-35 (187)
56 PRK00109 Holliday junction res 86.2 1.5 3.3E-05 28.4 3.9 54 105-158 42-99 (138)
57 PRK10867 signal recognition pa 86.0 15 0.00032 28.8 10.4 91 9-131 104-197 (433)
58 PF02844 GARS_N: Phosphoribosy 85.9 0.91 2E-05 27.7 2.6 26 102-127 47-72 (100)
59 PF02601 Exonuc_VII_L: Exonucl 85.5 3.8 8.3E-05 30.4 6.2 50 104-154 55-113 (319)
60 COG0452 Dfp Phosphopantothenoy 85.4 5.3 0.00011 30.8 7.0 115 5-157 3-122 (392)
61 COG2876 AroA 3-deoxy-D-arabino 84.7 6.4 0.00014 28.5 6.6 96 9-131 47-142 (286)
62 COG0541 Ffh Signal recognition 84.7 17 0.00037 28.4 10.1 94 9-135 104-200 (451)
63 COG0036 Rpe Pentose-5-phosphat 84.6 12 0.00025 26.4 7.9 60 82-144 99-158 (220)
64 TIGR00930 2a30 K-Cl cotranspor 84.5 26 0.00057 30.4 12.0 123 8-156 577-709 (953)
65 COG3360 Uncharacterized conser 84.3 4.6 9.9E-05 22.6 4.5 45 1-50 1-45 (71)
66 cd01995 ExsB ExsB is a transcr 83.3 11 0.00023 25.0 9.9 86 8-128 1-87 (169)
67 TIGR00521 coaBC_dfp phosphopan 82.6 20 0.00044 27.6 9.4 36 5-46 2-37 (390)
68 PLN02948 phosphoribosylaminoim 81.3 10 0.00022 30.8 7.4 69 80-157 425-497 (577)
69 cd01713 PAPS_reductase This do 80.9 13 0.00028 24.2 9.8 36 8-49 1-36 (173)
70 COG1927 Mtd Coenzyme F420-depe 80.8 7.1 0.00015 27.3 5.4 47 106-156 49-95 (277)
71 TIGR00250 RNAse_H_YqgF RNAse H 80.7 3.6 7.8E-05 26.4 3.9 55 104-158 35-93 (130)
72 cd08550 GlyDH-like Glycerol_de 80.6 17 0.00038 27.3 8.1 67 82-157 39-110 (349)
73 cd03557 L-arabinose_isomerase 80.6 27 0.00059 27.8 9.9 49 104-158 49-101 (484)
74 TIGR01425 SRP54_euk signal rec 80.1 27 0.00058 27.4 10.1 93 10-135 105-200 (429)
75 PRK13398 3-deoxy-7-phosphohept 79.8 21 0.00045 26.0 11.8 105 17-156 38-142 (266)
76 cd07044 CofD_YvcK Family of Co 78.9 3.8 8.2E-05 30.4 4.0 52 104-157 163-215 (309)
77 TIGR00853 pts-lac PTS system, 78.8 4.2 9.1E-05 24.5 3.6 65 81-157 20-84 (95)
78 TIGR00959 ffh signal recogniti 78.2 31 0.00067 27.0 10.5 91 9-131 103-196 (428)
79 cd08173 Gro1PDH Sn-glycerol-1- 76.9 18 0.00039 27.2 7.2 45 105-157 66-111 (339)
80 COG1606 ATP-utilizing enzymes 76.7 26 0.00056 25.4 10.2 89 6-126 17-122 (269)
81 PRK00994 F420-dependent methyl 75.9 13 0.00028 26.6 5.7 47 107-157 50-96 (277)
82 PRK00286 xseA exodeoxyribonucl 75.8 11 0.00023 29.5 5.9 50 104-154 176-230 (438)
83 cd01990 Alpha_ANH_like_I This 75.4 23 0.0005 24.2 9.8 87 9-128 1-106 (202)
84 COG0552 FtsY Signal recognitio 75.4 33 0.00071 25.9 8.8 92 8-132 142-236 (340)
85 PRK14665 mnmA tRNA-specific 2- 75.2 34 0.00075 26.1 11.8 36 5-49 4-39 (360)
86 TIGR02855 spore_yabG sporulati 74.9 23 0.00051 25.8 6.9 46 82-127 118-163 (283)
87 TIGR01826 CofD_related conserv 74.6 8.8 0.00019 28.6 4.9 51 104-157 161-213 (310)
88 COG3640 CooC CO dehydrogenase 74.3 26 0.00057 25.2 6.9 45 101-147 84-129 (255)
89 PRK08185 hypothetical protein; 74.3 8.5 0.00018 28.2 4.7 56 98-153 18-73 (283)
90 TIGR00237 xseA exodeoxyribonuc 73.7 15 0.00032 28.8 6.1 51 104-155 170-226 (432)
91 cd00578 L-fuc_L-ara-isomerases 73.5 34 0.00074 26.8 8.2 48 105-158 51-98 (452)
92 COG1597 LCB5 Sphingosine kinas 73.4 31 0.00067 25.5 7.5 74 77-157 18-92 (301)
93 PF02887 PK_C: Pyruvate kinase 73.4 13 0.00029 23.0 5.0 44 105-157 4-48 (117)
94 TIGR00646 MG010 DNA primase-re 73.4 29 0.00064 24.5 7.8 37 6-47 154-190 (218)
95 TIGR02699 archaeo_AfpA archaeo 73.1 26 0.00056 23.7 6.8 33 8-45 1-34 (174)
96 COG0816 Predicted endonuclease 72.5 9 0.0002 25.0 4.1 54 105-158 41-98 (141)
97 PRK13820 argininosuccinate syn 72.5 43 0.00093 26.0 11.5 37 5-49 1-38 (394)
98 PF03746 LamB_YcsF: LamB/YcsF 72.4 33 0.00072 24.6 12.7 119 11-152 32-160 (242)
99 cd01994 Alpha_ANH_like_IV This 72.3 25 0.00054 24.2 6.5 33 8-49 1-33 (194)
100 TIGR02329 propionate_PrpR prop 72.3 44 0.00095 27.0 8.6 64 81-157 16-82 (526)
101 cd01714 ETF_beta The electron 72.1 30 0.00064 23.9 9.2 33 11-48 29-61 (202)
102 cd00946 FBP_aldolase_IIA Class 72.0 14 0.00031 27.9 5.5 56 98-153 21-92 (345)
103 PRK15424 propionate catabolism 71.9 31 0.00068 27.9 7.7 66 79-157 24-92 (538)
104 cd07187 YvcK_like family of mo 71.3 8.3 0.00018 28.7 4.1 51 104-157 164-216 (308)
105 PF10087 DUF2325: Uncharacteri 71.2 19 0.00042 21.5 6.0 71 80-157 11-84 (97)
106 PRK15411 rcsA colanic acid cap 71.1 31 0.00068 23.8 7.6 49 102-156 32-85 (207)
107 PRK11889 flhF flagellar biosyn 71.1 48 0.001 26.0 9.1 90 10-132 246-335 (436)
108 cd05565 PTS_IIB_lactose PTS_II 71.1 14 0.00031 22.4 4.5 64 81-156 17-80 (99)
109 COG1570 XseA Exonuclease VII, 71.0 18 0.00039 28.3 5.9 76 78-154 150-231 (440)
110 TIGR02039 CysD sulfate adenyly 71.0 40 0.00086 25.0 10.0 40 6-50 19-58 (294)
111 PRK09195 gatY tagatose-bisphos 70.9 13 0.00027 27.4 5.0 58 96-153 21-79 (284)
112 PRK05406 LamB/YcsF family prot 70.9 36 0.00079 24.5 9.8 111 19-152 42-162 (246)
113 cd07186 CofD_like LPPG:FO 2-ph 70.7 17 0.00037 27.0 5.6 51 104-156 172-223 (303)
114 COG2201 CheB Chemotaxis respon 70.5 39 0.00085 25.7 7.5 65 83-156 16-82 (350)
115 TIGR01769 GGGP geranylgeranylg 70.4 10 0.00022 26.4 4.2 50 107-158 14-63 (205)
116 PRK11914 diacylglycerol kinase 70.2 34 0.00073 25.2 7.2 67 83-157 30-97 (306)
117 PF05582 Peptidase_U57: YabG p 69.9 34 0.00074 25.1 6.8 47 81-127 118-164 (287)
118 PRK09590 celB cellobiose phosp 69.6 13 0.00029 22.8 4.2 66 82-157 19-84 (104)
119 COG1646 Predicted phosphate-bi 69.1 31 0.00068 24.6 6.3 53 104-158 28-80 (240)
120 COG0420 SbcD DNA repair exonuc 69.0 8.7 0.00019 29.4 4.0 7 44-50 3-9 (390)
121 PRK06801 hypothetical protein; 68.9 18 0.00038 26.7 5.3 57 98-154 23-80 (286)
122 PRK10674 deoxyribodipyrimidine 68.8 57 0.0012 25.9 10.3 88 17-126 14-105 (472)
123 cd05564 PTS_IIB_chitobiose_lic 68.8 19 0.0004 21.6 4.7 65 81-157 16-80 (96)
124 COG0415 PhrB Deoxyribodipyrimi 68.7 57 0.0012 25.9 9.1 88 15-126 12-99 (461)
125 PF01933 UPF0052: Uncharacteri 68.7 6.4 0.00014 29.1 3.1 51 104-156 172-223 (300)
126 PRK12569 hypothetical protein; 68.4 42 0.0009 24.2 9.5 95 19-126 45-149 (245)
127 PRK12857 fructose-1,6-bisphosp 68.1 18 0.00039 26.6 5.2 57 98-154 23-80 (284)
128 PRK06806 fructose-bisphosphate 68.1 21 0.00046 26.2 5.6 56 98-153 23-79 (281)
129 PRK12737 gatY tagatose-bisphos 67.6 18 0.00038 26.6 5.1 57 98-154 23-80 (284)
130 PF14639 YqgF: Holliday-juncti 66.8 6.7 0.00015 25.8 2.6 49 106-157 52-107 (150)
131 TIGR02766 crypt_chrom_pln cryp 66.4 64 0.0014 25.5 9.0 72 41-126 24-96 (475)
132 cd00950 DHDPS Dihydrodipicolin 66.2 41 0.0009 24.4 6.9 51 106-156 84-134 (284)
133 cd03364 TOPRIM_DnaG_primases T 65.2 23 0.00051 20.1 5.0 29 6-35 43-71 (79)
134 COG1036 Archaeal flavoproteins 64.8 6 0.00013 26.5 2.0 50 109-159 80-136 (187)
135 PRK09197 fructose-bisphosphate 64.7 30 0.00065 26.3 5.9 56 98-153 26-97 (350)
136 PF13662 Toprim_4: Toprim doma 64.6 16 0.00035 20.9 3.7 28 6-33 46-73 (81)
137 cd02067 B12-binding B12 bindin 64.4 31 0.00067 21.3 6.1 41 85-128 20-61 (119)
138 TIGR01858 tag_bisphos_ald clas 64.4 23 0.00049 26.1 5.2 57 98-154 21-78 (282)
139 PHA02031 putative DnaG-like pr 63.7 49 0.0011 24.1 6.6 37 6-47 206-242 (266)
140 KOG1467 Translation initiation 63.5 76 0.0016 25.4 10.4 42 116-157 426-470 (556)
141 TIGR00583 mre11 DNA repair pro 62.7 19 0.00041 27.9 4.7 12 147-158 109-120 (405)
142 cd00947 TBP_aldolase_IIB Tagat 62.1 21 0.00046 26.1 4.6 57 98-154 18-75 (276)
143 COG0191 Fba Fructose/tagatose 61.8 27 0.00058 25.7 5.1 55 100-154 25-81 (286)
144 PF09043 Lys-AminoMut_A: D-Lys 61.7 66 0.0014 25.3 7.2 53 89-141 142-197 (509)
145 TIGR00342 thiazole biosynthesi 61.5 71 0.0015 24.4 10.2 35 6-49 172-206 (371)
146 PF01993 MTD: methylene-5,6,7, 61.2 18 0.0004 25.9 4.0 46 107-156 49-94 (276)
147 PF01884 PcrB: PcrB family; I 60.7 19 0.00041 25.6 4.1 51 104-158 19-69 (230)
148 COG0391 Uncharacterized conser 60.6 18 0.00039 27.1 4.1 50 104-156 178-229 (323)
149 PRK12563 sulfate adenylyltrans 60.5 69 0.0015 24.0 8.9 40 6-50 37-76 (312)
150 PF13727 CoA_binding_3: CoA-bi 60.4 14 0.0003 24.2 3.3 46 106-155 130-175 (175)
151 TIGR00347 bioD dethiobiotin sy 59.6 28 0.00062 22.8 4.7 40 116-156 98-137 (166)
152 cd00408 DHDPS-like Dihydrodipi 59.4 62 0.0013 23.4 6.8 78 78-157 53-132 (281)
153 cd00951 KDGDH 5-dehydro-4-deox 59.3 68 0.0015 23.5 7.0 50 106-155 83-132 (289)
154 TIGR00655 PurU formyltetrahydr 59.3 69 0.0015 23.5 8.5 84 5-127 83-170 (280)
155 COG0069 GltB Glutamate synthas 59.2 69 0.0015 25.6 7.2 36 92-127 302-337 (485)
156 COG0655 WrbA Multimeric flavod 58.2 59 0.0013 22.4 8.1 38 9-51 6-43 (207)
157 PRK14664 tRNA-specific 2-thiou 58.0 83 0.0018 24.1 10.7 34 6-48 5-38 (362)
158 COG1504 Uncharacterized conser 58.0 39 0.00085 21.1 4.6 39 116-157 60-98 (121)
159 cd01986 Alpha_ANH_like Adenine 57.9 39 0.00084 20.2 8.5 33 9-50 1-33 (103)
160 PRK03170 dihydrodipicolinate s 57.2 74 0.0016 23.3 7.1 76 79-156 58-135 (292)
161 TIGR00715 precor6x_red precorr 57.2 48 0.001 24.0 5.8 54 98-158 177-233 (256)
162 PRK08349 hypothetical protein; 56.8 61 0.0013 22.2 7.6 34 7-49 1-34 (198)
163 PRK08745 ribulose-phosphate 3- 56.8 68 0.0015 22.7 7.9 58 84-144 102-159 (223)
164 TIGR00696 wecB_tagA_cpsF bacte 56.6 60 0.0013 22.0 6.0 22 106-127 89-110 (177)
165 TIGR01520 FruBisAldo_II_A fruc 56.3 56 0.0012 25.0 6.1 57 98-154 32-105 (357)
166 TIGR00619 sbcd exonuclease Sbc 55.9 22 0.00048 25.5 3.9 24 78-104 25-48 (253)
167 PRK05920 aromatic acid decarbo 55.9 38 0.00083 23.6 4.9 36 5-46 2-37 (204)
168 PRK13010 purU formyltetrahydro 55.8 81 0.0018 23.3 8.9 84 5-127 92-179 (289)
169 TIGR00290 MJ0570_dom MJ0570-re 55.5 72 0.0016 22.6 9.8 90 8-126 2-94 (223)
170 TIGR02069 cyanophycinase cyano 55.4 76 0.0016 22.8 7.8 60 83-144 47-109 (250)
171 PF01645 Glu_synthase: Conserv 55.0 61 0.0013 24.9 6.2 35 92-126 202-236 (368)
172 cd02071 MM_CoA_mut_B12_BD meth 54.8 50 0.0011 20.6 5.2 41 85-128 20-61 (122)
173 PRK07998 gatY putative fructos 54.7 32 0.0007 25.3 4.6 53 102-154 27-80 (283)
174 KOG2310 DNA repair exonuclease 54.7 12 0.00027 30.0 2.6 22 105-126 40-61 (646)
175 PRK12738 kbaY tagatose-bisphos 54.6 39 0.00085 24.9 5.0 57 98-154 23-80 (286)
176 cd05403 NT_KNTase_like Nucleot 54.1 9.9 0.00021 22.0 1.6 46 82-130 5-50 (93)
177 PF14582 Metallophos_3: Metall 54.1 20 0.00043 25.6 3.2 17 142-158 83-99 (255)
178 PRK06027 purU formyltetrahydro 53.9 87 0.0019 23.1 9.4 23 105-127 153-175 (286)
179 PF07355 GRDB: Glycine/sarcosi 53.9 24 0.00051 26.8 3.8 50 105-155 68-118 (349)
180 PRK13606 LPPG:FO 2-phospho-L-l 53.8 41 0.0009 25.0 5.0 47 104-155 174-222 (303)
181 TIGR00640 acid_CoA_mut_C methy 53.7 57 0.0012 20.9 5.2 57 84-145 22-79 (132)
182 PRK13059 putative lipid kinase 53.5 87 0.0019 23.0 8.0 68 82-157 22-91 (295)
183 cd08194 Fe-ADH6 Iron-containin 53.3 66 0.0014 24.5 6.3 20 106-125 69-89 (375)
184 TIGR00674 dapA dihydrodipicoli 53.2 86 0.0019 22.8 7.1 50 107-156 83-132 (285)
185 COG0299 PurN Folate-dependent 52.9 76 0.0016 22.1 9.2 83 7-126 1-88 (200)
186 TIGR01501 MthylAspMutase methy 52.6 61 0.0013 20.9 5.3 39 85-127 22-62 (134)
187 cd02070 corrinoid_protein_B12- 52.2 75 0.0016 21.8 6.1 65 85-154 103-171 (201)
188 PF11965 DUF3479: Domain of un 52.1 70 0.0015 21.5 8.3 90 8-125 2-93 (164)
189 PF04459 DUF512: Protein of un 51.8 80 0.0017 22.0 8.0 53 106-158 149-203 (204)
190 PF00072 Response_reg: Respons 51.7 49 0.0011 19.5 7.5 50 104-157 30-80 (112)
191 PRK13399 fructose-1,6-bisphosp 51.6 49 0.0011 25.2 5.2 56 98-153 23-80 (347)
192 cd08170 GlyDH Glycerol dehydro 51.5 1E+02 0.0022 23.2 8.1 70 80-157 37-110 (351)
193 KOG0781 Signal recognition par 51.2 1.3E+02 0.0028 24.3 8.6 120 7-154 380-503 (587)
194 PHA02546 47 endonuclease subun 51.0 47 0.001 25.0 5.1 23 79-104 26-48 (340)
195 COG4126 Hydantoin racemase [Am 50.7 25 0.00054 24.8 3.3 39 106-152 163-201 (230)
196 COG1184 GCD2 Translation initi 50.6 1E+02 0.0022 23.0 8.9 52 102-157 128-179 (301)
197 cd02072 Glm_B12_BD B12 binding 50.5 22 0.00048 22.8 2.8 24 104-127 37-60 (128)
198 PF01116 F_bP_aldolase: Fructo 50.3 13 0.00027 27.4 1.9 55 99-153 23-78 (287)
199 PF12683 DUF3798: Protein of u 50.3 99 0.0022 22.7 6.9 91 8-127 4-96 (275)
200 TIGR00064 ftsY signal recognit 50.1 98 0.0021 22.5 9.7 85 14-131 81-168 (272)
201 COG2262 HflX GTPases [General 49.8 1.2E+02 0.0025 23.8 6.9 49 78-126 19-78 (411)
202 TIGR02313 HpaI-NOT-DapA 2,4-di 49.5 1E+02 0.0022 22.7 6.7 60 96-155 72-134 (294)
203 PRK13055 putative lipid kinase 49.3 1.1E+02 0.0024 22.9 8.3 72 79-157 20-94 (334)
204 PRK04147 N-acetylneuraminate l 49.1 1E+02 0.0023 22.6 7.1 50 107-156 89-138 (293)
205 cd01712 ThiI ThiI is required 49.0 78 0.0017 21.1 11.7 34 8-50 1-34 (177)
206 COG0788 PurU Formyltetrahydrof 48.9 43 0.00093 24.5 4.3 44 82-126 128-175 (287)
207 TIGR01521 FruBisAldo_II_B fruc 48.9 59 0.0013 24.8 5.2 56 98-153 21-78 (347)
208 PRK00771 signal recognition pa 48.9 1.3E+02 0.0029 23.7 10.0 33 9-47 99-131 (437)
209 PRK08091 ribulose-phosphate 3- 48.8 96 0.0021 22.1 8.1 58 85-144 109-167 (228)
210 PF13500 AAA_26: AAA domain; P 48.7 27 0.00058 23.8 3.3 37 117-154 99-135 (199)
211 PRK08194 tartrate dehydrogenas 48.3 1.2E+02 0.0027 23.2 7.0 29 17-50 161-189 (352)
212 PRK00766 hypothetical protein; 48.2 87 0.0019 21.7 5.6 55 96-154 45-104 (194)
213 PRK00090 bioD dithiobiotin syn 48.2 53 0.0011 22.7 4.8 39 116-155 102-140 (222)
214 PF02878 PGM_PMM_I: Phosphoglu 47.7 52 0.0011 21.0 4.4 41 5-50 39-79 (137)
215 cd00453 FTBP_aldolase_II Fruct 46.8 48 0.001 25.1 4.5 57 98-154 18-91 (340)
216 TIGR01859 fruc_bis_ald_ fructo 46.8 61 0.0013 23.8 5.0 56 99-154 22-80 (282)
217 TIGR00167 cbbA ketose-bisphosp 46.5 67 0.0014 23.7 5.2 56 98-153 23-82 (288)
218 PF01207 Dus: Dihydrouridine s 46.5 1.2E+02 0.0026 22.5 7.1 75 76-154 109-189 (309)
219 PRK07315 fructose-bisphosphate 46.4 65 0.0014 23.8 5.1 56 98-153 23-82 (293)
220 PF02610 Arabinose_Isome: L-ar 46.3 1.2E+02 0.0025 23.3 6.4 47 106-158 60-107 (359)
221 cd08171 GlyDH-like2 Glycerol d 46.1 1.3E+02 0.0028 22.7 8.0 69 81-157 38-111 (345)
222 cd07766 DHQ_Fe-ADH Dehydroquin 46.1 1E+02 0.0022 22.9 6.3 45 105-157 66-113 (332)
223 PRK08005 epimerase; Validated 46.0 1E+02 0.0022 21.6 8.2 59 84-145 98-156 (210)
224 PRK13054 lipid kinase; Reviewe 46.0 1.2E+02 0.0026 22.3 7.9 66 85-157 24-93 (300)
225 COG0151 PurD Phosphoribosylami 45.8 22 0.00047 27.7 2.6 24 104-127 50-73 (428)
226 PRK08610 fructose-bisphosphate 45.8 69 0.0015 23.7 5.1 56 98-153 23-82 (286)
227 TIGR01917 gly_red_sel_B glycin 45.6 27 0.00059 27.2 3.1 48 106-154 65-113 (431)
228 cd01971 Nitrogenase_VnfN_like 45.5 40 0.00087 26.2 4.1 27 103-129 102-128 (427)
229 PRK08091 ribulose-phosphate 3- 45.5 1.1E+02 0.0024 21.8 9.4 44 81-126 166-209 (228)
230 TIGR01918 various_sel_PB selen 45.5 27 0.00059 27.2 3.1 48 106-154 65-113 (431)
231 PF10649 DUF2478: Protein of u 45.3 43 0.00093 22.4 3.7 47 106-155 82-130 (159)
232 cd08189 Fe-ADH5 Iron-containin 45.0 87 0.0019 23.9 5.8 20 106-125 72-92 (374)
233 PRK00919 GMP synthase subunit 44.9 1.3E+02 0.0028 22.5 10.3 36 7-50 22-57 (307)
234 PRK12858 tagatose 1,6-diphosph 44.8 1.4E+02 0.003 22.7 10.3 116 20-157 105-250 (340)
235 PF02310 B12-binding: B12 bind 44.7 72 0.0016 19.4 6.8 41 83-126 19-60 (121)
236 PRK00861 putative lipid kinase 44.6 1.2E+02 0.0027 22.1 7.0 55 96-157 35-90 (300)
237 cd00954 NAL N-Acetylneuraminic 44.3 1.2E+02 0.0027 22.1 7.3 51 106-156 85-136 (288)
238 cd04731 HisF The cyclase subun 44.1 64 0.0014 22.8 4.7 50 106-155 151-200 (243)
239 TIGR03297 Ppyr-DeCO2ase phosph 43.9 23 0.0005 27.0 2.5 55 103-157 63-124 (361)
240 PRK13337 putative lipid kinase 43.9 1.3E+02 0.0028 22.1 8.4 68 83-157 23-92 (304)
241 COG3969 Predicted phosphoadeno 43.8 59 0.0013 24.8 4.5 39 5-47 26-64 (407)
242 cd08551 Fe-ADH iron-containing 43.6 89 0.0019 23.7 5.7 20 106-125 69-89 (370)
243 PRK10481 hypothetical protein; 43.5 1.2E+02 0.0026 21.6 7.5 42 105-153 167-211 (224)
244 PF06506 PrpR_N: Propionate ca 43.4 99 0.0021 20.7 5.8 50 96-157 10-62 (176)
245 PRK08673 3-deoxy-7-phosphohept 43.3 1.5E+02 0.0031 22.6 8.9 105 17-156 104-208 (335)
246 PF06925 MGDG_synth: Monogalac 43.3 24 0.00052 23.4 2.3 22 105-126 77-98 (169)
247 PLN02828 formyltetrahydrofolat 43.1 1.3E+02 0.0028 22.0 9.3 87 5-127 69-157 (268)
248 PRK14057 epimerase; Provisiona 43.1 1.3E+02 0.0028 21.9 9.1 45 80-126 179-223 (254)
249 cd00840 MPP_Mre11_N Mre11 nucl 43.0 50 0.0011 22.5 4.0 9 120-128 80-88 (223)
250 cd01125 repA Hexameric Replica 42.9 1.2E+02 0.0025 21.4 8.3 23 9-31 5-27 (239)
251 PF03808 Glyco_tran_WecB: Glyc 42.7 1E+02 0.0022 20.6 7.8 25 104-128 88-112 (172)
252 cd01972 Nitrogenase_VnfE_like 42.6 51 0.0011 25.6 4.3 25 103-127 105-130 (426)
253 PLN02331 phosphoribosylglycina 42.3 1.2E+02 0.0025 21.2 9.1 21 106-126 67-87 (207)
254 PRK08745 ribulose-phosphate 3- 42.3 1.2E+02 0.0026 21.4 9.4 43 82-126 159-201 (223)
255 TIGR03572 WbuZ glycosyl amidat 42.3 92 0.002 21.8 5.3 49 106-154 155-203 (232)
256 cd00952 CHBPH_aldolase Trans-o 42.1 1.4E+02 0.0031 22.1 8.1 66 92-157 76-144 (309)
257 PRK09196 fructose-1,6-bisphosp 42.0 82 0.0018 24.0 5.1 56 98-153 23-80 (347)
258 PF05902 4_1_CTD: 4.1 protein 42.0 87 0.0019 19.6 5.0 39 6-47 70-108 (114)
259 TIGR02370 pyl_corrinoid methyl 41.9 1.1E+02 0.0025 20.9 6.1 45 85-132 105-150 (197)
260 PF00885 DMRL_synthase: 6,7-di 41.4 1E+02 0.0022 20.2 6.6 79 75-153 16-104 (144)
261 PRK09423 gldA glycerol dehydro 41.3 1.6E+02 0.0034 22.4 8.5 69 80-157 44-117 (366)
262 PRK13057 putative lipid kinase 41.2 1.1E+02 0.0023 22.3 5.6 67 82-157 16-83 (287)
263 TIGR00420 trmU tRNA (5-methyla 41.1 1.6E+02 0.0035 22.4 9.1 33 7-48 1-33 (352)
264 PLN02858 fructose-bisphosphate 41.0 32 0.00068 31.3 3.2 74 81-154 1102-1175(1378)
265 smart00732 YqgFc Likely ribonu 41.0 68 0.0015 18.7 3.9 53 105-157 39-93 (99)
266 PRK14057 epimerase; Provisiona 40.9 1.4E+02 0.003 21.7 8.0 47 96-144 135-181 (254)
267 PRK09722 allulose-6-phosphate 40.8 1.3E+02 0.0029 21.4 9.9 46 79-126 154-199 (229)
268 cd01997 GMP_synthase_C The C-t 40.8 1.5E+02 0.0032 22.0 10.7 35 8-50 1-35 (295)
269 PRK00211 sulfur relay protein 40.7 92 0.002 19.5 4.9 38 6-49 1-42 (119)
270 PRK08057 cobalt-precorrin-6x r 40.6 85 0.0019 22.6 4.9 42 111-158 184-225 (248)
271 PLN00200 argininosuccinate syn 40.5 1.8E+02 0.0039 22.8 12.3 37 5-49 4-40 (404)
272 PRK00143 mnmA tRNA-specific 2- 40.5 1.6E+02 0.0035 22.3 10.5 34 7-49 1-34 (346)
273 CHL00076 chlB photochlorophyll 40.3 50 0.0011 26.5 4.0 9 41-49 26-34 (513)
274 cd01968 Nitrogenase_NifE_I Nit 40.2 74 0.0016 24.6 4.8 25 103-127 102-127 (410)
275 cd01967 Nitrogenase_MoFe_alpha 40.0 72 0.0016 24.5 4.8 25 103-127 103-128 (406)
276 PF02571 CbiJ: Precorrin-6x re 39.6 1.1E+02 0.0023 22.1 5.3 44 110-159 187-230 (249)
277 PF02142 MGS: MGS-like domain 39.4 38 0.00082 20.1 2.6 44 108-152 51-94 (95)
278 cd08177 MAR Maleylacetate redu 39.3 54 0.0012 24.6 3.9 43 106-156 66-109 (337)
279 PRK10966 exonuclease subunit S 39.1 1.1E+02 0.0023 23.9 5.5 16 139-154 92-107 (407)
280 PRK05835 fructose-bisphosphate 39.0 1E+02 0.0022 23.1 5.1 57 98-154 22-80 (307)
281 PRK03620 5-dehydro-4-deoxygluc 39.0 1.6E+02 0.0034 21.8 6.9 49 107-155 91-139 (303)
282 KOG3111 D-ribulose-5-phosphate 39.0 1.3E+02 0.0029 21.0 6.8 57 83-142 103-159 (224)
283 TIGR01283 nifE nitrogenase mol 38.8 59 0.0013 25.6 4.2 7 41-47 60-66 (456)
284 cd01715 ETF_alpha The electron 38.5 1.2E+02 0.0025 20.1 10.6 24 105-128 71-94 (168)
285 TIGR00683 nanA N-acetylneurami 38.2 1.6E+02 0.0035 21.6 7.9 62 96-157 73-137 (290)
286 TIGR00169 leuB 3-isopropylmala 38.2 1.8E+02 0.0039 22.2 7.2 29 17-50 163-191 (349)
287 cd07388 MPP_Tt1561 Thermus the 38.1 1.4E+02 0.0031 21.1 5.6 21 105-125 19-39 (224)
288 cd03145 GAT1_cyanophycinase Ty 37.5 1.4E+02 0.0031 20.8 8.2 62 82-145 47-111 (217)
289 PRK07084 fructose-bisphosphate 37.2 94 0.002 23.4 4.7 56 98-153 29-90 (321)
290 cd02812 PcrB_like PcrB_like pr 37.0 95 0.0021 21.9 4.6 50 106-158 14-64 (219)
291 PF09370 TIM-br_sig_trns: TIM- 36.8 56 0.0012 23.8 3.4 70 79-153 2-86 (268)
292 PRK02261 methylaspartate mutas 36.7 1.2E+02 0.0025 19.6 6.5 41 85-128 24-65 (137)
293 PF00180 Iso_dh: Isocitrate/is 36.7 1.9E+02 0.0041 22.0 7.9 31 17-51 160-190 (348)
294 PF01596 Methyltransf_3: O-met 36.6 88 0.0019 21.8 4.3 44 84-128 86-132 (205)
295 PRK14974 cell division protein 36.5 1.9E+02 0.0041 21.9 10.2 47 83-130 186-235 (336)
296 cd01981 Pchlide_reductase_B Pc 36.5 64 0.0014 25.1 4.0 25 103-127 101-126 (430)
297 COG0622 Predicted phosphoester 36.4 1.4E+02 0.0029 20.2 5.2 35 96-130 82-122 (172)
298 COG0300 DltE Short-chain dehyd 36.3 1.7E+02 0.0037 21.4 9.0 87 1-125 1-92 (265)
299 PF03575 Peptidase_S51: Peptid 36.2 30 0.00064 22.6 1.9 44 81-127 2-45 (154)
300 PRK03692 putative UDP-N-acetyl 35.8 1.7E+02 0.0036 21.1 6.0 21 106-126 146-166 (243)
301 PRK12361 hypothetical protein; 35.7 2.4E+02 0.0052 22.9 7.8 69 80-157 261-330 (547)
302 PRK07709 fructose-bisphosphate 35.7 1.3E+02 0.0028 22.2 5.2 56 98-153 23-82 (285)
303 TIGR02667 moaB_proteo molybden 35.5 1.3E+02 0.0029 19.9 5.1 41 84-124 27-70 (163)
304 cd00886 MogA_MoaB MogA_MoaB fa 35.3 1.3E+02 0.0028 19.6 5.1 41 84-124 25-68 (152)
305 TIGR03156 GTP_HflX GTP-binding 35.2 2E+02 0.0044 21.9 7.0 66 79-152 17-93 (351)
306 COG0669 CoaD Phosphopantethein 35.1 1.4E+02 0.003 20.0 8.7 26 108-133 73-98 (159)
307 PRK01565 thiamine biosynthesis 35.0 2.1E+02 0.0046 22.1 11.5 35 6-49 176-210 (394)
308 COG1184 GCD2 Translation initi 34.9 1.9E+02 0.0042 21.6 10.3 47 109-157 181-230 (301)
309 TIGR00884 guaA_Cterm GMP synth 34.9 1.9E+02 0.0042 21.6 10.9 36 7-50 17-52 (311)
310 PRK13011 formyltetrahydrofolat 34.7 1.9E+02 0.0041 21.4 8.9 82 6-126 89-174 (286)
311 COG1092 Predicted SAM-dependen 34.7 1.3E+02 0.0029 23.3 5.4 54 78-131 250-304 (393)
312 TIGR00273 iron-sulfur cluster- 34.5 1.2E+02 0.0025 24.0 5.1 53 73-126 45-97 (432)
313 PF13362 Toprim_3: Toprim doma 34.5 99 0.0022 18.1 4.9 30 5-35 40-71 (96)
314 KOG0780 Signal recognition par 34.4 2.3E+02 0.005 22.3 8.4 92 9-133 105-199 (483)
315 TIGR00735 hisF imidazoleglycer 34.3 1.2E+02 0.0026 21.7 4.9 50 106-155 157-206 (254)
316 smart00493 TOPRIM topoisomeras 34.3 80 0.0017 17.4 3.3 26 7-32 48-73 (76)
317 PRK14478 nitrogenase molybdenu 34.2 78 0.0017 25.1 4.2 25 103-127 135-160 (475)
318 TIGR00032 argG argininosuccina 33.9 2.3E+02 0.0049 22.1 10.7 33 8-49 1-33 (394)
319 TIGR03702 lip_kinase_YegS lipi 33.9 1.9E+02 0.0041 21.1 7.9 64 87-157 22-89 (293)
320 TIGR01819 F420_cofD LPPG:FO 2- 33.9 87 0.0019 23.3 4.1 46 104-154 171-218 (297)
321 COG1433 Uncharacterized conser 33.8 1.3E+02 0.0027 19.1 4.4 41 106-156 54-94 (121)
322 TIGR02089 TTC tartrate dehydro 33.6 2.2E+02 0.0048 21.8 6.9 29 17-50 164-192 (352)
323 PRK05595 replicative DNA helic 33.5 1.6E+02 0.0034 23.2 5.7 47 109-155 303-358 (444)
324 cd01998 tRNA_Me_trans tRNA met 33.4 2.1E+02 0.0047 21.7 9.0 23 106-128 102-124 (349)
325 PLN02476 O-methyltransferase 33.3 1.7E+02 0.0037 21.5 5.5 45 82-127 157-204 (278)
326 cd03114 ArgK-like The function 33.2 1.4E+02 0.003 19.4 5.0 44 106-157 80-123 (148)
327 PRK00772 3-isopropylmalate deh 33.1 2.3E+02 0.0049 21.8 7.4 29 17-50 166-194 (358)
328 TIGR00177 molyb_syn molybdenum 33.1 1.4E+02 0.003 19.3 5.2 40 84-124 32-73 (144)
329 PRK08760 replicative DNA helic 32.9 1.8E+02 0.0039 23.2 6.0 47 109-155 331-386 (476)
330 TIGR00147 lipid kinase, YegS/R 32.9 1.9E+02 0.0042 21.0 8.6 72 79-157 19-92 (293)
331 PRK05703 flhF flagellar biosyn 32.7 2.5E+02 0.0053 22.1 8.6 29 14-47 230-259 (424)
332 TIGR03609 S_layer_CsaB polysac 32.6 2E+02 0.0042 20.9 6.7 47 108-157 57-108 (298)
333 PRK08883 ribulose-phosphate 3- 32.6 1.8E+02 0.0039 20.5 8.4 57 83-142 97-153 (220)
334 COG0320 LipA Lipoate synthase 32.5 2.1E+02 0.0045 21.3 5.9 51 75-126 197-250 (306)
335 PRK10416 signal recognition pa 32.5 2.2E+02 0.0047 21.4 10.6 90 10-132 119-211 (318)
336 PRK08997 isocitrate dehydrogen 32.5 2.2E+02 0.0049 21.6 7.8 30 17-50 147-176 (334)
337 PF10672 Methyltrans_SAM: S-ad 32.2 1.2E+02 0.0025 22.5 4.5 49 79-127 157-205 (286)
338 TIGR03729 acc_ester putative p 32.1 1.4E+02 0.003 21.0 4.9 10 96-105 33-42 (239)
339 COG0371 GldA Glycerol dehydrog 32.1 2.4E+02 0.0051 21.7 6.9 68 82-157 47-117 (360)
340 TIGR01768 GGGP-family geranylg 32.0 1.1E+02 0.0024 21.7 4.2 49 106-157 16-64 (223)
341 PRK06247 pyruvate kinase; Prov 31.9 1.5E+02 0.0034 23.7 5.4 44 105-157 357-401 (476)
342 PRK00843 egsA NAD(P)-dependent 31.7 2.3E+02 0.0049 21.4 7.1 45 105-157 75-120 (350)
343 PF07085 DRTGG: DRTGG domain; 31.5 92 0.002 18.7 3.4 51 99-157 44-94 (105)
344 cd08174 G1PDH-like Glycerol-1- 31.5 2.2E+02 0.0048 21.2 6.4 46 104-157 61-108 (331)
345 PRK05636 replicative DNA helic 31.4 1.9E+02 0.0041 23.3 5.9 46 110-155 368-422 (505)
346 TIGR03151 enACPred_II putative 31.2 1E+02 0.0022 22.9 4.2 46 109-154 121-167 (307)
347 cd07392 MPP_PAE1087 Pyrobaculu 31.1 1.1E+02 0.0024 20.1 4.2 16 142-157 46-61 (188)
348 PRK08576 hypothetical protein; 31.1 2.7E+02 0.0058 22.1 9.6 32 8-48 236-267 (438)
349 PRK10653 D-ribose transporter 30.7 2E+02 0.0044 20.6 6.8 72 78-156 42-115 (295)
350 COG2129 Predicted phosphoester 30.6 1.2E+02 0.0026 21.6 4.1 50 104-157 17-73 (226)
351 cd06533 Glyco_transf_WecG_TagA 30.3 1.7E+02 0.0037 19.5 7.9 44 105-154 87-130 (171)
352 PF01177 Asp_Glu_race: Asp/Glu 30.2 1.3E+02 0.0027 20.6 4.4 41 107-152 161-205 (216)
353 PRK13396 3-deoxy-7-phosphohept 30.1 2.5E+02 0.0055 21.5 11.4 104 18-156 113-216 (352)
354 TIGR01064 pyruv_kin pyruvate k 30.1 1.6E+02 0.0034 23.6 5.2 45 104-157 360-405 (473)
355 TIGR02088 LEU3_arch isopropylm 30.1 2.4E+02 0.0053 21.3 7.2 28 16-48 140-167 (322)
356 PRK09722 allulose-6-phosphate 30.0 2.1E+02 0.0045 20.4 7.9 56 85-143 101-156 (229)
357 PTZ00300 pyruvate kinase; Prov 29.8 2E+02 0.0043 22.9 5.7 44 105-157 336-380 (454)
358 cd01029 TOPRIM_primases TOPRIM 29.7 1.1E+02 0.0023 17.1 4.9 27 7-33 44-70 (79)
359 PF00834 Ribul_P_3_epim: Ribul 29.6 1.5E+02 0.0032 20.6 4.5 56 85-143 98-153 (201)
360 TIGR03249 KdgD 5-dehydro-4-deo 29.6 2.3E+02 0.005 20.8 10.5 50 106-155 88-137 (296)
361 cd01996 Alpha_ANH_like_III Thi 29.5 1.6E+02 0.0034 18.9 10.1 33 8-48 3-35 (154)
362 cd02933 OYE_like_FMN Old yello 29.3 2.5E+02 0.0055 21.2 12.2 127 20-155 151-292 (338)
363 COG1171 IlvA Threonine dehydra 29.1 2.1E+02 0.0046 21.9 5.5 81 19-127 130-210 (347)
364 PF05198 IF3_N: Translation in 29.1 1.2E+02 0.0026 17.4 3.6 31 105-135 29-59 (76)
365 PRK11070 ssDNA exonuclease Rec 28.9 3.3E+02 0.0072 22.5 11.2 33 96-128 130-162 (575)
366 PRK09860 putative alcohol dehy 28.9 1.4E+02 0.003 22.9 4.7 22 105-126 76-98 (383)
367 COG0329 DapA Dihydrodipicolina 28.8 2.4E+02 0.0053 20.9 8.7 116 16-155 20-137 (299)
368 PRK01033 imidazole glycerol ph 28.8 1.9E+02 0.0041 20.8 5.1 50 105-154 153-202 (258)
369 PRK07667 uridine kinase; Provi 28.5 88 0.0019 21.2 3.3 23 108-130 5-27 (193)
370 TIGR00416 sms DNA repair prote 28.5 3E+02 0.0065 21.8 7.9 56 100-155 153-219 (454)
371 COG0042 tRNA-dihydrouridine sy 28.4 2.6E+02 0.0056 21.0 6.6 59 93-153 136-203 (323)
372 PF07279 DUF1442: Protein of u 28.4 2.2E+02 0.0048 20.2 9.4 24 103-128 103-126 (218)
373 PRK06354 pyruvate kinase; Prov 28.4 1.7E+02 0.0037 24.2 5.2 44 105-157 365-409 (590)
374 PRK11823 DNA repair protein Ra 28.2 3E+02 0.0065 21.8 10.9 55 100-155 139-205 (446)
375 PRK14177 bifunctional 5,10-met 28.1 1.7E+02 0.0037 21.6 4.8 47 105-158 142-193 (284)
376 TIGR03573 WbuX N-acetyl sugar 28.1 2.7E+02 0.0058 21.1 9.7 24 105-128 148-171 (343)
377 TIGR03282 methan_mark_13 putat 28.1 1.2E+02 0.0027 23.1 4.1 49 104-156 62-112 (352)
378 PLN02461 Probable pyruvate kin 28.1 1.9E+02 0.0041 23.5 5.3 42 105-155 383-425 (511)
379 PF00464 SHMT: Serine hydroxym 27.9 1.3E+02 0.0028 23.5 4.3 26 105-130 157-182 (399)
380 cd07399 MPP_YvnB Bacillus subt 27.7 1.1E+02 0.0023 21.3 3.6 7 148-154 106-112 (214)
381 PF02302 PTS_IIB: PTS system, 27.7 1.3E+02 0.0028 17.3 3.8 39 82-126 18-56 (90)
382 PF06050 HGD-D: 2-hydroxygluta 27.5 67 0.0014 23.9 2.7 53 103-156 272-325 (349)
383 PF08123 DOT1: Histone methyla 27.3 2.2E+02 0.0047 19.8 7.0 56 71-126 76-131 (205)
384 PF01902 ATP_bind_4: ATP-bindi 27.3 2.3E+02 0.0049 20.0 8.7 91 8-126 2-94 (218)
385 KOG1014 17 beta-hydroxysteroid 27.1 2.8E+02 0.006 20.9 6.3 28 96-123 101-132 (312)
386 PRK00748 1-(5-phosphoribosyl)- 27.1 1.7E+02 0.0037 20.4 4.6 48 106-154 148-196 (233)
387 cd02801 DUS_like_FMN Dihydrour 27.0 2.2E+02 0.0047 19.7 9.7 74 77-154 111-189 (231)
388 PRK00074 guaA GMP synthase; Re 27.0 3.4E+02 0.0074 21.9 10.4 36 7-50 216-251 (511)
389 PLN02329 3-isopropylmalate deh 26.8 2.3E+02 0.005 22.2 5.5 29 17-50 211-239 (409)
390 CHL00073 chlN photochlorophyll 26.8 1.3E+02 0.0028 24.0 4.2 27 103-129 113-140 (457)
391 cd08185 Fe-ADH1 Iron-containin 26.6 1.7E+02 0.0037 22.3 4.9 21 106-126 72-93 (380)
392 PRK14024 phosphoribosyl isomer 26.6 1.8E+02 0.0038 20.7 4.6 49 106-154 148-196 (241)
393 PF07302 AroM: AroM protein; 26.5 2.4E+02 0.0052 20.0 6.9 37 111-154 172-208 (221)
394 PLN02762 pyruvate kinase compl 26.5 2.1E+02 0.0045 23.2 5.3 44 105-157 397-441 (509)
395 cd07402 MPP_GpdQ Enterobacter 26.5 1.5E+02 0.0032 20.6 4.2 8 97-104 42-49 (240)
396 PF00532 Peripla_BP_1: Peripla 26.5 2.5E+02 0.0055 20.3 8.4 71 78-157 17-88 (279)
397 cd08199 EEVS 2-epi-5-epi-valio 26.5 2.9E+02 0.0064 21.0 7.5 44 106-157 73-123 (354)
398 PRK02083 imidazole glycerol ph 26.4 1.9E+02 0.0041 20.6 4.8 49 106-154 155-203 (253)
399 COG2870 RfaE ADP-heptose synth 26.3 3.3E+02 0.0072 21.6 8.0 52 104-158 128-181 (467)
400 PRK05826 pyruvate kinase; Prov 26.3 2.4E+02 0.0052 22.6 5.6 45 104-157 359-405 (465)
401 PF02729 OTCace_N: Aspartate/o 26.3 1.9E+02 0.0041 18.8 6.0 40 103-152 81-120 (142)
402 TIGR02260 benz_CoA_red_B benzo 26.1 1.6E+02 0.0035 23.0 4.6 52 105-156 338-389 (413)
403 COG2179 Predicted hydrolase of 26.1 1.2E+02 0.0026 20.6 3.4 34 7-46 36-69 (175)
404 cd07410 MPP_CpdB_N Escherichia 25.9 2.4E+02 0.0053 20.3 5.4 8 117-124 218-225 (277)
405 PRK10415 tRNA-dihydrouridine s 25.9 2.9E+02 0.0062 20.7 8.4 60 95-154 135-200 (321)
406 PF13155 Toprim_2: Toprim-like 25.9 1.3E+02 0.0028 17.5 3.4 28 6-33 47-74 (96)
407 TIGR03868 F420-O_ABCperi propo 25.8 1.1E+02 0.0023 22.1 3.5 42 110-155 71-112 (287)
408 cd00288 Pyruvate_Kinase Pyruva 25.6 2.1E+02 0.0045 23.0 5.1 44 105-157 363-407 (480)
409 PRK10124 putative UDP-glucose 25.5 1.6E+02 0.0035 23.3 4.6 18 106-123 219-236 (463)
410 PTZ00170 D-ribulose-5-phosphat 25.5 2.5E+02 0.0054 19.8 5.3 26 101-126 178-203 (228)
411 PRK06278 cobyrinic acid a,c-di 25.5 2E+02 0.0042 23.1 5.0 26 6-31 238-263 (476)
412 PLN02958 diacylglycerol kinase 25.5 3.6E+02 0.0077 21.6 7.6 68 83-157 134-208 (481)
413 PRK03437 3-isopropylmalate deh 25.5 3.1E+02 0.0067 21.0 5.8 30 17-50 160-189 (344)
414 KOG0830 40S ribosomal protein 25.3 1.1E+02 0.0024 22.0 3.2 24 133-156 73-97 (254)
415 KOG1650 Predicted K+/H+-antipo 25.3 1E+02 0.0022 26.4 3.5 53 104-156 541-599 (769)
416 PF01751 Toprim: Toprim domain 25.3 1.5E+02 0.0032 17.6 3.6 29 5-33 59-87 (100)
417 cd07396 MPP_Nbla03831 Homo sap 25.3 1.4E+02 0.003 21.5 4.0 9 147-155 72-80 (267)
418 COG0036 Rpe Pentose-5-phosphat 25.3 2.6E+02 0.0055 19.9 8.8 43 81-126 157-199 (220)
419 TIGR00007 phosphoribosylformim 25.1 2E+02 0.0043 20.0 4.7 48 107-154 148-195 (230)
420 COG3598 RepA RecA-family ATPas 25.1 2E+02 0.0043 22.1 4.6 52 108-159 185-243 (402)
421 PLN00118 isocitrate dehydrogen 25.0 3.3E+02 0.0071 21.1 7.0 30 17-50 184-213 (372)
422 PRK04527 argininosuccinate syn 25.0 3.4E+02 0.0074 21.3 11.0 35 6-49 2-36 (400)
423 PRK11058 GTPase HflX; Provisio 24.9 3.5E+02 0.0075 21.3 7.3 47 79-125 25-82 (426)
424 KOG1361 Predicted hydrolase in 24.9 1.4E+02 0.0029 24.0 4.0 47 105-157 249-295 (481)
425 PLN02589 caffeoyl-CoA O-methyl 24.7 2.7E+02 0.0059 20.0 5.4 44 83-127 119-166 (247)
426 PRK04169 geranylgeranylglycery 24.7 1.7E+02 0.0036 21.0 4.1 47 108-157 23-69 (232)
427 PRK08384 thiamine biosynthesis 24.6 3.4E+02 0.0073 21.1 10.8 34 6-48 180-213 (381)
428 TIGR01278 DPOR_BchB light-inde 24.6 1.1E+02 0.0025 24.5 3.7 22 106-127 104-125 (511)
429 PRK07695 transcriptional regul 24.5 2.2E+02 0.0048 19.4 4.7 44 111-154 109-155 (201)
430 PF01012 ETF: Electron transfe 24.4 2.1E+02 0.0046 18.7 6.6 84 73-157 13-99 (164)
431 PF07015 VirC1: VirC1 protein; 24.4 2.7E+02 0.0059 19.9 11.7 33 15-53 12-44 (231)
432 COG0615 TagD Cytidylyltransfer 24.3 73 0.0016 20.8 2.1 33 96-128 65-97 (140)
433 TIGR01862 N2-ase-Ialpha nitrog 24.3 1.2E+02 0.0027 23.8 3.8 26 103-128 134-160 (443)
434 PRK06372 translation initiatio 24.3 1.6E+02 0.0035 21.3 4.0 39 117-156 151-193 (253)
435 PRK13397 3-deoxy-7-phosphohept 24.1 2.9E+02 0.0062 20.1 10.7 94 9-129 17-110 (250)
436 cd01979 Pchlide_reductase_N Pc 24.0 1.1E+02 0.0023 23.6 3.3 26 103-128 103-129 (396)
437 cd01121 Sms Sms (bacterial rad 24.0 3.4E+02 0.0074 20.9 9.3 56 100-155 141-207 (372)
438 PF00781 DAGK_cat: Diacylglyce 23.9 1.9E+02 0.0042 18.0 5.8 69 82-157 18-91 (130)
439 PRK13856 two-component respons 23.8 2.5E+02 0.0054 19.3 7.5 47 106-156 34-80 (241)
440 smart00852 MoCF_biosynth Proba 23.8 2E+02 0.0043 18.1 5.3 40 83-124 22-64 (135)
441 PTZ00066 pyruvate kinase; Prov 23.7 2.6E+02 0.0057 22.7 5.4 45 104-157 398-443 (513)
442 COG1205 Distinct helicase fami 23.7 5E+02 0.011 22.7 9.5 47 77-124 128-174 (851)
443 PRK14025 multifunctional 3-iso 23.7 3.3E+02 0.0072 20.7 7.5 33 17-50 140-173 (330)
444 PRK05720 mtnA methylthioribose 23.6 3.4E+02 0.0073 20.7 6.8 46 108-157 169-215 (344)
445 PF01380 SIS: SIS domain SIS d 23.6 1.8E+02 0.004 17.7 4.4 40 4-49 51-90 (131)
446 cd07394 MPP_Vps29 Homo sapiens 23.6 2.4E+02 0.0051 19.0 5.1 33 96-128 79-117 (178)
447 cd01147 HemV-2 Metal binding p 23.6 2.3E+02 0.005 19.9 4.8 40 111-157 68-107 (262)
448 PRK08883 ribulose-phosphate 3- 23.6 2.7E+02 0.0059 19.6 9.1 45 80-126 153-197 (220)
449 cd04795 SIS SIS domain. SIS (S 23.6 1.5E+02 0.0032 16.6 4.0 36 5-46 46-81 (87)
450 cd00958 DhnA Class I fructose- 23.5 2.7E+02 0.0058 19.5 8.5 71 76-155 106-186 (235)
451 PRK09206 pyruvate kinase; Prov 23.3 2.5E+02 0.0055 22.5 5.2 45 104-157 357-402 (470)
452 COG2185 Sbm Methylmalonyl-CoA 23.3 2.3E+02 0.0049 18.6 4.8 24 104-127 50-73 (143)
453 PF01784 NIF3: NIF3 (NGG1p int 23.2 1.3E+02 0.0029 21.4 3.5 28 96-123 32-59 (241)
454 PLN02765 pyruvate kinase 23.2 2.6E+02 0.0056 22.8 5.3 42 105-155 396-438 (526)
455 PTZ00408 NAD-dependent deacety 23.2 2.7E+02 0.0058 20.0 5.0 52 100-158 154-209 (242)
456 PRK12726 flagellar biosynthesi 23.1 3.8E+02 0.0082 21.1 9.1 17 116-132 284-300 (407)
457 PF13614 AAA_31: AAA domain; P 23.1 2.1E+02 0.0046 18.2 7.2 46 105-157 106-151 (157)
458 PF00701 DHDPS: Dihydrodipicol 23.0 3E+02 0.0066 20.0 8.3 61 95-155 72-134 (289)
459 PRK09875 putative hydrolase; P 23.0 3.2E+02 0.007 20.3 5.7 37 90-127 150-188 (292)
460 cd08178 AAD_C C-terminal alcoh 22.9 2E+02 0.0044 22.2 4.7 22 105-126 66-88 (398)
461 TIGR02924 ICDH_alpha isocitrat 22.9 3.5E+02 0.0076 21.8 5.9 30 17-50 145-174 (473)
462 PF04244 DPRP: Deoxyribodipyri 22.9 2.8E+02 0.0062 19.6 6.1 73 79-157 49-126 (224)
463 cd06375 PBP1_mGluR_groupII Lig 22.9 3.8E+02 0.0083 21.1 11.7 24 104-127 243-266 (458)
464 cd07391 MPP_PF1019 Pyrococcus 22.9 2.4E+02 0.0051 18.7 5.2 10 80-89 29-38 (172)
465 PRK10200 putative racemase; Pr 22.8 1.4E+02 0.003 21.1 3.5 22 107-128 65-86 (230)
466 cd00316 Oxidoreductase_nitroge 22.7 1.7E+02 0.0036 22.3 4.2 12 116-127 110-121 (399)
467 cd05008 SIS_GlmS_GlmD_1 SIS (S 22.6 1.9E+02 0.0042 17.6 4.4 40 5-50 45-84 (126)
468 COG4080 SpoU rRNA Methylase fa 22.6 2.2E+02 0.0047 18.7 3.9 49 106-156 16-64 (147)
469 PRK09222 isocitrate dehydrogen 22.5 4.2E+02 0.0091 21.4 6.5 30 17-50 149-178 (482)
470 PF13685 Fe-ADH_2: Iron-contai 22.5 1.7E+02 0.0037 21.1 3.9 44 106-156 64-107 (250)
471 TIGR00737 nifR3_yhdG putative 22.4 3.3E+02 0.0072 20.2 10.5 75 76-154 118-198 (319)
472 PF01497 Peripla_BP_2: Peripla 22.1 2.5E+02 0.0054 19.2 4.7 38 113-158 56-93 (238)
473 COG2099 CobK Precorrin-6x redu 22.1 1.7E+02 0.0036 21.3 3.7 47 105-155 54-100 (257)
474 PRK00865 glutamate racemase; P 22.1 1.6E+02 0.0035 21.2 3.8 36 10-54 8-43 (261)
475 TIGR01743 purR_Bsub pur operon 22.0 3.3E+02 0.0071 20.0 7.4 45 107-159 118-162 (268)
476 TIGR00035 asp_race aspartate r 22.0 1.7E+02 0.0037 20.5 3.8 14 114-127 72-85 (229)
477 cd03770 SR_TndX_transposase Se 22.0 2.3E+02 0.0049 18.1 7.1 50 105-156 56-107 (140)
478 TIGR01917 gly_red_sel_B glycin 22.0 2.4E+02 0.0053 22.2 4.8 46 105-154 324-370 (431)
479 COG4034 Uncharacterized protei 22.0 1.8E+02 0.0039 21.5 3.8 45 80-124 92-138 (328)
480 KOG3111 D-ribulose-5-phosphate 21.8 2.9E+02 0.0064 19.4 5.4 50 74-126 150-199 (224)
481 PRK05772 translation initiatio 21.8 2.7E+02 0.0059 21.5 5.0 43 114-156 243-288 (363)
482 cd01977 Nitrogenase_VFe_alpha 21.8 2.2E+02 0.0048 22.1 4.7 25 103-127 104-130 (415)
483 COG1214 Inactive homolog of me 21.8 1E+02 0.0022 21.7 2.6 38 117-155 58-96 (220)
484 PF13684 Dak1_2: Dihydroxyacet 21.7 3.5E+02 0.0076 20.2 6.3 28 100-127 99-126 (313)
485 TIGR00381 cdhD CO dehydrogenas 21.6 2E+02 0.0042 22.4 4.2 17 138-154 178-194 (389)
486 cd01539 PBP1_GGBP Periplasmic 21.5 3.2E+02 0.007 19.7 7.6 42 108-155 48-89 (303)
487 PF13528 Glyco_trans_1_3: Glyc 21.5 1.9E+02 0.0042 21.0 4.2 35 7-49 1-37 (318)
488 PRK13435 response regulator; P 21.3 2.2E+02 0.0047 17.7 4.5 16 110-125 43-58 (145)
489 PLN02781 Probable caffeoyl-CoA 21.3 3.1E+02 0.0066 19.4 5.7 42 84-126 109-153 (234)
490 cd03115 SRP The signal recogni 21.2 2.5E+02 0.0054 18.4 9.7 33 9-47 4-36 (173)
491 PF04412 DUF521: Protein of un 21.2 2.8E+02 0.0061 21.7 5.0 27 18-51 225-251 (400)
492 COG2257 Uncharacterized homolo 21.1 75 0.0016 19.0 1.5 20 101-120 29-48 (92)
493 cd04732 HisA HisA. Phosphorib 21.0 3E+02 0.0064 19.1 7.8 49 106-154 148-196 (234)
494 TIGR01391 dnaG DNA primase, ca 20.9 2.6E+02 0.0056 21.8 4.9 34 7-45 301-334 (415)
495 cd00885 cinA Competence-damage 20.9 2.7E+02 0.0059 18.6 5.4 41 83-124 23-65 (170)
496 PRK11173 two-component respons 20.8 2.9E+02 0.0062 18.9 7.3 47 106-156 36-82 (237)
497 PRK13585 1-(5-phosphoribosyl)- 20.8 2.4E+02 0.0052 19.8 4.4 49 106-154 151-199 (241)
498 cd07385 MPP_YkuE_C Bacillus su 20.7 2.9E+02 0.0062 18.8 5.3 10 119-128 66-75 (223)
499 COG0190 FolD 5,10-methylene-te 20.7 3.6E+02 0.0079 20.0 5.4 47 106-159 140-191 (283)
500 PF01949 DUF99: Protein of unk 20.7 1.5E+02 0.0033 20.4 3.2 60 96-159 39-102 (187)
No 1
>PRK15456 universal stress protein UspG; Provisional
Probab=99.96 E-value=4e-28 Score=158.69 Aligned_cols=140 Identities=19% Similarity=0.212 Sum_probs=108.1
Q ss_pred CceeEEEEecCCh--hHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHH
Q 031355 5 ETQTMVVGIDDSE--QSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVE 82 (161)
Q Consensus 5 ~~~~ilv~~d~s~--~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 82 (161)
|++|||||+|+|+ .+.+++++|..+|+.. ++++++||++...... .... ......+.+...+..++.++
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~~------~~l~llhv~~~~~~~~-~~~~--~~~~~~~~~~~~~~~~~~l~ 71 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQDD------GVIHLLHVLPGSASLS-LHRF--AADVRRFEEHLQHEAEERLQ 71 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHhcC------CeEEEEEEecCccccc-cccc--ccchhhHHHHHHHHHHHHHH
Confidence 4899999999994 8999999999999863 4999999997653211 1000 01112233445555666666
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
++.+.+...+ .++++++..|++.+.|.++++++++||||||+++++ +.++++||++++|+++++||||+||
T Consensus 72 ~~~~~~~~~~-~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~~~a~~pVLvV~ 142 (142)
T PRK15456 72 TMVSHFTIDP-SRIKQHVRFGSVRDEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVIRHANLPVLVVR 142 (142)
T ss_pred HHHHHhCCCC-cceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHHHcCCCCEEEeC
Confidence 6665554333 358899999999999999999999999999999976 7889999999999999999999996
No 2
>PRK15005 universal stress protein F; Provisional
Probab=99.96 E-value=1.1e-27 Score=156.82 Aligned_cols=142 Identities=23% Similarity=0.279 Sum_probs=105.3
Q ss_pred CceeEEEEecCChh--HHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHH
Q 031355 5 ETQTMVVGIDDSEQ--STYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVE 82 (161)
Q Consensus 5 ~~~~ilv~~d~s~~--s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 82 (161)
|+++||||+|+|+. +.+++++|..+|+.. + ++++++||++......... ....... ...+..++..++.++
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~~~-~----~~l~ll~v~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~l~ 73 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAKID-D----AEVHFLTVIPSLPYYASLG-LAYSAEL-PAMDDLKAEAKSQLE 73 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHhcc-C----CeEEEEEEEccCccccccc-ccccccc-hHHHHHHHHHHHHHH
Confidence 47899999999987 579999999999975 7 8999999997643221110 0000000 011233444445555
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
++.+.+...+ .++++.+..|+|.+.|+++++++++||||||+++ +++.++++||++.+|+++++||||+||
T Consensus 74 ~~~~~~~~~~-~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~~~llGS~a~~vl~~a~cpVlvVr 144 (144)
T PRK15005 74 EIIKKFKLPT-DRVHVHVEEGSPKDRILELAKKIPADMIIIASHR-PDITTYLLGSNAAAVVRHAECSVLVVR 144 (144)
T ss_pred HHHHHhCCCC-CceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCCC-CCchheeecchHHHHHHhCCCCEEEeC
Confidence 5554443323 3478889999999999999999999999999884 578889999999999999999999996
No 3
>PRK09982 universal stress protein UspD; Provisional
Probab=99.96 E-value=1.7e-27 Score=155.68 Aligned_cols=141 Identities=15% Similarity=0.137 Sum_probs=107.0
Q ss_pred CCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHH
Q 031355 4 AETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEE 83 (161)
Q Consensus 4 ~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 83 (161)
|++++||||+|+|+.+.+++++|+.+|+.. + ++++++||.+....... . ... ...+...+..++..++.+++
T Consensus 1 ~~~k~ILvavD~S~~s~~al~~A~~lA~~~-~----a~l~llhV~~~~~~~~~-~-~~~-~~~~~~~~~~~~~~~~~l~~ 72 (142)
T PRK09982 1 MAYKHIGVAISGNEEDALLVNKALELARHN-D----AHLTLIHIDDGLSELYP-G-IYF-PATEDILQLLKNKSDNKLYK 72 (142)
T ss_pred CCceEEEEEecCCcchHHHHHHHHHHHHHh-C----CeEEEEEEccCcchhch-h-hhc-cchHHHHHHHHHHHHHHHHH
Confidence 578999999999999999999999999975 7 89999999876432210 0 000 01112233444455555555
Q ss_pred HHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 84 AKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
+.+.+. ...++..+..|+|.+.|+++|++.++||||||++ ++++.+++ | ++++++++++||||+||...
T Consensus 73 ~~~~~~---~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~-~-va~~V~~~s~~pVLvv~~~~ 141 (142)
T PRK09982 73 LTKNIQ---WPKTKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM-P-AYRGMINKMSADLLIVPFID 141 (142)
T ss_pred HHHhcC---CCcceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH-H-HHHHHHhcCCCCEEEecCCC
Confidence 554443 2347788889999999999999999999999986 77777776 5 99999999999999999753
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=99.95 E-value=8e-27 Score=153.11 Aligned_cols=142 Identities=25% Similarity=0.397 Sum_probs=110.8
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+||||+|+|+.+.+|++||+.+|... + ++++++||.+.......... .........+..++..++.++++.+.
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~-~----~~l~ll~v~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~ 73 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATK-G----QTIVLVHVHPPITSIPSSSG--KLEVASAYKQEEDKEAKELLLPYRCF 73 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCC-C----CcEEEEEeccCcccCCCCcc--chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 58999999999999999999999975 7 89999999876432211110 00111222334455666777777777
Q ss_pred hhhcCCccEEEEEEcC-ChHhHHHHHHHhcCCCEEEEecCCCCcceeeecc-chHHHHhhcCC--CcEEEEcCC
Q 031355 88 CSSKSVHDFVVEVVEG-DARNILCEAVEKHHASILVVGSHGYGAIKRAVLG-SVSDYCAHHAH--CTVMIVKRP 157 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~g-s~~~~ll~~~~--~pvlvv~~~ 157 (161)
+...+.. .+..+..| ++.+.|++++++.++|+||||+++++++.++++| |++.+++++++ ||||+|+..
T Consensus 74 ~~~~~~~-~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~~ 146 (146)
T cd01989 74 CSRKGVQ-CEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSKG 146 (146)
T ss_pred HhhcCCe-EEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeCc
Confidence 6655544 77777776 8999999999999999999999999999999987 69999999999 999999863
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.95 E-value=9.4e-27 Score=152.48 Aligned_cols=142 Identities=15% Similarity=0.162 Sum_probs=99.6
Q ss_pred CCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHH
Q 031355 4 AETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEE 83 (161)
Q Consensus 4 ~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 83 (161)
|++++||||+|+|+.+..|+++|..+|+.. + ++++++||....... ..... ........+...+... +.
T Consensus 1 ~~~~~ILvavD~S~~s~~al~~a~~la~~~-~----a~l~ll~v~~~~~~~--~~~~~-~~~~~~~~~~~~~~~~---~~ 69 (144)
T PRK15118 1 MAYKHILIAVDLSPESKVLVEKAVSMARPY-N----AKVSLIHVDVNYSDL--YTGLI-DVNLGDMQKRISEETH---HA 69 (144)
T ss_pred CCceEEEEEccCChhHHHHHHHHHHHHHhh-C----CEEEEEEEccChhhh--hhhhh-hcchHHHHHHHHHHHH---HH
Confidence 678999999999999999999999999974 7 899999994332111 00000 0001111122222222 33
Q ss_pred HHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCCC
Q 031355 84 AKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPKT 159 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~~ 159 (161)
+.+.....+.......+..|+|.++|+++|+++++||||||+++ +.+. . +||++++|+++++||||+||.+..
T Consensus 70 l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~-~-lgSva~~v~~~a~~pVLvv~~~~~ 142 (144)
T PRK15118 70 LTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQ-DFWS-K-LMSSARQLINTVHVDMLIVPLRDE 142 (144)
T ss_pred HHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCcc-cHHH-H-HHHHHHHHHhhCCCCEEEecCCcC
Confidence 33334444544244566689999999999999999999999996 3444 3 589999999999999999997544
No 6
>PRK10116 universal stress protein UspC; Provisional
Probab=99.94 E-value=1.2e-25 Score=146.92 Aligned_cols=141 Identities=13% Similarity=0.172 Sum_probs=104.0
Q ss_pred CCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHH
Q 031355 4 AETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEE 83 (161)
Q Consensus 4 ~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 83 (161)
|++++|||++|+++.+..++++|..+|+.. + ++++++|+++....+... .....+...+...++.++.++
T Consensus 1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~-~----a~l~ll~v~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~l~- 70 (142)
T PRK10116 1 MSYSNILVAVAVTPESQQLLAKAVSIARPV-N----GKISLITLASDPEMYNQF----AAPMLEDLRSVMQEETQSFLD- 70 (142)
T ss_pred CCCceEEEEccCCcchHHHHHHHHHHHHHh-C----CEEEEEEEccCcccchhh----hHHHHHHHHHHHHHHHHHHHH-
Confidence 678999999999999999999999999984 7 899999998764322111 001111222222223333333
Q ss_pred HHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 84 AKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
+.....+.......+..|++.+.|++++++.++||||+|+++++.+.+++ |++++++++++||||+||.+.
T Consensus 71 --~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~--s~a~~v~~~~~~pVLvv~~~~ 141 (142)
T PRK10116 71 --KLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS--CSAKRVIASSEVDVLLVPLTG 141 (142)
T ss_pred --HHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH--HHHHHHHhcCCCCEEEEeCCC
Confidence 33334454324466778999999999999999999999999998888753 899999999999999999653
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=99.93 E-value=1.4e-25 Score=144.98 Aligned_cols=137 Identities=26% Similarity=0.395 Sum_probs=103.3
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHH
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEA 84 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 84 (161)
|++|||||+|+++.+..++++|+.+|+.. + ++++++||.+......... .................
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~-~----~~i~~l~v~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~ 66 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRS-G----AEITLLHVIPPPPQYSFSA---------AEDEESEEEAEEEEQAR 66 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHH-T----CEEEEEEEEESCHCHHHHH---------HHHHHHHHHHHHHHHHH
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhh-C----CeEEEEEeecccccccccc---------ccccccccccchhhhhh
Confidence 57999999999999999999999999985 7 8999999998865431100 00000000000000000
Q ss_pred H---HHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 85 K---EICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 85 ~---~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
. ......+.......+..|++.++|++++++.++|+||||+++++++.++++||++++|+++++|||||||
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 0 1122234455888888899999999999999999999999999999999999999999999999999997
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=99.93 E-value=5.7e-24 Score=137.03 Aligned_cols=131 Identities=17% Similarity=0.244 Sum_probs=108.6
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+||||+|+++.+..++++|..+|... + ++++++|+++....... .......+..++.++.+.+.
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~-~----~~v~ll~v~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~ 64 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQ-N----GEIIPLNVIEVPNHSSP-----------SQLEVNVQRARKLLRQAERI 64 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcC-C----CeEEEEEEEecCCCCCc-----------chhHHHHHHHHHHHHHHHHH
Confidence 69999999999999999999999974 6 89999999986542210 01223345566777777777
Q ss_pred hhhcCCccEEEEEE-cCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 88 CSSKSVHDFVVEVV-EGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 88 ~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
+.+.+.. ++..+. .|++.+.|+++++++++|+||||+++++.+.+.++||++.+++++++|||++++
T Consensus 65 ~~~~g~~-~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~~~pvlvv~ 132 (132)
T cd01988 65 AASLGVP-VHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESAPCDVAVVK 132 (132)
T ss_pred hhhcCCc-eEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcCCCCEEEeC
Confidence 7777764 676665 479999999999999999999999999999889999999999999999999986
No 9
>PRK11175 universal stress protein UspE; Provisional
Probab=99.92 E-value=2e-24 Score=157.42 Aligned_cols=146 Identities=14% Similarity=0.092 Sum_probs=109.1
Q ss_pred CCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHH
Q 031355 4 AETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEE 83 (161)
Q Consensus 4 ~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 83 (161)
|++++||||+|+|+.+..|+++|+.+|+.. + ++++++|+.+...... ..... ........+...+..++.++.
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~-~----a~l~ll~v~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~l~~ 73 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQRN-G----GKITAFLPIYDFSYEM-TTLLS-PDEREAMRQGVISQRTAWIRE 73 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHHhc-C----CCEEEEEeccCchhhh-hcccc-hhHHHHHHHHHHHHHHHHHHH
Confidence 679999999999999999999999999985 7 8999999976532210 00000 000111111222333444555
Q ss_pred HHHHhhhcCCccEEEEEE-cCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 84 AKEICSSKSVHDFVVEVV-EGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
+.+.+...+. +++..+. .|++.+.|.++++++++||||+|+++.+++.+.++||++++|+++++||||+||..
T Consensus 74 ~~~~~~~~~~-~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~~ 147 (305)
T PRK11175 74 QAKPYLDAGI-PIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKDQ 147 (305)
T ss_pred HHHHHhhcCC-ceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEeccc
Confidence 5544444444 4777666 58999999999999999999999999999999999999999999999999999975
No 10
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=99.92 E-value=4.9e-24 Score=136.21 Aligned_cols=123 Identities=16% Similarity=0.165 Sum_probs=100.0
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+||||+|+++.+..++++|+.+|... + ++++++||.+..... .....++.++.+.+.
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~-~----~~l~ll~v~~~~~~~------------------~~~~~~~~l~~~~~~ 57 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRL-K----APWYVVYVETPRLNR------------------LSEAERRRLAEALRL 57 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHh-C----CCEEEEEEecCcccc------------------CCHHHHHHHHHHHHH
Confidence 69999999999999999999999985 7 899999998753210 112234455555555
Q ss_pred hhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC-CCcEEEEc
Q 031355 88 CSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA-HCTVMIVK 155 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~-~~pvlvv~ 155 (161)
+.+.+.. . ..+..|++.+.|.++++++++|+||||+++++++.++++||++++|++++ +|||||++
T Consensus 58 ~~~~~~~-~-~~~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~~~a~~~~v~v~~ 124 (124)
T cd01987 58 AEELGAE-V-VTLPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLLRRAGNIDVHIVA 124 (124)
T ss_pred HHHcCCE-E-EEEeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHHHhCCCCeEEEeC
Confidence 5555432 2 34456789999999999999999999999999999999999999999999 99999985
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.90 E-value=3.2e-22 Score=145.88 Aligned_cols=144 Identities=15% Similarity=0.215 Sum_probs=104.0
Q ss_pred CCceeEEEEecCChh-------HHHHHHHHHHHhhccC-CCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHH
Q 031355 4 AETQTMVVGIDDSEQ-------STYALQWTLDHFFANS-TVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKK 75 (161)
Q Consensus 4 ~~~~~ilv~~d~s~~-------s~~al~~a~~la~~~~-~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (161)
..+++||+|+|+++. +..++++|..+|+. + + ++++++||++.......... .......+.+..+.
T Consensus 150 ~~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~-~~~----a~l~ll~v~~~~~~~~~~~~--~~~~~~~~~~~~~~ 222 (305)
T PRK11175 150 PEGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQ-LNH----AEVHLVNAYPVTPINIAIEL--PEFDPSVYNDAIRG 222 (305)
T ss_pred CCCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhh-CcC----CceEEEEEecCcchhccccc--cccchhhHHHHHHH
Confidence 357899999999865 36899999999986 4 5 79999999875432111000 00001111122222
Q ss_pred HHHHHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 76 IAARVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 76 ~~~~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
... +.+.++.+..+.......+..|++.+.|.+++++.++||||||+++++++.++++||++++|+++++||||+||
T Consensus 223 ~~~---~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~~~~~~pVLvv~ 299 (305)
T PRK11175 223 QHL---LAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVIDHLNCDLLAIK 299 (305)
T ss_pred HHH---HHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHHhcCCCCEEEEc
Confidence 222 33344444445443456778899999999999999999999999999999999999999999999999999998
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
++
T Consensus 300 ~~ 301 (305)
T PRK11175 300 PD 301 (305)
T ss_pred CC
Confidence 64
No 12
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.88 E-value=9.6e-21 Score=124.65 Aligned_cols=150 Identities=25% Similarity=0.347 Sum_probs=118.1
Q ss_pred CCCceeEEEEec-CChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHH
Q 031355 3 TAETQTMVVGID-DSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVV 81 (161)
Q Consensus 3 ~~~~~~ilv~~d-~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (161)
..++++|++++| +++.+..+++.+..++... + +.+.+++|.+.............................+.+
T Consensus 2 ~~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~-~----~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (154)
T COG0589 2 PAMYKKILVAVDVGSEAAEKALEEAVALAKRL-G----APLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEELL 76 (154)
T ss_pred ccccceEEEEeCCCCHHHHHHHHHHHHHHHhc-C----CeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHHH
Confidence 457899999999 9999999999999999985 6 799999998765533211110000001112233455667777
Q ss_pred HHHHHHhhhcCCccEEEEEEcCCh-HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDA-RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~-~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
+.+.+.....+.......+..|++ .+.|+.++.+.++|+||||+++++++.++++||++++++++++|||+++|..
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~~~~~~pVlvv~~~ 153 (154)
T COG0589 77 AEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVLRHAPCPVLVVRSE 153 (154)
T ss_pred HHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHHhcCCCCEEEEccC
Confidence 888888877776535888999988 7999999999999999999999999999999999999999999999999875
No 13
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=99.88 E-value=7.8e-21 Score=121.41 Aligned_cols=130 Identities=29% Similarity=0.476 Sum_probs=107.0
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+||||+|+++.+..++++|..+|+.. + ++++++|+.+....... ...+......++.++++...
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~-~----~~i~~l~v~~~~~~~~~-----------~~~~~~~~~~~~~l~~~~~~ 64 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRL-G----AELVLLHVVDPPPSSAA-----------ELAELLEEEARALLEALREA 64 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhc-C----CEEEEEEEecCCCCcch-----------hHHHHHHHHHHHHHHHHHHH
Confidence 58999999999999999999999985 7 89999999876433210 12233445556677777666
Q ss_pred hhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 88 CSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
+...+. ++...+..|++.++|.+++++.++|+||+|+++.+.+.+.++|+++++++++++||||++
T Consensus 65 ~~~~~~-~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 65 LAEAGV-KVETVVLEGDPAEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred HhcCCC-ceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCCCCCEEeC
Confidence 544454 478888889889999999999999999999999999988999999999999999999985
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.70 E-value=1.3e-15 Score=112.33 Aligned_cols=106 Identities=16% Similarity=0.191 Sum_probs=81.0
Q ss_pred CCCceeEEEEecCChhHHHHHHHHHHHhhcc-CCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHH
Q 031355 3 TAETQTMVVGIDDSEQSTYALQWTLDHFFAN-STVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVV 81 (161)
Q Consensus 3 ~~~~~~ilv~~d~s~~s~~al~~a~~la~~~-~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 81 (161)
+++++|||||+|+|+.+.+|+++|+.+|+.. ++ ++++++||.+....... ........++.+
T Consensus 2 ~~~ykkILVavDGSe~S~~Al~~AielA~~~g~~----AeL~lL~Vv~~~~~~~~-------------~~~~~~~~eell 64 (357)
T PRK12652 2 MMAANRLLVPVADSVTVRQTVAYAVESAEEAAET----PTVHLVAAASGRAVDPE-------------GQDELAAAEELL 64 (357)
T ss_pred CcccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCC----CEEEEEEEecCcccccc-------------hhHHHHHHHHHH
Confidence 6889999999999999999999999999872 14 79999999885432100 122334455566
Q ss_pred HHHHHHhhh------cCCccEEEEEEc--------CChHhHHHHHHHhcCCCEEEEecC
Q 031355 82 EEAKEICSS------KSVHDFVVEVVE--------GDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 82 ~~~~~~~~~------~~~~~~~~~v~~--------g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
+++++.+.. .|. ++++.+.. |+|+++|+++|+++++||||||..
T Consensus 65 e~~~~~~~~~l~~~~~gV-~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~ 122 (357)
T PRK12652 65 ERVEVWATEDLGDDASSV-TIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPE 122 (357)
T ss_pred HHHHHHHHHhhhcccCCC-ceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCC
Confidence 666665554 244 47777765 899999999999999999999965
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.48 E-value=1.7e-12 Score=106.61 Aligned_cols=128 Identities=8% Similarity=0.016 Sum_probs=96.7
Q ss_pred CCCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHH
Q 031355 3 TAETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVE 82 (161)
Q Consensus 3 ~~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 82 (161)
|....+||||+++++.+.+++++|.++|.+. + ++++++||....... .....+ +...+
T Consensus 247 ~~~~eriLV~v~~~~~~~~lIr~~~rlA~~~-~----a~~~~l~V~~~~~~~--------------~~~~~~---~~l~~ 304 (895)
T PRK10490 247 WHTRDAILLCIGHNTGSEKLVRTAARLAARL-G----SVWHAVYVETPRLHR--------------LPEKKR---RAILS 304 (895)
T ss_pred CCcCCeEEEEECCCcchHHHHHHHHHHHHhc-C----CCEEEEEEecCCcCc--------------CCHHHH---HHHHH
Confidence 3456789999999999999999999999985 8 899999997652211 111122 22222
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCC-CcEEEEcCC
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAH-CTVMIVKRP 157 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~-~pvlvv~~~ 157 (161)
.+ +++++.|.. + ..+..++++++|+++|++++++.||||..+++.+ ++.||++++|++.++ +.|.||+..
T Consensus 305 ~~-~lA~~lGa~-~-~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~r~~~~idi~iv~~~ 375 (895)
T PRK10490 305 AL-RLAQELGAE-T-ATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLARLGPDLDLVIVALD 375 (895)
T ss_pred HH-HHHHHcCCE-E-EEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHHHhCCCCCEEEEeCC
Confidence 33 466666754 2 2333458999999999999999999999887766 456799999999875 999999754
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.42 E-value=5.8e-12 Score=99.47 Aligned_cols=130 Identities=19% Similarity=0.191 Sum_probs=106.2
Q ss_pred CCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHH
Q 031355 4 AETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEE 83 (161)
Q Consensus 4 ~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 83 (161)
....+||||++.++.+.+.+++|.++|.+. + ++++++||..+.... ..+..++.+..
T Consensus 246 ~~~e~ilvcI~~~~~~e~liR~a~RlA~~~-~----a~~~av~v~~~~~~~------------------~~~~~~~~l~~ 302 (890)
T COG2205 246 AARERILVCISGSPGSEKLIRRAARLASRL-H----AKWTAVYVETPELHR------------------LSEKEARRLHE 302 (890)
T ss_pred cccceEEEEECCCCchHHHHHHHHHHHHHh-C----CCeEEEEEecccccc------------------ccHHHHHHHHH
Confidence 445789999999999999999999999985 7 899999997764322 12233455566
Q ss_pred HHHHhhhcCCccEEEEEEc-CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC-CCcEEEEcCCCC
Q 031355 84 AKEICSSKSVHDFVVEVVE-GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA-HCTVMIVKRPKT 159 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~-~~pvlvv~~~~~ 159 (161)
..+++++.|.. +.... ++++++|.++|+++++.-||+|.+.++.|.++|.|++++++++.. ++.|.+++.+..
T Consensus 303 ~~~Lae~lGae---~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~~~ 377 (890)
T COG2205 303 NLRLAEELGAE---IVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALDAP 377 (890)
T ss_pred HHHHHHHhCCe---EEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCCCC
Confidence 67777777753 33344 699999999999999999999999999999999999999999986 589999987654
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=98.73 E-value=9.2e-08 Score=56.89 Aligned_cols=84 Identities=13% Similarity=0.089 Sum_probs=71.6
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
|+++++++..|..++.++.+.+.. + ..+..+|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~~~--~----~~~~~~~~~---------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLKSG--G----PEVVALVVV---------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHHhc--C----CCEEEEEeH----------------------------------------
Confidence 689999999999999999998843 3 488888884
Q ss_pred hhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeecc-chHHHHhhcCCCcEEE
Q 031355 89 SSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLG-SVSDYCAHHAHCTVMI 153 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~g-s~~~~ll~~~~~pvlv 153 (161)
...+.+.+.+++.++|+|+.|.+.....+..+.| +++..+++.++|||+.
T Consensus 35 ---------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 ---------------AFVRILKRLAAEEGADVIILGHNADDVAGRRLGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred ---------------HHHHHHHHHHHHcCCCEEEEcCCchhhhhhccCchhhhhhcccccCCceeC
Confidence 4566777888889999999999988888877777 8999999999999974
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=98.15 E-value=6.4e-05 Score=62.12 Aligned_cols=149 Identities=9% Similarity=0.099 Sum_probs=86.3
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCC-CCcCcccccchHHHHHHHHHHHHH
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGP-GAVEVLPHVDSDFKKIAARVVEEA 84 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~ 84 (161)
.-|||+|+-..+.-...++.+-...... . ....++++|.++......+.-.. ...+......+......++..+.+
T Consensus 458 elriL~cv~~~~~v~~li~Lle~s~~t~-~--sp~~vy~lhLveL~~r~~~~l~~h~~~~~~~~~~~~~~~~~~~i~~af 534 (832)
T PLN03159 458 ELRMLVCVHTPRNVPTIINLLEASHPTK-R--SPICIYVLHLVELTGRASAMLIVHNTRKSGRPALNRTQAQSDHIINAF 534 (832)
T ss_pred ceeEEEEeccCCcHHHHHHHHHhcCCCC-C--CCceEEEEEEEeecCCCccceeeeecccccccccccccccccHHHHHH
Confidence 4589999997777666666654432222 1 22689999998754322110000 000000000000111233444444
Q ss_pred HHHhhhcCCccEEEEEE---cCChHhHHHHHHHhcCCCEEEEecCCCCccee------eeccchHHHHhhcCCCcEEEEc
Q 031355 85 KEICSSKSVHDFVVEVV---EGDARNILCEAVEKHHASILVVGSHGYGAIKR------AVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~---~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~------~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
+...+..+...++.... ..+..+.|+..|++..+++||++.|+.....+ -.++.+.+++++++||+|-|.=
T Consensus 535 ~~~~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVgIlV 614 (832)
T PLN03159 535 ENYEQHAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAPCSVGILV 614 (832)
T ss_pred HHHHhhcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCCCCEEEEE
Confidence 44443322333443222 23789999999999999999999986544332 2557788999999999998875
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
++
T Consensus 615 DR 616 (832)
T PLN03159 615 DR 616 (832)
T ss_pred eC
Confidence 53
No 19
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.93 E-value=0.00074 Score=56.02 Aligned_cols=144 Identities=13% Similarity=0.173 Sum_probs=80.3
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCC---CCcC---cccccchHHHHHHHH
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGP---GAVE---VLPHVDSDFKKIAAR 79 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~---~~~~---~~~~~~~~~~~~~~~ 79 (161)
..+|.++.=+.+.++.|+.||.+++... + .+++++|..+........... .+.+ ......+..++.-++
T Consensus 630 ~~~v~~~F~GG~DDREALa~a~rma~~p-~----v~lTVirf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~D~~ 704 (832)
T PLN03159 630 SHHVAVLFFGGPDDREALAYAWRMSEHP-G----ITLTVMRFIPGEDAAPTASQPASSPSDPRIPTVETDGKKERQLDEE 704 (832)
T ss_pred ceeEEEEecCCcchHHHHHHHHHHhcCC-C----eEEEEEEEEcccccccccccccccccccccccccccchhHHHHHHH
Confidence 4589999999999999999999999875 5 899999998653321100000 0000 000111223333455
Q ss_pred HHHHHHHHhhhcCCccEEEE-EEcC-ChHhHHHHHHHhcCCCEEEEecCCC--C----cceeee----ccchHHHHhhc-
Q 031355 80 VVEEAKEICSSKSVHDFVVE-VVEG-DARNILCEAVEKHHASILVVGSHGY--G----AIKRAV----LGSVSDYCAHH- 146 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~-v~~g-~~~~~I~~~a~~~~~dliVlg~~~~--~----~~~~~~----~gs~~~~ll~~- 146 (161)
.+++++......+...+.-+ +..| +....|..... ++||+|+|+++. + ++.+|- +|.+.+-|...
T Consensus 705 ~~~ef~~~~~~~~~v~y~E~~V~~~~e~~~~l~~~~~--~ydL~iVGr~~~~~~~~~~gL~~w~e~pELG~iGD~LaS~d 782 (832)
T PLN03159 705 YINEFRARNAGNESIVYTEKVVSNGEETVAAIRSMDS--AHDLFIVGRGQGMISPLTAGLTDWSECPELGAIGDLLASSD 782 (832)
T ss_pred HHHHHHHhcCCCCceEEEEEecCCHHHHHHHHHHhhc--cCcEEEEecCCCCCcchhccccccccCCccchhhhHHhcCC
Confidence 56666555433233222222 2233 23344444333 699999997532 1 222221 56666666553
Q ss_pred --CCCcEEEEcC
Q 031355 147 --AHCTVMIVKR 156 (161)
Q Consensus 147 --~~~pvlvv~~ 156 (161)
+...||||..
T Consensus 783 ~~~~~SVLVvQQ 794 (832)
T PLN03159 783 FAATVSVLVVQQ 794 (832)
T ss_pred CCCceeEEEEEe
Confidence 4678899864
No 20
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=97.38 E-value=0.0055 Score=41.71 Aligned_cols=94 Identities=15% Similarity=0.235 Sum_probs=63.8
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+|+|+++++..|..++..+...+... + .++.++|+...... ...+..+.++++
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~-~----~~v~~v~vd~g~~~----------------------~~~~~~~~~~~~ 53 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKL-K----IRLIAAHVDHGLRP----------------------ESDEEAEFVQQF 53 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHc-C----CCEEEEEeCCCCCh----------------------hHHHHHHHHHHH
Confidence 58999999999999999999988764 6 68999998543211 112234455666
Q ss_pred hhhcCCccEEEEEEc-C--------ChH--------hHHHHHHHhcCCCEEEEecCCCC
Q 031355 88 CSSKSVHDFVVEVVE-G--------DAR--------NILCEAVEKHHASILVVGSHGYG 129 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~-g--------~~~--------~~I~~~a~~~~~dliVlg~~~~~ 129 (161)
++..|.. +...... . +.. ..+.+.|++++++.|+.|.+...
T Consensus 54 ~~~~gi~-~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D 111 (189)
T TIGR02432 54 CKKLNIP-LEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADD 111 (189)
T ss_pred HHHcCCC-EEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHH
Confidence 6666653 3322221 1 122 56778999999999999987543
No 21
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=96.78 E-value=0.021 Score=38.75 Aligned_cols=93 Identities=18% Similarity=0.268 Sum_probs=57.0
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+|+|++.+...|..++..+..+.... + .++.++||-...... ..+..+.++++
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~-~----~~~~~~~vdh~~~~~----------------------s~~~~~~v~~~ 53 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRN-G----IKLIAVHVDHGLREE----------------------SDEEAEFVEEI 53 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTT-T----TEEEEEEEE-STSCC----------------------HHHHHHHHHHH
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhc-C----CCeEEEEEecCCCcc----------------------cchhHHHHHHH
Confidence 68999999999999999999998875 6 699999996543211 11223445566
Q ss_pred hhhcCCccEEEEEEc-----C-Ch--------HhHHHHHHHhcCCCEEEEecCCC
Q 031355 88 CSSKSVHDFVVEVVE-----G-DA--------RNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~-----g-~~--------~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
++..+.. ..+.... + +. .+.+.+.|++.+++.|++|++..
T Consensus 54 ~~~~~i~-~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~d 107 (182)
T PF01171_consen 54 CEQLGIP-LYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHLD 107 (182)
T ss_dssp HHHTT-E-EEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BHH
T ss_pred HHhcCCc-eEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcCC
Confidence 6666644 3333332 1 11 24577889999999999998853
No 22
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=96.72 E-value=0.041 Score=37.18 Aligned_cols=94 Identities=15% Similarity=0.215 Sum_probs=62.9
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+|+|+++++..|..++..+....... + .++.++|+...... ...+..+.+.++
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~-~----~~v~~v~id~~~~~----------------------~~~~~~~~~~~~ 53 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRL-G----LRLVAVHVDHGLRP----------------------ESDEEAAFVADL 53 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHc-C----CcEEEEEecCCCCc----------------------hHHHHHHHHHHH
Confidence 58999999999999999998887764 5 68999999543211 012344555566
Q ss_pred hhhcCCccEEEEE-Ec--CCh-----------HhHHHHHHHhcCCCEEEEecCCCC
Q 031355 88 CSSKSVHDFVVEV-VE--GDA-----------RNILCEAVEKHHASILVVGSHGYG 129 (161)
Q Consensus 88 ~~~~~~~~~~~~v-~~--g~~-----------~~~I~~~a~~~~~dliVlg~~~~~ 129 (161)
+...+.. ..... .. +.. ...+.+.|++++++.|+.|.+...
T Consensus 54 ~~~~~i~-~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD 108 (185)
T cd01992 54 CAKLGIP-LYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADD 108 (185)
T ss_pred HHHcCCc-EEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHH
Confidence 6666643 43321 11 111 145778899999999999987543
No 23
>PRK12342 hypothetical protein; Provisional
Probab=96.38 E-value=0.054 Score=38.83 Aligned_cols=100 Identities=15% Similarity=0.047 Sum_probs=61.3
Q ss_pred CChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCc
Q 031355 15 DSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVH 94 (161)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 94 (161)
.++.+..|++.|+++. .. | .+|+++++-++.... ..+.+.+-..|..
T Consensus 33 iNp~D~~AlE~AlrLk-~~-g----~~Vtvls~Gp~~a~~---------------------------~~l~r~alamGaD 79 (254)
T PRK12342 33 ISQFDLNAIEAASQLA-TD-G----DEIAALTVGGSLLQN---------------------------SKVRKDVLSRGPH 79 (254)
T ss_pred CChhhHHHHHHHHHHh-hc-C----CEEEEEEeCCChHhH---------------------------HHHHHHHHHcCCC
Confidence 5678999999999998 44 7 799999997762110 1111112222332
Q ss_pred cEEEEEE----cC-Ch---HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEE
Q 031355 95 DFVVEVV----EG-DA---RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVM 152 (161)
Q Consensus 95 ~~~~~v~----~g-~~---~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvl 152 (161)
--+++. .| ++ +..|...+++.++|||+.|.....+-. |-+.-.+......|.+
T Consensus 80 -~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D~~t----gqvg~~lA~~Lg~P~v 140 (254)
T PRK12342 80 -SLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGDLYA----QQVGLLLGELLQLPVI 140 (254)
T ss_pred -EEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcccCCC----CCHHHHHHHHhCCCcE
Confidence 222222 23 54 678888889889999999976543322 4445555555555543
No 24
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=95.84 E-value=0.38 Score=34.61 Aligned_cols=101 Identities=11% Similarity=0.043 Sum_probs=60.4
Q ss_pred CChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCc
Q 031355 15 DSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVH 94 (161)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 94 (161)
.++++..|++.|+++..+..| ++|+++++-+..... ...+.+. -..|..
T Consensus 34 iN~~D~~AlE~Alrlke~~~g----~~Vtvvs~Gp~~a~~-----------------------~~~lr~a----LAmGaD 82 (256)
T PRK03359 34 ISQYDLNAIEAACQLKQQAAE----AQVTALSVGGKALTN-----------------------AKGRKDV----LSRGPD 82 (256)
T ss_pred cChhhHHHHHHHHHHhhhcCC----CEEEEEEECCcchhh-----------------------HHHHHHH----HHcCCC
Confidence 467899999999999997412 599999997763210 1111111 122322
Q ss_pred cEEEEEE----cC-C---hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcE
Q 031355 95 DFVVEVV----EG-D---ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTV 151 (161)
Q Consensus 95 ~~~~~v~----~g-~---~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pv 151 (161)
--+++. .| + .+..|...+++.++|||+.|.....+-. |-+.-.+.....+|.
T Consensus 83 -~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D~~t----gqvg~~lAe~Lg~P~ 142 (256)
T PRK03359 83 -ELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSDLYA----QQVGLLVGEILNIPA 142 (256)
T ss_pred -EEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCccccCCC----CcHHHHHHHHhCCCc
Confidence 122222 22 3 3677888889889999999977544322 344444555555553
No 25
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=95.79 E-value=0.2 Score=33.30 Aligned_cols=87 Identities=14% Similarity=0.121 Sum_probs=55.0
Q ss_pred eEEEEecC-----ChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHH
Q 031355 8 TMVVGIDD-----SEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVE 82 (161)
Q Consensus 8 ~ilv~~d~-----s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 82 (161)
+|||-++- ++.+..++..|.+++... | .+++++.+-+... ..+
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~-g----~~v~av~~G~~~~---------------------------~~~ 48 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAEAL-G----GEVTAVVLGPAEE---------------------------AAE 48 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHHCT-T----SEEEEEEEETCCC---------------------------HHH
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHhhc-C----CeEEEEEEecchh---------------------------hHH
Confidence 35666653 378999999999999986 7 7999998764221 113
Q ss_pred HHHHHhhhcCCccEEEEEEcC--------ChHhHHHHHHHhcCCCEEEEecCC
Q 031355 83 EAKEICSSKSVHDFVVEVVEG--------DARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g--------~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
.+++.+..+|...+- .+... .....|.+.+++.++|+|++|...
T Consensus 49 ~l~~~l~~~G~d~v~-~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~ 100 (164)
T PF01012_consen 49 ALRKALAKYGADKVY-HIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTS 100 (164)
T ss_dssp HHHHHHHSTTESEEE-EEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSH
T ss_pred HHhhhhhhcCCcEEE-EecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcC
Confidence 344445545543222 22221 145678889999999999999653
No 26
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=95.41 E-value=0.087 Score=38.47 Aligned_cols=96 Identities=17% Similarity=0.188 Sum_probs=59.6
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHH
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKE 86 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 86 (161)
.+|+|++++...|..++..+..+... .++.++||....... . ....+....
T Consensus 22 ~~ilVavSGGkDS~~ll~~L~~l~~~-------~~~~a~~Vd~~~~~~----------------~------~~~~~~~~~ 72 (298)
T COG0037 22 YKILVAVSGGKDSLALLHLLKELGRR-------IEVEAVHVDHGLRGY----------------S------DQEAELVEK 72 (298)
T ss_pred CeEEEEeCCChHHHHHHHHHHHhccC-------ceEEEEEecCCCCCc----------------c------chHHHHHHH
Confidence 68999999999999998888887664 389999996654321 0 111122233
Q ss_pred HhhhcCCccEEEEEE--cCC-------h--------HhHHHHHHHhcCCCEEEEecCCCCcc
Q 031355 87 ICSSKSVHDFVVEVV--EGD-------A--------RNILCEAVEKHHASILVVGSHGYGAI 131 (161)
Q Consensus 87 ~~~~~~~~~~~~~v~--~g~-------~--------~~~I~~~a~~~~~dliVlg~~~~~~~ 131 (161)
.+...+...+...+. .+. + -..+.+.|++.++|.|+.|++.....
T Consensus 73 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD~~ 134 (298)
T COG0037 73 LCEKLGIPLIVERVTDDLGRETLDGKSICAACRRLRRGLLYKIAKELGADKIATGHHLDDQA 134 (298)
T ss_pred HHHHhCCceEEEEEEeeccccccCCCChhHHHHHHHHHHHHHHHHHcCCCeEEeccCcHHHH
Confidence 333333211111111 111 1 24477889999999999998875544
No 27
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=95.19 E-value=0.34 Score=34.86 Aligned_cols=102 Identities=14% Similarity=0.154 Sum_probs=62.4
Q ss_pred ecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcC
Q 031355 13 IDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKS 92 (161)
Q Consensus 13 ~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 92 (161)
..-++.+..|++.|+++....++ .+++++++-++.. ++.+ ++ +...|
T Consensus 33 ~~in~~D~~AvEeAlrLke~~~~----~eV~vlt~Gp~~a-------------------------~~~l---r~-aLAmG 79 (260)
T COG2086 33 LSINPFDLNAVEEALRLKEKGYG----GEVTVLTMGPPQA-------------------------EEAL---RE-ALAMG 79 (260)
T ss_pred cccChhhHHHHHHHHHhhccCCC----ceEEEEEecchhh-------------------------HHHH---HH-HHhcC
Confidence 33457899999999999994336 7999999976521 1222 22 22234
Q ss_pred CccEEEEEE----cC-C---hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEE
Q 031355 93 VHDFVVEVV----EG-D---ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVM 152 (161)
Q Consensus 93 ~~~~~~~v~----~g-~---~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvl 152 (161)
.. --.++. .+ + .+..|...+++.+.|||++|...-..-. |.+...+......|.+
T Consensus 80 aD-raili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~D~~t----~qvg~~lAe~Lg~P~~ 142 (260)
T COG2086 80 AD-RAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAIDGDT----GQVGPLLAELLGWPQV 142 (260)
T ss_pred CC-eEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEecccccCCc----cchHHHHHHHhCCcee
Confidence 32 222222 23 2 4677888899999999999976433222 3444445555555554
No 28
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.90 E-value=0.38 Score=37.53 Aligned_cols=90 Identities=13% Similarity=0.120 Sum_probs=65.3
Q ss_pred CChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCc
Q 031355 15 DSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVH 94 (161)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 94 (161)
.--.+..||..|+..|... + .+|..+++.++.... ..........+.+..+.+.+.+.|
T Consensus 33 LRl~DN~aL~~A~~~a~~~-~----~~vl~vyi~dp~~~~--------------~~~~r~~Fl~esL~~L~~~L~~~g-- 91 (454)
T TIGR00591 33 QRVQDNWALIAAQTLALKK-K----LPLHVCFCLVDFFLA--------------ATRRHYFFMLGGLDEVANECERLI-- 91 (454)
T ss_pred hhccCCHHHHHHHHHHHHc-C----CCEEEEEEeCCCccc--------------ccHHHHHHHHHHHHHHHHHHHHcC--
Confidence 3345678888888876654 4 379999998764321 023445566667777777777766
Q ss_pred cEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 95 DFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 95 ~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
....+..|++.+.|.+.+++.+++.|+....
T Consensus 92 -~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 92 -IPFHLLDGPPKELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred -CceEEeecChHHHHHHHHHHcCCCEEEEecc
Confidence 3456778999999999999999999999764
No 29
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=94.69 E-value=0.45 Score=31.59 Aligned_cols=113 Identities=11% Similarity=0.042 Sum_probs=67.0
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccEE
Q 031355 18 QSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDFV 97 (161)
Q Consensus 18 ~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 97 (161)
.+..||..| ++. + .++..++++++.... .. ...........+.+..+++.+.+.| +.
T Consensus 12 ~DN~aL~~A---~~~--~----~~v~~vfv~d~~~~~-~~----------~~~~~r~~Fl~~sL~~L~~~L~~~g---~~ 68 (165)
T PF00875_consen 12 HDNPALHAA---AQN--G----DPVLPVFVFDPEEFH-PY----------RIGPRRRRFLLESLADLQESLRKLG---IP 68 (165)
T ss_dssp TT-HHHHHH---HHT--T----SEEEEEEEE-HHGGT-TC----------SSCHHHHHHHHHHHHHHHHHHHHTT---S-
T ss_pred hhhHHHHHH---HHc--C----CCeEEEEEecccccc-cc----------cCcchHHHHHHHHHHHHHHHHHhcC---cc
Confidence 345566666 222 3 389999998875110 00 1124455566777778888777766 45
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
..+..|++.+.|.+.+++.+++.|+....- +...... -.-..+.+...++.+..+.
T Consensus 69 L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~-~~~~~~r-d~~v~~~l~~~~i~~~~~~ 124 (165)
T PF00875_consen 69 LLVLRGDPEEVLPELAKEYGATAVYFNEEY-TPYERRR-DERVRKALKKHGIKVHTFD 124 (165)
T ss_dssp EEEEESSHHHHHHHHHHHHTESEEEEE----SHHHHHH-HHHHHHHHHHTTSEEEEE-
T ss_pred eEEEecchHHHHHHHHHhcCcCeeEecccc-CHHHHHH-HHHHHHHHHhcceEEEEEC
Confidence 778899999999999999999999987542 2222111 1122334444466665553
No 30
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=94.59 E-value=0.43 Score=32.57 Aligned_cols=36 Identities=14% Similarity=0.194 Sum_probs=29.1
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
++||++++.+|..+.++.+..-.+.+.. | +++.++-
T Consensus 1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~-g----~~V~vv~ 36 (185)
T PRK06029 1 MKRLIVGISGASGAIYGVRLLQVLRDVG-E----IETHLVI 36 (185)
T ss_pred CCEEEEEEECHHHHHHHHHHHHHHHhhc-C----CeEEEEE
Confidence 4689999999999999999999887743 5 5766653
No 31
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=94.32 E-value=0.4 Score=32.64 Aligned_cols=35 Identities=9% Similarity=0.133 Sum_probs=28.1
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
++||++++.+|..+.++.++.-.+.+. | +++.++-
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~~~--g----~~V~vv~ 35 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLTKR--G----YQVTVLM 35 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHHHC--C----CEEEEEE
Confidence 478999999999999998888888663 5 5776553
No 32
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=94.26 E-value=0.65 Score=35.69 Aligned_cols=39 Identities=13% Similarity=0.077 Sum_probs=30.6
Q ss_pred CCCCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 2 ATAETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 2 ~~~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
.++..++|++++.+|....++.++.-.+.+ . | +++.++-
T Consensus 2 ~~l~~k~IllgvTGsiaa~k~~~lv~~L~~-~-g----~~V~vv~ 40 (399)
T PRK05579 2 RMLAGKRIVLGVSGGIAAYKALELVRRLRK-A-G----ADVRVVM 40 (399)
T ss_pred CCCCCCeEEEEEeCHHHHHHHHHHHHHHHh-C-C----CEEEEEE
Confidence 456678999999999999999888888755 3 5 6776653
No 33
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=94.21 E-value=0.56 Score=30.80 Aligned_cols=67 Identities=21% Similarity=0.237 Sum_probs=46.6
Q ss_pred HHHHHHhhhcCCccEEEEEEcC-C---hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEG-D---ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g-~---~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
....+.+++.++. ++..|... . -..+..+.+++.++..||-|..+...+.+. +...++.||+-||-+
T Consensus 19 k~Aa~~L~~fgi~-ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPGm--------vAa~T~lPViGVPv~ 89 (162)
T COG0041 19 KKAAEILEEFGVP-YEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPGM--------VAAKTPLPVIGVPVQ 89 (162)
T ss_pred HHHHHHHHHcCCC-eEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcchh--------hhhcCCCCeEeccCc
Confidence 3444555566664 88888775 2 345566667888999999998876655432 455679999999876
No 34
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=93.37 E-value=1.6 Score=29.27 Aligned_cols=40 Identities=13% Similarity=0.074 Sum_probs=30.2
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
+|+|++++...|..++..+..+.... . .+.++.++|+...
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~-~--~~~~~~~~~~d~~ 40 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRY-P--YGFELEALTVDEG 40 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhc-C--CCeEEEEEEEECC
Confidence 58999999999999998888876542 1 1158888888643
No 35
>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=93.00 E-value=0.88 Score=30.12 Aligned_cols=70 Identities=16% Similarity=0.236 Sum_probs=46.2
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcC-C---hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEG-D---ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g-~---~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
..++....++..|.. ++..+..- . ...++.+.+++.+++.+|.+......+. --+..++..||+-||
T Consensus 13 ~~~~a~~~L~~~gi~-~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lp--------gvva~~t~~PVIgvP 83 (156)
T TIGR01162 13 TMKKAADILEEFGIP-YELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLP--------GMVAALTPLPVIGVP 83 (156)
T ss_pred HHHHHHHHHHHcCCC-eEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhH--------HHHHhccCCCEEEec
Confidence 334555566666765 88777774 3 3455555566678999888877654433 346667899999999
Q ss_pred CCC
Q 031355 156 RPK 158 (161)
Q Consensus 156 ~~~ 158 (161)
...
T Consensus 84 ~~~ 86 (156)
T TIGR01162 84 VPS 86 (156)
T ss_pred CCc
Confidence 753
No 36
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=92.83 E-value=1.6 Score=34.01 Aligned_cols=42 Identities=17% Similarity=0.215 Sum_probs=32.3
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
...+|+|++++...|...+.....+.....+ .++.++||-..
T Consensus 14 ~~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~----~~l~a~hvnhg 55 (436)
T PRK10660 14 TSRQILVAFSGGLDSTVLLHLLVQWRTENPG----VTLRAIHVHHG 55 (436)
T ss_pred CCCeEEEEecCCHHHHHHHHHHHHHHHhcCC----CeEEEEEEeCC
Confidence 3478999999999999998888776522214 68999999543
No 37
>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=92.56 E-value=0.92 Score=30.73 Aligned_cols=34 Identities=9% Similarity=0.100 Sum_probs=25.8
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
+||++++.++....++.++.-.+.+ . | +++.++-
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L~~-~-g----~~V~vi~ 34 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQLTK-L-G----YDVTVLM 34 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHHHH-C-C----CEEEEEE
Confidence 5899999999999998877766655 3 5 5766553
No 38
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=92.44 E-value=3 Score=29.98 Aligned_cols=96 Identities=21% Similarity=0.246 Sum_probs=58.6
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHH
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEA 84 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 84 (161)
...+|+|+++++..|...+..+..+.... + .+.++.++|+-...... .+ + .+
T Consensus 28 ~~~kilVa~SGG~DS~~LL~ll~~l~~~~-~--~~~~l~av~vd~g~~~~---------------~~-------~---~~ 79 (258)
T PRK10696 28 EGDRVMVCLSGGKDSYTLLDILLNLQKRA-P--INFELVAVNLDQKQPGF---------------PE-------H---VL 79 (258)
T ss_pred CCCEEEEEecCCHHHHHHHHHHHHHHHhC-C--CCeEEEEEEecCCCCCC---------------CH-------H---HH
Confidence 34689999999999999998888876542 2 11478888874321110 01 1 12
Q ss_pred HHHhhhcCCccEEEEEEc-----------CC-h--------HhHHHHHHHhcCCCEEEEecCCCC
Q 031355 85 KEICSSKSVHDFVVEVVE-----------GD-A--------RNILCEAVEKHHASILVVGSHGYG 129 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~-----------g~-~--------~~~I~~~a~~~~~dliVlg~~~~~ 129 (161)
+++++..|.. ....-.. +. + -..+.+.|++.++|.|++|++...
T Consensus 80 ~~~~~~lgI~-~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~dD 143 (258)
T PRK10696 80 PEYLESLGVP-YHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHRDD 143 (258)
T ss_pred HHHHHHhCCC-EEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCchHH
Confidence 4455555543 3221111 11 1 145667899999999999988543
No 39
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=92.01 E-value=1.3 Score=34.78 Aligned_cols=36 Identities=11% Similarity=-0.074 Sum_probs=29.8
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
..++|++++.+|..+.+++++.-.+.+. | ++|.++-
T Consensus 69 ~~k~IllgVtGsIAayka~~lvr~L~k~--G----~~V~Vvm 104 (475)
T PRK13982 69 ASKRVTLIIGGGIAAYKALDLIRRLKER--G----AHVRCVL 104 (475)
T ss_pred CCCEEEEEEccHHHHHHHHHHHHHHHhC--c----CEEEEEE
Confidence 4588999999999999999999999764 5 6776664
No 40
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=91.77 E-value=1.6 Score=36.50 Aligned_cols=106 Identities=16% Similarity=0.122 Sum_probs=60.5
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHH-
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEA- 84 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~- 84 (161)
..+|.+..=+.+.++.|+.++.+++.+. + ..+++++..++........ .........+... +.+
T Consensus 614 ~~~v~~lF~GG~DDrEALa~~~rm~~~~-~----v~lTVirf~~~~~~~~~~~-------~~~~~~~l~~~~~---~~~~ 678 (769)
T KOG1650|consen 614 SYKVVVLFLGGKDDREALALAKRMAENP-R----VTLTVIRFFPDESKYNRKV-------LVEVGKMLDQEGL---EDFV 678 (769)
T ss_pred eeEEEEEecCChhhHHHHHHHHHHhhCC-c----eEEEEEEeeccchhhcccc-------cchhhhhhhhhHH---HHHH
Confidence 3467778888999999999999999975 6 8999999988754331110 0011111111111 111
Q ss_pred HHHhhhcCCccE--EEEEEcCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 85 KEICSSKSVHDF--VVEVVEGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 85 ~~~~~~~~~~~~--~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
+...+....... +-.+..|.....+++...+ ++|+.++|...
T Consensus 679 ~~~~~~~~~i~~~~ek~v~~~~et~~~~~~~~~-~ydL~ivGr~~ 722 (769)
T KOG1650|consen 679 KSTRESNLDIIYAEEKIVLNGAETTALLRSITE-DYDLFIVGRSH 722 (769)
T ss_pred HHhhhchhhhhhhhHHHHhcchhHHHHHHHhcc-ccceEEEeccc
Confidence 111111111111 2334556555556666555 99999999764
No 41
>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=91.66 E-value=2.6 Score=28.68 Aligned_cols=34 Identities=15% Similarity=0.141 Sum_probs=27.3
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEe
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHA 47 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v 47 (161)
||++++.++..+-++.+..-.+.+. | .++.++-.
T Consensus 1 ~illgvtGsiaa~ka~~lir~L~~~--g----~~V~vv~T 34 (181)
T TIGR00421 1 RIVVAMTGASGVIYGIRLLEVLKEA--G----VEVHLVIS 34 (181)
T ss_pred CEEEEEECHHHHHHHHHHHHHHHHC--C----CEEEEEEC
Confidence 5899999999999999999888664 5 57666543
No 42
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=91.64 E-value=2.5 Score=33.32 Aligned_cols=86 Identities=8% Similarity=0.040 Sum_probs=57.3
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccEE
Q 031355 18 QSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDFV 97 (161)
Q Consensus 18 ~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 97 (161)
.+..||..|+. . + .+|.+++++++..... ...........-+.+..+.+.+.+.| +.
T Consensus 14 ~DN~AL~~A~~----~-~----~~vl~vfi~dp~~~~~-----------~~~~~~r~~Fl~esL~~L~~~L~~~G---~~ 70 (471)
T TIGR03556 14 SDNIGLAAARQ----Q-S----AKVVGLFCLDPNILQA-----------DDMAPARVAYLIGCLQELQQRYQQAG---SQ 70 (471)
T ss_pred chHHHHHHHHh----c-C----CCEEEEEEEchhhhcc-----------ccCCHHHHHHHHHHHHHHHHHHHHCC---CC
Confidence 45667776653 2 3 3799999987632110 00112234455566677777777666 34
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
..+..|++.+.|.+.+++.+++.|+.-..
T Consensus 71 L~v~~G~p~~vl~~l~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 71 LLILQGDPVQLIPQLAQQLGAKAVYWNLD 99 (471)
T ss_pred eEEEECCHHHHHHHHHHHcCCCEEEEecc
Confidence 56778999999999999999999998654
No 43
>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=90.69 E-value=0.81 Score=29.13 Aligned_cols=33 Identities=15% Similarity=0.144 Sum_probs=25.6
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEE
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIV 45 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l 45 (161)
+||++++.++....++.++...+.+. | .++.++
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~--g----~~v~vv 33 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA--G----WEVRVV 33 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT--T----SEEEEE
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC--C----CEEEEE
Confidence 58999999999999988888888775 5 576665
No 44
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=90.51 E-value=2 Score=29.65 Aligned_cols=37 Identities=5% Similarity=-0.058 Sum_probs=28.5
Q ss_pred CCceeEEEEecCChhHHH-HHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 4 AETQTMVVGIDDSEQSTY-ALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 4 ~~~~~ilv~~d~s~~s~~-al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
...++|++++.++..+.+ +.+.+-.+.+. | ++|+++-
T Consensus 3 l~~k~IllgVTGsiaa~k~a~~lir~L~k~--G----~~V~vv~ 40 (196)
T PRK08305 3 LKGKRIGFGLTGSHCTYDEVMPEIEKLVDE--G----AEVTPIV 40 (196)
T ss_pred CCCCEEEEEEcCHHHHHHHHHHHHHHHHhC--c----CEEEEEE
Confidence 356789999999999999 58888777653 5 6777664
No 45
>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=90.44 E-value=4.3 Score=27.94 Aligned_cols=112 Identities=18% Similarity=0.183 Sum_probs=62.0
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
++|.-.++-....+.+.|..+... + .++.++.. +.... ...++++.++
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~--~----~~v~lis~-D~~R~-------------------------ga~eQL~~~a 52 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK--G----KKVALISA-DTYRI-------------------------GAVEQLKTYA 52 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT--T------EEEEEE-STSST-------------------------HHHHHHHHHH
T ss_pred EEECCCCCchHhHHHHHHHHHhhc--c----ccceeecC-CCCCc-------------------------cHHHHHHHHH
Confidence 456666777888889999888775 4 47888775 33221 2335555556
Q ss_pred hhcCCccEEEEEEcCChHhH---HHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEE
Q 031355 89 SSKSVHDFVVEVVEGDARNI---LCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIV 154 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~~~~---I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv 154 (161)
+..+.. +.......++.+. .++..++.++|+|++-..|++......+.... +++.. .+..+++|
T Consensus 53 ~~l~vp-~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~-~~~~~~~~~~~~LV 120 (196)
T PF00448_consen 53 EILGVP-FYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELK-KLLEALNPDEVHLV 120 (196)
T ss_dssp HHHTEE-EEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHH-HHHHHHSSSEEEEE
T ss_pred HHhccc-cchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHH-HHhhhcCCccceEE
Confidence 554532 2211111245443 34455667899999999988765433333332 23333 35545544
No 46
>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=90.27 E-value=2.3 Score=28.04 Aligned_cols=70 Identities=19% Similarity=0.187 Sum_probs=40.4
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcC-ChHhHHHHHHHh---cCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEG-DARNILCEAVEK---HHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~---~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
..++....+++.|.. ++..+... .-.+.+.+++++ .+++.+|.+......+ .--+..++.+||+-||
T Consensus 15 ~~~~a~~~L~~~gi~-~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~L--------pgvva~~t~~PVIgvP 85 (150)
T PF00731_consen 15 IAEEAAKTLEEFGIP-YEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAAL--------PGVVASLTTLPVIGVP 85 (150)
T ss_dssp HHHHHHHHHHHTT-E-EEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--H--------HHHHHHHSSS-EEEEE
T ss_pred HHHHHHHHHHHcCCC-EEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccc--------hhhheeccCCCEEEee
Confidence 334555666666754 77777765 445555555544 4678888876654433 3346667899999998
Q ss_pred CCC
Q 031355 156 RPK 158 (161)
Q Consensus 156 ~~~ 158 (161)
...
T Consensus 86 ~~~ 88 (150)
T PF00731_consen 86 VSS 88 (150)
T ss_dssp E-S
T ss_pred cCc
Confidence 653
No 47
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=90.15 E-value=6.1 Score=29.25 Aligned_cols=41 Identities=15% Similarity=0.247 Sum_probs=31.2
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
.+.++++++.+...|...+..+....... + .++.++|+-..
T Consensus 26 ~f~~~vv~~SGGKDS~VLL~La~ka~~~~-~----~~~~vl~iDTG 66 (301)
T PRK05253 26 EFENPVMLYSIGKDSSVMLHLARKAFYPG-K----LPFPLLHVDTG 66 (301)
T ss_pred hCCCEEEEecCCHHHHHHHHHHHHhhccc-C----CCeeEEEEeCC
Confidence 35789999999999999998887765432 2 47888888544
No 48
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=89.58 E-value=3.1 Score=25.11 Aligned_cols=68 Identities=16% Similarity=0.161 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHhhhcCCccEEEEEEc----------C-ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhh
Q 031355 77 AARVVEEAKEICSSKSVHDFVVEVVE----------G-DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAH 145 (161)
Q Consensus 77 ~~~~l~~~~~~~~~~~~~~~~~~v~~----------g-~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~ 145 (161)
.++.++++..+++..|...+...+.. | .-.++|.+.+++.++|+||+... .+ ++-...|-.
T Consensus 6 ~~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~-Ls-------p~Q~rNLe~ 77 (95)
T PF13167_consen 6 FEESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNE-LS-------PSQQRNLEK 77 (95)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCC-CC-------HHHHHHHHH
Confidence 45677888888888876544444443 2 23789999999999999999753 22 233344444
Q ss_pred cCCCcEE
Q 031355 146 HAHCTVM 152 (161)
Q Consensus 146 ~~~~pvl 152 (161)
..+|+|+
T Consensus 78 ~~~~~V~ 84 (95)
T PF13167_consen 78 ALGVKVI 84 (95)
T ss_pred HHCCeee
Confidence 4566664
No 49
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=89.35 E-value=4.3 Score=31.44 Aligned_cols=110 Identities=15% Similarity=0.118 Sum_probs=70.4
Q ss_pred EEEEecCC-hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 9 MVVGIDDS-EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 9 ilv~~d~s-~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
||+.-|+. -.|.-+++.+.++|.+ . .+|||.-..+ ..+.+-.
T Consensus 96 iLIgGdPGIGKSTLLLQva~~lA~~--------~-~vLYVsGEES----------------------------~~QiklR 138 (456)
T COG1066 96 ILIGGDPGIGKSTLLLQVAARLAKR--------G-KVLYVSGEES----------------------------LQQIKLR 138 (456)
T ss_pred EEEccCCCCCHHHHHHHHHHHHHhc--------C-cEEEEeCCcC----------------------------HHHHHHH
Confidence 55555544 4788999999999985 2 5788865432 2344444
Q ss_pred hhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee--eeccchH------HHHhh---cCCCcEEEEc
Q 031355 88 CSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR--AVLGSVS------DYCAH---HAHCTVMIVK 155 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~--~~~gs~~------~~ll~---~~~~pvlvv~ 155 (161)
+++.+.......+..-.-.+.|++..++.++|++|+.+-+.-.... --.||++ ..|++ ..++++++|-
T Consensus 139 A~RL~~~~~~l~l~aEt~~e~I~~~l~~~~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~i~~fiVG 217 (456)
T COG1066 139 ADRLGLPTNNLYLLAETNLEDIIAELEQEKPDLVVIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKNIAIFIVG 217 (456)
T ss_pred HHHhCCCccceEEehhcCHHHHHHHHHhcCCCEEEEeccceeecccccCCCCcHHHHHHHHHHHHHHHHHcCCeEEEEE
Confidence 4555544455566667788999999999999999998764211111 1234443 33443 5678888873
No 50
>PRK02929 L-arabinose isomerase; Provisional
Probab=89.16 E-value=7.1 Score=31.11 Aligned_cols=76 Identities=5% Similarity=0.006 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHhhhcCCccEEEEEEcC--ChHhHHHHHHHhcC----CCEEEEecCCCCcceeeeccchHHHHhhcC
Q 031355 74 KKIAARVVEEAKEICSSKSVHDFVVEVVEG--DARNILCEAVEKHH----ASILVVGSHGYGAIKRAVLGSVSDYCAHHA 147 (161)
Q Consensus 74 ~~~~~~~l~~~~~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~----~dliVlg~~~~~~~~~~~~gs~~~~ll~~~ 147 (161)
.++..+.-.++.+.+...+..++++. ..+ +-.+.|.+.+++.+ +|.||+-.+..+.- +..-.++...
T Consensus 24 l~~~~~~~~~i~~~l~~~~~~~~~vv-~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a------~~~i~~~~~l 96 (499)
T PRK02929 24 LRQVAEHAEEIVDGLNASGKLPVKIV-LKPVLTTPDEITAVCREANYDDNCAGVITWMHTFSPA------KMWIRGLSAL 96 (499)
T ss_pred HHHHHHHHHHHHHHhcccCCCCeEEE-EcCccCCHHHHHHHHHHccccCCCcEEEEccCCCchH------HHHHHHHHHc
Confidence 33333333444444444343434444 333 45666667777666 99999988876553 3445567888
Q ss_pred CCcEEEEcC
Q 031355 148 HCTVMIVKR 156 (161)
Q Consensus 148 ~~pvlvv~~ 156 (161)
.+|||+...
T Consensus 97 ~~PvL~~~~ 105 (499)
T PRK02929 97 QKPLLHLHT 105 (499)
T ss_pred CCCEEEEec
Confidence 999999976
No 51
>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=88.95 E-value=5.3 Score=26.89 Aligned_cols=23 Identities=13% Similarity=0.387 Sum_probs=18.9
Q ss_pred HhHHHHHHHhcCCCEEEEecCCC
Q 031355 106 RNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
.+.|.+.+++.++|+|++|....
T Consensus 80 a~~l~~~i~~~~p~~Vl~g~t~~ 102 (181)
T cd01985 80 AKALAALIKKEKPDLILAGATSI 102 (181)
T ss_pred HHHHHHHHHHhCCCEEEECCccc
Confidence 56788888888999999997754
No 52
>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=88.87 E-value=6.7 Score=30.41 Aligned_cols=93 Identities=10% Similarity=0.020 Sum_probs=59.3
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccE
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDF 96 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 96 (161)
-.+..||..|+.. + .+|..|+|+++....... .+ ..............+.+.++++.+.+.|.
T Consensus 13 l~DN~aL~~A~~~-----~----~~vl~vfi~dp~~~~~~~--~~---~~~~~~~~r~~Fl~esL~~L~~~L~~~g~--- 75 (429)
T TIGR02765 13 VHDNPALYKASSS-----S----DTLIPLYCFDPRQFKLTH--FF---GFPKTGPARGKFLLESLKDLRTSLRKLGS--- 75 (429)
T ss_pred cccHHHHHHHHhc-----C----CeEEEEEEECchHhcccc--cc---ccCCCCHHHHHHHHHHHHHHHHHHHHcCC---
Confidence 3456677666532 2 278899998764321000 00 00011234445566777777777777664
Q ss_pred EEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 97 VVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 97 ~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
...+..|++.+.|.+.+++.+++.|+.-..
T Consensus 76 ~L~v~~G~~~~vl~~L~~~~~~~~V~~~~~ 105 (429)
T TIGR02765 76 DLLVRSGKPEDVLPELIKELGVRTVFLHQE 105 (429)
T ss_pred CeEEEeCCHHHHHHHHHHHhCCCEEEEecc
Confidence 356778999999999999999999999754
No 53
>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=88.80 E-value=1.4 Score=28.46 Aligned_cols=56 Identities=13% Similarity=0.059 Sum_probs=40.4
Q ss_pred CChHhHHHHHHHhcCCCEEEEecCCC-Ccc---eeeeccchHHHHhhcC-CCcEEEEcCCC
Q 031355 103 GDARNILCEAVEKHHASILVVGSHGY-GAI---KRAVLGSVSDYCAHHA-HCTVMIVKRPK 158 (161)
Q Consensus 103 g~~~~~I~~~a~~~~~dliVlg~~~~-~~~---~~~~~gs~~~~ll~~~-~~pvlvv~~~~ 158 (161)
+...+.|.+.++++.++.+|+|-+-. .+- .....-.+++.|-... ++||..+-+..
T Consensus 37 ~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DEr~ 97 (135)
T PF03652_consen 37 EKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDERL 97 (135)
T ss_dssp CCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEECSC
T ss_pred chHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECCCh
Confidence 47899999999999999999997632 111 1122345666777776 99999987654
No 54
>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=88.10 E-value=7.8 Score=27.76 Aligned_cols=36 Identities=8% Similarity=0.105 Sum_probs=27.7
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
..++++|++++.-.|..++..+... | .++..+|+..
T Consensus 11 ~~~~vlVa~SGGvDSs~ll~la~~~-----g----~~v~av~~~~ 46 (252)
T TIGR00268 11 EFKKVLIAYSGGVDSSLLAAVCSDA-----G----TEVLAITVVS 46 (252)
T ss_pred hcCCEEEEecCcHHHHHHHHHHHHh-----C----CCEEEEEecC
Confidence 3578999999999998888777553 3 3788888853
No 55
>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=87.14 E-value=7.6 Score=26.62 Aligned_cols=34 Identities=9% Similarity=-0.015 Sum_probs=25.8
Q ss_pred eeEEEEecCChhHHHHH-HHHHHHhhccCCCCCCcEEEEEE
Q 031355 7 QTMVVGIDDSEQSTYAL-QWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al-~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
+||++++.++..+.++. +..-.+.+ . | ++++++-
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L~~-~-g----~~V~vI~ 35 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKLVD-E-G----AEVTPIV 35 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHHHh-C-c----CEEEEEE
Confidence 57999999999999997 66666654 3 5 6777654
No 56
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=86.22 E-value=1.5 Score=28.38 Aligned_cols=54 Identities=13% Similarity=0.062 Sum_probs=37.8
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCC-Ccce---eeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGY-GAIK---RAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~-~~~~---~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
....|.+.+++++++.||+|-+-. ++.. ....-.+++.|-...++||..+-++.
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 478899999999999999996532 2211 12233566677667789999987654
No 57
>PRK10867 signal recognition particle protein; Provisional
Probab=86.00 E-value=15 Score=28.80 Aligned_cols=91 Identities=18% Similarity=0.146 Sum_probs=52.2
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
+++...++-.+..+...|..++... | -++.++.. +.... ...++++.+.
T Consensus 104 ~~vG~~GsGKTTtaakLA~~l~~~~-G----~kV~lV~~-D~~R~-------------------------aa~eQL~~~a 152 (433)
T PRK10867 104 MMVGLQGAGKTTTAGKLAKYLKKKK-K----KKVLLVAA-DVYRP-------------------------AAIEQLKTLG 152 (433)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhc-C----CcEEEEEc-cccch-------------------------HHHHHHHHHH
Confidence 3444457778888999999888763 4 36666654 22111 1123444445
Q ss_pred hhcCCccEEEEEEcCChH---hHHHHHHHhcCCCEEEEecCCCCcc
Q 031355 89 SSKSVHDFVVEVVEGDAR---NILCEAVEKHHASILVVGSHGYGAI 131 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliVlg~~~~~~~ 131 (161)
+..+.. +...-...+|. ...++.++..++|+|++-..++...
T Consensus 153 ~~~gv~-v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~ 197 (433)
T PRK10867 153 EQIGVP-VFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHI 197 (433)
T ss_pred hhcCCe-EEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCccc
Confidence 544533 32221122443 3344567777899999998887654
No 58
>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=85.89 E-value=0.91 Score=27.70 Aligned_cols=26 Identities=15% Similarity=0.302 Sum_probs=21.1
Q ss_pred cCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 102 EGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 102 ~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
.-.-.+.|.++|+++++||+|+|...
T Consensus 47 ~~~d~~~l~~~a~~~~idlvvvGPE~ 72 (100)
T PF02844_consen 47 DITDPEELADFAKENKIDLVVVGPEA 72 (100)
T ss_dssp -TT-HHHHHHHHHHTTESEEEESSHH
T ss_pred CCCCHHHHHHHHHHcCCCEEEECChH
Confidence 34668899999999999999999653
No 59
>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=85.48 E-value=3.8 Score=30.38 Aligned_cols=50 Identities=12% Similarity=0.118 Sum_probs=28.6
Q ss_pred ChHhHHHHHHHhc-------CCCEEEEecCCCCcceeee-cc-chHHHHhhcCCCcEEEE
Q 031355 104 DARNILCEAVEKH-------HASILVVGSHGYGAIKRAV-LG-SVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 104 ~~~~~I~~~a~~~-------~~dliVlg~~~~~~~~~~~-~g-s~~~~ll~~~~~pvlvv 154 (161)
.....|++..+.- .+|+||+++.|.+ .++++ |. -..-.-+..+++||+.-
T Consensus 55 ~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs-~eDL~~FN~e~varai~~~~~Pvisa 113 (319)
T PF02601_consen 55 GAAASIVSALRKANEMGQADDFDVIIIIRGGGS-IEDLWAFNDEEVARAIAASPIPVISA 113 (319)
T ss_pred chHHHHHHHHHHHHhccccccccEEEEecCCCC-hHHhcccChHHHHHHHHhCCCCEEEe
Confidence 4555555443332 4899999976654 33332 22 22233455789998764
No 60
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=85.45 E-value=5.3 Score=30.76 Aligned_cols=115 Identities=12% Similarity=0.160 Sum_probs=65.0
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHH
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEA 84 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 84 (161)
..++|++++.+|-.+-++++.+-.+-+. | +++.++-.-.......+ ..
T Consensus 3 ~~k~ill~v~gsiaayk~~~l~r~L~~~--g----a~v~vvmt~~a~~fv~p-------------------------~~- 50 (392)
T COG0452 3 EGKRILLGVTGSIAAYKSVELVRLLRRS--G----AEVRVVMTESARKFITP-------------------------LT- 50 (392)
T ss_pred CCceEEEEecCchhhhhHHHHHHHHhhC--C----CeeEEEcchhhhhhcCc-------------------------cc-
Confidence 3458999999999999998888888775 6 68877754332211100 01
Q ss_pred HHHhhhcCCccEEEEEEcCChHhHH--HHHHHhcCCCEEEEecCCCCcceeeecc---chHHHHhhcCCCcEEEEcCC
Q 031355 85 KEICSSKSVHDFVVEVVEGDARNIL--CEAVEKHHASILVVGSHGYGAIKRAVLG---SVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~g~~~~~I--~~~a~~~~~dliVlg~~~~~~~~~~~~g---s~~~~ll~~~~~pvlvv~~~ 157 (161)
.+.+...+. ++ .........+ ++.++ .+|++++..-..+.+.++-.| ..+...+..+.+|++++|.-
T Consensus 51 ~~~~s~~~v--~t--~~~~~~~~~~~HI~l~~--~adl~lvaPaTan~i~Kla~g~aD~~~t~~~~a~~~p~~~aPam 122 (392)
T COG0452 51 FQALSGNPV--YT--LLDEELTGSVEHIELAR--WADLLLVAPATANTIAKLAVGIADNLSTTTLLAAKAPLVLAPAM 122 (392)
T ss_pred HHHhhCCCc--cc--cccccccccccHhhhhh--ccCEEEecCCChhHHHHHHHhhhccHHHHHHHHhcCcEEEecCc
Confidence 112222122 22 2222222222 23344 899999986666655543322 33334445567799999864
No 61
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=84.71 E-value=6.4 Score=28.51 Aligned_cols=96 Identities=20% Similarity=0.129 Sum_probs=57.8
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
++++---|-.+..-+..++...+.. | +++.-.-++.+...++.+.+.+ ++-+..+++..
T Consensus 47 ~viAGPCsvEs~E~i~~~A~~vk~~-G----a~~lRGgafKPRTSPYsFQGlg----------------e~gL~~l~~a~ 105 (286)
T COG2876 47 RVIAGPCSVESEEQVRETAESVKAA-G----AKALRGGAFKPRTSPYSFQGLG----------------EEGLKLLKRAA 105 (286)
T ss_pred EEEecCcccCCHHHHHHHHHHHHHc-c----hhhccCCcCCCCCCcccccccC----------------HHHHHHHHHHH
Confidence 3444444555666666666666665 6 6777777776666655555443 24455556666
Q ss_pred hhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc
Q 031355 89 SSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAI 131 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~ 131 (161)
.+.|.. +.+.+..-.-.+.+.+ .+|+|=+|++....|
T Consensus 106 ~~~Gl~-vvtEvm~~~~~e~~~~-----y~DilqvGARNMQNF 142 (286)
T COG2876 106 DETGLP-VVTEVMDVRDVEAAAE-----YADILQVGARNMQNF 142 (286)
T ss_pred HHcCCe-eEEEecCHHHHHHHHh-----hhhHHHhcccchhhh
Confidence 666765 7777776544444433 378888888765443
No 62
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=84.65 E-value=17 Score=28.41 Aligned_cols=94 Identities=19% Similarity=0.212 Sum_probs=60.9
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
.+|.+-+|-....+-..|..+.+ . + -++.++.+ +.+.+ ...++++.+.
T Consensus 104 mmvGLQGsGKTTt~~KLA~~lkk-~-~----~kvllVaa-D~~Rp-------------------------AA~eQL~~La 151 (451)
T COG0541 104 LMVGLQGSGKTTTAGKLAKYLKK-K-G----KKVLLVAA-DTYRP-------------------------AAIEQLKQLA 151 (451)
T ss_pred EEEeccCCChHhHHHHHHHHHHH-c-C----CceEEEec-ccCCh-------------------------HHHHHHHHHH
Confidence 56677788888888899988888 4 5 35555543 33221 3345666667
Q ss_pred hhcCCccEEEEEEcCChH---hHHHHHHHhcCCCEEEEecCCCCcceeee
Q 031355 89 SSKSVHDFVVEVVEGDAR---NILCEAVEKHHASILVVGSHGYGAIKRAV 135 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliVlg~~~~~~~~~~~ 135 (161)
++.+.. +.......+|. ..=++.+++..+|+||+.+-|+..+..-+
T Consensus 152 ~q~~v~-~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~L 200 (451)
T COG0541 152 EQVGVP-FFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEEL 200 (451)
T ss_pred HHcCCc-eecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHH
Confidence 666654 33332222454 55667899999999999988877665433
No 63
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=84.56 E-value=12 Score=26.41 Aligned_cols=60 Identities=8% Similarity=0.042 Sum_probs=43.8
Q ss_pred HHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHh
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCA 144 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll 144 (161)
.++.++.++.|.. .-..+.-+.|.+.|..+.. ++|+|.+-+-.+++-.+.|+.++-++|-
T Consensus 99 ~r~i~~Ik~~G~k-aGv~lnP~Tp~~~i~~~l~--~vD~VllMsVnPGfgGQ~Fi~~~l~Ki~ 158 (220)
T COG0036 99 HRTIQLIKELGVK-AGLVLNPATPLEALEPVLD--DVDLVLLMSVNPGFGGQKFIPEVLEKIR 158 (220)
T ss_pred HHHHHHHHHcCCe-EEEEECCCCCHHHHHHHHh--hCCEEEEEeECCCCcccccCHHHHHHHH
Confidence 3444455555654 5555666799999999999 9999999888777777777777766654
No 64
>TIGR00930 2a30 K-Cl cotransporter.
Probab=84.54 E-value=26 Score=30.44 Aligned_cols=123 Identities=16% Similarity=0.157 Sum_probs=74.1
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
++||.+.........++++-.+.+.. | -..+.||...+.. ...++.+...+++.++
T Consensus 577 qiLvl~~~p~~~~~Ll~f~~~l~~~~-g-----l~i~~~v~~~~~~------------------~~~~~~~~~~~~~~~~ 632 (953)
T TIGR00930 577 QCLVLTGPPVCRPALLDFASQFTKGK-G-----LMICGSVIQGPRL------------------ECVKEAQAAEAKIQTW 632 (953)
T ss_pred eEEEEeCCCcCcHHHHHHHHHhccCC-c-----EEEEEEEecCchh------------------hhHHHHHHHHHHHHHH
Confidence 58999988888889999999998765 4 7888888765321 1122223333445555
Q ss_pred hhhcCCccEEEEEEcCChHhHHHHHHHhc-----CCCEEEEecCCCCccee-----eeccchHHHHhhcCCCcEEEEcC
Q 031355 88 CSSKSVHDFVVEVVEGDARNILCEAVEKH-----HASILVVGSHGYGAIKR-----AVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g~~~~~I~~~a~~~-----~~dliVlg~~~~~~~~~-----~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
++.....-+...+...+..+++....+-. +++.|+||.+......+ -+++ +... ....+.-|+|++.
T Consensus 633 ~~~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~~w~~~~~~~~~~y~~-~i~~-a~~~~~~v~i~r~ 709 (953)
T TIGR00930 633 LEKNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKKDWRQAEPRAWETYIG-IIHD-AFDAHLAVVVVRN 709 (953)
T ss_pred HHHhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCccchhhccchhHHHHHH-HHHH-HHHcCCcEEEEcc
Confidence 55554443444444457777777776643 58899999875322111 1111 1111 1356788888875
No 65
>COG3360 Uncharacterized conserved protein [Function unknown]
Probab=84.26 E-value=4.6 Score=22.62 Aligned_cols=45 Identities=7% Similarity=-0.056 Sum_probs=34.7
Q ss_pred CCCCCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 1 MATAETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 1 ~~~~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
|+++.+++|.+.-........|++-|+.-|....+ .|...-|.+.
T Consensus 1 m~~hvYK~IelvGtSp~S~d~Ai~~Ai~RA~~t~~-----~l~wfeV~~~ 45 (71)
T COG3360 1 MSHHVYKKIELVGTSPTSIDAAIANAIARAADTLD-----NLDWFEVVET 45 (71)
T ss_pred CCcceEEEEEEEecCCccHHHHHHHHHHHHHhhhh-----cceEEEEEee
Confidence 88899999887766666788888888888887534 6777777664
No 66
>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=83.30 E-value=11 Score=24.99 Aligned_cols=86 Identities=17% Similarity=0.157 Sum_probs=48.7
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+++|.+.+...|..++..+.. . + .++..+|+...... .... +.++..
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~----~-~----~~v~~~~~~~~~~~-----------------~~~~-------~~~~~~ 47 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKK----E-G----YEVHALSFDYGQRH-----------------AKEE-------EAAKLI 47 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHH----c-C----CcEEEEEEECCCCC-----------------hhHH-------HHHHHH
Confidence 588999999988888777654 2 3 37778888532110 0000 112222
Q ss_pred hhhcCCccEEEEEEcCC-hHhHHHHHHHhcCCCEEEEecCCC
Q 031355 88 CSSKSVHDFVVEVVEGD-ARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g~-~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
+...+.. .... .... ....+.+.|++.+++.|+.|.+..
T Consensus 48 ~~~~g~~-~~~~-~~~~~~~~~l~~~a~~~g~~~i~~G~~~~ 87 (169)
T cd01995 48 AEKLGPS-TYVP-ARNLIFLSIAAAYAEALGAEAIIIGVNAE 87 (169)
T ss_pred HHHHCCC-EEEe-CcCHHHHHHHHHHHHHCCCCEEEEeeccC
Confidence 2222311 2111 1112 234566788999999999998754
No 67
>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic. This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.
Probab=82.64 E-value=20 Score=27.64 Aligned_cols=36 Identities=6% Similarity=0.174 Sum_probs=28.2
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
..++|++++.+|..+.+++++.-.+.+ . | +++.++-
T Consensus 2 ~~k~IllgiTGSiaa~~~~~ll~~L~~-~-g----~~V~vv~ 37 (390)
T TIGR00521 2 ENKKILLGVTGGIAAYKTVELVRELVR-Q-G----AEVKVIM 37 (390)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHh-C-C----CEEEEEE
Confidence 357899999999999999888888855 3 5 6776553
No 68
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=81.32 E-value=10 Score=30.79 Aligned_cols=69 Identities=17% Similarity=0.233 Sum_probs=45.0
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcC----ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEG----DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g----~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
..+++...++..|.. ++..+..- +....+.+.+++.+++++|.+......+. --+..++.+||+-||
T Consensus 425 ~~~~~~~~l~~~g~~-~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~--------~~~a~~t~~pvi~vp 495 (577)
T PLN02948 425 TMKDAAEILDSFGVP-YEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLP--------GMVASMTPLPVIGVP 495 (577)
T ss_pred HHHHHHHHHHHcCCC-eEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccch--------HHHhhccCCCEEEcC
Confidence 334555556666654 66666654 23455566677778998888876554433 335667899999999
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
.+
T Consensus 496 ~~ 497 (577)
T PLN02948 496 VK 497 (577)
T ss_pred CC
Confidence 75
No 69
>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=80.90 E-value=13 Score=24.20 Aligned_cols=36 Identities=17% Similarity=0.224 Sum_probs=26.9
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
+|+|++.+...|..++..+....... . ++.++|+..
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~-----~~~~v~~dt 36 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-K-----PVPVIFLDT 36 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-c-----CceEEEeCC
Confidence 58899999999999888887765531 1 677787744
No 70
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=80.76 E-value=7.1 Score=27.29 Aligned_cols=47 Identities=11% Similarity=0.092 Sum_probs=37.0
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.....+..++.++|.+|+++....... .+-++.++..+..|.+|+-.
T Consensus 49 eaav~~~~e~~~pDfvi~isPNpaaPG----P~kARE~l~~s~~PaiiigD 95 (277)
T COG1927 49 EAAVTEMLEEFNPDFVIYISPNPAAPG----PKKAREILSDSDVPAIIIGD 95 (277)
T ss_pred HHHHHHHHHhcCCCEEEEeCCCCCCCC----chHHHHHHhhcCCCEEEecC
Confidence 345667799999999999988654332 45778899999999999854
No 71
>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=80.67 E-value=3.6 Score=26.36 Aligned_cols=55 Identities=9% Similarity=0.020 Sum_probs=38.0
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCC-Ccce---eeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGY-GAIK---RAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~-~~~~---~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
...+.|.+..++++++.||+|-+-. ++.. ....-.+++.|-...++||..+-++.
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DEr~ 93 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDERL 93 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCc
Confidence 4578899999999999999996532 1111 11223566677667789999987654
No 72
>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=80.62 E-value=17 Score=27.34 Aligned_cols=67 Identities=15% Similarity=0.122 Sum_probs=39.1
Q ss_pred HHHHHHhhhcCCccEEEEEEcCC----hHhHHHHHHHhcCCCEEE-EecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGD----ARNILCEAVEKHHASILV-VGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~----~~~~I~~~a~~~~~dliV-lg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
+++.+.+...+.. +.+.+..|+ ..+.+.+.+++.++|.|| +|.... .+++..+......|++.||-
T Consensus 39 ~~v~~~l~~~~i~-~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs~--------~D~aK~ia~~~~~p~i~VPT 109 (349)
T cd08550 39 PRFEAALAKSIIV-VDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGGKT--------LDTAKAVADRLDKPIVIVPT 109 (349)
T ss_pred HHHHHHHHhcCCe-eEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCcHH--------HHHHHHHHHHcCCCEEEeCC
Confidence 4555555544432 334444454 356677888889999877 553221 23444444445789999985
Q ss_pred C
Q 031355 157 P 157 (161)
Q Consensus 157 ~ 157 (161)
.
T Consensus 110 t 110 (349)
T cd08550 110 I 110 (349)
T ss_pred c
Confidence 3
No 73
>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=80.61 E-value=27 Score=27.82 Aligned_cols=49 Identities=2% Similarity=-0.027 Sum_probs=34.6
Q ss_pred ChHhHHHHHHHhc----CCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 104 DARNILCEAVEKH----HASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 104 ~~~~~I~~~a~~~----~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
+-.+.+.+..++. ++|.||+-.+..+.- +..-.++....+|||+...+.
T Consensus 49 ~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a------~~~i~~~~~l~~PvL~~~~q~ 101 (484)
T cd03557 49 TTPDEILAVCREANADDNCAGVITWMHTFSPA------KMWIAGLTALQKPLLHLHTQF 101 (484)
T ss_pred CCHHHHHHHHHHccccCCccEEEEccCCCchH------HHHHHHHHHcCCCEEEEccCC
Confidence 4556666666664 599999988766553 344556788899999996553
No 74
>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=80.12 E-value=27 Score=27.40 Aligned_cols=93 Identities=18% Similarity=0.204 Sum_probs=51.6
Q ss_pred EEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhh
Q 031355 10 VVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICS 89 (161)
Q Consensus 10 lv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 89 (161)
+|...++..+..+...|..+.+. | .++.++.. ++.. . ...++++.+.+
T Consensus 105 lvG~~GvGKTTtaaKLA~~l~~~--G----~kV~lV~~-D~~R----------------------~---aA~eQLk~~a~ 152 (429)
T TIGR01425 105 FVGLQGSGKTTTCTKLAYYYQRK--G----FKPCLVCA-DTFR----------------------A---GAFDQLKQNAT 152 (429)
T ss_pred EECCCCCCHHHHHHHHHHHHHHC--C----CCEEEEcC-cccc----------------------h---hHHHHHHHHhh
Confidence 44455777788888888877653 4 46666643 2211 0 22244444554
Q ss_pred hcCCccEEEEEEcCChHh---HHHHHHHhcCCCEEEEecCCCCcceeee
Q 031355 90 SKSVHDFVVEVVEGDARN---ILCEAVEKHHASILVVGSHGYGAIKRAV 135 (161)
Q Consensus 90 ~~~~~~~~~~v~~g~~~~---~I~~~a~~~~~dliVlg~~~~~~~~~~~ 135 (161)
..+.. +.......+|.. .-++.++..++|+|++-+.|+......+
T Consensus 153 ~~~vp-~~~~~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~l 200 (429)
T TIGR01425 153 KARIP-FYGSYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSL 200 (429)
T ss_pred ccCCe-EEeecCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHH
Confidence 43432 332222235533 3344566678999999988876654333
No 75
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=79.79 E-value=21 Score=25.98 Aligned_cols=105 Identities=11% Similarity=0.108 Sum_probs=63.0
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccE
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDF 96 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 96 (161)
+....++++|..+... | .++...+.+.+-.....+.+. .++.+..+++.+++.|.. +
T Consensus 38 e~~~~~~~~A~~lk~~--g----~~~~r~~~~kpRTs~~s~~G~----------------g~~gl~~l~~~~~~~Gl~-~ 94 (266)
T PRK13398 38 ESEEQMVKVAEKLKEL--G----VHMLRGGAFKPRTSPYSFQGL----------------GEEGLKILKEVGDKYNLP-V 94 (266)
T ss_pred CCHHHHHHHHHHHHHc--C----CCEEEEeeecCCCCCCccCCc----------------HHHHHHHHHHHHHHcCCC-E
Confidence 3557788888888874 5 688888888754433222222 145566677777777765 6
Q ss_pred EEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 97 VVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 97 ~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
-+.+..-...+.+.+ . +|++-||++.-... ..-+++ ..++.||++=+.
T Consensus 95 ~te~~d~~~~~~l~~----~-vd~~kIga~~~~n~------~LL~~~-a~~gkPV~lk~G 142 (266)
T PRK13398 95 VTEVMDTRDVEEVAD----Y-ADMLQIGSRNMQNF------ELLKEV-GKTKKPILLKRG 142 (266)
T ss_pred EEeeCChhhHHHHHH----h-CCEEEECcccccCH------HHHHHH-hcCCCcEEEeCC
Confidence 666666555555433 3 68999988754332 122222 345677766443
No 76
>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=78.88 E-value=3.8 Score=30.44 Aligned_cols=52 Identities=15% Similarity=0.125 Sum_probs=35.7
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCC-CcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGY-GAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~-~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.+..+.++..+ .+|+||+|-.+. +.+-..++-+-..+.+.+++||++.|.+-
T Consensus 163 ~~~~~~l~AI~--~ADlIvlgPGSlyTSI~P~Llv~gi~eAi~~s~a~kV~V~ni 215 (309)
T cd07044 163 SPSREVLEAIE--KADNIVIGPGSLYTSILPNISVPGIREALKKTXAKKVYVSNI 215 (309)
T ss_pred CCCHHHHHHHH--hCCEEEECCCcCHHHhhhhcCcHhHHHHHHhcCCCeEEECCC
Confidence 46778888888 899999996542 33333333334455667789999998764
No 77
>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=78.75 E-value=4.2 Score=24.47 Aligned_cols=65 Identities=9% Similarity=0.122 Sum_probs=38.1
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
...+++.+++.|.. + .+...+.. ++.+... ++|+|+++..=+..+ ...++.....++||.++++.
T Consensus 20 ~~k~~~~~~~~gi~-~--~v~a~~~~-~~~~~~~--~~Dvill~pqi~~~~------~~i~~~~~~~~ipv~~I~~~ 84 (95)
T TIGR00853 20 VNKMNKAAEEYGVP-V--KIAAGSYG-AAGEKLD--DADVVLLAPQVAYML------PDLKKETDKKGIPVEVINGA 84 (95)
T ss_pred HHHHHHHHHHCCCc-E--EEEEecHH-HHHhhcC--CCCEEEECchHHHHH------HHHHHHhhhcCCCEEEeChh
Confidence 35556666666643 3 33333332 3444444 789999985532222 23355667778999999764
No 78
>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=78.22 E-value=31 Score=27.04 Aligned_cols=91 Identities=14% Similarity=0.095 Sum_probs=51.1
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
+++...++-.+..+...|..+.... | -++.++.. +.... ...+++..+.
T Consensus 103 ~~vG~~GsGKTTtaakLA~~l~~~~-g----~kV~lV~~-D~~R~-------------------------~a~~QL~~~a 151 (428)
T TIGR00959 103 LMVGLQGSGKTTTCGKLAYYLKKKQ-G----KKVLLVAC-DLYRP-------------------------AAIEQLKVLG 151 (428)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhC-C----CeEEEEec-cccch-------------------------HHHHHHHHHH
Confidence 4455557778888899998876443 4 36666644 22110 1123444444
Q ss_pred hhcCCccEEEEEEcCChH---hHHHHHHHhcCCCEEEEecCCCCcc
Q 031355 89 SSKSVHDFVVEVVEGDAR---NILCEAVEKHHASILVVGSHGYGAI 131 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliVlg~~~~~~~ 131 (161)
...+.. +.......+|. ...++.++..++|+||+...++...
T Consensus 152 ~~~gvp-~~~~~~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~ 196 (428)
T TIGR00959 152 QQVGVP-VFALGKGQSPVEIARRALEYAKENGFDVVIVDTAGRLQI 196 (428)
T ss_pred HhcCCc-eEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCcccc
Confidence 444433 32221122443 3345556677899999999887554
No 79
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=76.86 E-value=18 Score=27.15 Aligned_cols=45 Identities=13% Similarity=0.086 Sum_probs=30.6
Q ss_pred hHhHHHHHHHhcCCCEEE-EecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILV-VGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliV-lg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
..+.+.+.+++.++|.|| +|.... .+++..+....++|++.||-.
T Consensus 66 ~v~~~~~~~~~~~~d~iIaiGGGs~--------~D~aK~~a~~~~~p~i~iPTT 111 (339)
T cd08173 66 EVEKVESSARDIGADFVIGVGGGRV--------IDVAKVAAYKLGIPFISVPTA 111 (339)
T ss_pred HHHHHHHHhhhcCCCEEEEeCCchH--------HHHHHHHHHhcCCCEEEecCc
Confidence 466777888888999888 553211 345555555567899999854
No 80
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=76.70 E-value=26 Score=25.40 Aligned_cols=89 Identities=18% Similarity=0.250 Sum_probs=54.1
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHH
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAK 85 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 85 (161)
..+++|++++.-.|...+..|...+. . ++.++.|..+.... +.++.+.
T Consensus 17 ~~kv~vAfSGGvDSslLa~la~~~lG-~-------~v~AvTv~sP~~p~------------------------~e~e~A~ 64 (269)
T COG1606 17 KKKVVVAFSGGVDSSLLAKLAKEALG-D-------NVVAVTVDSPYIPR------------------------REIEEAK 64 (269)
T ss_pred cCeEEEEecCCccHHHHHHHHHHHhc-c-------ceEEEEEecCCCCh------------------------hhhhHHH
Confidence 35899999999888877776666554 2 67777776654321 1222333
Q ss_pred HHhhhcCCccEEEE-----------------EEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 86 EICSSKSVHDFVVE-----------------VVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 86 ~~~~~~~~~~~~~~-----------------v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
..+...|....-.. ...-...+.|.+.+.+.++|.++=|..
T Consensus 65 ~~A~~iGi~H~~i~~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 65 NIAKEIGIRHEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred HHHHHhCCcceeeehhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence 33333332110000 011234688999999999999999876
No 81
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=75.95 E-value=13 Score=26.57 Aligned_cols=47 Identities=11% Similarity=0.095 Sum_probs=34.9
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 107 NILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
+......++.++|++|+.+....... ..-+++++....+|.+|+-..
T Consensus 50 ~~~~~~~~~~~pDf~i~isPN~a~PG----P~~ARE~l~~~~iP~IvI~D~ 96 (277)
T PRK00994 50 EVVKKMLEEWKPDFVIVISPNPAAPG----PKKAREILKAAGIPCIVIGDA 96 (277)
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCCC----chHHHHHHHhcCCCEEEEcCC
Confidence 34445668889999999988654322 346788999999999999654
No 82
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=75.79 E-value=11 Score=29.48 Aligned_cols=50 Identities=14% Similarity=0.224 Sum_probs=29.2
Q ss_pred ChHhHHHHHHHhcC---CCEEEEecCCCCcceeee-cc-chHHHHhhcCCCcEEEE
Q 031355 104 DARNILCEAVEKHH---ASILVVGSHGYGAIKRAV-LG-SVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 104 ~~~~~I~~~a~~~~---~dliVlg~~~~~~~~~~~-~g-s~~~~ll~~~~~pvlvv 154 (161)
.....|++..+..+ +|+||+++.|.+ .++++ |. -..-..+..+++||+.-
T Consensus 176 ~A~~~i~~al~~~~~~~~Dviii~RGGGS-~eDL~~Fn~e~v~~ai~~~~~Pvis~ 230 (438)
T PRK00286 176 GAAASIVAAIERANARGEDVLIVARGGGS-LEDLWAFNDEAVARAIAASRIPVISA 230 (438)
T ss_pred cHHHHHHHHHHHhcCCCCCEEEEecCCCC-HHHhhccCcHHHHHHHHcCCCCEEEe
Confidence 45666665544333 599999976653 34432 22 22233455789998864
No 83
>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=75.41 E-value=23 Score=24.18 Aligned_cols=87 Identities=20% Similarity=0.210 Sum_probs=50.5
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
|+|++++...|..++..+.... + .++..+|+...... .+..+.+++.+
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~----~----~~v~~v~vd~g~~~------------------------~~~~~~~~~~a 48 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDAL----G----DRVLAVTATSPLFP------------------------RRELEEAKRLA 48 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHh----C----CcEEEEEeCCCCCC------------------------HHHHHHHHHHH
Confidence 5789999988888877665542 2 26788888533110 11223334444
Q ss_pred hhcCCccEEEEEEc-----------------C--ChHhHHHHHHHhcCCCEEEEecCCC
Q 031355 89 SSKSVHDFVVEVVE-----------------G--DARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 89 ~~~~~~~~~~~v~~-----------------g--~~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
+..|.. ....-.. . -....+.+.|++.+++.|+.|.+..
T Consensus 49 ~~lgi~-~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~~d 106 (202)
T cd01990 49 KEIGIR-HEVIETDELDDPEFAKNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTNAD 106 (202)
T ss_pred HHcCCc-EEEEeCCccccHHHhcCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCccc
Confidence 444542 2211111 0 1234566789999999999997753
No 84
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=75.37 E-value=33 Score=25.93 Aligned_cols=92 Identities=12% Similarity=0.099 Sum_probs=57.7
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
-++|.++++-.+...-..|..+-.. | -++.+. ..++. + ....++++.|
T Consensus 142 il~vGVNG~GKTTTIaKLA~~l~~~--g----~~Vlla-A~DTF----------------------R---AaAiEQL~~w 189 (340)
T COG0552 142 ILFVGVNGVGKTTTIAKLAKYLKQQ--G----KSVLLA-AGDTF----------------------R---AAAIEQLEVW 189 (340)
T ss_pred EEEEecCCCchHhHHHHHHHHHHHC--C----CeEEEE-ecchH----------------------H---HHHHHHHHHH
Confidence 3667788888777777777777653 4 244333 33332 1 2344677777
Q ss_pred hhhcCCccEEEEEEcCChHhHH---HHHHHhcCCCEEEEecCCCCcce
Q 031355 88 CSSKSVHDFVVEVVEGDARNIL---CEAVEKHHASILVVGSHGYGAIK 132 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g~~~~~I---~~~a~~~~~dliVlg~~~~~~~~ 132 (161)
.++.|..-+... ..+||+..+ ++.|+..++|++++-.-|+-.-+
T Consensus 190 ~er~gv~vI~~~-~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk 236 (340)
T COG0552 190 GERLGVPVISGK-EGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNK 236 (340)
T ss_pred HHHhCCeEEccC-CCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCc
Confidence 777776534433 333776544 46688899999999877654433
No 85
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=75.19 E-value=34 Score=26.08 Aligned_cols=36 Identities=17% Similarity=0.284 Sum_probs=26.5
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
+.++|+|++++.-.|.-++..+.+ . | .++..+|+..
T Consensus 4 ~~~kVlValSGGVDSsvaa~LL~~----~-G----~~V~~v~~~~ 39 (360)
T PRK14665 4 KNKRVLLGMSGGTDSSVAAMLLLE----A-G----YEVTGVTFRF 39 (360)
T ss_pred CCCEEEEEEcCCHHHHHHHHHHHH----c-C----CeEEEEEEec
Confidence 346899999999888877665543 2 4 5888888853
No 86
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=74.90 E-value=23 Score=25.85 Aligned_cols=46 Identities=15% Similarity=0.229 Sum_probs=34.5
Q ss_pred HHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
+.-.+.-++.+....-..+.+..-.+.|..+.+++.+|+||+..|.
T Consensus 118 ~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 118 RKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred HHHHHHHHHhCCceEEEEecchhchHHHHHHHHHhCCCEEEEeCch
Confidence 3333344444665566777778899999999999999999997664
No 87
>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=74.64 E-value=8.8 Score=28.57 Aligned_cols=51 Identities=14% Similarity=0.183 Sum_probs=35.7
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCC-Cccee-eeccchHHHHhhcCCCcEEEEcCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGY-GAIKR-AVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~-~~~~~-~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.+..+.++..+ .+|+||+|-.+. +.+-. ++...+ .+.+.+++||++.|.+-
T Consensus 161 ~a~~~al~AI~--~ADlIvlgPGSlyTSIiPnLlv~gI-~eAI~~s~a~kV~v~N~ 213 (310)
T TIGR01826 161 PALREAVEAIR--EADLIILGPGSLYTSIIPNLLVPEI-AEALRESKAPKVYVCNL 213 (310)
T ss_pred CCCHHHHHHHH--hCCEEEECCCcCHHHhchhcCchhH-HHHHHhCCCCEEEEeCC
Confidence 56778888888 999999996542 33333 344444 44567789999998764
No 88
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=74.34 E-value=26 Score=25.17 Aligned_cols=45 Identities=13% Similarity=0.087 Sum_probs=27.6
Q ss_pred EcCChHhHHHHHHHhcCCCEEEEecCCCCc-ceeeeccchHHHHhhcC
Q 031355 101 VEGDARNILCEAVEKHHASILVVGSHGYGA-IKRAVLGSVSDYCAHHA 147 (161)
Q Consensus 101 ~~g~~~~~I~~~a~~~~~dliVlg~~~~~~-~~~~~~gs~~~~ll~~~ 147 (161)
..++..++..-... ++||+|||.....+ ---...|...+.++++.
T Consensus 84 ~~~di~~e~~~e~~--~~~LLvmGkie~~GeGC~Cp~~allR~~l~~l 129 (255)
T COG3640 84 LVSDLPDEYLVENG--DIDLLVMGKIEEGGEGCACPMNALLRRLLRHL 129 (255)
T ss_pred chhhhhHHHhhhcC--CccEEEeccccCCCCcccchHHHHHHHHHHHH
Confidence 33455655555555 79999999864322 12234567777777764
No 89
>PRK08185 hypothetical protein; Provisional
Probab=74.27 E-value=8.5 Score=28.24 Aligned_cols=56 Identities=11% Similarity=0.009 Sum_probs=42.4
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlv 153 (161)
+-+..-.-...+++.|++.+.-+|+..+.+.....+.-+......+..++.+||.+
T Consensus 18 fN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~vPV~l 73 (283)
T PRK08185 18 FNVADSCFLRAVVEEAEANNAPAIIAIHPNELDFLGDNFFAYVRERAKRSPVPFVI 73 (283)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEeCcchhhhccHHHHHHHHHHHHHCCCCEEE
Confidence 33444578999999999999999999887653322233677888888899999765
No 90
>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=73.66 E-value=15 Score=28.77 Aligned_cols=51 Identities=16% Similarity=0.259 Sum_probs=28.8
Q ss_pred ChHhHHHHHHH----hcCCCEEEEecCCCCcceeee-cc-chHHHHhhcCCCcEEEEc
Q 031355 104 DARNILCEAVE----KHHASILVVGSHGYGAIKRAV-LG-SVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 104 ~~~~~I~~~a~----~~~~dliVlg~~~~~~~~~~~-~g-s~~~~ll~~~~~pvlvv~ 155 (161)
.....|+...+ ..++|+||+++.|.+ .++++ |. -..-..+..+++||+.-=
T Consensus 170 ~a~~~i~~al~~~~~~~~~dviii~RGGGs-~eDL~~Fn~e~~~rai~~~~~Pvis~i 226 (432)
T TIGR00237 170 GAVQSIVESIELANTKNECDVLIVGRGGGS-LEDLWSFNDEKVARAIFLSKIPIISAV 226 (432)
T ss_pred cHHHHHHHHHHHhhcCCCCCEEEEecCCCC-HHHhhhcCcHHHHHHHHcCCCCEEEec
Confidence 45555554433 334799999976644 33332 22 222234467899998653
No 91
>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=73.54 E-value=34 Score=26.80 Aligned_cols=48 Identities=13% Similarity=0.106 Sum_probs=33.0
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
-+..+.+.+++.++|.||+-....+. ++..-.++...++||+++-...
T Consensus 51 ~~~~~~~~~~~~~~d~ii~~~~tf~~------~~~~~~~~~~~~~Pvll~a~~~ 98 (452)
T cd00578 51 EARKAAEEFNEANCDGLIVWMHTFGP------AKMWIAGLSELRKPVLLLATQF 98 (452)
T ss_pred HHHHHHHHHhhcCCcEEEEccccccc------HHHHHHHHHhcCCCEEEEeCCC
Confidence 35667778888899999997664332 2334445667799999996543
No 92
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=73.44 E-value=31 Score=25.54 Aligned_cols=74 Identities=12% Similarity=0.107 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHhhhcCCccEEEEEEcCC-hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 77 AARVVEEAKEICSSKSVHDFVVEVVEGD-ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 77 ~~~~l~~~~~~~~~~~~~~~~~~v~~g~-~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
..+.+.++.+.+++.+.. ......... .+..+++.+...++|.||.+.-.. .++.++..|...-.-|+-++|
T Consensus 18 ~~~~~~~~~~~l~~~g~~-~~~~~t~~~g~a~~~a~~a~~~~~D~via~GGDG------Tv~evingl~~~~~~~LgilP 90 (301)
T COG1597 18 AKKLLREVEELLEEAGHE-LSVRVTEEAGDAIEIAREAAVEGYDTVIAAGGDG------TVNEVANGLAGTDDPPLGILP 90 (301)
T ss_pred hhhHHHHHHHHHHhcCCe-EEEEEeecCccHHHHHHHHHhcCCCEEEEecCcc------hHHHHHHHHhcCCCCceEEec
Confidence 344555666666766664 555555553 777788777777999999975432 124455544444333377777
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
-.
T Consensus 91 ~G 92 (301)
T COG1597 91 GG 92 (301)
T ss_pred CC
Confidence 54
No 93
>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=73.40 E-value=13 Score=23.00 Aligned_cols=44 Identities=16% Similarity=0.186 Sum_probs=32.7
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
.+....+.|++.++..||+-+.. |.++..+.+. -+|||+++-+.
T Consensus 4 ia~aa~~~A~~~~ak~Ivv~T~s---------G~ta~~isk~RP~~pIiavt~~ 48 (117)
T PF02887_consen 4 IARAAVELAEDLNAKAIVVFTES---------GRTARLISKYRPKVPIIAVTPN 48 (117)
T ss_dssp HHHHHHHHHHHHTESEEEEE-SS---------SHHHHHHHHT-TSSEEEEEESS
T ss_pred HHHHHHHHHHhcCCCEEEEECCC---------chHHHHHHhhCCCCeEEEEcCc
Confidence 35567788999999999987663 6677777775 56999988554
No 94
>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=73.37 E-value=29 Score=24.45 Aligned_cols=37 Identities=8% Similarity=0.063 Sum_probs=30.4
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEe
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHA 47 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v 47 (161)
.++|.+++|++...++|...+..+.... | ..+.++..
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~-G----~~v~vv~l 190 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKA-G----FITKVIEI 190 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHC-C----CeEEEEeC
Confidence 4789999999999999999999998875 6 56666543
No 95
>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=73.12 E-value=26 Score=23.74 Aligned_cols=33 Identities=12% Similarity=0.018 Sum_probs=23.6
Q ss_pred eEEEEecCC-hhHHHHHHHHHHHhhccCCCCCCcEEEEE
Q 031355 8 TMVVGIDDS-EQSTYALQWTLDHFFANSTVNPPFKLVIV 45 (161)
Q Consensus 8 ~ilv~~d~s-~~s~~al~~a~~la~~~~~~~~~a~l~~l 45 (161)
||++++-+| ......+++...++++. | .++.++
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~~~-g----~eV~vv 34 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKNRY-G----DEIDVF 34 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHHhc-C----CEEEEE
Confidence 588999988 44455778888887664 6 566655
No 96
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=72.53 E-value=9 Score=24.98 Aligned_cols=54 Identities=13% Similarity=0.104 Sum_probs=37.6
Q ss_pred hHhHHHHHHHhcCCCEEEEecCC-CCcce---eeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHG-YGAIK---RAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~-~~~~~---~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
..+.|.+.+++++++.||+|-+- ..+-. ....-.+++.|-.+.+.||.++-++.
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 68899999999999999999763 12111 11123455666667889999886653
No 97
>PRK13820 argininosuccinate synthase; Provisional
Probab=72.50 E-value=43 Score=25.96 Aligned_cols=37 Identities=5% Similarity=0.143 Sum_probs=28.5
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCc-EEEEEEecC
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPF-KLVIVHARP 49 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a-~l~~l~v~~ 49 (161)
++++|+|++++...|..++.++.. . +| . ++..+|+..
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e---~-~g----~~~Viav~vd~ 38 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKE---K-YG----YDEVITVTVDV 38 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHH---h-cC----CCEEEEEEEEC
Confidence 357899999999999888888643 2 24 4 899998854
No 98
>PF03746 LamB_YcsF: LamB/YcsF family; InterPro: IPR005501 This entry represents the uncharacterised protein family UPF0271, including LamB. The lam locus of Emericella nidulans (Aspergillus nidulans) consists of two divergently transcribed genes, lamA and lamB, involved in the utilization of lactams such as 2-pyrrolidinone. Both genes are under the control of the positive regulatory gene amdR and are subject to carbon and nitrogen metabolite repression []. The exact molecular function of the proteins in this family is unknown.; PDB: 1V6T_A 1XW8_A 2XU2_A 2DFA_A.
Probab=72.40 E-value=33 Score=24.62 Aligned_cols=119 Identities=12% Similarity=0.121 Sum_probs=64.8
Q ss_pred EEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhh
Q 031355 11 VGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSS 90 (161)
Q Consensus 11 v~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 90 (161)
|+-.+--.+...++.++++|+.. | --..-|..-+.. .+++ ++....-.++.+......+..+..++..
T Consensus 32 IACG~HAGDp~~M~~tv~lA~~~-g-----V~iGAHPsyPD~-----~gFG-Rr~m~~s~~el~~~v~yQigaL~~~a~~ 99 (242)
T PF03746_consen 32 IACGFHAGDPETMRRTVRLAKEH-G-----VAIGAHPSYPDR-----EGFG-RRSMDISPEELRDSVLYQIGALQAIAAA 99 (242)
T ss_dssp EE-SSSS--HHHHHHHHHHHHHT-T------EEEEE---S-T-----TTTT--S-----HHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhcccccCHHHHHHHHHHHHHc-C-----CEeccCCCCCCC-----CCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 44445556677889999999986 7 334445433222 2222 2223344456666666677777888888
Q ss_pred cCCccEEEEEEcC----------ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEE
Q 031355 91 KSVHDFVVEVVEG----------DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVM 152 (161)
Q Consensus 91 ~~~~~~~~~v~~g----------~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvl 152 (161)
.|.. +.+.--+| ..++.|++.+++.+.+|.++|.. ||...+.......+++
T Consensus 100 ~g~~-l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~a----------gs~~~~~A~~~Gl~~~ 160 (242)
T PF03746_consen 100 EGVP-LHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLA----------GSELEKAAKELGLPVV 160 (242)
T ss_dssp TT---EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEET----------TSHHHHHHHHCT--EE
T ss_pred cCCe-eEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcC----------CcHHHHHHHHCCCcEE
Confidence 7764 77666665 24788999999999999999865 4455555555555554
No 99
>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=72.29 E-value=25 Score=24.16 Aligned_cols=33 Identities=24% Similarity=0.306 Sum_probs=24.3
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
+++|.+.+...|..++.++.+. | -++..+++..
T Consensus 1 kv~v~~SGGkDS~~al~~a~~~-----G----~~v~~l~~~~ 33 (194)
T cd01994 1 KVVALISGGKDSCYALYRALEE-----G----HEVVALLNLT 33 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHHc-----C----CEEEEEEEEe
Confidence 4789999999999888887772 3 3666666554
No 100
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=72.26 E-value=44 Score=26.98 Aligned_cols=64 Identities=14% Similarity=0.238 Sum_probs=41.4
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHH---HHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEA---VEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~---a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.+.+.+.+.+++.. .+..+..|+..+++... ....++|+||-. |.++..|-.+.++||+-++..
T Consensus 16 ~~~~~~i~~~~~~~-~~~~v~~~~~~~~~~~a~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~~s 82 (526)
T TIGR02329 16 FDLFRDIAPEFDHR-ANITPIQLGFEDAVREIRQRLGAERCDVVVAG------------GSNGAYLKSRLSLPVIVIKPT 82 (526)
T ss_pred HHHHHHHHHhCCCC-ceEEEEeccHHHHHHHHHHHHHhCCCcEEEEC------------chHHHHHHHhCCCCEEEecCC
Confidence 34444555554431 45556777665555533 556688988853 667777777889999998764
No 101
>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=72.10 E-value=30 Score=23.93 Aligned_cols=33 Identities=15% Similarity=0.005 Sum_probs=23.5
Q ss_pred EEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEec
Q 031355 11 VGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHAR 48 (161)
Q Consensus 11 v~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~ 48 (161)
++.-.++.+..++..+..+++.. | ..+.++.+-
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~-g----~~v~av~~G 61 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKY-G----GEVTVVSMG 61 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhc-C----CEEEEEEEC
Confidence 34445677888899999988764 5 577777653
No 102
>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=71.96 E-value=14 Score=27.90 Aligned_cols=56 Identities=20% Similarity=0.196 Sum_probs=41.3
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc-eee---------------eccchHHHHhhcCCCcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAI-KRA---------------VLGSVSDYCAHHAHCTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~-~~~---------------~~gs~~~~ll~~~~~pvlv 153 (161)
+-+..-.....+++.|++.+..+|+..+.+.... ... .+......+..++.+||.+
T Consensus 21 fN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~VPVal 92 (345)
T cd00946 21 VNCTSSSTINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAAHHVRSMAEHYGVPVVL 92 (345)
T ss_pred EeeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCCCCEEE
Confidence 3344457899999999999999999987763221 211 4566778888899999765
No 103
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=71.86 E-value=31 Score=27.88 Aligned_cols=66 Identities=12% Similarity=0.199 Sum_probs=42.6
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEcCChHhHHH---HHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVEGDARNILC---EAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~---~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
++.+.++..+.+++.. .+..+..+...+++. +.....++|+||-. |+++..|=.+.++||+-++
T Consensus 24 ~l~~~~~~i~~~~~~~-~~~~~~~~~~~~~v~~~~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~ 90 (538)
T PRK15424 24 RLFELFRDISLEFDHL-ANITPIQLGFEKAVTYIRKRLATERCDAIIAA------------GSNGAYLKSRLSVPVILIK 90 (538)
T ss_pred HHHHHHHHHHHhcCCC-ceEEehhhhHHHHHHHHHHHHhhCCCcEEEEC------------chHHHHHHhhCCCCEEEec
Confidence 3455566666666543 555555554443333 33445688988864 7788878888999999987
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
..
T Consensus 91 ~s 92 (538)
T PRK15424 91 PS 92 (538)
T ss_pred CC
Confidence 64
No 104
>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=71.34 E-value=8.3 Score=28.68 Aligned_cols=51 Identities=16% Similarity=0.191 Sum_probs=35.4
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCC-Cccee-eeccchHHHHhhcCCCcEEEEcCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGY-GAIKR-AVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~-~~~~~-~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.+..+.++..+ ++|+||+|-.+. +.+-. ++...+ .+.+++++||.+.|.+-
T Consensus 164 ~~~~~a~~AI~--~AD~Iv~gPGSlyTSI~P~Llv~gI-~eAi~~s~a~kV~v~N~ 216 (308)
T cd07187 164 KANPEALEAIE--EADLIVYGPGSLYTSILPNLLVKGI-AEAIRASKAPKVYICNL 216 (308)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhcCchhH-HHHHHhCCCCEEEEecC
Confidence 46678888888 999999996542 33333 344444 45667889999988763
No 105
>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=71.19 E-value=19 Score=21.47 Aligned_cols=71 Identities=11% Similarity=0.041 Sum_probs=42.3
Q ss_pred HHHHHHHHhhhcCCccEEEEEEc-CCh--HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVE-GDA--RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~-g~~--~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
....+++.+++.|.. ..++-.. |.. ...|-.... ++|+||+-..--+--. -..+.+.....++|++.++.
T Consensus 11 ~~~~~~~~~~~~G~~-~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH~~----~~~vk~~akk~~ip~~~~~~ 83 (97)
T PF10087_consen 11 RERRYKRILEKYGGK-LIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSHNA----MWKVKKAAKKYGIPIIYSRS 83 (97)
T ss_pred cHHHHHHHHHHcCCE-EEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcChHH----HHHHHHHHHHcCCcEEEECC
Confidence 345667777777765 3333222 222 234777777 9999999754222100 12456677778899999974
Q ss_pred C
Q 031355 157 P 157 (161)
Q Consensus 157 ~ 157 (161)
.
T Consensus 84 ~ 84 (97)
T PF10087_consen 84 R 84 (97)
T ss_pred C
Confidence 4
No 106
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=71.13 E-value=31 Score=23.81 Aligned_cols=49 Identities=8% Similarity=0.076 Sum_probs=31.6
Q ss_pred cCChHhHHHHHHHhcCCCEEEEe----cCCCCcceeeeccchHHHHhhcCC-CcEEEEcC
Q 031355 102 EGDARNILCEAVEKHHASILVVG----SHGYGAIKRAVLGSVSDYCAHHAH-CTVMIVKR 156 (161)
Q Consensus 102 ~g~~~~~I~~~a~~~~~dliVlg----~~~~~~~~~~~~gs~~~~ll~~~~-~pvlvv~~ 156 (161)
.-+-.++.+..+....+|++++. -+..++. ...+.+.+..| ++|+++-.
T Consensus 32 ~~~~~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~------~~i~~i~~~~p~~~iivlt~ 85 (207)
T PRK15411 32 DIETVDDLAIACDSLRPSVVFINEDCFIHDASNS------QRIKQIINQHPNTLFIVFMA 85 (207)
T ss_pred ecCCHHHHHHHHhccCCCEEEEeCcccCCCCChH------HHHHHHHHHCCCCeEEEEEC
Confidence 33445555567777789999999 3443322 36677766555 88888843
No 107
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=71.12 E-value=48 Score=25.98 Aligned_cols=90 Identities=8% Similarity=0.074 Sum_probs=46.5
Q ss_pred EEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhh
Q 031355 10 VVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICS 89 (161)
Q Consensus 10 lv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 89 (161)
++.-.++..+..+...|..+... | -++.++.. +.... ...++++.+.+
T Consensus 246 LVGptGvGKTTTiaKLA~~L~~~--G----kkVglI~a-Dt~Ri-------------------------aAvEQLk~yae 293 (436)
T PRK11889 246 LIGPTGVGKTTTLAKMAWQFHGK--K----KTVGFITT-DHSRI-------------------------GTVQQLQDYVK 293 (436)
T ss_pred EECCCCCcHHHHHHHHHHHHHHc--C----CcEEEEec-CCcch-------------------------HHHHHHHHHhh
Confidence 44445667777788888777653 3 35555443 22110 12233444444
Q ss_pred hcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcce
Q 031355 90 SKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIK 132 (161)
Q Consensus 90 ~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~ 132 (161)
..+.. +.......+..+.|..+.+..++|+|++...|++...
T Consensus 294 ~lgip-v~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd 335 (436)
T PRK11889 294 TIGFE-VIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRA 335 (436)
T ss_pred hcCCc-EEecCCHHHHHHHHHHHHhccCCCEEEEeCccccCcC
Confidence 44432 3222111233444444443457999999988876543
No 108
>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=71.10 E-value=14 Score=22.44 Aligned_cols=64 Identities=3% Similarity=-0.000 Sum_probs=38.9
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.+++++.+++.|.. ++ +. .-...++.+... ++|++++|..-+..+ +-.++.+...++||.+++.
T Consensus 17 a~km~~~a~~~gi~-~~--i~-a~~~~e~~~~~~--~~Dvill~PQv~~~~------~~i~~~~~~~~ipv~~I~~ 80 (99)
T cd05565 17 ANALNKGAKERGVP-LE--AA-AGAYGSHYDMIP--DYDLVILAPQMASYY------DELKKDTDRLGIKLVTTTG 80 (99)
T ss_pred HHHHHHHHHHCCCc-EE--EE-EeeHHHHHHhcc--CCCEEEEcChHHHHH------HHHHHHhhhcCCCEEEeCH
Confidence 35556666666653 44 22 333444556666 889999986533222 2345666677899988874
No 109
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=71.05 E-value=18 Score=28.33 Aligned_cols=76 Identities=16% Similarity=0.200 Sum_probs=38.5
Q ss_pred HHHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHH---HHh-cCCCEEEEecCCCCcceeee-cc-chHHHHhhcCCCcE
Q 031355 78 ARVVEEAKEICSSKSVHDFVVEVVEGDARNILCEA---VEK-HHASILVVGSHGYGAIKRAV-LG-SVSDYCAHHAHCTV 151 (161)
Q Consensus 78 ~~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~---a~~-~~~dliVlg~~~~~~~~~~~-~g-s~~~~ll~~~~~pv 151 (161)
++.+..++.........-+.+.|...+...+|++. +.+ .++|+||+|+.| +.+++++ |. -..-.-+..+++||
T Consensus 150 rDIl~~~~rR~P~~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGG-GSiEDLW~FNdE~vaRAi~~s~iPv 228 (440)
T COG1570 150 RDILHTLSRRFPSVEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARGG-GSIEDLWAFNDEIVARAIAASRIPV 228 (440)
T ss_pred HHHHHHHHhhCCCCeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecCc-chHHHHhccChHHHHHHHHhCCCCe
Confidence 44444444433322232233333333555565544 333 349999999665 4445432 22 22234555789998
Q ss_pred EEE
Q 031355 152 MIV 154 (161)
Q Consensus 152 lvv 154 (161)
+--
T Consensus 229 ISA 231 (440)
T COG1570 229 ISA 231 (440)
T ss_pred Eee
Confidence 754
No 110
>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=71.01 E-value=40 Score=24.98 Aligned_cols=40 Identities=13% Similarity=0.213 Sum_probs=30.5
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
+.+.++++.+...|...+..+....... + .++.++|+-..
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~-~----~p~~vl~IDTG 58 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPG-P----LPFPLLHVDTG 58 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhccc-C----CCeEEEEEecC
Confidence 4567888999999999999888776542 3 47899999543
No 111
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=70.94 E-value=13 Score=27.39 Aligned_cols=58 Identities=12% Similarity=0.229 Sum_probs=42.6
Q ss_pred EEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceee-eccchHHHHhhcCCCcEEE
Q 031355 96 FVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRA-VLGSVSDYCAHHAHCTVMI 153 (161)
Q Consensus 96 ~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~-~~gs~~~~ll~~~~~pvlv 153 (161)
.-+-+..-.-..++++.|++.+.-+|+..+.+.-...+. .+......+..++.+||.+
T Consensus 21 ~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~A~~~~VPV~l 79 (284)
T PRK09195 21 PAFNIHNLETMQVVVETAAELHSPVIIAGTPGTFSYAGTEYLLAIVSAAAKQYHHPLAL 79 (284)
T ss_pred EEEEeCCHHHHHHHHHHHHHhCCCEEEEcChhHHhhCCHHHHHHHHHHHHHHCCCCEEE
Confidence 334444457899999999999999999987754322221 4567788899999999875
No 112
>PRK05406 LamB/YcsF family protein; Provisional
Probab=70.94 E-value=36 Score=24.48 Aligned_cols=111 Identities=16% Similarity=0.131 Sum_probs=68.4
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccEEE
Q 031355 19 STYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDFVV 98 (161)
Q Consensus 19 s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 98 (161)
+...++..+++|+.. | ..| .-|..-+ ...+++. +......++........+..+...+...|.. +.+
T Consensus 42 Dp~~M~~tv~lA~~~-g----V~I-GAHPgyp-----D~~gFGR-R~m~~s~~el~~~v~yQigAL~~~a~~~g~~-l~h 108 (246)
T PRK05406 42 DPAVMRRTVRLAKEN-G----VAI-GAHPGYP-----DLEGFGR-RNMDLSPEELYALVLYQIGALQAIARAAGGR-VSH 108 (246)
T ss_pred CHHHHHHHHHHHHHc-C----CeE-ccCCCCC-----ccCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHcCCe-eEE
Confidence 456778889999985 6 222 2232211 2233332 2233445666666677777788888887764 666
Q ss_pred EEEcC----------ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEE
Q 031355 99 EVVEG----------DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVM 152 (161)
Q Consensus 99 ~v~~g----------~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvl 152 (161)
.--+| ..++.|++.+++.+.+|++++.. ||...++......|++
T Consensus 109 VKPHGALYN~~~~d~~~a~av~~ai~~~~~~l~l~~~~----------~s~~~~~A~~~Gl~~~ 162 (246)
T PRK05406 109 VKPHGALYNMAAKDPALADAVAEAVAAVDPSLILVGLA----------GSELIRAAEEAGLRTA 162 (246)
T ss_pred eCccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecC----------ChHHHHHHHHcCCcEE
Confidence 65554 34788899999999999999855 3344445555555554
No 113
>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=70.73 E-value=17 Score=26.99 Aligned_cols=51 Identities=16% Similarity=0.176 Sum_probs=35.6
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCC-CCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 104 DARNILCEAVEKHHASILVVGSHG-YGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~-~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.+..+.++..+ ++|+||+|-.+ ...+...+.=+-..+.+++++.|++.|-+
T Consensus 172 ~~~p~vl~AI~--~AD~IVlGPgsp~TSI~P~LlVpgI~eAL~~s~A~vV~Vsp 223 (303)
T cd07186 172 RPAPEVLEAIE--DADLVIIGPSNPVTSIGPILALPGIREALRDKKAPVVAVSP 223 (303)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhccchhHHHHHHhCCCCEEEEcC
Confidence 46788889999 89999999654 23444444444455677778888887744
No 114
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=70.48 E-value=39 Score=25.70 Aligned_cols=65 Identities=12% Similarity=0.044 Sum_probs=42.5
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCC--CcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGY--GAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~--~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.+++.+...|. ++. +........-++.+++...|+|.|.-.-. .+ -...+.++...++||+++-.
T Consensus 16 ~i~~~l~~~~~--i~v-v~~a~ng~~a~~~~~~~~PDVi~ld~emp~mdg------l~~l~~im~~~p~pVimvss 82 (350)
T COG2201 16 VISDILNSDPD--IEV-VGTARNGREAIDKVKKLKPDVITLDVEMPVMDG------LEALRKIMRLRPLPVIMVSS 82 (350)
T ss_pred HHHHHHhcCCC--eEE-EEecCCHHHHHHHHHhcCCCEEEEecccccccH------HHHHHHHhcCCCCcEEEEec
Confidence 34455555453 332 33344455566777888999999986532 22 24667899999999999854
No 115
>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=70.41 E-value=10 Score=26.43 Aligned_cols=50 Identities=10% Similarity=0.127 Sum_probs=29.4
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 107 NILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
..+...+.+.+.|.|++|.+. +...--+..+...+=.++.+||++.|...
T Consensus 14 ~~ia~~v~~~gtDaI~VGGS~--gvt~~~~~~~v~~ik~~~~lPvilfp~~~ 63 (205)
T TIGR01769 14 EKIAKNAKDAGTDAIMVGGSL--GIVESNLDQTVKKIKKITNLPVILFPGNV 63 (205)
T ss_pred HHHHHHHHhcCCCEEEEcCcC--CCCHHHHHHHHHHHHhhcCCCEEEECCCc
Confidence 345556777789999998552 11111112333444334789999988653
No 116
>PRK11914 diacylglycerol kinase; Reviewed
Probab=70.20 E-value=34 Score=25.18 Aligned_cols=67 Identities=19% Similarity=0.108 Sum_probs=36.4
Q ss_pred HHHHHhhhcCCccEEEEEEcC-ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 83 EAKEICSSKSVHDFVVEVVEG-DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
++.+.+++.+.. +....... .-+.++.+.+.+.++|+||+..-. +.+ ..++..+. ..+.|+-++|-.
T Consensus 30 ~~~~~l~~~g~~-~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~GGD-GTi-----~evv~~l~-~~~~~lgiiP~G 97 (306)
T PRK11914 30 RAIARLHHRGVD-VVEIVGTDAHDARHLVAAALAKGTDALVVVGGD-GVI-----SNALQVLA-GTDIPLGIIPAG 97 (306)
T ss_pred HHHHHHHHcCCe-EEEEEeCCHHHHHHHHHHHHhcCCCEEEEECCc-hHH-----HHHhHHhc-cCCCcEEEEeCC
Confidence 334444554532 44333332 456667766666788977765332 222 23344443 457889998864
No 117
>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=69.88 E-value=34 Score=25.13 Aligned_cols=47 Identities=15% Similarity=0.274 Sum_probs=34.7
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
|+.-.+.-++.+....-..+.+..-.+.|.++.+++.+|+||+..|.
T Consensus 118 L~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 164 (287)
T PF05582_consen 118 LNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGHD 164 (287)
T ss_pred HHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCch
Confidence 33334444455665566677777889999999999999999997663
No 118
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=69.58 E-value=13 Score=22.76 Aligned_cols=66 Identities=11% Similarity=-0.011 Sum_probs=38.5
Q ss_pred HHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
+.+++.+++.|.. ..+...+.. .+.+.....++|+|++|..=+-. -.-..++....++||.++++.
T Consensus 19 ~k~k~~~~e~gi~---~~i~a~~~~-e~~~~~~~~~~DvIll~PQi~~~------~~~i~~~~~~~~ipv~~I~~~ 84 (104)
T PRK09590 19 KKTTEYLKEQGKD---IEVDAITAT-EGEKAIAAAEYDLYLVSPQTKMY------FKQFEEAGAKVGKPVVQIPPQ 84 (104)
T ss_pred HHHHHHHHHCCCc---eEEEEecHH-HHHHhhccCCCCEEEEChHHHHH------HHHHHHHhhhcCCCEEEeCHH
Confidence 4456666666643 333333333 45555555689999998542211 123355666668999998753
No 119
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=69.14 E-value=31 Score=24.59 Aligned_cols=53 Identities=9% Similarity=0.166 Sum_probs=37.4
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
.....|.+.+.+.+.|.|.+|....-... ..-.+.+.+-.++..||++.|...
T Consensus 28 ~~~~ei~~~~~~~GTDaImIGGS~gvt~~--~~~~~v~~ik~~~~lPvilfP~~~ 80 (240)
T COG1646 28 EEADEIAEAAAEAGTDAIMIGGSDGVTEE--NVDNVVEAIKERTDLPVILFPGSP 80 (240)
T ss_pred cccHHHHHHHHHcCCCEEEECCcccccHH--HHHHHHHHHHhhcCCCEEEecCCh
Confidence 45678999999999999999965422211 113455556658899999998753
No 120
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=69.01 E-value=8.7 Score=29.36 Aligned_cols=7 Identities=29% Similarity=0.391 Sum_probs=3.4
Q ss_pred EEEecCC
Q 031355 44 IVHARPS 50 (161)
Q Consensus 44 ~l~v~~~ 50 (161)
++|+.+.
T Consensus 3 ilHtSD~ 9 (390)
T COG0420 3 ILHTSDW 9 (390)
T ss_pred eEEeccc
Confidence 4555444
No 121
>PRK06801 hypothetical protein; Provisional
Probab=68.86 E-value=18 Score=26.67 Aligned_cols=57 Identities=11% Similarity=0.068 Sum_probs=43.1
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCCCcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~~pvlvv 154 (161)
+-+..-.-...+++.|++.+.-+|+..+.+.....+ ..+......+..++..||.+=
T Consensus 23 fn~~n~e~~~avi~AAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~a~~~~vpV~lH 80 (286)
T PRK06801 23 FNVLDSHFLRALFAAAKQERSPFIINIAEVHFKYISLESLVEAVKFEAARHDIPVVLN 80 (286)
T ss_pred EeeCCHHHHHHHHHHHHHHCCCEEEEeCcchhhcCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 333444789999999999999999998876543333 346778888999999997653
No 122
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=68.81 E-value=57 Score=25.87 Aligned_cols=88 Identities=8% Similarity=0.029 Sum_probs=57.1
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccE
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDF 96 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 96 (161)
-.+..+|..|+..+. .+|..++|+++..... ...........-+.+..+.+.+.+.|..
T Consensus 14 l~DN~aL~~A~~~~~--------~~vlpvyv~dp~~~~~-----------~~~~~~r~~Fl~esL~~L~~~L~~~g~~-- 72 (472)
T PRK10674 14 LHDNLALAAACRDPS--------ARVLALFIATPAQWAA-----------HDMAPRQAAFINAQLNALQIALAEKGIP-- 72 (472)
T ss_pred cchHHHHHHHHhCCC--------CCEEEEEEECchhhcc-----------CCCCHHHHHHHHHHHHHHHHHHHHcCCc--
Confidence 356667776654321 1689999988742210 0012344455666777777777777643
Q ss_pred EEEEEc----CChHhHHHHHHHhcCCCEEEEecC
Q 031355 97 VVEVVE----GDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 97 ~~~v~~----g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
..+.. |++.+.|.+.+++.+++-|+....
T Consensus 73 -L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 73 -LLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred -eEEEecCCcCCHHHHHHHHHHHcCCCEEEEecc
Confidence 34554 579999999999999999998643
No 123
>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=68.76 E-value=19 Score=21.63 Aligned_cols=65 Identities=14% Similarity=0.150 Sum_probs=37.0
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.+.+++.+.+.+.. + .+...+.. ++..... ++|+|+++..=...+. ..++.+...++||.++++.
T Consensus 16 ~~ki~~~~~~~~~~-~--~v~~~~~~-~~~~~~~--~~Diil~~Pqv~~~~~------~i~~~~~~~~~pv~~I~~~ 80 (96)
T cd05564 16 VKKMKKAAEKRGID-A--EIEAVPES-ELEEYID--DADVVLLGPQVRYMLD------EVKKKAAEYGIPVAVIDMM 80 (96)
T ss_pred HHHHHHHHHHCCCc-e--EEEEecHH-HHHHhcC--CCCEEEEChhHHHHHH------HHHHHhccCCCcEEEcChH
Confidence 34666677766643 3 33343333 2334444 8999999855332221 2233445668999999864
No 124
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=68.70 E-value=57 Score=25.88 Aligned_cols=88 Identities=13% Similarity=0.069 Sum_probs=57.8
Q ss_pred CChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCc
Q 031355 15 DSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVH 94 (161)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 94 (161)
.--.+..+|.+|+.-... -+.++++.++.... ........-....+..+++.+...|
T Consensus 12 LR~~DN~aL~~A~~~~~~--------~~~~vfi~~~~~~~-------------~~~~~~~~Fl~~sL~~L~~~L~~~g-- 68 (461)
T COG0415 12 LRLTDNAALAAACQSGQP--------VIIAVFILDPEQLG-------------HASPRHAAFLLQSLQALQQSLAELG-- 68 (461)
T ss_pred cccCChHHHHHHHhcCCC--------ceEEEEEechhhcc-------------ccCHHHHHHHHHHHHHHHHHHHHcC--
Confidence 334567778877776553 23666676654321 1113334455556667777776666
Q ss_pred cEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 95 DFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 95 ~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
+...+..|++.+.|.+++++.+++-|+-...
T Consensus 69 -i~L~v~~~~~~~~l~~~~~~~~~~~v~~n~~ 99 (461)
T COG0415 69 -IPLLVREGDPEQVLPELAKQLAATTVFWNRD 99 (461)
T ss_pred -CceEEEeCCHHHHHHHHHHHhCcceEEeeee
Confidence 4577889999999999999999887777644
No 125
>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=68.67 E-value=6.4 Score=29.15 Aligned_cols=51 Identities=20% Similarity=0.263 Sum_probs=31.7
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCC-CCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 104 DARNILCEAVEKHHASILVVGSHG-YGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~-~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.+..+.++..+ .+|+||+|-.. .+.+...+.-.-..+.++.+++|++.|.+
T Consensus 172 ~~~p~~l~AI~--~AD~IiigPgs~~TSI~P~L~v~gi~~Ai~~s~a~kV~V~n 223 (300)
T PF01933_consen 172 KANPEALEAIE--EADLIIIGPGSLYTSIIPNLLVPGIREAIRESKAPKVYVSN 223 (300)
T ss_dssp -B-HHHHHHHH--H-SEEEE-SS-CCCCCHHHHTSHHHHHHHHHSSSEEEEE-S
T ss_pred CCCHHHHHHHH--hCCEEEEcCCCchhhhcccccchhHHHHHHhCCCCEEEEcC
Confidence 46788888888 89999999654 23333333334455677777899998865
No 126
>PRK12569 hypothetical protein; Provisional
Probab=68.45 E-value=42 Score=24.17 Aligned_cols=95 Identities=13% Similarity=0.129 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccEEE
Q 031355 19 STYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDFVV 98 (161)
Q Consensus 19 s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 98 (161)
+...++..+++|+.. | ..| .-|..-+ ...+++ +.......++........+..+...+...|.. +.+
T Consensus 45 Dp~~M~~tv~lA~~~-~----V~I-GAHPsyP-----D~~gFG-Rr~m~~s~~el~~~v~yQigaL~~~~~~~g~~-l~h 111 (245)
T PRK12569 45 DPNIMRRTVELAKAH-G----VGI-GAHPGFR-----DLVGFG-RRHINASPQELVNDVLYQLGALREFARAHGVR-LQH 111 (245)
T ss_pred CHHHHHHHHHHHHHc-C----CEe-ccCCCCC-----cCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCe-eEE
Confidence 456788889999985 6 222 2232211 222333 22233445666666777777778888887764 666
Q ss_pred EEEcC----------ChHhHHHHHHHhcCCCEEEEecC
Q 031355 99 EVVEG----------DARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 99 ~v~~g----------~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
.--+| ..++.|++.+++.+.+|++++..
T Consensus 112 VKPHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~ 149 (245)
T PRK12569 112 VKPHGALYMHAARDEALARLLVEALARLDPLLILYCMD 149 (245)
T ss_pred ecCCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecC
Confidence 55554 34788999999999999998854
No 127
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=68.10 E-value=18 Score=26.61 Aligned_cols=57 Identities=12% Similarity=0.160 Sum_probs=41.3
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCCCcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~~pvlvv 154 (161)
+-+..-.-...+++.|++.+..+|+..+.+.....+ -.+......+..++++||.+=
T Consensus 23 fNv~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~~~~~~~~~~~A~~~~VPValH 80 (284)
T PRK12857 23 FNCNNMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGIEYISAMVRTAAEKASVPVALH 80 (284)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEechhHhhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 333444788999999999999999998775432221 234566778888999998763
No 128
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=68.09 E-value=21 Score=26.16 Aligned_cols=56 Identities=14% Similarity=0.077 Sum_probs=41.2
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCCCcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAHCTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~~pvlv 153 (161)
+-+..-.-...+++.|++.+.-+|+..+.+.-...+ .+++.......+++.+||.+
T Consensus 23 fn~~n~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~~~~~~~~~~~a~~~~vpv~l 79 (281)
T PRK06806 23 FSVANMEMVMGAIKAAEELNSPIILQIAEVRLNHSPLHLIGPLMVAAAKQAKVPVAV 79 (281)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhccCChHHHHHHHHHHHHHCCCCEEE
Confidence 333444789999999999999999998775432222 24567777888899999765
No 129
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=67.62 E-value=18 Score=26.64 Aligned_cols=57 Identities=7% Similarity=0.197 Sum_probs=41.4
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCCCcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~~pvlvv 154 (161)
+-+..-.-..++++.|++.+..+|+..+.+.-...+ -.+......+..++++||.+=
T Consensus 23 fN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~a~~~~VPValH 80 (284)
T PRK12737 23 FNIHNLETLQVVVETAAELRSPVILAGTPGTFSYAGTDYIVAIAEVAARKYNIPLALH 80 (284)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEcCccHHhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 334444789999999999999999987765322211 235667788888999998753
No 130
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=66.83 E-value=6.7 Score=25.83 Aligned_cols=49 Identities=18% Similarity=0.226 Sum_probs=20.0
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-------CCCcEEEEcCC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-------AHCTVMIVKRP 157 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-------~~~pvlvv~~~ 157 (161)
.+.|.++.+++++|+|++|..+.... .+.- ....++.. .++||.+|.+.
T Consensus 52 ~~~l~~~i~~~kP~vI~v~g~~~~s~--~l~~-~v~~~v~~~~~~~~~~~i~V~~v~~~ 107 (150)
T PF14639_consen 52 MERLKKFIEKHKPDVIAVGGNSRESR--KLYD-DVRDIVEELDEDEQMPPIPVVIVDDE 107 (150)
T ss_dssp HHHHHHHHHHH--SEEEE--SSTHHH--HHHH-HHHHHHHHTTB-TTS-B--EEE---T
T ss_pred HHHHHHHHHHcCCeEEEEcCCChhHH--HHHH-HHHHHHHHhhhcccCCCceEEEECcH
Confidence 45666777788888888854432211 1211 22223322 36888888654
No 131
>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=66.37 E-value=64 Score=25.54 Aligned_cols=72 Identities=10% Similarity=-0.014 Sum_probs=47.0
Q ss_pred EEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccEEEEEE-cCChHhHHHHHHHhcCCC
Q 031355 41 KLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDFVVEVV-EGDARNILCEAVEKHHAS 119 (161)
Q Consensus 41 ~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~d 119 (161)
++..|+|+++...... ...........+.+..+.+.+...|.. ..+. .|++.+.|.+.+++.+++
T Consensus 24 ~vlpvyi~dp~~~~~~-----------~~~~~~~~fl~~sL~~L~~~L~~~G~~---L~v~~~g~~~~~l~~l~~~~~i~ 89 (475)
T TIGR02766 24 PVIPVFVWAPEEEGQY-----------YPGRVSRWWLKQSLAHLDQSLRSLGTC---LVTIRSTDTVAALLDCVRSTGAT 89 (475)
T ss_pred CEEEEEEechHHhccc-----------cccHHHHHHHHHHHHHHHHHHHHcCCc---eEEEeCCCHHHHHHHHHHHcCCC
Confidence 6888999876432100 001222335566677777777776643 3333 589999999999999999
Q ss_pred EEEEecC
Q 031355 120 ILVVGSH 126 (161)
Q Consensus 120 liVlg~~ 126 (161)
-|..-..
T Consensus 90 ~v~~~~~ 96 (475)
T TIGR02766 90 RLFFNHL 96 (475)
T ss_pred EEEEecc
Confidence 9887654
No 132
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=66.21 E-value=41 Score=24.40 Aligned_cols=51 Identities=18% Similarity=0.047 Sum_probs=33.8
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.-++.+.|++.++|-+++..........--+-..-+.|...+++||++...
T Consensus 84 ~~~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~~~~~~ia~~~~~pi~lYn~ 134 (284)
T cd00950 84 AIELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKAIAEATDLPVILYNV 134 (284)
T ss_pred HHHHHHHHHHcCCCEEEEcccccCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 445568899999999999866432221111224556677788999998743
No 133
>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=65.21 E-value=23 Score=20.11 Aligned_cols=29 Identities=14% Similarity=0.231 Sum_probs=24.0
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCC
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANST 35 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~ 35 (161)
.++|+++.|.+....++.+......... |
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~-g 71 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKL-G 71 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHC-C
Confidence 4789999999999988888877777764 5
No 134
>COG1036 Archaeal flavoproteins [Energy production and conversion]
Probab=64.78 E-value=6 Score=26.46 Aligned_cols=50 Identities=14% Similarity=0.220 Sum_probs=32.0
Q ss_pred HHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhh-------cCCCcEEEEcCCCC
Q 031355 109 LCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAH-------HAHCTVMIVKRPKT 159 (161)
Q Consensus 109 I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~-------~~~~pvlvv~~~~~ 159 (161)
|....+-.++|++++..-..+...+...| .++.|+. +...||+|+|...+
T Consensus 80 i~GrlqlGkYD~llvaPaTsNTvAKIa~G-IADtLVTNAVaqa~Kg~VPvyivP~D~k 136 (187)
T COG1036 80 IAGRLQLGKYDFLLVAPATSNTVAKIAYG-IADTLVTNAVAQAGKGKVPVYIVPVDYK 136 (187)
T ss_pred eecceecccccEEEEcccccchHHHHHhh-hHHHHHHHHHHHhcCCCCcEEEeccccc
Confidence 34444456899999986655555544444 4444443 34799999997643
No 135
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=64.69 E-value=30 Score=26.29 Aligned_cols=56 Identities=21% Similarity=0.210 Sum_probs=40.2
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc-ee---ee------------ccchHHHHhhcCCCcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAI-KR---AV------------LGSVSDYCAHHAHCTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~-~~---~~------------~gs~~~~ll~~~~~pvlv 153 (161)
+-+..-.-...|++.|++.+..+|+..+.+.... .+ .. +......+..++.+||.+
T Consensus 26 fNv~n~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~VPVal 97 (350)
T PRK09197 26 VNVVGTDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGVKDDGQGAAVLGAIAGAKHVHEVAEHYGVPVIL 97 (350)
T ss_pred EEeCCHHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCCCCEEE
Confidence 3344447899999999999999999987753322 11 11 446677888899999765
No 136
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=64.58 E-value=16 Score=20.92 Aligned_cols=28 Identities=11% Similarity=0.220 Sum_probs=22.0
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhcc
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFAN 33 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~ 33 (161)
.++|++++|++...+.+..+........
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~ 73 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPL 73 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG--
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhh
Confidence 4789999999999999988888866543
No 137
>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=64.45 E-value=31 Score=21.26 Aligned_cols=41 Identities=10% Similarity=-0.005 Sum_probs=28.4
Q ss_pred HHHhhhcCCccEEEEEE-cCChHhHHHHHHHhcCCCEEEEecCCC
Q 031355 85 KEICSSKSVHDFVVEVV-EGDARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
...++..|.. .... ...+.+.+++.+.+.++|+|.+.....
T Consensus 20 ~~~l~~~G~~---V~~lg~~~~~~~l~~~~~~~~pdvV~iS~~~~ 61 (119)
T cd02067 20 ARALRDAGFE---VIDLGVDVPPEEIVEAAKEEDADAIGLSGLLT 61 (119)
T ss_pred HHHHHHCCCE---EEECCCCCCHHHHHHHHHHcCCCEEEEecccc
Confidence 4455555643 3222 235888999999999999999987633
No 138
>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=64.44 E-value=23 Score=26.06 Aligned_cols=57 Identities=5% Similarity=0.111 Sum_probs=42.1
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCCCcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~~pvlvv 154 (161)
+-+..-.-..++++.|++.+.-+|+..+.+.-...+ ..+......+..++.+||.+=
T Consensus 21 fN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValH 78 (282)
T TIGR01858 21 FNIHNLETIQAVVETAAEMRSPVILAGTPGTFKHAGTEYIVALCSAASTTYNMPLALH 78 (282)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEeCccHHhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 334444789999999999999999998775432222 235678888999999998763
No 139
>PHA02031 putative DnaG-like primase
Probab=63.74 E-value=49 Score=24.11 Aligned_cols=37 Identities=3% Similarity=-0.006 Sum_probs=30.9
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEe
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHA 47 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v 47 (161)
.++|++++|++....+|...|+.+.... + ..+.++.+
T Consensus 206 ~~~Vil~fDgD~AG~~Aa~ra~~~l~~~-~----~~v~vv~l 242 (266)
T PHA02031 206 CPRVLIFLDGDPAGVDGSAGAMRRLRPL-L----IEGQVIIT 242 (266)
T ss_pred CCCEEEEeCCCHHHHHHHHHHHHHHHHc-C----CceEEEEC
Confidence 4789999999999999999999998874 6 56666655
No 140
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=63.48 E-value=76 Score=25.41 Aligned_cols=42 Identities=17% Similarity=0.243 Sum_probs=25.9
Q ss_pred cCCCEEEEecCC---CCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 116 HHASILVVGSHG---YGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 116 ~~~dliVlg~~~---~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
..++-|++|.+. .+.+-...-.+...=+.++.++|||||=+.
T Consensus 426 ~evtkvfLGahailsNG~vysR~GTa~valvAna~nVPVlVCCE~ 470 (556)
T KOG1467|consen 426 LEVTKVFLGAHAILSNGAVYSRVGTACVALVANAFNVPVLVCCEA 470 (556)
T ss_pred HhcceeeechhhhhcCcchhhhcchHHHHHHhcccCCCEEEEech
Confidence 378899999985 122222222233344566789999999654
No 141
>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=62.74 E-value=19 Score=27.94 Aligned_cols=12 Identities=8% Similarity=0.111 Sum_probs=9.3
Q ss_pred CCCcEEEEcCCC
Q 031355 147 AHCTVMIVKRPK 158 (161)
Q Consensus 147 ~~~pvlvv~~~~ 158 (161)
..+||++++...
T Consensus 109 ~~iPVf~I~GNH 120 (405)
T TIGR00583 109 VAIPVFSIHGNH 120 (405)
T ss_pred CCCCEEEEcCCC
Confidence 579999997653
No 142
>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=62.08 E-value=21 Score=26.14 Aligned_cols=57 Identities=16% Similarity=0.162 Sum_probs=42.0
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCCCcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~~pvlvv 154 (161)
+-+..-.-...+++.|++.+..+|+--+.+.-...+ ..+......+..++.+||.+=
T Consensus 18 fN~~n~e~~~avi~AAe~~~sPvIi~~~~~~~~~~~~~~~~~~~~~~a~~~~VPV~lH 75 (276)
T cd00947 18 FNINNLETLKAILEAAEETRSPVILQISEGAIKYAGLELLVAMVKAAAERASVPVALH 75 (276)
T ss_pred EeeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 334445789999999999999999988765433222 245677778888899998764
No 143
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=61.79 E-value=27 Score=25.72 Aligned_cols=55 Identities=15% Similarity=0.149 Sum_probs=40.9
Q ss_pred EEcCChHhHHHHHHHhcCCCEEEEecCCCCccee--eeccchHHHHhhcCCCcEEEE
Q 031355 100 VVEGDARNILCEAVEKHHASILVVGSHGYGAIKR--AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 100 v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~--~~~gs~~~~ll~~~~~pvlvv 154 (161)
+..-.-.+.|++.|++.+..+||=.+.+.-.... ..+-.....++.+.++||.+=
T Consensus 25 ~~nlE~~~AileaA~e~~sPvIiq~S~g~~~y~gg~~~~~~~v~~~a~~~~vPV~lH 81 (286)
T COG0191 25 INNLETLQAILEAAEEEKSPVIIQFSEGAAKYAGGADSLAHMVKALAEKYGVPVALH 81 (286)
T ss_pred ecCHHHHHHHHHHHHHhCCCEEEEecccHHHHhchHHHHHHHHHHHHHHCCCCEEEE
Confidence 3334788999999999999999999887543332 334456677888889999764
No 144
>PF09043 Lys-AminoMut_A: D-Lysine 5,6-aminomutase alpha subunit; InterPro: IPR015130 This domain is found in proteins involved in the 1,2 rearrangement of the terminal amino group of DL-lysine and of L-beta-lysine, using adenosylcobalamin (AdoCbl) and pyridoxal-5'-phosphate as cofactors. The structure is predominantly a PLP-binding TIM barrel domain, with several additional alpha-helices and beta-strands at the N and C termini. These helices and strands form an intertwined accessory clamp structure that wraps around the sides of the TIM barrel and extends up toward the Ado ligand of the Cbl cofactor, providing most of the interactions observed between the protein and the Ado ligand of the Cbl, suggesting that its role is mainly in stabilising AdoCbl in the precatalytic resting state. ; PDB: 3KP1_A 3KOW_A 3KOZ_A 3KOY_B 3KOX_A 3KP0_C 1XRS_A.
Probab=61.73 E-value=66 Score=25.31 Aligned_cols=53 Identities=17% Similarity=0.192 Sum_probs=28.7
Q ss_pred hhcCCccEEEEEEcCChHhHHHHH--HHhcCCCEEEEecC-CCCcceeeeccchHH
Q 031355 89 SSKSVHDFVVEVVEGDARNILCEA--VEKHHASILVVGSH-GYGAIKRAVLGSVSD 141 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~~~~I~~~--a~~~~~dliVlg~~-~~~~~~~~~~gs~~~ 141 (161)
...+.+-+.+.|..|+..+.|.+. |.++++|.|.+-+. +.+-+.....|.+++
T Consensus 142 g~~p~P~iy~iVAtG~iyeDi~qaraAA~~GAD~IaVIRttgQSllDyvp~GaT~e 197 (509)
T PF09043_consen 142 GPGPKPVIYVIVATGNIYEDIRQARAAARQGADIIAVIRTTGQSLLDYVPEGATTE 197 (509)
T ss_dssp --ECSSEEEEEE-SS-HHHHHHHHHHHHHTT-SEEEE-BSTTGGG-SS-B-S--S-
T ss_pred CCCCCCeEEEEEecCchHHHHHHHHHHHHcCCCEEEEecccchhhhccccCCCCCC
Confidence 333444467778889999998854 89999999877543 445555455554443
No 145
>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=61.52 E-value=71 Score=24.44 Aligned_cols=35 Identities=14% Similarity=0.099 Sum_probs=27.1
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
-+++||.+++.-.|.-++.++.. . | .++.++|+..
T Consensus 172 ~~kvlvllSGGiDS~vaa~ll~k----r-G----~~V~av~~~~ 206 (371)
T TIGR00342 172 QGKVLALLSGGIDSPVAAFMMMK----R-G----CRVVAVHFFN 206 (371)
T ss_pred CCeEEEEecCCchHHHHHHHHHH----c-C----CeEEEEEEeC
Confidence 47899999999888887766533 3 5 6899999963
No 146
>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=61.19 E-value=18 Score=25.89 Aligned_cols=46 Identities=7% Similarity=0.094 Sum_probs=29.5
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 107 NILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
+...+..++.+.|++|+.+....... ..-++.++....+|.+|+-.
T Consensus 49 ~~~~~~~~~~~pdf~I~isPN~~~PG----P~~ARE~l~~~~iP~IvI~D 94 (276)
T PF01993_consen 49 EVVTKMLKEWDPDFVIVISPNAAAPG----PTKAREMLSAKGIPCIVISD 94 (276)
T ss_dssp HHHHHHHHHH--SEEEEE-S-TTSHH----HHHHHHHHHHSSS-EEEEEE
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCCC----cHHHHHHHHhCCCCEEEEcC
Confidence 34445567899999999988655332 24577899899999999854
No 147
>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=60.71 E-value=19 Score=25.61 Aligned_cols=51 Identities=14% Similarity=0.151 Sum_probs=32.2
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
...+.+++.+.+.+.|.|++|... .+..+..+...+-+..+.||++.|...
T Consensus 19 ~~~~~~~~~~~~~gtDai~VGGS~----~~~~~d~vv~~ik~~~~lPvilfPg~~ 69 (230)
T PF01884_consen 19 PNPEEALEAACESGTDAIIVGGSD----TGVTLDNVVALIKRVTDLPVILFPGSP 69 (230)
T ss_dssp S-HHHHHHHHHCTT-SEEEEE-ST----HCHHHHHHHHHHHHHSSS-EEEETSTC
T ss_pred CCcHHHHHHHHhcCCCEEEECCCC----CccchHHHHHHHHhcCCCCEEEeCCCh
Confidence 355677777788899999999765 112224455555556899999998653
No 148
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=60.58 E-value=18 Score=27.12 Aligned_cols=50 Identities=18% Similarity=0.301 Sum_probs=34.9
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCC-Ccc-eeeeccchHHHHhhcCCCcEEEEcC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGY-GAI-KRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~-~~~-~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.+..+.++..+ ++|+||+|-.+. +.+ .-+++....+ .++.+..|++.+.+
T Consensus 178 ~a~~eaveAI~--~AD~IviGPgSl~TSIlP~Lllp~I~e-aLr~~~ap~i~v~n 229 (323)
T COG0391 178 SAAPEAVEAIK--EADLIVIGPGSLFTSILPILLLPGIAE-ALRETVAPIVYVCN 229 (323)
T ss_pred CCCHHHHHHHH--hCCEEEEcCCccHhhhchhhchhHHHH-HHHhCCCCEEEecc
Confidence 56788889999 999999996542 333 3345555655 44558888887754
No 149
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=60.53 E-value=69 Score=23.99 Aligned_cols=40 Identities=13% Similarity=0.141 Sum_probs=31.3
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
+.++++++.+...|.-.+..+...+... + .++.++||-..
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~-~----~~~pvl~VDTG 76 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFRPT-R----PPFPLLHVDTT 76 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhccc-C----CCeeEEEeCCC
Confidence 5678899999999999999998876543 3 47889998443
No 150
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=60.43 E-value=14 Score=24.20 Aligned_cols=46 Identities=13% Similarity=0.052 Sum_probs=25.4
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
.+.+.+.++++++|.|++.-+.... . .+... -..+++.+|.|.++|
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~~~~-~--~i~~i-i~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPWSEE-E--QIKRI-IEELENHGVRVRVVP 175 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TTS-H-H--HHHHH-HHHHHTTT-EEEE--
T ss_pred HHHHHHHHHhCCCCEEEEEcCccCH-H--HHHHH-HHHHHhCCCEEEEeC
Confidence 5789999999999999998654331 1 11112 234557789999987
No 151
>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=59.59 E-value=28 Score=22.78 Aligned_cols=40 Identities=13% Similarity=0.032 Sum_probs=20.6
Q ss_pred cCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 116 HHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 116 ~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.++|++|+-..+.. ......+.....++....+||++|-.
T Consensus 98 ~~~D~viid~~g~~-~~~~~~~~~~~dl~~~~~~~vilV~~ 137 (166)
T TIGR00347 98 QKYDFVLVEGAGGL-CVPITEEYTTADLIKLLQLPVILVVR 137 (166)
T ss_pred hcCCEEEEEcCCcc-ccCCCCCCcHHHHHHHhCCCEEEEEC
Confidence 46777777655421 11111222333466666777777643
No 152
>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=59.37 E-value=62 Score=23.40 Aligned_cols=78 Identities=15% Similarity=0.103 Sum_probs=44.1
Q ss_pred HHHHHHHHHHhhhcCCccEEEEEEcCCh--HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 78 ARVVEEAKEICSSKSVHDFVVEVVEGDA--RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 78 ~~~l~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
.+.++...+... +..++-..+...+. .-.+.+.+++.++|-+++..+.......--+-..-..|...+++|+++..
T Consensus 53 ~~l~~~~~~~~~--~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~~~~pi~iYn 130 (281)
T cd00408 53 KEVIEAVVEAVA--GRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADASDLPVILYN 130 (281)
T ss_pred HHHHHHHHHHhC--CCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEE
Confidence 334444444432 22334344433333 45566789999999999987643332211122344567777899999875
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
.+
T Consensus 131 ~P 132 (281)
T cd00408 131 IP 132 (281)
T ss_pred Cc
Confidence 43
No 153
>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=59.30 E-value=68 Score=23.50 Aligned_cols=50 Identities=12% Similarity=0.023 Sum_probs=32.4
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
.-++.+.+++.++|-+++..........--+-..-..|...+++||++.-
T Consensus 83 ~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~~~pi~lYn 132 (289)
T cd00951 83 AIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKSTDLGVIVYN 132 (289)
T ss_pred HHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcCCCCEEEEe
Confidence 44456889999999999976543222111112334557778899999874
No 154
>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=59.30 E-value=69 Score=23.54 Aligned_cols=84 Identities=7% Similarity=0.117 Sum_probs=49.4
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHH
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEA 84 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 84 (161)
...||.|-+.++.....++-.+..--.. . +++.++-.-.+ .+
T Consensus 83 ~~~ki~vl~Sg~g~nl~~l~~~~~~g~l--~----~~i~~visn~~--------------------------------~~ 124 (280)
T TIGR00655 83 KLKRVAILVSKEDHCLGDLLWRWYSGEL--D----AEIALVISNHE--------------------------------DL 124 (280)
T ss_pred CCcEEEEEEcCCChhHHHHHHHHHcCCC--C----cEEEEEEEcCh--------------------------------hH
Confidence 4568999999888888887776554332 2 46555533221 11
Q ss_pred HHHhhhcCCccEEEEEE-cC---ChHhHHHHHHHhcCCCEEEEecCC
Q 031355 85 KEICSSKSVHDFVVEVV-EG---DARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~-~g---~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
..++++.|.. +...-. .. .....+.+..++.++|++|+....
T Consensus 125 ~~~A~~~gIp-~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagym 170 (280)
T TIGR00655 125 RSLVERFGIP-FHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKYM 170 (280)
T ss_pred HHHHHHhCCC-EEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCch
Confidence 1124444543 322211 11 234578888999999999998653
No 155
>COG0069 GltB Glutamate synthase domain 2 [Amino acid transport and metabolism]
Probab=59.17 E-value=69 Score=25.60 Aligned_cols=36 Identities=14% Similarity=0.234 Sum_probs=28.6
Q ss_pred CCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 92 SVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 92 ~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
+...+..++..+.....|..-+.+-++|+|++....
T Consensus 302 ~~~~I~VKlva~~~v~~iaagvakA~AD~I~IdG~~ 337 (485)
T COG0069 302 PWAKISVKLVAEHGVGTIAAGVAKAGADVITIDGAD 337 (485)
T ss_pred CCCeEEEEEecccchHHHHhhhhhccCCEEEEcCCC
Confidence 344488888888888888887778899999996553
No 156
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=58.16 E-value=59 Score=22.42 Aligned_cols=38 Identities=5% Similarity=-0.065 Sum_probs=28.5
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCC
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSP 51 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~ 51 (161)
|.+...........++.+++-++.. | +++.++++.+..
T Consensus 6 I~gs~r~~G~t~~l~~~~~~g~~~~-G----~E~~~i~v~~~~ 43 (207)
T COG0655 6 INGSPRSNGNTAKLAEAVLEGAEEA-G----AEVEIIRLPEKN 43 (207)
T ss_pred EEecCCCCCcHHHHHHHHHHHHHHc-C----CEEEEEEecCCC
Confidence 3333333556788899999999986 7 899999997663
No 157
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=57.96 E-value=83 Score=24.10 Aligned_cols=34 Identities=21% Similarity=0.269 Sum_probs=24.6
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEec
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHAR 48 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~ 48 (161)
.++|+|++++.-.|..++.... .. | .++..+|+.
T Consensus 5 ~~kVlVa~SGGvDSsv~a~lL~----~~-G----~eV~av~~~ 38 (362)
T PRK14664 5 KKRVLVGMSGGIDSTATCLMLQ----EQ-G----YEIVGVTMR 38 (362)
T ss_pred CCEEEEEEeCCHHHHHHHHHHH----Hc-C----CcEEEEEec
Confidence 3689999999988877665432 23 5 578888883
No 158
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=57.95 E-value=39 Score=21.09 Aligned_cols=39 Identities=21% Similarity=0.336 Sum_probs=30.2
Q ss_pred cCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 116 HHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 116 ~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.+++.||+|+...+. +-++.-+....++-.|-|.+.|-+
T Consensus 60 e~~E~ivvGTG~~G~---l~l~~ea~e~~r~k~~~vi~~pT~ 98 (121)
T COG1504 60 EGPEVIVVGTGQSGM---LELSEEAREFFRKKGCEVIELPTP 98 (121)
T ss_pred cCCcEEEEecCceeE---EEeCHHHHHHHHhcCCeEEEeCCH
Confidence 599999999765543 345777888899999999988753
No 159
>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=57.94 E-value=39 Score=20.24 Aligned_cols=33 Identities=12% Similarity=0.217 Sum_probs=24.0
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
|+|++.+...|...+..+... + .++.++|+...
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~-----~----~~~~~~~~~~~ 33 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKL-----G----YQVIAVTVDHG 33 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHh-----C----CCEEEEEEcCC
Confidence 578999998888877776553 2 26888888554
No 160
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=57.20 E-value=74 Score=23.25 Aligned_cols=76 Identities=12% Similarity=0.023 Sum_probs=43.2
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEcCCh--HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVEGDA--RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
+.++.+.+... +..++-..+...+. .-+..+.+++.++|-+++..........--+-..-..|...++.||++...
T Consensus 58 ~~~~~~~~~~~--~~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~~~pv~lYn~ 135 (292)
T PRK03170 58 ELIRAVVEAVN--GRVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEATDLPIILYNV 135 (292)
T ss_pred HHHHHHHHHhC--CCCcEEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 33444444332 32334444444444 444557899999999999766432221111223445677778999998853
No 161
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=57.16 E-value=48 Score=23.95 Aligned_cols=54 Identities=17% Similarity=0.222 Sum_probs=32.0
Q ss_pred EEEEcCChHhHH-HHHHHhcCCCEEEEecCCCCcceeeeccchHHH--HhhcCCCcEEEEcCCC
Q 031355 98 VEVVEGDARNIL-CEAVEKHHASILVVGSHGYGAIKRAVLGSVSDY--CAHHAHCTVMIVKRPK 158 (161)
Q Consensus 98 ~~v~~g~~~~~I-~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~--ll~~~~~pvlvv~~~~ 158 (161)
+....|.-..++ ....+++++|.||.=-.|.. |.+.++ ......+||+++.++.
T Consensus 177 iia~~gPfs~e~n~al~~~~~i~~lVtK~SG~~-------Gg~~eKi~AA~~lgi~vivI~RP~ 233 (256)
T TIGR00715 177 IIAMRGPFSEELEKALLREYRIDAVVTKASGEQ-------GGELEKVKAAEALGINVIRIARPQ 233 (256)
T ss_pred EEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCCc-------cchHHHHHHHHHcCCcEEEEeCCC
Confidence 344445322333 35588889999987544432 222333 5567799999997653
No 162
>PRK08349 hypothetical protein; Validated
Probab=56.79 E-value=61 Score=22.16 Aligned_cols=34 Identities=21% Similarity=0.171 Sum_probs=25.6
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
.++++.+++...|..++.++.. . | .++..+|+..
T Consensus 1 ~~~vvllSGG~DS~v~~~~l~~----~-g----~~v~av~~d~ 34 (198)
T PRK08349 1 MKAVALLSSGIDSPVAIYLMLR----R-G----VEVYPVHFRQ 34 (198)
T ss_pred CcEEEEccCChhHHHHHHHHHH----c-C----CeEEEEEEeC
Confidence 3689999999888888754442 3 5 6899999964
No 163
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=56.79 E-value=68 Score=22.69 Aligned_cols=58 Identities=16% Similarity=0.064 Sum_probs=39.8
Q ss_pred HHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHh
Q 031355 84 AKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCA 144 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll 144 (161)
..+..++.|.. .-..+.-+.+.+.+..+.. .+|+|.+-+-..++-.+.|..+..+++-
T Consensus 102 ~l~~Ir~~g~k-~GlalnP~T~~~~i~~~l~--~vD~VlvMtV~PGf~GQ~fi~~~l~KI~ 159 (223)
T PRK08745 102 TIQLIKSHGCQ-AGLVLNPATPVDILDWVLP--ELDLVLVMSVNPGFGGQAFIPSALDKLR 159 (223)
T ss_pred HHHHHHHCCCc-eeEEeCCCCCHHHHHHHHh--hcCEEEEEEECCCCCCccccHHHHHHHH
Confidence 33444555543 5555566789999999999 9998888777666666667666666554
No 164
>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=56.60 E-value=60 Score=22.01 Aligned_cols=22 Identities=23% Similarity=0.289 Sum_probs=18.5
Q ss_pred HhHHHHHHHhcCCCEEEEecCC
Q 031355 106 RNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~ 127 (161)
.+.|++.+.+.++|+|++|-..
T Consensus 89 ~~~i~~~I~~s~~dil~VglG~ 110 (177)
T TIGR00696 89 RKAALAKIARSGAGIVFVGLGC 110 (177)
T ss_pred HHHHHHHHHHcCCCEEEEEcCC
Confidence 4678999999999999998653
No 165
>TIGR01520 FruBisAldo_II_A fructose-bisphosphate aldolase, class II, yeast/E. coli subtype. This model represents one of two deeply split, architecturally distinct clades of the family that includes class II fructose-bisphosphate aldolases, tagatose-bisphosphate aldolases, and related uncharacterized proteins. This family is well-conserved and includes characterized FBA from Saccharomyces cerevisiae, Escherichia coli, and Corynebacterium glutamicum. Proteins outside the scope of this model may also be designated as class II fructose-bisphosphate aldolases, but are well separated in an alignment-based phylogenetic tree.
Probab=56.33 E-value=56 Score=24.96 Aligned_cols=57 Identities=18% Similarity=0.138 Sum_probs=40.9
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc-ee----e------------eccchHHHHhhcCCCcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAI-KR----A------------VLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~-~~----~------------~~gs~~~~ll~~~~~pvlvv 154 (161)
+-+..-.-..++++.|++.+..+|+..+.+.-.. .+ . .+......+..++.+||.+=
T Consensus 32 fNv~n~e~~~Avi~AAEe~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~v~~~Ae~a~VPValH 105 (357)
T TIGR01520 32 INCTSSSTINAALEAAADVKSPIIIQFSNGGAAFIAGKGVKDEVPQGASILGAIAGAHHVHSIAEHYGVPVVLH 105 (357)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhcCCcccccccchhhhhhhHHHHHHHHHHHHHHCCCCEEEE
Confidence 3344457899999999999999999987754221 11 0 14567778888999998763
No 166
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=55.90 E-value=22 Score=25.48 Aligned_cols=24 Identities=17% Similarity=0.315 Sum_probs=11.8
Q ss_pred HHHHHHHHHHhhhcCCccEEEEEEcCC
Q 031355 78 ARVVEEAKEICSSKSVHDFVVEVVEGD 104 (161)
Q Consensus 78 ~~~l~~~~~~~~~~~~~~~~~~v~~g~ 104 (161)
...++++.+.+.+.. +...+..||
T Consensus 25 ~~~l~~l~~~~~~~~---~D~lli~GD 48 (253)
T TIGR00619 25 KAFLDDLLEFAKAEQ---IDALLVAGD 48 (253)
T ss_pred HHHHHHHHHHHHHcC---CCEEEECCc
Confidence 344555555554432 445556654
No 167
>PRK05920 aromatic acid decarboxylase; Validated
Probab=55.87 E-value=38 Score=23.59 Aligned_cols=36 Identities=14% Similarity=0.269 Sum_probs=28.7
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
+.+||++++.++..+.++++..-.+.+. | ++++++-
T Consensus 2 ~~krIllgITGsiaa~ka~~lvr~L~~~--g----~~V~vi~ 37 (204)
T PRK05920 2 KMKRIVLAITGASGAIYGVRLLECLLAA--D----YEVHLVI 37 (204)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHHC--C----CEEEEEE
Confidence 4588999999999999988888888664 5 5766664
No 168
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=55.85 E-value=81 Score=23.30 Aligned_cols=84 Identities=10% Similarity=0.130 Sum_probs=49.1
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHH
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEA 84 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 84 (161)
...||.|-+.++.....++-.+.+-... + +++.++ +.... .+
T Consensus 92 ~~~kiavl~Sg~g~nl~al~~~~~~~~l--~----~~i~~v--isn~~------------------------------~~ 133 (289)
T PRK13010 92 QRPKVVIMVSKFDHCLNDLLYRWRMGEL--D----MDIVGI--ISNHP------------------------------DL 133 (289)
T ss_pred CCeEEEEEEeCCCccHHHHHHHHHCCCC--C----cEEEEE--EECCh------------------------------hH
Confidence 3457888888887777777777554432 2 455554 22210 11
Q ss_pred HHHhhhcCCccEEEE-EEcC---ChHhHHHHHHHhcCCCEEEEecCC
Q 031355 85 KEICSSKSVHDFVVE-VVEG---DARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~-v~~g---~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
.+.+++.|.. +... .... .....+.+..++.++|++|+....
T Consensus 134 ~~~A~~~gIp-~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagym 179 (289)
T PRK13010 134 QPLAVQHDIP-FHHLPVTPDTKAQQEAQILDLIETSGAELVVLARYM 179 (289)
T ss_pred HHHHHHcCCC-EEEeCCCcccccchHHHHHHHHHHhCCCEEEEehhh
Confidence 2444555554 3221 1111 235678899999999999998653
No 169
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=55.52 E-value=72 Score=22.60 Aligned_cols=90 Identities=17% Similarity=0.176 Sum_probs=51.3
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
++++.+.+...|..|+-+|... . . -+.++++.+.......+..+. .+. ++.+
T Consensus 2 k~~~l~SGGKDS~~al~~a~~~-~---~-----v~~L~t~~~~~~~s~~~H~~~----------------~~~---~~~q 53 (223)
T TIGR00290 2 KVAALISGGKDSCLALYHALKE-H---E-----VISLVNIMPENEESYMFHGVN----------------AHL---TDLQ 53 (223)
T ss_pred cEEEEecCcHHHHHHHHHHHHh-C---e-----eEEEEEEecCCCCcccccccC----------------HHH---HHHH
Confidence 4778999999999999998887 2 3 566777766543221221111 111 2222
Q ss_pred hhhcCCccEEEEEEc---CChHhHHHHHHHhcCCCEEEEecC
Q 031355 88 CSSKSVHDFVVEVVE---GDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~---g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
++..|.+ ....... ++-.+.+.+..++.+++.+|-|.-
T Consensus 54 A~algip-l~~~~~~~~~e~~~e~l~~~l~~~gv~~vv~GdI 94 (223)
T TIGR00290 54 AESIGIP-LIKLYTEGTEEDEVEELKGILHTLDVEAVVFGAI 94 (223)
T ss_pred HHHcCCC-eEEeecCCCccHHHHHHHHHHHHcCCCEEEECCc
Confidence 3333433 2111122 245566666677778888888864
No 170
>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=55.44 E-value=76 Score=22.84 Aligned_cols=60 Identities=10% Similarity=-0.083 Sum_probs=30.4
Q ss_pred HHHHHhhhcCCccEEEEEEcC---ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHh
Q 031355 83 EAKEICSSKSVHDFVVEVVEG---DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCA 144 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g---~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll 144 (161)
.+.+.+.+.|...+.+..... ....++.+... .+|.|+++.-....+.+.+-++-..+++
T Consensus 47 ~~~~~~~~lG~~~v~~l~i~~r~~a~~~~~~~~l~--~ad~I~~~GGnq~~l~~~l~~t~l~~~l 109 (250)
T TIGR02069 47 RYITIFSRLGVKEVKILDVREREDASDENAIALLS--NATGIFFTGGDQLRITSLLGDTPLLDRL 109 (250)
T ss_pred HHHHHHHHcCCceeEEEecCChHHccCHHHHHHHh--hCCEEEEeCCCHHHHHHHHcCCcHHHHH
Confidence 344445555654344444321 12234556666 8888888765544433333344444443
No 171
>PF01645 Glu_synthase: Conserved region in glutamate synthase; InterPro: IPR002932 Ferredoxin-dependent glutamate synthases have been implicated in a number of functions including photorespiration in Arabidopsis where they may also play a role in primary nitrogen assimilation in roots []. This region is expressed as a seperate subunit in the glutamate synthase alpha subunit from archaebacteria, or part of a large multidomain enzyme in other organisms. The aligned region of these proteins contains a putative FMN binding site and Fe-S cluster.; GO: 0015930 glutamate synthase activity, 0016638 oxidoreductase activity, acting on the CH-NH2 group of donors, 0006537 glutamate biosynthetic process, 0055114 oxidation-reduction process; PDB: 1EA0_A 2VDC_E 1OFE_A 1LLW_A 1OFD_A 1LLZ_A 1LM1_A.
Probab=55.04 E-value=61 Score=24.90 Aligned_cols=35 Identities=14% Similarity=0.192 Sum_probs=27.3
Q ss_pred CCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 92 SVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 92 ~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
+..++..++..++..+.+...+.+.++|.|++...
T Consensus 202 ~~~pVgvKl~~~~~~~~~~~~~~~ag~D~ItIDG~ 236 (368)
T PF01645_consen 202 PGKPVGVKLVAGRGVEDIAAGAAKAGADFITIDGA 236 (368)
T ss_dssp TTSEEEEEEE-STTHHHHHHHHHHTT-SEEEEE-T
T ss_pred CCCcEEEEECCCCcHHHHHHhhhhccCCEEEEeCC
Confidence 45669999999999988888888899999999654
No 172
>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=54.82 E-value=50 Score=20.60 Aligned_cols=41 Identities=10% Similarity=0.003 Sum_probs=29.3
Q ss_pred HHHhhhcCCccEEEEEEcC-ChHhHHHHHHHhcCCCEEEEecCCC
Q 031355 85 KEICSSKSVHDFVVEVVEG-DARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
...++..|. ++.-... .|.+.+.+.+.+.++|.|++.....
T Consensus 20 ~~~l~~~G~---~vi~lG~~vp~e~~~~~a~~~~~d~V~iS~~~~ 61 (122)
T cd02071 20 ARALRDAGF---EVIYTGLRQTPEEIVEAAIQEDVDVIGLSSLSG 61 (122)
T ss_pred HHHHHHCCC---EEEECCCCCCHHHHHHHHHHcCCCEEEEcccch
Confidence 344555563 3333443 6889999999999999999987643
No 173
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=54.74 E-value=32 Score=25.29 Aligned_cols=53 Identities=8% Similarity=0.038 Sum_probs=39.4
Q ss_pred cCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCCCcEEEE
Q 031355 102 EGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 102 ~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~~pvlvv 154 (161)
.-....++++.|++.+.-+|+..+.+.-...+ ..+......+..++.+||.+=
T Consensus 27 n~e~~~avi~AAe~~~sPvIl~~~~~~~~~~g~~~~~~~~~~~A~~~~vPV~lH 80 (283)
T PRK07998 27 NLETTISILNAIERSGLPNFIQIAPTNAQLSGYDYIYEIVKRHADKMDVPVSLH 80 (283)
T ss_pred CHHHHHHHHHHHHHhCCCEEEECcHhHHhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 33688999999999999999998765322222 235667778888999998753
No 174
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=54.68 E-value=12 Score=29.99 Aligned_cols=22 Identities=9% Similarity=0.323 Sum_probs=20.2
Q ss_pred hHhHHHHHHHhcCCCEEEEecC
Q 031355 105 ARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~ 126 (161)
..++|+..|++.++|||++|..
T Consensus 40 tFeEIl~iA~e~~VDmiLlGGD 61 (646)
T KOG2310|consen 40 TFEEILEIAQENDVDMILLGGD 61 (646)
T ss_pred HHHHHHHHHHhcCCcEEEecCc
Confidence 5799999999999999999964
No 175
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=54.62 E-value=39 Score=24.90 Aligned_cols=57 Identities=7% Similarity=0.149 Sum_probs=41.4
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCc-ceeeeccchHHHHhhcCCCcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGA-IKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~-~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
+-+..-....++++.|++.+..+|+..+.+.-. .....+......+..++++||.+=
T Consensus 23 fN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValH 80 (286)
T PRK12738 23 FNIHNAETIQAILEVCSEMRSPVILAGTPGTFKHIALEEIYALCSAYSTTYNMPLALH 80 (286)
T ss_pred EEeCCHHHHHHHHHHHHHHCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 334445789999999999999999987665322 122234667788888999999863
No 176
>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=54.10 E-value=9.9 Score=21.96 Aligned_cols=46 Identities=15% Similarity=-0.004 Sum_probs=28.9
Q ss_pred HHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCc
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGA 130 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~ 130 (161)
+++.+.+.+... .+....+.|+.+.+=.. ...++|++|++......
T Consensus 5 ~~i~~~l~~~~~-~i~~i~LfGS~arg~~~--~~SDiDl~vi~~~~~~~ 50 (93)
T cd05403 5 EEILEILRELLG-GVEKVYLFGSYARGDAR--PDSDIDLLVIFDDPLDP 50 (93)
T ss_pred HHHHHHHHHHhC-CccEEEEEeeeecCCCC--CCCCeeEEEEeCCCCCH
Confidence 334444443322 36677788887765555 45599999999776543
No 177
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=54.07 E-value=20 Score=25.65 Aligned_cols=17 Identities=12% Similarity=0.002 Sum_probs=11.1
Q ss_pred HHhhcCCCcEEEEcCCC
Q 031355 142 YCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 142 ~ll~~~~~pvlvv~~~~ 158 (161)
..|...+||+++||.+.
T Consensus 83 ~~L~~~~~p~~~vPG~~ 99 (255)
T PF14582_consen 83 RILGELGVPVFVVPGNM 99 (255)
T ss_dssp HHHHCC-SEEEEE--TT
T ss_pred HHHHhcCCcEEEecCCC
Confidence 46678899999999764
No 178
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=53.94 E-value=87 Score=23.07 Aligned_cols=23 Identities=17% Similarity=0.236 Sum_probs=18.7
Q ss_pred hHhHHHHHHHhcCCCEEEEecCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
....+.+..++.++|++|+....
T Consensus 153 ~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 153 AEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred hHHHHHHHHHHhCCCEEEEecch
Confidence 45578888999999999998653
No 179
>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=53.89 E-value=24 Score=26.76 Aligned_cols=50 Identities=18% Similarity=0.240 Sum_probs=37.5
Q ss_pred hHhHHHHHHHhcCCCEEEEecC-CCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 105 ARNILCEAVEKHHASILVVGSH-GYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~-~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
+...|++.+++.++|++|.|-- ..++.. ..-|.++..+-.+..||++.-=
T Consensus 68 a~~~i~~mv~~~~pD~viaGPaFnagrYG-~acg~v~~aV~e~~~IP~vtaM 118 (349)
T PF07355_consen 68 ALKKILEMVKKLKPDVVIAGPAFNAGRYG-VACGEVAKAVQEKLGIPVVTAM 118 (349)
T ss_pred HHHHHHHHHHhcCCCEEEEcCCcCCchHH-HHHHHHHHHHHHhhCCCEEEEe
Confidence 5678999999999999999943 222222 3347788888889999998653
No 180
>PRK13606 LPPG:FO 2-phospho-L-lactate transferase; Provisional
Probab=53.80 E-value=41 Score=25.02 Aligned_cols=47 Identities=17% Similarity=0.251 Sum_probs=31.8
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCC-Cccee-eeccchHHHHhhcCCCcEEEEc
Q 031355 104 DARNILCEAVEKHHASILVVGSHGY-GAIKR-AVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~-~~~~~-~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
.+..+.++..+ ++|+||+|-.+. ..+.. +.+..+.+.| ++.||+.|-
T Consensus 174 ~a~p~vl~AI~--~AD~IiiGPgnp~TSI~P~L~v~gi~eAL---~~a~vV~Vs 222 (303)
T PRK13606 174 KPAPGVLEAIE--EADAVIIGPSNPVTSIGPILAVPGIREAL---TEAPVVAVS 222 (303)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHhhchhccchhHHHHH---hCCCEEEEc
Confidence 46778888888 899999996642 33333 4455566656 777888553
No 181
>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=53.74 E-value=57 Score=20.90 Aligned_cols=57 Identities=9% Similarity=0.056 Sum_probs=34.5
Q ss_pred HHHHhhhcCCccEEEEEEcC-ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhh
Q 031355 84 AKEICSSKSVHDFVVEVVEG-DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAH 145 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~ 145 (161)
+...++..|. +..-... .+.+++++.+.+.++|.|++.+-..+... .+..+.+.|-.
T Consensus 22 v~~~l~~~Gf---eVi~lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~--~~~~~~~~L~~ 79 (132)
T TIGR00640 22 IATAYADLGF---DVDVGPLFQTPEEIARQAVEADVHVVGVSSLAGGHLT--LVPALRKELDK 79 (132)
T ss_pred HHHHHHhCCc---EEEECCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHH--HHHHHHHHHHh
Confidence 3445555563 3333333 57889999999999999999876433322 23445554433
No 182
>PRK13059 putative lipid kinase; Reviewed
Probab=53.54 E-value=87 Score=22.96 Aligned_cols=68 Identities=9% Similarity=-0.006 Sum_probs=34.3
Q ss_pred HHHHHHhhhcCCccEEE-EEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 82 EEAKEICSSKSVHDFVV-EVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~-~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
+++...+.+.+.. +.. ....+.-. +....+.+.++|.||+..- -+. +..+++.++.. .++|+-++|-.
T Consensus 22 ~~i~~~l~~~g~~-~~~~~~~~~~~~-~~~~~~~~~~~d~vi~~GG-DGT-----v~evv~gl~~~~~~~~lgviP~G 91 (295)
T PRK13059 22 DKVIRIHQEKGYL-VVPYRISLEYDL-KNAFKDIDESYKYILIAGG-DGT-----VDNVVNAMKKLNIDLPIGILPVG 91 (295)
T ss_pred HHHHHHHHHCCcE-EEEEEccCcchH-HHHHHHhhcCCCEEEEECC-ccH-----HHHHHHHHHhcCCCCcEEEECCC
Confidence 4445555555543 332 22222223 3333444557787766432 222 23455666643 56899999864
No 183
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=53.34 E-value=66 Score=24.54 Aligned_cols=20 Identities=5% Similarity=0.174 Sum_probs=15.8
Q ss_pred HhHHHHHHHhcCCCEEE-Eec
Q 031355 106 RNILCEAVEKHHASILV-VGS 125 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliV-lg~ 125 (161)
.+.+.+.+++.++|.|| +|.
T Consensus 69 v~~~~~~~~~~~~D~IIaiGG 89 (375)
T cd08194 69 VEEGVKLAKEGGCDVIIALGG 89 (375)
T ss_pred HHHHHHHHHhcCCCEEEEeCC
Confidence 56777888899999988 553
No 184
>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=53.22 E-value=86 Score=22.84 Aligned_cols=50 Identities=14% Similarity=0.014 Sum_probs=31.9
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 107 NILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
-.+.+.+++.++|-+++...-......--+-..-..|...++.||++...
T Consensus 83 i~~a~~a~~~Gad~v~v~pP~y~~~~~~~i~~~~~~i~~~~~~pi~lYn~ 132 (285)
T TIGR00674 83 ISLTKFAEDVGADGFLVVTPYYNKPTQEGLYQHFKAIAEEVDLPIILYNV 132 (285)
T ss_pred HHHHHHHHHcCCCEEEEcCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 34557899999999999865432221111123345567778899998753
No 185
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=52.87 E-value=76 Score=22.08 Aligned_cols=83 Identities=14% Similarity=0.043 Sum_probs=50.6
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHH
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKE 86 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 86 (161)
.+|.|-++++-....++--|+. .... + +++.++....... ...+
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~~~-~----a~i~~Visd~~~A------------------------------~~le 44 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GGKL-D----AEIVAVISDKADA------------------------------YALE 44 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cCCC-C----cEEEEEEeCCCCC------------------------------HHHH
Confidence 3688888888888888877777 3322 3 6777664433211 1123
Q ss_pred HhhhcCCccEEEEEEcCC-----hHhHHHHHHHhcCCCEEEEecC
Q 031355 87 ICSSKSVHDFVVEVVEGD-----ARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 87 ~~~~~~~~~~~~~v~~g~-----~~~~I~~~a~~~~~dliVlg~~ 126 (161)
++.+.|.. ..+.-..+- -...|.+..++.++|+||+...
T Consensus 45 rA~~~gIp-t~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAGy 88 (200)
T COG0299 45 RAAKAGIP-TVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAGY 88 (200)
T ss_pred HHHHcCCC-EEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcch
Confidence 33444544 222222221 4678999999999999999754
No 186
>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=52.55 E-value=61 Score=20.93 Aligned_cols=39 Identities=15% Similarity=0.146 Sum_probs=27.9
Q ss_pred HHHhhhcCCccEEEEEEcC--ChHhHHHHHHHhcCCCEEEEecCC
Q 031355 85 KEICSSKSVHDFVVEVVEG--DARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
...++..|.. .. .-| -+.+++++.|+++++|+|.+.+--
T Consensus 22 ~~~l~~~Gfe---Vi-~LG~~v~~e~~v~aa~~~~adiVglS~l~ 62 (134)
T TIGR01501 22 DHAFTNAGFN---VV-NLGVLSPQEEFIKAAIETKADAILVSSLY 62 (134)
T ss_pred HHHHHHCCCE---EE-ECCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 3455555643 22 224 588999999999999999998754
No 187
>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=52.18 E-value=75 Score=21.83 Aligned_cols=65 Identities=15% Similarity=0.121 Sum_probs=38.0
Q ss_pred HHHhhhcCCccEEEEE-EcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC---CCcEEEE
Q 031355 85 KEICSSKSVHDFVVEV-VEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA---HCTVMIV 154 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v-~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~---~~pvlvv 154 (161)
...++..|. ++.- ..+-|.+.+++.+++.++|+|.+.......... +..+.+.+-... .++|++-
T Consensus 103 ~~~l~~~G~---~vi~lG~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~--~~~~i~~lr~~~~~~~~~i~vG 171 (201)
T cd02070 103 ATMLEANGF---EVIDLGRDVPPEEFVEAVKEHKPDILGLSALMTTTMGG--MKEVIEALKEAGLRDKVKVMVG 171 (201)
T ss_pred HHHHHHCCC---EEEECCCCCCHHHHHHHHHHcCCCEEEEeccccccHHH--HHHHHHHHHHCCCCcCCeEEEE
Confidence 445555564 3221 223589999999999999999998754433332 233444443332 2455543
No 188
>PF11965 DUF3479: Domain of unknown function (DUF3479); InterPro: IPR022571 This functionally uncharacterised domain, found N-terminal to PF02514 from PFAM, occurs in magnesium chelatase subunit H, which is involved in chlorophyll biosynthesis. It is found in bacteria, green plants and archaea. It is around 160 amino acids in length.; GO: 0016851 magnesium chelatase activity
Probab=52.11 E-value=70 Score=21.49 Aligned_cols=90 Identities=14% Similarity=0.131 Sum_probs=47.0
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
|+++.+-++..+..+.+.+..+.+.. . ++.+|.+....+.... .+.++++++.
T Consensus 2 r~V~vtld~~~~~al~~aa~~l~~~~-~--p~l~l~~~~~~el~~~------------------------~~~~~~~~~a 54 (164)
T PF11965_consen 2 RFVIVTLDEHYNSALYRAAARLNRDH-C--PGLELSVFAAAELERD------------------------PEALEECEAA 54 (164)
T ss_pred EEEEEeCchhhhHHHHHHHHHHhhcc-C--CCeEEEEEeHHHhhcC------------------------hHHHHHHHHH
Confidence 45555556666666666777776652 3 4366666655433111 1233444444
Q ss_pred hhhcCCccEEEEEEcCChHhHHHHHHHhc--CCCEEEEec
Q 031355 88 CSSKSVHDFVVEVVEGDARNILCEAVEKH--HASILVVGS 125 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g~~~~~I~~~a~~~--~~dliVlg~ 125 (161)
+...... +-..+...+.++.|....+.. ++|.+|+-.
T Consensus 55 ia~ADii-~~smlF~ed~v~~l~~~L~~~r~~~~a~i~~~ 93 (164)
T PF11965_consen 55 IARADII-FGSMLFIEDHVRPLLPALEARRDHCPAMIIFE 93 (164)
T ss_pred HHhCCEE-EeehhhhHHHHHHHHHHHHHHHccCCEEEEEc
Confidence 4443332 444444446666666665544 666655543
No 189
>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=51.81 E-value=80 Score=22.04 Aligned_cols=53 Identities=9% Similarity=0.056 Sum_probs=31.3
Q ss_pred HhHHHHHHHhc-CCCEEEEecCCCCc-ceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 106 RNILCEAVEKH-HASILVVGSHGYGA-IKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 106 ~~~I~~~a~~~-~~dliVlg~~~~~~-~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
.+-|++..+.. ..|.|++-..-... -..++-+-+.+.|....++||.+|+...
T Consensus 149 g~Dii~~L~~~~~~d~lllP~~ml~~~~~~fLDD~t~~el~~~lg~~v~vv~~~~ 203 (204)
T PF04459_consen 149 GQDIIEQLKGKELGDLLLLPDVMLRHGEGVFLDDMTLEELEERLGVPVIVVRGPG 203 (204)
T ss_pred HHHHHHHhCcCCCCCEEEECHHHhcCCCCccCCCCcHHHHHHHhCCcEEEeCCCC
Confidence 44455554433 33788776543222 2223346677778888888888887543
No 190
>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=51.70 E-value=49 Score=19.50 Aligned_cols=50 Identities=8% Similarity=0.086 Sum_probs=32.0
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC-CCcEEEEcCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA-HCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~-~~pvlvv~~~ 157 (161)
.-.++..+..+++.+|+++++..-...-. -.+.+++-... .+|++++-..
T Consensus 30 ~~~~~~~~~~~~~~~d~iiid~~~~~~~~----~~~~~~i~~~~~~~~ii~~t~~ 80 (112)
T PF00072_consen 30 SSGEEALELLKKHPPDLIIIDLELPDGDG----LELLEQIRQINPSIPIIVVTDE 80 (112)
T ss_dssp SSHHHHHHHHHHSTESEEEEESSSSSSBH----HHHHHHHHHHTTTSEEEEEESS
T ss_pred CCHHHHHHHhcccCceEEEEEeeeccccc----cccccccccccccccEEEecCC
Confidence 44556667778889999999976443211 24555554443 6888887644
No 191
>PRK13399 fructose-1,6-bisphosphate aldolase; Provisional
Probab=51.61 E-value=49 Score=25.17 Aligned_cols=56 Identities=16% Similarity=0.139 Sum_probs=41.0
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCC-CcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAH-CTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~-~pvlv 153 (161)
+-+..-.-..++++.|++.+.-+|+..+.+.....+ .++......+..+++ +||.+
T Consensus 23 fN~~n~e~~~avi~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~v~~~ae~~~~VPVaL 80 (347)
T PRK13399 23 FNVNNMEQILAIMEAAEATDSPVILQASRGARKYAGDAMLRHMVLAAAEMYPDIPICL 80 (347)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhcCCCcEEE
Confidence 334445789999999999999999998876433322 345667777887875 88765
No 192
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=51.46 E-value=1e+02 Score=23.20 Aligned_cols=70 Identities=19% Similarity=0.167 Sum_probs=39.8
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcCC----hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEGD----ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g~----~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
..+++.+.+++.+.. +.+....++ ..+.+.+.+++.++|.||--..| +. -.++..+......|++.||
T Consensus 37 ~~~~v~~~L~~~~i~-~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGG-S~------iD~aK~ia~~~~~P~iaIP 108 (351)
T cd08170 37 VGAKIEESLAAAGID-ARFEVFGGECTRAEIERLAEIARDNGADVVIGIGGG-KT------LDTAKAVADYLGAPVVIVP 108 (351)
T ss_pred HHHHHHHHHHhCCCe-EEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEEecCc-hh------hHHHHHHHHHcCCCEEEeC
Confidence 445555566555543 333344453 35677788889999987653222 11 1233334344578999988
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
-.
T Consensus 109 TT 110 (351)
T cd08170 109 TI 110 (351)
T ss_pred Cc
Confidence 53
No 193
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=51.16 E-value=1.3e+02 Score=24.30 Aligned_cols=120 Identities=11% Similarity=0.128 Sum_probs=65.5
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHH
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKE 86 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 86 (161)
-=.+|.+.+-..|......|..+.... .+|.+. ..++...- ..++++.+. +++..
T Consensus 380 Vi~fvGVNGVGKSTNLAKIayWLlqNk------frVLIA-ACDTFRsG--------------AvEQLrtHv----~rl~~ 434 (587)
T KOG0781|consen 380 VISFVGVNGVGKSTNLAKIAYWLLQNK------FRVLIA-ACDTFRSG--------------AVEQLRTHV----ERLSA 434 (587)
T ss_pred EEEEEeecCccccchHHHHHHHHHhCC------ceEEEE-eccchhhh--------------HHHHHHHHH----HHHHH
Confidence 336777888888888889999988864 344443 33432211 123333333 33332
Q ss_pred HhhhcCCccEEEEEEcC----ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 87 ICSSKSVHDFVVEVVEG----DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 87 ~~~~~~~~~~~~~v~~g----~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
+.... +.+ +.--.| .++.+-+++|+.++.|+|.|..-|+-.-...+.++.+.-+--+-|--|+.|
T Consensus 435 l~~~~--v~l-fekGYgkd~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~~pd~i~~v 503 (587)
T KOG0781|consen 435 LHGTM--VEL-FEKGYGKDAAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFV 503 (587)
T ss_pred hccch--hHH-HhhhcCCChHHHHHHHHHHHHhcCCCEEEEeccccccCChhHHHHHHHHHhcCCCceEEEe
Confidence 22111 000 001112 367788899999999999998776655455566666543222333334443
No 194
>PHA02546 47 endonuclease subunit; Provisional
Probab=51.00 E-value=47 Score=24.98 Aligned_cols=23 Identities=17% Similarity=0.307 Sum_probs=9.9
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEcCC
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVEGD 104 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~g~ 104 (161)
..++++.+.+.+.+ +...+..||
T Consensus 26 ~~l~~ii~~a~~~~---vD~VliaGD 48 (340)
T PHA02546 26 KFIKQAIEYSKAHG---ITTWIQLGD 48 (340)
T ss_pred HHHHHHHHHHHHcC---CCEEEECCc
Confidence 34444444444332 334444443
No 195
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=50.68 E-value=25 Score=24.85 Aligned_cols=39 Identities=18% Similarity=0.251 Sum_probs=27.7
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEE
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVM 152 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvl 152 (161)
..++.+..++.++|.|++|.-+.+. .+++|-....+||+
T Consensus 163 ~~~~~~a~~edgAeaIiLGCAGms~--------la~~Lq~~~gvPVI 201 (230)
T COG4126 163 VIEAAEALKEDGAEAIILGCAGMSD--------LADQLQKAFGVPVI 201 (230)
T ss_pred HHHHHHHhhhcCCCEEEEcCccHHH--------HHHHHHHHhCCCcc
Confidence 4556677899999999999887543 34555555666663
No 196
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=50.56 E-value=1e+02 Score=22.97 Aligned_cols=52 Identities=6% Similarity=-0.012 Sum_probs=38.1
Q ss_pred cCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 102 EGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 102 ~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
..+....++..|.+.+-+.-|+-..++..++ |...-+-|++.++|+.+++..
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 3467788888888777655555555555444 788888899999999998764
No 197
>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=50.52 E-value=22 Score=22.79 Aligned_cols=24 Identities=17% Similarity=0.169 Sum_probs=21.3
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
-+.+++++.|.++++|+|.+.+--
T Consensus 37 v~~e~~v~aa~~~~adiVglS~L~ 60 (128)
T cd02072 37 SPQEEFIDAAIETDADAILVSSLY 60 (128)
T ss_pred CCHHHHHHHHHHcCCCEEEEeccc
Confidence 588999999999999999997653
No 198
>PF01116 F_bP_aldolase: Fructose-bisphosphate aldolase class-II; InterPro: IPR000771 Fructose-bisphosphate aldolase [, ] is a glycolytic enzyme that catalyses the reversible aldol cleavage or condensation of fructose-1,6-bisphosphate into dihydroxyacetone-phosphate and glyceraldehyde 3-phosphate. There are two classes of fructose-bisphosphate aldolases with different catalytic mechanisms. Class-II aldolases [], mainly found in prokaryotes and fungi, are homodimeric enzymes, which require a divalent metal ion, generally zinc, for their activity. This family also includes the Escherichia coli galactitol operon protein, gatY, which catalyses the transformation of tagatose 1,6-bisphosphate into glycerone phosphate and D-glyceraldehyde 3-phosphate; and E. coli N-acetyl galactosamine operon protein, agaY, which catalyses the same reaction. There are two histidine residues in the first half of the sequence of these enzymes that have been shown to be involved in binding a zinc ion [].; GO: 0008270 zinc ion binding, 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3Q94_A 1RVG_B 1RV8_C 3C4U_A 3C56_B 3C52_A 2FJK_A 3N9R_P 3N9S_A 1GVF_B ....
Probab=50.31 E-value=13 Score=27.43 Aligned_cols=55 Identities=16% Similarity=0.141 Sum_probs=40.4
Q ss_pred EEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCCCcEEE
Q 031355 99 EVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAHCTVMI 153 (161)
Q Consensus 99 ~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~~pvlv 153 (161)
-+..-.....+++.|++.+..+|+.-+.+.....+ ..+......+..++++||.+
T Consensus 23 N~~n~e~~~avi~AAe~~~sPvIlq~~~~~~~~~~~~~~~~~~~~~a~~~~vPVal 78 (287)
T PF01116_consen 23 NVYNLETARAVIEAAEELNSPVILQISPSEVKYMGLEYLAAMVKAAAEEASVPVAL 78 (287)
T ss_dssp E-SSHHHHHHHHHHHHHTTS-EEEEEEHHHHHHHHHHHHHHHHHHHHHHSTSEEEE
T ss_pred eeCCHHHHHHHHHHHHHhCCCEEEEcchhhhhhhhHHHHHHHHHHHHHHcCCCEEe
Confidence 33344789999999999999999998765433222 34567888899999999965
No 199
>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=50.29 E-value=99 Score=22.68 Aligned_cols=91 Identities=10% Similarity=0.093 Sum_probs=53.5
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
+|-|.+.-...+..-++-|-++.+.. | ...+.|+.-+.... .+.+...+++..+
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~~Y-g-----~~~I~h~tyPdnf~--------------------~e~EttIskI~~l 57 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIKKY-G-----DVMIKHVTYPDNFM--------------------SEQETTISKIVSL 57 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHHHH-H-----HHEEEEEE--TTGG--------------------GCHHHHHHHHHGG
T ss_pred EEEEEeCCcccChHHHHHHHHHHHHh-C-----cceEEEEeCCCccc--------------------chHHHHHHHHHHh
Confidence 46677776777888888888888874 7 44788886664432 2234555666666
Q ss_pred hhhcCCccEEEEEEcCCh--HhHHHHHHHhcCCCEEEEecCC
Q 031355 88 CSSKSVHDFVVEVVEGDA--RNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 88 ~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliVlg~~~ 127 (161)
+.+ ..+...|..... .-.-.+-.++...|+|.+....
T Consensus 58 AdD---p~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~ 96 (275)
T PF12683_consen 58 ADD---PDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEP 96 (275)
T ss_dssp GG----TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS-
T ss_pred ccC---CCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCC
Confidence 654 335666665432 2344566888899999998653
No 200
>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=50.11 E-value=98 Score=22.55 Aligned_cols=85 Identities=8% Similarity=0.087 Sum_probs=46.9
Q ss_pred cCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCC
Q 031355 14 DDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSV 93 (161)
Q Consensus 14 d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 93 (161)
.++..+..+...|..++.. | -++.++-. +.... ...++++.+.+..+.
T Consensus 81 ~G~GKTTt~akLA~~l~~~--g----~~V~li~~-D~~r~-------------------------~a~~ql~~~~~~~~i 128 (272)
T TIGR00064 81 NGVGKTTTIAKLANKLKKQ--G----KSVLLAAG-DTFRA-------------------------AAIEQLEEWAKRLGV 128 (272)
T ss_pred CCCcHHHHHHHHHHHHHhc--C----CEEEEEeC-CCCCH-------------------------HHHHHHHHHHHhCCe
Confidence 3556778888888888654 4 36776643 22110 012345555555442
Q ss_pred ccEEEEEEcCChHhHH---HHHHHhcCCCEEEEecCCCCcc
Q 031355 94 HDFVVEVVEGDARNIL---CEAVEKHHASILVVGSHGYGAI 131 (161)
Q Consensus 94 ~~~~~~v~~g~~~~~I---~~~a~~~~~dliVlg~~~~~~~ 131 (161)
. +.......++...+ +..+...++|+|++-..++...
T Consensus 129 ~-~~~~~~~~dp~~~~~~~l~~~~~~~~D~ViIDT~G~~~~ 168 (272)
T TIGR00064 129 D-VIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQN 168 (272)
T ss_pred E-EEeCCCCCCHHHHHHHHHHHHHHCCCCEEEEeCCCCCcc
Confidence 2 21111122454433 3455667899999998887653
No 201
>COG2262 HflX GTPases [General function prediction only]
Probab=49.79 E-value=1.2e+02 Score=23.77 Aligned_cols=49 Identities=20% Similarity=0.276 Sum_probs=34.4
Q ss_pred HHHHHHHHHHhhhcCCccEEEEEEc----------C-ChHhHHHHHHHhcCCCEEEEecC
Q 031355 78 ARVVEEAKEICSSKSVHDFVVEVVE----------G-DARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 78 ~~~l~~~~~~~~~~~~~~~~~~v~~----------g-~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
++.++++..+++..|.......... | .-.++|...++..++|++|+...
T Consensus 19 ~~~leEl~~La~tag~~v~~~~~q~r~~pdp~~~iG~GK~eEi~~~v~~~~ad~VIf~~~ 78 (411)
T COG2262 19 EESLEELAELAETAGYEVVEVVTQKRERPDPKTYIGSGKLEEIAEAVEETGADLVIFDHE 78 (411)
T ss_pred hhhHHHHHHHHHHcCCeEeeeEEEeccCCCcceecCcchHHHHHHHHHhcCCCEEEECCc
Confidence 4566777788877765433333222 3 24789999999999999999854
No 202
>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=49.54 E-value=1e+02 Score=22.66 Aligned_cols=60 Identities=15% Similarity=0.058 Sum_probs=37.5
Q ss_pred EEEEEEcCChHhH--HHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC-CCcEEEEc
Q 031355 96 FVVEVVEGDARNI--LCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA-HCTVMIVK 155 (161)
Q Consensus 96 ~~~~v~~g~~~~~--I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~-~~pvlvv~ 155 (161)
+-..+...+..+. +.+.|++.++|-+++..+-......--+-..-..|...+ +.||++.-
T Consensus 72 vi~gv~~~~t~~ai~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~lpv~iYn 134 (294)
T TIGR02313 72 FAPGTGALNHDETLELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVPDFPIIIYN 134 (294)
T ss_pred EEEECCcchHHHHHHHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhccCCCEEEEe
Confidence 4444444344444 568899999999999876433222111223445677788 79999884
No 203
>PRK13055 putative lipid kinase; Reviewed
Probab=49.28 E-value=1.1e+02 Score=22.93 Aligned_cols=72 Identities=10% Similarity=0.077 Sum_probs=39.7
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEc--CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEc
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVE--GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVK 155 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~ 155 (161)
+...++...+.+.+.. ++..... +..+.++.+.+.+.++|+||+..-. +.+ ..++..++.. ...|+-++|
T Consensus 20 ~~~~~i~~~l~~~g~~-~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~GGD-GTl-----~evvngl~~~~~~~~LgiiP 92 (334)
T PRK13055 20 KNVADILDILEQAGYE-TSAFQTTPEPNSAKNEAKRAAEAGFDLIIAAGGD-GTI-----NEVVNGIAPLEKRPKMAIIP 92 (334)
T ss_pred HHHHHHHHHHHHcCCe-EEEEEeecCCccHHHHHHHHhhcCCCEEEEECCC-CHH-----HHHHHHHhhcCCCCcEEEEC
Confidence 3345556666665543 4444333 2356667766666778888765332 111 2344445432 346788888
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
-.
T Consensus 93 ~G 94 (334)
T PRK13055 93 AG 94 (334)
T ss_pred CC
Confidence 64
No 204
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=49.11 E-value=1e+02 Score=22.56 Aligned_cols=50 Identities=6% Similarity=-0.064 Sum_probs=32.4
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 107 NILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
-+..+.+++.++|-+++-.+-......--+-..-+.|+..++.||++...
T Consensus 89 i~~a~~a~~~Gad~v~v~~P~y~~~~~~~l~~~f~~va~a~~lPv~iYn~ 138 (293)
T PRK04147 89 QELAKYATELGYDAISAVTPFYYPFSFEEICDYYREIIDSADNPMIVYNI 138 (293)
T ss_pred HHHHHHHHHcCCCEEEEeCCcCCCCCHHHHHHHHHHHHHhCCCCEEEEeC
Confidence 34557899999999999876432221111123345577788999999853
No 205
>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=48.95 E-value=78 Score=21.06 Aligned_cols=34 Identities=9% Similarity=0.061 Sum_probs=26.7
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
+++|++.+...|..++.++.+ . | .+++.+|+...
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~----~-g----~~v~av~~d~g 34 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMK----R-G----IEVDALHFNSG 34 (177)
T ss_pred CEEEEecCChhHHHHHHHHHH----c-C----CeEEEEEEeCC
Confidence 589999999989888777765 2 4 58999998654
No 206
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=48.95 E-value=43 Score=24.49 Aligned_cols=44 Identities=18% Similarity=0.234 Sum_probs=30.2
Q ss_pred HHHHHHhhhcCCccEEEEEEcC----ChHhHHHHHHHhcCCCEEEEecC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEG----DARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g----~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
+.++...+..+.+ +.+.-... .....+.+..++.++|+||+.++
T Consensus 128 ~dl~~~v~~~~IP-fhhip~~~~~k~e~E~~~~~ll~~~~~DlvVLARY 175 (287)
T COG0788 128 DDLRPLVERFDIP-FHHIPVTKENKAEAEARLLELLEEYGADLVVLARY 175 (287)
T ss_pred HHHHHHHHHcCCC-eeeccCCCCcchHHHHHHHHHHHHhCCCEEeehhh
Confidence 3455556665654 55444432 24677899999999999999876
No 207
>TIGR01521 FruBisAldo_II_B fructose-bisphosphate aldolase, class II, Calvin cycle subtype. Members of this family are class II examples of the enzyme fructose-bisphosphate aldolase, an enzyme both of glycolysis and (in the opposite direction) of the Calvin cycle of CO2 fixation. A deep split separates the tightly conserved yeast/E. coli/Mycobacterium subtype (all species lacking the Calvin cycle) represented by model TIGR01520 from a broader group of aldolases that includes both tagatose- and fructose-bisphosphate aldolases. This model represents a distinct, elongated, very well conserved subtype within the latter group. Most species with this aldolase subtype have the Calvin cycle.
Probab=48.94 E-value=59 Score=24.77 Aligned_cols=56 Identities=14% Similarity=0.169 Sum_probs=40.6
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCC-CcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAH-CTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~-~pvlv 153 (161)
+-+..-.-..+|++.|++.+.-+|+..+.+.-...+ -++......+...++ +||.+
T Consensus 21 fN~~n~e~~~aii~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~~~~~ae~~~~VPVal 78 (347)
T TIGR01521 21 FNVNNMEQMRAIMEAADKTDSPVILQASRGARSYAGAPFLRHLILAAIEEYPHIPVVM 78 (347)
T ss_pred EeeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhCCCCcEEE
Confidence 333444789999999999999999998876433222 245667777777885 88875
No 208
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=48.90 E-value=1.3e+02 Score=23.71 Aligned_cols=33 Identities=27% Similarity=0.262 Sum_probs=21.0
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEe
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHA 47 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v 47 (161)
+++..-++-.+..+...|..+.+. | -++.++.+
T Consensus 99 ~lvG~~GsGKTTtaakLA~~L~~~--g----~kV~lV~~ 131 (437)
T PRK00771 99 MLVGLQGSGKTTTAAKLARYFKKK--G----LKVGLVAA 131 (437)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHc--C----CeEEEecC
Confidence 344445667777888888777653 4 46666644
No 209
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=48.83 E-value=96 Score=22.08 Aligned_cols=58 Identities=7% Similarity=-0.031 Sum_probs=37.7
Q ss_pred HHHhhhcCC-ccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHh
Q 031355 85 KEICSSKSV-HDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCA 144 (161)
Q Consensus 85 ~~~~~~~~~-~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll 144 (161)
.+.+++.|. ...-..+.-+.+.+.|..+.. .+|+|.+-+..+++-.+.|..+..+++-
T Consensus 109 l~~Ik~~g~~~kaGlalnP~Tp~~~i~~~l~--~vD~VLiMtV~PGfgGQ~f~~~~l~KI~ 167 (228)
T PRK08091 109 IEWLAKQKTTVLIGLCLCPETPISLLEPYLD--QIDLIQILTLDPRTGTKAPSDLILDRVI 167 (228)
T ss_pred HHHHHHCCCCceEEEEECCCCCHHHHHHHHh--hcCEEEEEEECCCCCCccccHHHHHHHH
Confidence 344444453 124455555789999999999 8998888776666555556655555443
No 210
>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=48.72 E-value=27 Score=23.78 Aligned_cols=37 Identities=16% Similarity=0.161 Sum_probs=15.9
Q ss_pred CCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 117 HASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 117 ~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
++|++++-.-+... .....+.+.-.+++...+||++|
T Consensus 99 ~~D~vlVEGag~~~-~~~~~~~~n~dia~~L~a~vIlV 135 (199)
T PF13500_consen 99 EYDVVLVEGAGGLM-VPIFSGDLNADIAKALGAPVILV 135 (199)
T ss_dssp TTCEEEEEESSSTT-SECCTTEEHHHHHHHHT-EEEEE
T ss_pred cCCEEEEeCCcccC-cccccChHHHHHHHHcCCCEEEE
Confidence 55555553332222 22233334444555555555555
No 211
>PRK08194 tartrate dehydrogenase; Provisional
Probab=48.28 E-value=1.2e+02 Score=23.15 Aligned_cols=29 Identities=3% Similarity=0.061 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+++.+++|+++|.+. + .+|+++|=...
T Consensus 161 ~~~eRI~r~Af~~A~~r-~----~~Vt~v~KaNv 189 (352)
T PRK08194 161 KGTERAMRYAFELAAKR-R----KHVTSATKSNG 189 (352)
T ss_pred HHHHHHHHHHHHHHHHc-C----CcEEEEeCcch
Confidence 46889999999999875 4 37888876543
No 212
>PRK00766 hypothetical protein; Provisional
Probab=48.21 E-value=87 Score=21.71 Aligned_cols=55 Identities=18% Similarity=0.236 Sum_probs=36.6
Q ss_pred EEEEEEcC-ChHhHHHHHHHh----cCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 96 FVVEVVEG-DARNILCEAVEK----HHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 96 ~~~~v~~g-~~~~~I~~~a~~----~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
+......| |.-+.|++..+. .+..+|++..-..+++. =-..+.|-+.+..||++|
T Consensus 45 ~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFN----vvD~~~l~~~tg~PVI~V 104 (194)
T PRK00766 45 SRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFN----VVDIEELYRETGLPVIVV 104 (194)
T ss_pred EEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeE----EecHHHHHHHHCCCEEEE
Confidence 45555667 788899999875 35556766544333332 123466778899999999
No 213
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=48.20 E-value=53 Score=22.73 Aligned_cols=39 Identities=13% Similarity=0.100 Sum_probs=19.3
Q ss_pred cCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 116 HHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 116 ~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
.++|++|+-..+. .......+-....++....+||++|-
T Consensus 102 ~~~D~viIEg~gg-~~~~~~~~~~~adl~~~l~~pvilV~ 140 (222)
T PRK00090 102 QQYDLVLVEGAGG-LLVPLTEDLTLADLAKQLQLPVILVV 140 (222)
T ss_pred hhCCEEEEECCCc-eeccCCCCCcHHHHHHHhCCCEEEEE
Confidence 3677777754431 11111222233446666677776663
No 214
>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=47.69 E-value=52 Score=20.96 Aligned_cols=41 Identities=20% Similarity=0.190 Sum_probs=32.8
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
...+|+|+-|....+....+.++.-.... | +++..+...+.
T Consensus 39 ~~~~VvVg~D~R~~s~~~~~~~~~~l~~~-G----~~V~~~g~~~t 79 (137)
T PF02878_consen 39 NGSRVVVGRDTRPSSPMLAKALAAGLRAN-G----VDVIDIGLVPT 79 (137)
T ss_dssp TSSEEEEEE-SSTTHHHHHHHHHHHHHHT-T----EEEEEEEEB-H
T ss_pred CCCeEEEEEcccCCHHHHHHHHHHHHhhc-c----cccccccccCc
Confidence 35789999999999999999999888886 8 88888886554
No 215
>cd00453 FTBP_aldolase_II Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to yield fructose-1,6-bisphosphate. TBP-aldolase is tetrameric and produces tagarose-1,6-bisphosphate. There is an absolute requirement for a divalent metal ion, usually zinc, and in addition the enzymes are activated by monovalent cations such as Na+. Although structurally similar, the class I aldolases use a different mechanism and are believed to have an independent evolutionary origin.
Probab=46.81 E-value=48 Score=25.10 Aligned_cols=57 Identities=25% Similarity=0.197 Sum_probs=40.1
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecC-CCCccee----------------eeccchHHHHhhcCCCcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSH-GYGAIKR----------------AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~-~~~~~~~----------------~~~gs~~~~ll~~~~~pvlvv 154 (161)
+-+..-.-...+++.|++.+..+|+..+. +.....+ ..+......+..++.+||.+=
T Consensus 18 fN~~n~e~~~Avi~aAee~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~VPV~lH 91 (340)
T cd00453 18 VNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGVPVILH 91 (340)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEcCcchHHHhCCCcccccccchhhhhhHHHHHHHHHHHHHHCCCCEEEE
Confidence 33344478899999999999999999877 3312111 234566777888889998763
No 216
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=46.77 E-value=61 Score=23.82 Aligned_cols=56 Identities=11% Similarity=0.065 Sum_probs=39.4
Q ss_pred EEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc-e-eeeccchHHHHhhcCC-CcEEEE
Q 031355 99 EVVEGDARNILCEAVEKHHASILVVGSHGYGAI-K-RAVLGSVSDYCAHHAH-CTVMIV 154 (161)
Q Consensus 99 ~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~-~-~~~~gs~~~~ll~~~~-~pvlvv 154 (161)
-+..-.-...+++.|++.+..+|+.-+.+.-.. . ...+......+..++. .||.+=
T Consensus 22 n~~n~e~~~avi~aAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~~a~~~~~vpv~lh 80 (282)
T TIGR01859 22 NFNNLEWTQAILEAAEEENSPVIIQVSEGAIKYMGGYKMAVAMVKTLIERMSIVPVALH 80 (282)
T ss_pred EECCHHHHHHHHHHHHHhCCCEEEEcCcchhhccCcHHHHHHHHHHHHHHCCCCeEEEE
Confidence 333447899999999999999999877654322 1 1234566677788887 887754
No 217
>TIGR00167 cbbA ketose-bisphosphate aldolases. fructose-bisphosphate and tagatose-bisphosphate aldolase.
Probab=46.54 E-value=67 Score=23.75 Aligned_cols=56 Identities=11% Similarity=0.157 Sum_probs=39.9
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc-ee-eeccchHHHHhhcC--CCcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAI-KR-AVLGSVSDYCAHHA--HCTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~-~~-~~~gs~~~~ll~~~--~~pvlv 153 (161)
+-+..-.-...+++.|++.+.-+|+..+.+.-.. .+ ..+.........++ .+||.+
T Consensus 23 fN~~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~~g~~~~~~~~~~~a~~~~~~VPV~l 82 (288)
T TIGR00167 23 FNINNLETINAVLEAAAEEKSPVIIQFSNGAAKYIAGLGAISAMVKAMSEAYPYGVPVAL 82 (288)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEECCcchhhccCCHHHHHHHHHHHHHhccCCCcEEE
Confidence 3334447899999999999999999887654322 11 23566777788888 888875
No 218
>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=46.50 E-value=1.2e+02 Score=22.54 Aligned_cols=75 Identities=12% Similarity=0.028 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHhhhcCCccEEEEEEcCCh-----HhHHHHHHHhcCCCEEEEecCCCC-cceeeeccchHHHHhhcCCC
Q 031355 76 IAARVVEEAKEICSSKSVHDFVVEVVEGDA-----RNILCEAVEKHHASILVVGSHGYG-AIKRAVLGSVSDYCAHHAHC 149 (161)
Q Consensus 76 ~~~~~l~~~~~~~~~~~~~~~~~~v~~g~~-----~~~I~~~a~~~~~dliVlg~~~~~-~~~~~~~gs~~~~ll~~~~~ 149 (161)
...+.+..+++.+ + .+++..++-|.. ...+++...+.+++.|.+=.+.+. ...+...-+....+....++
T Consensus 109 ~~~~iv~~~~~~~---~-~pvsvKiR~g~~~~~~~~~~~~~~l~~~G~~~i~vH~Rt~~q~~~~~a~w~~i~~i~~~~~i 184 (309)
T PF01207_consen 109 LLAEIVKAVRKAV---P-IPVSVKIRLGWDDSPEETIEFARILEDAGVSAITVHGRTRKQRYKGPADWEAIAEIKEALPI 184 (309)
T ss_dssp HHHHHHHHHHHH----S-SEEEEEEESECT--CHHHHHHHHHHHHTT--EEEEECS-TTCCCTS---HHHHHHCHHC-TS
T ss_pred HhhHHHHhhhccc---c-cceEEecccccccchhHHHHHHHHhhhcccceEEEecCchhhcCCcccchHHHHHHhhcccc
Confidence 4444444444433 3 458888888732 466778888899999999655322 22212223445667778888
Q ss_pred cEEEE
Q 031355 150 TVMIV 154 (161)
Q Consensus 150 pvlvv 154 (161)
||+.-
T Consensus 185 pvi~N 189 (309)
T PF01207_consen 185 PVIAN 189 (309)
T ss_dssp EEEEE
T ss_pred eeEEc
Confidence 88753
No 219
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=46.35 E-value=65 Score=23.85 Aligned_cols=56 Identities=16% Similarity=0.138 Sum_probs=39.0
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc-ee-eeccchHHHHhhcC--CCcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAI-KR-AVLGSVSDYCAHHA--HCTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~-~~-~~~gs~~~~ll~~~--~~pvlv 153 (161)
+-+..-.-...+++.|++.+..+|+..+.+.... .+ ..+......+.... ..||.+
T Consensus 23 fN~~n~e~~~avi~aAe~~~sPvIlq~s~~~~~~~~~~~~~~~~~~~~a~~~~~~vPV~l 82 (293)
T PRK07315 23 FNTNNLEWTQAILRAAEAKKAPVLIQTSMGAAKYMGGYKVCKNLIENLVESMGITVPVAI 82 (293)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCcEEE
Confidence 3334447899999999999999999987754322 21 23456677788777 568765
No 220
>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=46.31 E-value=1.2e+02 Score=23.33 Aligned_cols=47 Identities=6% Similarity=0.092 Sum_probs=24.8
Q ss_pred HhHHHHHHH-hcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 106 RNILCEAVE-KHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 106 ~~~I~~~a~-~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
+..++..+. ..+++.||+=-+..++.+ .--..+....+|++.+.-..
T Consensus 60 i~~~~~~an~~~~c~gvi~wMhTfSpak------mwI~gl~~l~kPllhl~tQ~ 107 (359)
T PF02610_consen 60 ITRVCKEANADEDCDGVITWMHTFSPAK------MWIPGLQRLQKPLLHLHTQP 107 (359)
T ss_dssp HHHHHHHHHH-TTEEEEEEEESS---TH------HHHHHHHH--S-EEEEE--S
T ss_pred HHHHHHHhhccCCccEEeehhhhhccHH------HHHHHHHHhCCCeEEeeccc
Confidence 344444443 358888888777666544 33456778899999986543
No 221
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=46.09 E-value=1.3e+02 Score=22.71 Aligned_cols=69 Identities=12% Similarity=0.015 Sum_probs=37.9
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCC----hHhHHHHHHHhcCCCEEE-EecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGD----ARNILCEAVEKHHASILV-VGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~----~~~~I~~~a~~~~~dliV-lg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
.+++.+.++..+.....+....++ ..+.+.+.+++.++|.|| +|.... -+++..+.....+|++.||
T Consensus 38 ~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs~--------~D~aK~ia~~~~~p~i~VP 109 (345)
T cd08171 38 KDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGKA--------IDTVKVLADKLGKPVFTFP 109 (345)
T ss_pred HHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcHH--------HHHHHHHHHHcCCCEEEec
Confidence 344555555444421222233343 345677788889999988 553211 2333334344478999988
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
-.
T Consensus 110 Tt 111 (345)
T cd08171 110 TI 111 (345)
T ss_pred Cc
Confidence 53
No 222
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=46.06 E-value=1e+02 Score=22.91 Aligned_cols=45 Identities=13% Similarity=0.101 Sum_probs=28.0
Q ss_pred hHhHHHHHHHhcCCCEEE-EecCCCCcceeeeccchHHHHhhcC--CCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILV-VGSHGYGAIKRAVLGSVSDYCAHHA--HCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliV-lg~~~~~~~~~~~~gs~~~~ll~~~--~~pvlvv~~~ 157 (161)
..+.+.+.+++.++|.|| +|.... .+++..+.... ..|++.||-.
T Consensus 66 ~v~~~~~~~~~~~~d~IIaiGGGs~--------~D~aK~ia~~~~~~~p~i~iPTt 113 (332)
T cd07766 66 EVKEAVERARAAEVDAVIAVGGGST--------LDTAKAVAALLNRGLPIIIVPTT 113 (332)
T ss_pred HHHHHHHHHHhcCcCEEEEeCCchH--------HHHHHHHHHHhcCCCCEEEEeCC
Confidence 466777888888999988 553221 22333332222 7899998853
No 223
>PRK08005 epimerase; Validated
Probab=46.04 E-value=1e+02 Score=21.61 Aligned_cols=59 Identities=2% Similarity=-0.102 Sum_probs=41.1
Q ss_pred HHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhh
Q 031355 84 AKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAH 145 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~ 145 (161)
..+.+++.|.. .-..+.-+.+.+.+..+.. .+|+|.+-+...++-.+.|....-+++-.
T Consensus 98 ~l~~Ik~~G~k-~GlAlnP~Tp~~~i~~~l~--~vD~VlvMsV~PGf~GQ~f~~~~~~KI~~ 156 (210)
T PRK08005 98 ILADIRAIGAK-AGLALNPATPLLPYRYLAL--QLDALMIMTSEPDGRGQQFIAAMCEKVSQ 156 (210)
T ss_pred HHHHHHHcCCc-EEEEECCCCCHHHHHHHHH--hcCEEEEEEecCCCccceecHHHHHHHHH
Confidence 33444555543 5555666789999999998 99988888776666666676666666543
No 224
>PRK13054 lipid kinase; Reviewed
Probab=45.98 E-value=1.2e+02 Score=22.30 Aligned_cols=66 Identities=15% Similarity=0.100 Sum_probs=35.8
Q ss_pred HHHhhhcCCccEEEEEEc-CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc---CCCcEEEEcCC
Q 031355 85 KEICSSKSVHDFVVEVVE-GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH---AHCTVMIVKRP 157 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~---~~~pvlvv~~~ 157 (161)
...+.+.+.. ++..... ..-+.++.+.+.+.++|.||+.... +.+ ..++..++.. ..+|+-++|-.
T Consensus 24 ~~~l~~~g~~-~~v~~t~~~~~a~~~a~~~~~~~~d~vvv~GGD-GTl-----~evv~~l~~~~~~~~~~lgiiP~G 93 (300)
T PRK13054 24 VGLLREEGHT-LHVRVTWEKGDAARYVEEALALGVATVIAGGGD-GTI-----NEVATALAQLEGDARPALGILPLG 93 (300)
T ss_pred HHHHHHcCCE-EEEEEecCCCcHHHHHHHHHHcCCCEEEEECCc-cHH-----HHHHHHHHhhccCCCCcEEEEeCC
Confidence 3344444542 4443333 2345666766656678887765332 222 3355555542 35789999864
No 225
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=45.82 E-value=22 Score=27.73 Aligned_cols=24 Identities=17% Similarity=0.367 Sum_probs=21.1
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
+-.+.|+++|++.++||+|+|...
T Consensus 50 ~~~~~lv~fA~~~~idl~vVGPE~ 73 (428)
T COG0151 50 TDHEALVAFAKEKNVDLVVVGPEA 73 (428)
T ss_pred cCHHHHHHHHHHcCCCEEEECCcH
Confidence 457899999999999999999763
No 226
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=45.82 E-value=69 Score=23.67 Aligned_cols=56 Identities=14% Similarity=0.118 Sum_probs=39.8
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc-e-eeeccchHHHHhhcCC--CcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAI-K-RAVLGSVSDYCAHHAH--CTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~-~-~~~~gs~~~~ll~~~~--~pvlv 153 (161)
+-+..-.-..++++.|++.+..+|+..+.+.-.. . -..+......+..++. .||.+
T Consensus 23 fN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~vPV~l 82 (286)
T PRK08610 23 YNLNNLEFTQAILEASQEENAPVILGVSEGAARYMSGFYTVVKMVEGLMHDLNITIPVAI 82 (286)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCCEEE
Confidence 3344457889999999999999999987764332 2 1235667777887877 68765
No 227
>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=45.60 E-value=27 Score=27.23 Aligned_cols=48 Identities=10% Similarity=0.229 Sum_probs=35.5
Q ss_pred HhHHHHHHHhcCCCEEEEecC-CCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 106 RNILCEAVEKHHASILVVGSH-GYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~-~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
...|++.+++.++|++|.|-- ..++.. ..-|.++..+-.+..||++.-
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 477999999999999999942 222222 334677777888899999865
No 228
>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=45.51 E-value=40 Score=26.25 Aligned_cols=27 Identities=19% Similarity=0.372 Sum_probs=17.8
Q ss_pred CChHhHHHHHHHhcCCCEEEEecCCCC
Q 031355 103 GDARNILCEAVEKHHASILVVGSHGYG 129 (161)
Q Consensus 103 g~~~~~I~~~a~~~~~dliVlg~~~~~ 129 (161)
|+-.+.+++.+++.++.++.+...+..
T Consensus 102 GdDi~~v~~~~~~~~~~vi~v~t~gf~ 128 (427)
T cd01971 102 GDDVGAVVSEFQEGGAPIVYLETGGFK 128 (427)
T ss_pred hcCHHHHHHHhhhcCCCEEEEECCCcC
Confidence 555666666666667778887766543
No 229
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=45.50 E-value=1.1e+02 Score=21.80 Aligned_cols=44 Identities=18% Similarity=0.310 Sum_probs=25.2
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
..+++++..+.+.. +...+ .|..-.+-+..+.+.++|.+|+|+.
T Consensus 166 I~~lr~~~~~~~~~-~~IeV-DGGI~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 166 VIQVENRLGNRRVE-KLISI-DGSMTLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred HHHHHHHHHhcCCC-ceEEE-ECCCCHHHHHHHHHCCCCEEEEChh
Confidence 34455555554432 44444 4544444445566679999999954
No 230
>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=45.47 E-value=27 Score=27.21 Aligned_cols=48 Identities=10% Similarity=0.215 Sum_probs=35.4
Q ss_pred HhHHHHHHHhcCCCEEEEecC-CCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 106 RNILCEAVEKHHASILVVGSH-GYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~-~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
...|++.+++.++|++|.|-- ..++.. ..-|.++..+-.+..||++.-
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 477999999999999999942 222222 334677777888899999865
No 231
>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=45.30 E-value=43 Score=22.36 Aligned_cols=47 Identities=17% Similarity=0.138 Sum_probs=27.7
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhh--cCCCcEEEEc
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAH--HAHCTVMIVK 155 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~--~~~~pvlvv~ 155 (161)
+-..++.+-+.++||+|+..-++-...+. -....+.. ...+|||+.=
T Consensus 82 A~~~l~~al~~~~DLlivNkFGk~Ea~G~---Glr~~i~~A~~~giPVLt~V 130 (159)
T PF10649_consen 82 ASAALRRALAEGADLLIVNKFGKQEAEGR---GLRDEIAAALAAGIPVLTAV 130 (159)
T ss_pred HHHHHHHHHhcCCCEEEEcccHHhhhcCC---CHHHHHHHHHHCCCCEEEEE
Confidence 34455666677899999987654333322 12222322 3589998763
No 232
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=44.96 E-value=87 Score=23.89 Aligned_cols=20 Identities=10% Similarity=0.110 Sum_probs=16.2
Q ss_pred HhHHHHHHHhcCCCEEE-Eec
Q 031355 106 RNILCEAVEKHHASILV-VGS 125 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliV-lg~ 125 (161)
.+.+.+.+++.++|.|| +|.
T Consensus 72 v~~~~~~~~~~~~d~IIaiGG 92 (374)
T cd08189 72 VEAGLALYRENGCDAILAVGG 92 (374)
T ss_pred HHHHHHHHHhcCCCEEEEeCC
Confidence 56788888999999988 554
No 233
>PRK00919 GMP synthase subunit B; Validated
Probab=44.89 E-value=1.3e+02 Score=22.48 Aligned_cols=36 Identities=11% Similarity=0.062 Sum_probs=27.9
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
++++|++++.-.|.-++.++.+. . | .++..+|+...
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~~---l-G----~~v~aV~vD~G 57 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHRA---I-G----DRLTPVFVDTG 57 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHHH---h-C----CeEEEEEEECC
Confidence 78999999999888887766552 2 4 48999998654
No 234
>PRK12858 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=44.85 E-value=1.4e+02 Score=22.74 Aligned_cols=116 Identities=10% Similarity=0.092 Sum_probs=62.3
Q ss_pred HHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccEEEE
Q 031355 20 TYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDFVVE 99 (161)
Q Consensus 20 ~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 99 (161)
...+.+.++-+.+. | +...-++++-.+.. ....+.+..+.+.++.+.|...|.+ +-..
T Consensus 105 ~~~~~~sve~a~~~-G----AdAVk~lv~~~~d~----------------~~~~~~~~~~~l~rv~~ec~~~giP-lllE 162 (340)
T PRK12858 105 DLLDNWSVRRIKEA-G----ADAVKLLLYYRPDE----------------DDAINDRKHAFVERVGAECRANDIP-FFLE 162 (340)
T ss_pred cccccccHHHHHHc-C----CCEEEEEEEeCCCc----------------chHHHHHHHHHHHHHHHHHHHcCCc-eEEE
Confidence 34555556666664 6 56555656533211 1234556667788888888888754 4333
Q ss_pred E--Ec-C-----------ChHhHHH----HHHH-hcCCCEEEEecCCCC-cceee-----ecc-----chHHHHhhcCCC
Q 031355 100 V--VE-G-----------DARNILC----EAVE-KHHASILVVGSHGYG-AIKRA-----VLG-----SVSDYCAHHAHC 149 (161)
Q Consensus 100 v--~~-g-----------~~~~~I~----~~a~-~~~~dliVlg~~~~~-~~~~~-----~~g-----s~~~~ll~~~~~ 149 (161)
+ .. | ...+.|. ..++ +.++|++=+-..... ..++. ..+ ..-.++...++.
T Consensus 163 ~l~y~~~~~~~~~~~~a~~~p~~V~~a~r~~~~~elGaDvlKve~p~~~~~veg~~~~~~~~~~~~~~~~f~~~~~a~~~ 242 (340)
T PRK12858 163 PLTYDGKGSDKKAEEFAKVKPEKVIKTMEEFSKPRYGVDVLKVEVPVDMKFVEGFDGFEEAYTQEEAFKLFREQSDATDL 242 (340)
T ss_pred EeccCCCccccccccccccCHHHHHHHHHHHhhhccCCeEEEeeCCCCcccccccccccccccHHHHHHHHHHHHhhCCC
Confidence 2 11 1 0112233 2333 588999888665432 11110 000 234556778999
Q ss_pred cEEEEcCC
Q 031355 150 TVMIVKRP 157 (161)
Q Consensus 150 pvlvv~~~ 157 (161)
|++++-..
T Consensus 243 P~vvlsgG 250 (340)
T PRK12858 243 PFIFLSAG 250 (340)
T ss_pred CEEEECCC
Confidence 99998544
No 235
>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=44.73 E-value=72 Score=19.45 Aligned_cols=41 Identities=10% Similarity=0.188 Sum_probs=26.2
Q ss_pred HHHHHhhhcCCccEEEEEEcCC-hHhHHHHHHHhcCCCEEEEecC
Q 031355 83 EAKEICSSKSVHDFVVEVVEGD-ARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~-~~~~I~~~a~~~~~dliVlg~~ 126 (161)
.+...+++.| ++......+ ..+.+.+.+++.++|+|.+...
T Consensus 19 ~la~~l~~~G---~~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~ 60 (121)
T PF02310_consen 19 YLAAYLRKAG---HEVDILDANVPPEELVEALRAERPDVVGISVS 60 (121)
T ss_dssp HHHHHHHHTT---BEEEEEESSB-HHHHHHHHHHTTCSEEEEEES
T ss_pred HHHHHHHHCC---CeEEEECCCCCHHHHHHHHhcCCCcEEEEEcc
Confidence 3344455545 344444443 4688888888889999988763
No 236
>PRK00861 putative lipid kinase; Reviewed
Probab=44.58 E-value=1.2e+02 Score=22.14 Aligned_cols=55 Identities=11% Similarity=0.160 Sum_probs=32.4
Q ss_pred EEEEEEcC-ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 96 FVVEVVEG-DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 96 ~~~~v~~g-~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
++...... ..+.++.+.+.+.++|+||+..- -+.+ ..+...++ ...+|+-++|-.
T Consensus 35 ~~~~~t~~~~~a~~~a~~~~~~~~d~vv~~GG-DGTl-----~evv~~l~-~~~~~lgviP~G 90 (300)
T PRK00861 35 LDIYLTTPEIGADQLAQEAIERGAELIIASGG-DGTL-----SAVAGALI-GTDIPLGIIPRG 90 (300)
T ss_pred eEEEEccCCCCHHHHHHHHHhcCCCEEEEECC-hHHH-----HHHHHHHh-cCCCcEEEEcCC
Confidence 44444443 45677777776678898776432 2222 33445454 346888888864
No 237
>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=44.28 E-value=1.2e+02 Score=22.08 Aligned_cols=51 Identities=10% Similarity=-0.046 Sum_probs=32.7
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC-CCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA-HCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~-~~pvlvv~~ 156 (161)
.-++.+.+++.++|-+++...-......--+-..-..|...+ ++||++...
T Consensus 85 ai~~a~~a~~~Gad~v~~~~P~y~~~~~~~i~~~~~~v~~a~~~lpi~iYn~ 136 (288)
T cd00954 85 SQELAKHAEELGYDAISAITPFYYKFSFEEIKDYYREIIAAAASLPMIIYHI 136 (288)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCCCCCHHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 344557899999999998766432221111223445577778 799999754
No 238
>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=44.13 E-value=64 Score=22.80 Aligned_cols=50 Identities=12% Similarity=0.022 Sum_probs=32.3
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
...+.+.+.+.++|.|++......+......-....++...+++||+..-
T Consensus 151 ~~~~~~~l~~~G~d~i~v~~i~~~g~~~g~~~~~i~~i~~~~~~pvia~G 200 (243)
T cd04731 151 AVEWAKEVEELGAGEILLTSMDRDGTKKGYDLELIRAVSSAVNIPVIASG 200 (243)
T ss_pred HHHHHHHHHHCCCCEEEEeccCCCCCCCCCCHHHHHHHHhhCCCCEEEeC
Confidence 34566777888999888755433222222234566778888899988763
No 239
>TIGR03297 Ppyr-DeCO2ase phosphonopyruvate decarboxylase. This family consists of examples of phosphonopyruvate an decarboxylase enzyme that produces phosphonoacetaldehyde (Pald), the second step in the biosynthesis phosphonate-containing compounds. Since the preceding enzymate step, PEP phosphomutase (AepX, TIGR02320) favors the substrate PEP energetically, the decarboxylase is required to drive the reaction in the direction of phosphonate production. Pald is a precursor of natural products including antibiotics like bialaphos and phosphonothricin in Streptomyces species, phosphonate-modified molecules such as the polysaccharide B of Bacteroides fragilis, the phosphonolipids of Tetrahymena pyroformis, the glycosylinositolphospholipids of Trypanosoma cruzi. This gene generally occurs in prokaryotic organisms adjacent to the gene for AepX. Most often an aminotansferase (aepZ) is also present which leads to the production of the most common phosphonate compound, 2-aminoethylphosphonate (A
Probab=43.92 E-value=23 Score=27.02 Aligned_cols=55 Identities=16% Similarity=0.175 Sum_probs=39.9
Q ss_pred CChHhHHHHHHHhcCCC---EEEEecCCCCc----ceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 103 GDARNILCEAVEKHHAS---ILVVGSHGYGA----IKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 103 g~~~~~I~~~a~~~~~d---liVlg~~~~~~----~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
|+..+.|...+...-+. ++++|++|..+ ......|..+..+|....+|..+++..
T Consensus 63 Gn~vN~l~SL~~~~~y~iP~l~~i~~RG~~g~~depqh~~~G~~t~~lL~~~~i~~~~~~~~ 124 (361)
T TIGR03297 63 GNAVNPLTSLADTEVYDIPLLLIVGWRGEPGVHDEPQHVKQGRITLSLLDALEIPWEVLSTD 124 (361)
T ss_pred hhhhhHHHhhccccccCcCeeEEEecCCCCCCCCCchhhHHhHHHHHHHHHcCCCEEECCCC
Confidence 47778887774333434 37888887544 334567999999999999999999643
No 240
>PRK13337 putative lipid kinase; Reviewed
Probab=43.90 E-value=1.3e+02 Score=22.14 Aligned_cols=68 Identities=9% Similarity=0.092 Sum_probs=35.7
Q ss_pred HHHHHhhhcCCccEEEEEEc-CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 83 EAKEICSSKSVHDFVVEVVE-GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
++...+.+.+.. +...... ..-+..+.+.+.+.++|+||+.... +. +..+...++.. ...|+-++|..
T Consensus 23 ~~~~~l~~~~~~-~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~GGD-GT-----l~~vv~gl~~~~~~~~lgiiP~G 92 (304)
T PRK13337 23 DVLQKLEQAGYE-TSAHATTGPGDATLAAERAVERKFDLVIAAGGD-GT-----LNEVVNGIAEKENRPKLGIIPVG 92 (304)
T ss_pred HHHHHHHHcCCE-EEEEEecCCCCHHHHHHHHHhcCCCEEEEEcCC-CH-----HHHHHHHHhhCCCCCcEEEECCc
Confidence 444455555543 4443333 3455566655556677877765332 21 13344444432 35688888864
No 241
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=43.82 E-value=59 Score=24.80 Aligned_cols=39 Identities=13% Similarity=0.115 Sum_probs=33.2
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEe
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHA 47 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v 47 (161)
.+.+|.|...+...|.-.|..++.+++.. + . .+|.++|+
T Consensus 26 ~f~~VcVSFSGGKDS~lmLhL~~~~ar~~-~-~--~~i~Vlfi 64 (407)
T COG3969 26 TFPRVCVSFSGGKDSGLMLHLVAEVAREN-G-R--DKISVLFI 64 (407)
T ss_pred cCCeEEEEecCCCchhHHHHHHHHHHHHh-C-C--CceEEEEE
Confidence 56789999999999999999999999986 4 2 47888887
No 242
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=43.58 E-value=89 Score=23.71 Aligned_cols=20 Identities=15% Similarity=0.200 Sum_probs=15.4
Q ss_pred HhHHHHHHHhcCCCEEE-Eec
Q 031355 106 RNILCEAVEKHHASILV-VGS 125 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliV-lg~ 125 (161)
.+.+.+.+++.++|.|| +|.
T Consensus 69 v~~~~~~~~~~~~d~IiaiGG 89 (370)
T cd08551 69 VDAAVAAYREEGCDGVIAVGG 89 (370)
T ss_pred HHHHHHHHHhcCCCEEEEeCC
Confidence 56677888888999988 553
No 243
>PRK10481 hypothetical protein; Provisional
Probab=43.49 E-value=1.2e+02 Score=21.58 Aligned_cols=42 Identities=19% Similarity=0.317 Sum_probs=29.9
Q ss_pred hHhHHHHHHH---hcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEE
Q 031355 105 ARNILCEAVE---KHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMI 153 (161)
Q Consensus 105 ~~~~I~~~a~---~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlv 153 (161)
..+.+.+.++ ..++|+||++.-+.+. ...+.+-+..++||+.
T Consensus 167 ~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~-------~~~~~le~~lg~PVI~ 211 (224)
T PRK10481 167 SEEELIDAGKELLDQGADVIVLDCLGYHQ-------RHRDLLQKALDVPVLL 211 (224)
T ss_pred CHHHHHHHHHHhhcCCCCEEEEeCCCcCH-------HHHHHHHHHHCcCEEc
Confidence 3456666666 6789999999887653 2345666678889875
No 244
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=43.42 E-value=99 Score=20.70 Aligned_cols=50 Identities=14% Similarity=0.284 Sum_probs=27.1
Q ss_pred EEEEEEcCChHhHHH--HHH-HhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 96 FVVEVVEGDARNILC--EAV-EKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 96 ~~~~v~~g~~~~~I~--~~a-~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.+..+..+...+.+- +.. ...++|.||-. |.++..|=.+.+.||+-++..
T Consensus 10 ~~i~v~~~~~e~~v~~a~~~~~~~g~dViIsR------------G~ta~~lr~~~~iPVV~I~~s 62 (176)
T PF06506_consen 10 AEIDVIEASLEEAVEEARQLLESEGADVIISR------------GGTAELLRKHVSIPVVEIPIS 62 (176)
T ss_dssp SEEEEEE--HHHHHHHHHHHHTTTT-SEEEEE------------HHHHHHHHCC-SS-EEEE---
T ss_pred ceEEEEEecHHHHHHHHHHhhHhcCCeEEEEC------------CHHHHHHHHhCCCCEEEECCC
Confidence 444566664443333 334 56789998864 667776777788999988754
No 245
>PRK08673 3-deoxy-7-phosphoheptulonate synthase; Reviewed
Probab=43.32 E-value=1.5e+02 Score=22.58 Aligned_cols=105 Identities=14% Similarity=0.133 Sum_probs=59.1
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccE
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDF 96 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 96 (161)
+....++++|..+.+. | +.+.-.+++.+...+..+.+++ ++-+..+++.+++.|.. +
T Consensus 104 Es~e~~~~~A~~lk~~--g----a~~~r~~~fKpRTsp~sf~G~g----------------~~gL~~L~~~~~~~Gl~-v 160 (335)
T PRK08673 104 ESEEQILEIARAVKEA--G----AQILRGGAFKPRTSPYSFQGLG----------------EEGLKLLAEAREETGLP-I 160 (335)
T ss_pred CCHHHHHHHHHHHHHh--c----hhhccCcEecCCCCCccccccc----------------HHHHHHHHHHHHHcCCc-E
Confidence 3456778888887774 4 5666556665544433333322 34444566667777765 6
Q ss_pred EEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 97 VVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 97 ~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
-+.+..-...+.+.+ . +|++=+|++.-..+. .- +-+-.+++||++=+.
T Consensus 161 ~tev~d~~~~~~l~~----~-vd~lqIgAr~~~N~~------LL-~~va~~~kPViLk~G 208 (335)
T PRK08673 161 VTEVMDPRDVELVAE----Y-VDILQIGARNMQNFD------LL-KEVGKTNKPVLLKRG 208 (335)
T ss_pred EEeeCCHHHHHHHHH----h-CCeEEECcccccCHH------HH-HHHHcCCCcEEEeCC
Confidence 666655555554433 3 789999987543322 11 122245667766543
No 246
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=43.30 E-value=24 Score=23.41 Aligned_cols=22 Identities=5% Similarity=0.119 Sum_probs=17.6
Q ss_pred hHhHHHHHHHhcCCCEEEEecC
Q 031355 105 ARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~ 126 (161)
....+.++.++.++|+||.-..
T Consensus 77 ~~~~l~~~l~~~~PD~IIsThp 98 (169)
T PF06925_consen 77 FARRLIRLLREFQPDLIISTHP 98 (169)
T ss_pred HHHHHHHHHhhcCCCEEEECCc
Confidence 4567888999999999888644
No 247
>PLN02828 formyltetrahydrofolate deformylase
Probab=43.10 E-value=1.3e+02 Score=22.01 Aligned_cols=87 Identities=8% Similarity=0.033 Sum_probs=50.9
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHH
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEA 84 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 84 (161)
...||.|-+.++..+..++-++.+-... + +++.++-...+.... ..+
T Consensus 69 ~~~riavlvSg~g~nl~~ll~~~~~g~l--~----~eI~~ViSn~~~~~~---------------------------a~~ 115 (268)
T PLN02828 69 PKYKIAVLASKQDHCLIDLLHRWQDGRL--P----VDITCVISNHERGPN---------------------------THV 115 (268)
T ss_pred CCcEEEEEEcCCChhHHHHHHhhhcCCC--C----ceEEEEEeCCCCCCC---------------------------chH
Confidence 4578999999998888888887666543 3 566666443321100 123
Q ss_pred HHHhhhcCCccEEEEEEc--CChHhHHHHHHHhcCCCEEEEecCC
Q 031355 85 KEICSSKSVHDFVVEVVE--GDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
.+.+++.|.. +.+.-.. ....+.+++..+ ++|++|+....
T Consensus 116 ~~~A~~~gIP-~~~~~~~~~~~~e~~~~~~l~--~~DliVLAgym 157 (268)
T PLN02828 116 MRFLERHGIP-YHYLPTTKENKREDEILELVK--GTDFLVLARYM 157 (268)
T ss_pred HHHHHHcCCC-EEEeCCCCCCCHHHHHHHHHh--cCCEEEEeeeh
Confidence 3444555653 4322221 223456667666 69999998653
No 248
>PRK14057 epimerase; Provisional
Probab=43.08 E-value=1.3e+02 Score=21.88 Aligned_cols=45 Identities=13% Similarity=0.114 Sum_probs=26.0
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
...+++++..+.+. .+...+ .|..-..-+..+.+.++|.+|+|+.
T Consensus 179 KI~~lr~~~~~~~~-~~~IeV-DGGI~~~ti~~l~~aGad~~V~GSa 223 (254)
T PRK14057 179 RVAQLLCLLGDKRE-GKIIVI-DGSLTQDQLPSLIAQGIDRVVSGSA 223 (254)
T ss_pred HHHHHHHHHHhcCC-CceEEE-ECCCCHHHHHHHHHCCCCEEEEChH
Confidence 33455555555443 244444 4544444445566679999999954
No 249
>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=43.05 E-value=50 Score=22.55 Aligned_cols=9 Identities=22% Similarity=0.693 Sum_probs=4.8
Q ss_pred EEEEecCCC
Q 031355 120 ILVVGSHGY 128 (161)
Q Consensus 120 liVlg~~~~ 128 (161)
.++.|.+..
T Consensus 80 ~~~~GNHD~ 88 (223)
T cd00840 80 FIIAGNHDS 88 (223)
T ss_pred EEecCCCCC
Confidence 445566654
No 250
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=42.90 E-value=1.2e+02 Score=21.37 Aligned_cols=23 Identities=17% Similarity=0.173 Sum_probs=18.4
Q ss_pred EEEEecCChhHHHHHHHHHHHhh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFF 31 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~ 31 (161)
++++-.++-.|.-+++.|+.+|.
T Consensus 5 ll~g~~G~GKS~lal~la~~va~ 27 (239)
T cd01125 5 ALVAPGGTGKSSLLLVLALAMAL 27 (239)
T ss_pred EEEcCCCCCHHHHHHHHHHHHhc
Confidence 56666677889999999998875
No 251
>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=42.70 E-value=1e+02 Score=20.61 Aligned_cols=25 Identities=12% Similarity=0.239 Sum_probs=21.1
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
...+.|++.+++.++|+|++|-...
T Consensus 88 ~~~~~i~~~I~~~~pdiv~vglG~P 112 (172)
T PF03808_consen 88 EEEEAIINRINASGPDIVFVGLGAP 112 (172)
T ss_pred hhHHHHHHHHHHcCCCEEEEECCCC
Confidence 4688999999999999999996543
No 252
>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=42.63 E-value=51 Score=25.65 Aligned_cols=25 Identities=20% Similarity=0.383 Sum_probs=11.7
Q ss_pred CChHhHHHHHHH-hcCCCEEEEecCC
Q 031355 103 GDARNILCEAVE-KHHASILVVGSHG 127 (161)
Q Consensus 103 g~~~~~I~~~a~-~~~~dliVlg~~~ 127 (161)
|+-.+.+++.++ +.++.+|.+-..+
T Consensus 105 GdDi~~v~~~~~~~~~~pvi~v~t~g 130 (426)
T cd01972 105 GDDVESVVEELEDEIGIPVVALHCEG 130 (426)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCc
Confidence 333444444433 3455555555444
No 253
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=42.31 E-value=1.2e+02 Score=21.23 Aligned_cols=21 Identities=10% Similarity=0.197 Sum_probs=17.2
Q ss_pred HhHHHHHHHhcCCCEEEEecC
Q 031355 106 RNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~ 126 (161)
.+++.+..++.++|++|+...
T Consensus 67 ~~~~~~~l~~~~~Dliv~agy 87 (207)
T PLN02331 67 PDELVDALRGAGVDFVLLAGY 87 (207)
T ss_pred hHHHHHHHHhcCCCEEEEeCc
Confidence 457888889999999999654
No 254
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=42.31 E-value=1.2e+02 Score=21.42 Aligned_cols=43 Identities=16% Similarity=0.161 Sum_probs=24.5
Q ss_pred HHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
.+++++..+.+. .+...+-.|--.+. +..+.+.++|.+|+|+.
T Consensus 159 ~~l~~~~~~~~~-~~~IeVDGGI~~et-i~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 159 RAIRKKIDALGK-PIRLEIDGGVKADN-IGAIAAAGADTFVAGSA 201 (223)
T ss_pred HHHHHHHHhcCC-CeeEEEECCCCHHH-HHHHHHcCCCEEEEChh
Confidence 344555544433 24445444434444 44555569999999964
No 255
>TIGR03572 WbuZ glycosyl amidation-associated protein WbuZ. This clade of sequences is highly similar to the HisF protein, but generally represents the second HisF homolog in the genome where the other is an authentic HisF observed in the context of a complete histidine biosynthesis operon. The similarity between these WbuZ sequences and true HisFs is such that often the closest match by BLAST of a WbuZ is a HisF. Only by making a multiple sequence alignment is the homology relationship among the WbuZ sequences made apparent. WbuZ genes are invariably observed in the presence of a homolog of the HisH protein (designated WbuY) and a proposed N-acetyl sugar amidotransferase designated in WbuX in E. coli, IfnA in P. aeriginosa and PseA in C. jejuni. Similarly, this trio of genes is invariably found in the context of saccharide biosynthesis loci. It has been shown that the WbuYZ homologs are not essential components of the activity expressed by WbuX, leading to the proposal that these to pr
Probab=42.29 E-value=92 Score=21.82 Aligned_cols=49 Identities=8% Similarity=-0.004 Sum_probs=32.6
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
...+.+.+.+.++|.|++......+...-..-....++...++.||+..
T Consensus 155 ~~~~~~~~~~~G~d~i~i~~i~~~g~~~g~~~~~~~~i~~~~~ipvia~ 203 (232)
T TIGR03572 155 PVEWAREAEQLGAGEILLNSIDRDGTMKGYDLELIKTVSDAVSIPVIAL 203 (232)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCccCCcCCCCHHHHHHHHhhCCCCEEEE
Confidence 3466677788899988887643332222223456777888889998876
No 256
>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=42.06 E-value=1.4e+02 Score=22.13 Aligned_cols=66 Identities=11% Similarity=-0.005 Sum_probs=39.0
Q ss_pred CCccEEEEEEcCCh--HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC-CCcEEEEcCC
Q 031355 92 SVHDFVVEVVEGDA--RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA-HCTVMIVKRP 157 (161)
Q Consensus 92 ~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~-~~pvlvv~~~ 157 (161)
+..++-..+...+. .-...+.|++.++|-+++-..-......--+-..-+.|...+ ++||++...+
T Consensus 76 grvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~lPv~iYn~P 144 (309)
T cd00952 76 GRVPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEMAIAIYANP 144 (309)
T ss_pred CCCCEEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCCCcEEEEcCc
Confidence 33335455544344 445568899999998888765422221111123345677778 5999998543
No 257
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=42.03 E-value=82 Score=24.02 Aligned_cols=56 Identities=13% Similarity=0.140 Sum_probs=40.4
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCC-CcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAH-CTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~-~pvlv 153 (161)
+-+....-..++++.|++.+.-+|+..+.+.....+ .++......+..+.+ +||.+
T Consensus 23 fN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPVal 80 (347)
T PRK09196 23 FNVNNLEQVQAIMEAADETDSPVILQASAGARKYAGEPFLRHLILAAVEEYPHIPVVM 80 (347)
T ss_pred eeeCCHHHHHHHHHHHHHhCCCEEEECCccHhhhCCHHHHHHHHHHHHHhCCCCcEEE
Confidence 334445789999999999999999998776433222 245667777777775 88765
No 258
>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=42.00 E-value=87 Score=19.64 Aligned_cols=39 Identities=15% Similarity=0.158 Sum_probs=31.1
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEe
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHA 47 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v 47 (161)
-+||++--|.+-.-.+||..|+..|+.. + |+..++=+-|
T Consensus 70 EKRIvITGD~DIDhDqaLa~aI~eAk~q-~--Pdm~Vtkvvv 108 (114)
T PF05902_consen 70 EKRIVITGDADIDHDQALAQAIKEAKEQ-H--PDMSVTKVVV 108 (114)
T ss_pred EEEEEEecCCCcchHHHHHHHHHHHHHh-C--CCceEEEEEE
Confidence 4789999998888889999999999984 5 6567665544
No 259
>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=41.92 E-value=1.1e+02 Score=20.95 Aligned_cols=45 Identities=11% Similarity=0.027 Sum_probs=30.4
Q ss_pred HHHhhhcCCccEEEEEEc-CChHhHHHHHHHhcCCCEEEEecCCCCcce
Q 031355 85 KEICSSKSVHDFVVEVVE-GDARNILCEAVEKHHASILVVGSHGYGAIK 132 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliVlg~~~~~~~~ 132 (161)
...++..|. ++.-.. .-|.+.+++.+++.++|+|.+.........
T Consensus 105 ~~~l~~~G~---~vi~LG~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~ 150 (197)
T TIGR02370 105 VTMLRANGF---DVIDLGRDVPIDTVVEKVKKEKPLMLTGSALMTTTMY 150 (197)
T ss_pred HHHHHhCCc---EEEECCCCCCHHHHHHHHHHcCCCEEEEccccccCHH
Confidence 334455563 333222 358999999999999999999876444433
No 260
>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=41.43 E-value=1e+02 Score=20.18 Aligned_cols=79 Identities=20% Similarity=0.156 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHhhhcCC--ccEEEEEEcC--ChHhHHHHHHHhcCCCEEEE-ec--CCCCcceeeeccchHHHHhh--
Q 031355 75 KIAARVVEEAKEICSSKSV--HDFVVEVVEG--DARNILCEAVEKHHASILVV-GS--HGYGAIKRAVLGSVSDYCAH-- 145 (161)
Q Consensus 75 ~~~~~~l~~~~~~~~~~~~--~~~~~~v~~g--~~~~~I~~~a~~~~~dliVl-g~--~~~~~~~~~~~gs~~~~ll~-- 145 (161)
.-.+..++.+.+.+.+.+. ..+++....| +..-.+-..++..++|-+|. |. +|.+.-.+.....+++.|++
T Consensus 16 ~i~~~ll~~a~~~l~~~g~~~~~i~~~~VPGa~ElP~a~~~l~~~~~~Davi~lG~VI~G~T~H~~~v~~~v~~gl~~ls 95 (144)
T PF00885_consen 16 EITDRLLEGALEELKRHGVAEENIEVIRVPGAFELPLAAKRLAESGRYDAVIALGCVIRGETDHFEYVANAVSRGLMDLS 95 (144)
T ss_dssp HHHHHHHHHHHHHHHHTTTTGGCEEEEEESSGGGHHHHHHHHHHCSTESEEEEEEEEE--SSTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEEcCCHHHHHHHHHHHhcccCccEEEEeccccCCCchHHHHHHHHHHHHHHHHh
Confidence 4455666666777777664 2366666677 56677777788777887665 53 55554444555666666665
Q ss_pred -cCCCcEEE
Q 031355 146 -HAHCTVMI 153 (161)
Q Consensus 146 -~~~~pvlv 153 (161)
+...||..
T Consensus 96 l~~~~PV~~ 104 (144)
T PF00885_consen 96 LEYGIPVIF 104 (144)
T ss_dssp HHHTSEEEE
T ss_pred ccCCccEEE
Confidence 34677654
No 261
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=41.28 E-value=1.6e+02 Score=22.42 Aligned_cols=69 Identities=17% Similarity=0.226 Sum_probs=39.1
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcCC----hHhHHHHHHHhcCCCEEE-EecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEGD----ARNILCEAVEKHHASILV-VGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g~----~~~~I~~~a~~~~~dliV-lg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
..+++.+.+...+.. +.+....++ ..+.+.+.+++.++|.|| +|.... ..++..+......|++.|
T Consensus 44 ~~~~v~~~l~~~~~~-~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGsv--------~D~aK~iA~~~~~p~i~I 114 (366)
T PRK09423 44 VGDRVEASLKEAGLT-VVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIGGGKT--------LDTAKAVADYLGVPVVIV 114 (366)
T ss_pred HHHHHHHHHHhCCCe-EEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecChHH--------HHHHHHHHHHcCCCEEEe
Confidence 335555555554443 323333443 356777888889999888 442211 234444444457899988
Q ss_pred cCC
Q 031355 155 KRP 157 (161)
Q Consensus 155 ~~~ 157 (161)
|-.
T Consensus 115 PTt 117 (366)
T PRK09423 115 PTI 117 (366)
T ss_pred CCc
Confidence 853
No 262
>PRK13057 putative lipid kinase; Reviewed
Probab=41.16 E-value=1.1e+02 Score=22.34 Aligned_cols=67 Identities=16% Similarity=0.196 Sum_probs=36.0
Q ss_pred HHHHHHhhhcCCccEEEEEEc-CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 82 EEAKEICSSKSVHDFVVEVVE-GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
+++.+.+.+.+.. +...... ..-+..+.+.+ ..++|+||+..-. +. +..+++.++ ..+.|+-++|-.
T Consensus 16 ~~i~~~l~~~g~~-~~~~~t~~~~~a~~~~~~~-~~~~d~iiv~GGD-GT-----v~~v~~~l~-~~~~~lgiiP~G 83 (287)
T PRK13057 16 AAARAALEAAGLE-LVEPPAEDPDDLSEVIEAY-ADGVDLVIVGGGD-GT-----LNAAAPALV-ETGLPLGILPLG 83 (287)
T ss_pred HHHHHHHHHcCCe-EEEEecCCHHHHHHHHHHH-HcCCCEEEEECch-HH-----HHHHHHHHh-cCCCcEEEECCC
Confidence 4555566655543 4444333 23444455443 3467887765332 21 234555554 457899999864
No 263
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase. tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.
Probab=41.09 E-value=1.6e+02 Score=22.43 Aligned_cols=33 Identities=15% Similarity=0.290 Sum_probs=24.8
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEec
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHAR 48 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~ 48 (161)
++|+|++++.-.|.-++..+.+ . | .++..+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~-G----~~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----Q-G----YEVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----c-C----CeEEEEEEE
Confidence 4799999999888877765544 2 4 488888884
No 264
>PLN02858 fructose-bisphosphate aldolase
Probab=41.04 E-value=32 Score=31.30 Aligned_cols=74 Identities=12% Similarity=-0.020 Sum_probs=47.6
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
+.++...+++.+.----+-+..-.-...+++.|++.+.-+|+..+.+.-...+.-+......+.+++.+||.+=
T Consensus 1102 ~~~~l~~A~~~~yav~afn~~n~e~~~avi~aAe~~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~vpV~lH 1175 (1378)
T PLN02858 1102 TKELLLNAEKGGYAVGAFNVYNLEGIEAVVAAAEAEKSPAILQVHPGALKQGGIPLVSCCIAAAEQASVPITVH 1175 (1378)
T ss_pred HHHHHHHHHHCCcEEEEEEeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCHHHHHHHHHHHHHCCCCEEEE
Confidence 33444444444443133333344789999999999999999998765432222225566777888899998763
No 265
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=40.96 E-value=68 Score=18.72 Aligned_cols=53 Identities=13% Similarity=0.159 Sum_probs=30.4
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCC-cc-eeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYG-AI-KRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~-~~-~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
..+.|.+..++.+++.|.+|..+.- +. ...+.-++.+.+-.+.++||.++-+.
T Consensus 39 ~~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~~~~~l~~~l~~~~~~pv~~~nDa 93 (99)
T smart00732 39 DAARLKKLIKKYQPDLIVIGLPLNMNGTASRETEEAFAELLKERFNLPVVLVDER 93 (99)
T ss_pred HHHHHHHHHHHhCCCEEEEeCCcCCCCCcCHHHHHHHHHHHHHhhCCcEEEEeCC
Confidence 4566666666667888888866532 11 00011233344445678999988654
No 266
>PRK14057 epimerase; Provisional
Probab=40.94 E-value=1.4e+02 Score=21.70 Aligned_cols=47 Identities=4% Similarity=0.052 Sum_probs=34.5
Q ss_pred EEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHh
Q 031355 96 FVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCA 144 (161)
Q Consensus 96 ~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll 144 (161)
.-..+.-+.|.+.|..+.. .+|+|.+-+-.+++-.+.|..+..+++-
T Consensus 135 aGlAlnP~Tp~e~i~~~l~--~vD~VLvMtV~PGfgGQ~Fi~~~l~KI~ 181 (254)
T PRK14057 135 RGISLCPATPLDVIIPILS--DVEVIQLLAVNPGYGSKMRSSDLHERVA 181 (254)
T ss_pred eEEEECCCCCHHHHHHHHH--hCCEEEEEEECCCCCchhccHHHHHHHH
Confidence 4444555689999999999 8998888877666666667666666554
No 267
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=40.80 E-value=1.3e+02 Score=21.39 Aligned_cols=46 Identities=17% Similarity=0.359 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
+...+++++..+.+. .+...+-.|--.+.+ ..+.+.++|.+|+|+.
T Consensus 154 ~KI~~lr~~~~~~~~-~~~IeVDGGI~~~~i-~~~~~aGad~~V~Gss 199 (229)
T PRK09722 154 DKIAELKALRERNGL-EYLIEVDGSCNQKTY-EKLMEAGADVFIVGTS 199 (229)
T ss_pred HHHHHHHHHHHhcCC-CeEEEEECCCCHHHH-HHHHHcCCCEEEEChH
Confidence 333455555555443 254554444334444 4555569999999964
No 268
>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=40.80 E-value=1.5e+02 Score=22.00 Aligned_cols=35 Identities=14% Similarity=0.086 Sum_probs=26.0
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
+++|++++.-.|.-++..+... . | -++.++|+...
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~---l-G----~~v~aV~vd~g 35 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA---I-G----DRLTCVFVDNG 35 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH---h-C----CcEEEEEecCC
Confidence 5899999998888877776552 2 4 37899998544
No 269
>PRK00211 sulfur relay protein TusC; Validated
Probab=40.71 E-value=92 Score=19.53 Aligned_cols=38 Identities=8% Similarity=-0.029 Sum_probs=24.9
Q ss_pred ceeEEEEecCCh----hHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 6 TQTMVVGIDDSE----QSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 6 ~~~ilv~~d~s~----~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
++++++.+..+| .+..+++.|+..+.. + -++.++..-+
T Consensus 1 M~ki~~i~~~~Pyg~~~~~eaLd~ala~~a~--~----~~v~vff~~D 42 (119)
T PRK00211 1 MKRIAFVFRQAPHGTASGREGLDALLATSAF--T----EDIGVFFIDD 42 (119)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHHHHHhcc--c----CCeeEEEEhh
Confidence 356888888665 456677777766653 3 3777776644
No 270
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=40.58 E-value=85 Score=22.59 Aligned_cols=42 Identities=17% Similarity=0.330 Sum_probs=27.3
Q ss_pred HHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 111 EAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 111 ~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
...+++++|.||.=..|..++...+ .......+||+++.++.
T Consensus 184 aL~~~~~i~~lVtK~SG~~g~~eKi------~AA~~lgi~vivI~RP~ 225 (248)
T PRK08057 184 ALLRQHRIDVVVTKNSGGAGTEAKL------EAARELGIPVVMIARPA 225 (248)
T ss_pred HHHHHcCCCEEEEcCCCchhhHHHH------HHHHHcCCeEEEEeCCC
Confidence 5578889999988544433222111 45667899999997653
No 271
>PLN00200 argininosuccinate synthase; Provisional
Probab=40.50 E-value=1.8e+02 Score=22.79 Aligned_cols=37 Identities=14% Similarity=0.251 Sum_probs=28.8
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
+.++|+|++++.-.|.-++.++.+ . +| .+++.+|+..
T Consensus 4 ~~~kVvva~SGGlDSsvla~~L~e---~-~G----~eViav~id~ 40 (404)
T PLN00200 4 KLNKVVLAYSGGLDTSVILKWLRE---N-YG----CEVVCFTADV 40 (404)
T ss_pred CCCeEEEEEeCCHHHHHHHHHHHH---h-hC----CeEEEEEEEC
Confidence 357999999999989888887755 2 25 5888998854
No 272
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=40.48 E-value=1.6e+02 Score=22.30 Aligned_cols=34 Identities=18% Similarity=0.299 Sum_probs=24.8
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
++|+|++++...|..++..+.+ . | .++..+|+..
T Consensus 1 ~kVlValSGGvDSsvla~lL~~----~-G----~~V~~v~~~~ 34 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE----Q-G----YEVIGVFMKL 34 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH----c-C----CcEEEEEEeC
Confidence 3799999999888877654432 2 4 4788888864
No 273
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=40.35 E-value=50 Score=26.54 Aligned_cols=9 Identities=33% Similarity=0.272 Sum_probs=5.3
Q ss_pred EEEEEEecC
Q 031355 41 KLVIVHARP 49 (161)
Q Consensus 41 ~l~~l~v~~ 49 (161)
-+.++|.-.
T Consensus 26 ~~~i~H~p~ 34 (513)
T CHL00076 26 VHAIMHAPL 34 (513)
T ss_pred cEEEeeCCC
Confidence 556677643
No 274
>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=40.21 E-value=74 Score=24.61 Aligned_cols=25 Identities=28% Similarity=0.541 Sum_probs=11.6
Q ss_pred CChHhHHHHHHH-hcCCCEEEEecCC
Q 031355 103 GDARNILCEAVE-KHHASILVVGSHG 127 (161)
Q Consensus 103 g~~~~~I~~~a~-~~~~dliVlg~~~ 127 (161)
|+-.+.+++.++ +.++.++.+...+
T Consensus 102 GdDi~~v~~~~~~~~~~~vi~v~t~g 127 (410)
T cd01968 102 GDDIDAVCKTASEKFGIPVIPVHSPG 127 (410)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCC
Confidence 444444544433 3345555555444
No 275
>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=40.04 E-value=72 Score=24.50 Aligned_cols=25 Identities=16% Similarity=0.335 Sum_probs=12.5
Q ss_pred CChHhHHHHHHH-hcCCCEEEEecCC
Q 031355 103 GDARNILCEAVE-KHHASILVVGSHG 127 (161)
Q Consensus 103 g~~~~~I~~~a~-~~~~dliVlg~~~ 127 (161)
|+-.+.+++.++ +.++.+|.+-..+
T Consensus 103 GdDi~~v~~~~~~~~~~~vi~v~t~g 128 (406)
T cd01967 103 GDDIEAVAKEASKELGIPVIPVNCEG 128 (406)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCC
Confidence 444444444433 4456666665554
No 276
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=39.64 E-value=1.1e+02 Score=22.08 Aligned_cols=44 Identities=18% Similarity=0.228 Sum_probs=28.7
Q ss_pred HHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCCC
Q 031355 110 CEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPKT 159 (161)
Q Consensus 110 ~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~~ 159 (161)
....++.++|.||.=..|..++... -...+...+||++++++..
T Consensus 187 ~al~~~~~i~~lVtK~SG~~g~~eK------i~AA~~lgi~vivI~RP~~ 230 (249)
T PF02571_consen 187 RALFRQYGIDVLVTKESGGSGFDEK------IEAARELGIPVIVIKRPPE 230 (249)
T ss_pred HHHHHHcCCCEEEEcCCCchhhHHH------HHHHHHcCCeEEEEeCCCC
Confidence 3558888999999854444322211 1355678999999976643
No 277
>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=39.35 E-value=38 Score=20.09 Aligned_cols=44 Identities=5% Similarity=0.073 Sum_probs=26.2
Q ss_pred HHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEE
Q 031355 108 ILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVM 152 (161)
Q Consensus 108 ~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvl 152 (161)
.+.+..++.++||||.-......... --|-..+++.-...+|.+
T Consensus 51 ~i~~~i~~~~IdlVIn~~~~~~~~~~-~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 51 QIMDLIKNGKIDLVINTPYPFSDQEH-TDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHHHTTSEEEEEEE--THHHHHT-HHHHHHHHHHHHTTSHEE
T ss_pred HHHHHHHcCCeEEEEEeCCCCccccc-CCcHHHHHHHHHcCCCCc
Confidence 49999999999999987654332211 124444555555566654
No 278
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=39.30 E-value=54 Score=24.57 Aligned_cols=43 Identities=12% Similarity=0.115 Sum_probs=22.4
Q ss_pred HhHHHHHHHhcCCCEEE-EecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILV-VGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliV-lg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.+.+.+.+++.++|.|| +|.... .+++.-+....++|++.||-
T Consensus 66 v~~~~~~~~~~~~d~IIaiGGGs~--------iD~aK~ia~~~~~p~i~IPT 109 (337)
T cd08177 66 TEAAVAAAREAGADGIVAIGGGST--------IDLAKAIALRTGLPIIAIPT 109 (337)
T ss_pred HHHHHHHHHhcCCCEEEEeCCcHH--------HHHHHHHHHHhcCCEEEEcC
Confidence 44555556667777766 442211 22333333334677777764
No 279
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=39.14 E-value=1.1e+02 Score=23.87 Aligned_cols=16 Identities=19% Similarity=-0.004 Sum_probs=9.8
Q ss_pred hHHHHhhcCCCcEEEE
Q 031355 139 VSDYCAHHAHCTVMIV 154 (161)
Q Consensus 139 ~~~~ll~~~~~pvlvv 154 (161)
....++...++-|+--
T Consensus 92 ~~~~~l~~~gi~vl~~ 107 (407)
T PRK10966 92 ESRDLLAFLNTTVIAS 107 (407)
T ss_pred hHHHHHHHCCcEEEec
Confidence 3456777777666544
No 280
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=39.04 E-value=1e+02 Score=23.10 Aligned_cols=57 Identities=12% Similarity=0.097 Sum_probs=39.8
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee-eeccchHHHHhhcCC-CcEEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR-AVLGSVSDYCAHHAH-CTVMIV 154 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~-~~~gs~~~~ll~~~~-~pvlvv 154 (161)
+-+..-.-..++++.|++.+.-+|+..+.+.....+ ..+......+..+++ .||.+=
T Consensus 22 fN~~n~e~~~avi~AAe~~~sPvIlq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValH 80 (307)
T PRK05835 22 FNFVNFEMLNAIFEAGNEENSPLFIQASEGAIKYMGIDMAVGMVKIMCERYPHIPVALH 80 (307)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhCChHHHHHHHHHHHHhcCCCeEEEE
Confidence 333444789999999999999999998775432211 234456677778886 888763
No 281
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=39.03 E-value=1.6e+02 Score=21.78 Aligned_cols=49 Identities=10% Similarity=0.042 Sum_probs=31.8
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 107 NILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
-...+.+++.++|-+++...-......--+-..-..|...++.||++..
T Consensus 91 i~~~~~a~~~Gadav~~~pP~y~~~~~~~i~~~f~~va~~~~lpi~lYn 139 (303)
T PRK03620 91 IEYAQAAERAGADGILLLPPYLTEAPQEGLAAHVEAVCKSTDLGVIVYN 139 (303)
T ss_pred HHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHHhCCCCEEEEc
Confidence 3445778999999999976543222111122344567778899999975
No 282
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=38.99 E-value=1.3e+02 Score=20.96 Aligned_cols=57 Identities=16% Similarity=0.108 Sum_probs=39.2
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHH
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDY 142 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ 142 (161)
++.+.+++.|.. +-..+.-|.+.+.|..++. ..|++.+-+-..++-.+.|..+.-.+
T Consensus 103 ~lv~~ir~~Gmk-~G~alkPgT~Ve~~~~~~~--~~D~vLvMtVePGFGGQkFme~mm~K 159 (224)
T KOG3111|consen 103 ELVEKIREKGMK-VGLALKPGTPVEDLEPLAE--HVDMVLVMTVEPGFGGQKFMEDMMPK 159 (224)
T ss_pred HHHHHHHHcCCe-eeEEeCCCCcHHHHHHhhc--cccEEEEEEecCCCchhhhHHHHHHH
Confidence 344445555544 7777778999999999999 89998887766655555555544443
No 283
>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=38.84 E-value=59 Score=25.60 Aligned_cols=7 Identities=29% Similarity=0.434 Sum_probs=4.7
Q ss_pred EEEEEEe
Q 031355 41 KLVIVHA 47 (161)
Q Consensus 41 ~l~~l~v 47 (161)
-+.++|-
T Consensus 60 ~~~lvHG 66 (456)
T TIGR01283 60 AAHLVHG 66 (456)
T ss_pred EEEEEeC
Confidence 6677775
No 284
>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.
Probab=38.53 E-value=1.2e+02 Score=20.10 Aligned_cols=24 Identities=17% Similarity=0.303 Sum_probs=18.9
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
....|.+.+++.++|+|++|....
T Consensus 71 ~a~al~~~i~~~~p~~Vl~~~t~~ 94 (168)
T cd01715 71 YAPALVALAKKEKPSHILAGATSF 94 (168)
T ss_pred HHHHHHHHHHhcCCCEEEECCCcc
Confidence 356677888888999999997653
No 285
>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=38.17 E-value=1.6e+02 Score=21.61 Aligned_cols=62 Identities=10% Similarity=-0.004 Sum_probs=36.4
Q ss_pred EEEEEEcCCh--HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC-CCcEEEEcCC
Q 031355 96 FVVEVVEGDA--RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA-HCTVMIVKRP 157 (161)
Q Consensus 96 ~~~~v~~g~~--~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~-~~pvlvv~~~ 157 (161)
+-..+...+. .-++.+.+++.++|-+++..........--+-..-..|...+ +.||++...+
T Consensus 73 vi~gv~~~~t~~~i~la~~a~~~Gad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~~lpv~lYn~P 137 (290)
T TIGR00683 73 LIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSFPEIKHYYDTIIAETGGLNMIVYSIP 137 (290)
T ss_pred EEEecCCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCCCHHHHHHHHHHHHhhCCCCCEEEEeCc
Confidence 4444444344 445568899999999999766432221111122334566666 6999988543
No 286
>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=38.15 E-value=1.8e+02 Score=22.22 Aligned_cols=29 Identities=7% Similarity=-0.073 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+++.+++|+++|... + -+|+++|=...
T Consensus 163 ~~~eRI~r~AF~~A~~r-~----~~Vt~v~KaNv 191 (349)
T TIGR00169 163 PEIERIARVAFEMARKR-R----KKVTSVDKANV 191 (349)
T ss_pred HHHHHHHHHHHHHHHHc-C----CcEEEEECCcc
Confidence 46888999999999875 4 27777775444
No 287
>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=38.05 E-value=1.4e+02 Score=21.06 Aligned_cols=21 Identities=19% Similarity=0.099 Sum_probs=13.8
Q ss_pred hHhHHHHHHHhcCCCEEEEec
Q 031355 105 ARNILCEAVEKHHASILVVGS 125 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~ 125 (161)
..+.+++.+++.++|++|+..
T Consensus 19 ~le~l~~~~~~~~~D~vv~~G 39 (224)
T cd07388 19 ALEKLVGLAPETGADAIVLIG 39 (224)
T ss_pred HHHHHHHHHhhcCCCEEEECC
Confidence 456666666666777777653
No 288
>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=37.50 E-value=1.4e+02 Score=20.80 Aligned_cols=62 Identities=13% Similarity=0.087 Sum_probs=32.2
Q ss_pred HHHHHHhhhcCCccEEEEEEcC---ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhh
Q 031355 82 EEAKEICSSKSVHDFVVEVVEG---DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAH 145 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g---~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~ 145 (161)
+++.+.+.+.|...+....... .....+.+... ++|.|+++......+.+.+.++-..++++
T Consensus 47 ~~~~~~~~~lG~~~v~~~~~~~~~~a~~~~~~~~l~--~ad~I~~~GG~~~~~~~~l~~t~l~~~l~ 111 (217)
T cd03145 47 EEYRDVFERLGAREVEVLVIDSREAANDPEVVARLR--DADGIFFTGGDQLRITSALGGTPLLDALR 111 (217)
T ss_pred HHHHHHHHHcCCceeEEeccCChHHcCCHHHHHHHH--hCCEEEEeCCcHHHHHHHHcCChHHHHHH
Confidence 3344444444553344433321 13345666666 89999998765444444444544444443
No 289
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=37.16 E-value=94 Score=23.43 Aligned_cols=56 Identities=7% Similarity=0.069 Sum_probs=36.4
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCccee----eeccchHHHHhhcC--CCcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKR----AVLGSVSDYCAHHA--HCTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~----~~~gs~~~~ll~~~--~~pvlv 153 (161)
+-+..-.-...+++.|++.+.-+|+..+.+.....+ ..+.........++ .+||.+
T Consensus 29 fN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~g~~~~~~~~~~~~~~a~~a~~~VPV~l 90 (321)
T PRK07084 29 YNFNNMEQLQAIIQACVETKSPVILQVSKGARKYANATLLRYMAQGAVEYAKELGCPIPIVL 90 (321)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEechhHHhhCCchHHHHHHHHHHHHHHHcCCCCcEEE
Confidence 334445789999999999999999998775432222 11233334556655 678765
No 290
>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=37.02 E-value=95 Score=21.95 Aligned_cols=50 Identities=12% Similarity=0.162 Sum_probs=29.8
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCC-CcEEEEcCCC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAH-CTVMIVKRPK 158 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~-~pvlvv~~~~ 158 (161)
...+.+.+.+.+.|.|++|....-. . ....+.+.+-+.+. .||++.|...
T Consensus 14 ~~~~~~~~~~~gtdai~vGGS~~v~-~--~~~~~~~~ik~~~~~~Pvilfp~~~ 64 (219)
T cd02812 14 DEEIAKLAEESGTDAIMVGGSDGVS-S--TLDNVVRLIKRIRRPVPVILFPSNP 64 (219)
T ss_pred HHHHHHHHHhcCCCEEEECCccchh-h--hHHHHHHHHHHhcCCCCEEEeCCCc
Confidence 4567777887889999998654221 1 11223332323333 8999888753
No 291
>PF09370 TIM-br_sig_trns: TIM-barrel signal transduction protein; InterPro: IPR009215 Members of this family are predicted to have a TIM barrel fold, based on PSI-BLAST analysis (iteration 4) and on SCOP prediction (using SMART). Interestingly, this novel domain also exists as an N-terminal domain of sigma54-dependent transcriptional activators (enhancer-binding proteins). Because sigma54 dependent activators typically have a three-domain structure: the variable N-terminal regulatory (activation) domain involved in signal recognition/receiving, the central AAA-type ATPase domain, and the DNA-binding domain (see PIRSF003187 from PIRSF, PIRSF005263 from PIRSF, PIRSF003184 from PIRSF, PIRSF005263 from PIRSF, IPR014443 from INTERPRO for details), the proteins of the current entry may be predicted to play a role in signal recognition/receiving and signal transduction.; PDB: 2P10_C.
Probab=36.79 E-value=56 Score=23.84 Aligned_cols=70 Identities=11% Similarity=0.231 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC------CCCcceeee-ccc-------hHHHHh
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH------GYGAIKRAV-LGS-------VSDYCA 144 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~------~~~~~~~~~-~gs-------~~~~ll 144 (161)
+.++++++.......+ .-...|.- -..+.+++.++|+|++-.. +++.+..++ +|+ .+++++
T Consensus 2 eil~~l~~~i~~~~pI---ig~gaGtG--lsAk~ae~gGaDlI~~ynsGrfR~~G~~SlagllpygnaN~iv~em~~eiL 76 (268)
T PF09370_consen 2 EILDRLRAQIKAGKPI---IGAGAGTG--LSAKCAEKGGADLILIYNSGRFRMAGRGSLAGLLPYGNANEIVMEMAREIL 76 (268)
T ss_dssp HHHHHHHHHHHTT--E---EEEEESSH--HHHHHHHHTT-SEEEE-HHHHHHHTT--GGGGGBTEEEHHHHHHHHHHHHG
T ss_pred hHHHHHHHHHhCCCce---EEEeeccc--hhhHHHHhcCCCEEEEecchhHhhCCCcchhhhhcccCHhHHHHHHHHhhh
Confidence 5667777777653211 22222332 2346788889999999654 333333332 232 235555
Q ss_pred hcCC-CcEEE
Q 031355 145 HHAH-CTVMI 153 (161)
Q Consensus 145 ~~~~-~pvlv 153 (161)
-.++ .||+.
T Consensus 77 p~v~~tPVia 86 (268)
T PF09370_consen 77 PVVKDTPVIA 86 (268)
T ss_dssp GG-SSS-EEE
T ss_pred hhccCCCEEE
Confidence 5554 77764
No 292
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=36.67 E-value=1.2e+02 Score=19.58 Aligned_cols=41 Identities=12% Similarity=0.044 Sum_probs=28.8
Q ss_pred HHHhhhcCCccEEEEEEc-CChHhHHHHHHHhcCCCEEEEecCCC
Q 031355 85 KEICSSKSVHDFVVEVVE-GDARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
...++..|.. ..-.- .-|.+++.+.+.+.++|+|.+.....
T Consensus 24 ~~~lr~~G~e---Vi~LG~~vp~e~i~~~a~~~~~d~V~lS~~~~ 65 (137)
T PRK02261 24 DRALTEAGFE---VINLGVMTSQEEFIDAAIETDADAILVSSLYG 65 (137)
T ss_pred HHHHHHCCCE---EEECCCCCCHHHHHHHHHHcCCCEEEEcCccc
Confidence 3455555643 22222 35899999999999999999987543
No 293
>PF00180 Iso_dh: Isocitrate/isopropylmalate dehydrogenase; InterPro: IPR024084 Isocitrate dehydrogenase (IDH) [, ] is an important enzyme of carbohydrate metabolism which catalyses the oxidative decarboxylation of isocitrate into alpha-ketoglutarate. IDH is either dependent on NAD+ (1.1.1.41 from EC) or on NADP+ (1.1.1.42 from EC). In eukaryotes there are at least three isozymes of IDH: two are located in the mitochondrial matrix (one NAD+-dependent, the other NADP+-dependent), while the third one (also NADP+-dependent) is cytoplasmic. In Escherichia coli the activity of a NADP+-dependent form of the enzyme is controlled by the phosphorylation of a serine residue; the phosphorylated form of IDH is completely inactivated. 3-isopropylmalate dehydrogenase (1.1.1.85 from EC) (IMDH) [, ] catalyses the third step in the biosynthesis of leucine in bacteria and fungi, the oxidative decarboxylation of 3-isopropylmalate into 2-oxo-4-methylvalerate. Tartrate dehydrogenase (1.1.1.93 from EC) [] catalyses the reduction of tartrate to oxaloglycolate. These enzymes are evolutionary related. To this family also belongs the enzyme tartrate dehydrogenase, which shows strong homology to prokaryotic isopropylmalate dehydrogenases and, to a lesser extent, isocitrate dehydrogenase []. This entry represents a structural domain found in all types of isocitrate dehydrogenase, and in isopropylmalate dehydrogenase and tartrate dehydrogenase. The crystal structure of Escherichia coli isopropylmalate dehydrogenase has been described []. ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 1WAL_A 1CNZ_B 2D4V_C 1CM7_A 4AOY_D 3FMX_X 3FLK_C 1A05_A 1X0L_B 4F7I_D ....
Probab=36.67 E-value=1.9e+02 Score=22.02 Aligned_cols=31 Identities=13% Similarity=0.085 Sum_probs=23.7
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSP 51 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~ 51 (161)
+.+.+.+++|+++|... + + -+|+++|=....
T Consensus 160 ~~~eRi~r~AF~~A~~r-~-~--k~Vt~v~KaNvl 190 (348)
T PF00180_consen 160 EGIERIARFAFEYARKR-G-R--KKVTVVHKANVL 190 (348)
T ss_dssp HHHHHHHHHHHHHHHHT-T-T--SEEEEEESTTTS
T ss_pred chhhHHHHHHHHHHHHh-C-C--ceEEEEeccchh
Confidence 46889999999999985 3 1 389998875543
No 294
>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=36.56 E-value=88 Score=21.76 Aligned_cols=44 Identities=23% Similarity=0.308 Sum_probs=28.4
Q ss_pred HHHHhhhcCCccEEEEEEcCChHhHHHHHHHhc---CCCEEEEecCCC
Q 031355 84 AKEICSSKSVHDFVVEVVEGDARNILCEAVEKH---HASILVVGSHGY 128 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~---~~dliVlg~~~~ 128 (161)
+++.++..|.. -.+.+..|+..+.|-+...+. .+|+|++-+...
T Consensus 86 A~~~~~~ag~~-~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K~ 132 (205)
T PF01596_consen 86 ARENFRKAGLD-DRIEVIEGDALEVLPELANDGEEGQFDFVFIDADKR 132 (205)
T ss_dssp HHHHHHHTTGG-GGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTGG
T ss_pred HHHHHHhcCCC-CcEEEEEeccHhhHHHHHhccCCCceeEEEEccccc
Confidence 33444444442 345567799888888877654 699999987643
No 295
>PRK14974 cell division protein FtsY; Provisional
Probab=36.52 E-value=1.9e+02 Score=21.94 Aligned_cols=47 Identities=11% Similarity=0.119 Sum_probs=26.1
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHh---HHHHHHHhcCCCEEEEecCCCCc
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARN---ILCEAVEKHHASILVVGSHGYGA 130 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~---~I~~~a~~~~~dliVlg~~~~~~ 130 (161)
+++.+....+.. +......+++.. ..++.++..++|+|++-..|+..
T Consensus 186 qL~~~a~~lgv~-v~~~~~g~dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~ 235 (336)
T PRK14974 186 QLEEHAERLGVK-VIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGRMH 235 (336)
T ss_pred HHHHHHHHcCCc-eecccCCCCHHHHHHHHHHHHHhCCCCEEEEECCCccC
Confidence 344444444543 322222235544 33445666789999998887664
No 296
>cd01981 Pchlide_reductase_B Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=36.49 E-value=64 Score=25.10 Aligned_cols=25 Identities=8% Similarity=0.125 Sum_probs=11.1
Q ss_pred CChHhHHHHHHH-hcCCCEEEEecCC
Q 031355 103 GDARNILCEAVE-KHHASILVVGSHG 127 (161)
Q Consensus 103 g~~~~~I~~~a~-~~~~dliVlg~~~ 127 (161)
|+-.+.+++.++ +.++.++.+...+
T Consensus 101 GdDi~~v~~~~~~~~~~~vi~v~t~g 126 (430)
T cd01981 101 QEDLQNFVRAAGLSSKSPVLPLDVNH 126 (430)
T ss_pred hhCHHHHHHHhhhccCCCeEEecCCC
Confidence 333444444332 3345555554444
No 297
>COG0622 Predicted phosphoesterase [General function prediction only]
Probab=36.40 E-value=1.4e+02 Score=20.24 Aligned_cols=35 Identities=14% Similarity=0.175 Sum_probs=26.9
Q ss_pred EEEEEEcC------ChHhHHHHHHHhcCCCEEEEecCCCCc
Q 031355 96 FVVEVVEG------DARNILCEAVEKHHASILVVGSHGYGA 130 (161)
Q Consensus 96 ~~~~v~~g------~~~~~I~~~a~~~~~dliVlg~~~~~~ 130 (161)
....+.+| .-...+...+++.++|++|-|......
T Consensus 82 ~ki~l~HGh~~~~~~~~~~l~~la~~~~~Dvli~GHTH~p~ 122 (172)
T COG0622 82 VKIFLTHGHLYFVKTDLSLLEYLAKELGADVLIFGHTHKPV 122 (172)
T ss_pred EEEEEECCCccccccCHHHHHHHHHhcCCCEEEECCCCccc
Confidence 66777888 346677788999999999999764433
No 298
>COG0300 DltE Short-chain dehydrogenases of various substrate specificities [General function prediction only]
Probab=36.33 E-value=1.7e+02 Score=21.39 Aligned_cols=87 Identities=13% Similarity=0.105 Sum_probs=47.0
Q ss_pred CCCCCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHH
Q 031355 1 MATAETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARV 80 (161)
Q Consensus 1 ~~~~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (161)
|.+++.+++||--.. +.-..++|-.+|++ | .+|.++- .. ++.
T Consensus 1 ~~~~~~~~~lITGAS---sGIG~~~A~~lA~~--g----~~liLva--R~---------------------------~~k 42 (265)
T COG0300 1 PGPMKGKTALITGAS---SGIGAELAKQLARR--G----YNLILVA--RR---------------------------EDK 42 (265)
T ss_pred CCCCCCcEEEEECCC---chHHHHHHHHHHHC--C----CEEEEEe--Cc---------------------------HHH
Confidence 345666666665443 34566788889886 4 4776652 11 234
Q ss_pred HHHHHHHhhhcCCccEEEEEEc---CChHhHHHHHHHhc--CCCEEEEec
Q 031355 81 VEEAKEICSSKSVHDFVVEVVE---GDARNILCEAVEKH--HASILVVGS 125 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~---g~~~~~I~~~a~~~--~~dliVlg~ 125 (161)
++++.+.++......+++...+ -+..+.|.+..+.. .+|++|=-.
T Consensus 43 L~~la~~l~~~~~v~v~vi~~DLs~~~~~~~l~~~l~~~~~~IdvLVNNA 92 (265)
T COG0300 43 LEALAKELEDKTGVEVEVIPADLSDPEALERLEDELKERGGPIDVLVNNA 92 (265)
T ss_pred HHHHHHHHHHhhCceEEEEECcCCChhHHHHHHHHHHhcCCcccEEEECC
Confidence 4444444444322224444333 23455555555554 789888643
No 299
>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=36.15 E-value=30 Score=22.62 Aligned_cols=44 Identities=14% Similarity=0.136 Sum_probs=24.6
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
++++++.+.+.|.. ++..-........+.+..+ .+|.|.++.-.
T Consensus 2 ~~~~~~~f~~~g~~-v~~l~~~~~~~~~~~~~i~--~ad~I~~~GG~ 45 (154)
T PF03575_consen 2 VEKFRKAFRKLGFE-VDQLDLSDRNDADILEAIR--EADAIFLGGGD 45 (154)
T ss_dssp HHHHHHHHHHCT-E-EEECCCTSCGHHHHHHHHH--HSSEEEE--S-
T ss_pred HHHHHHHHHHCCCE-EEEEeccCCChHHHHHHHH--hCCEEEECCCC
Confidence 34556666666744 4333333434557777777 88888887554
No 300
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=35.85 E-value=1.7e+02 Score=21.08 Aligned_cols=21 Identities=29% Similarity=0.346 Sum_probs=15.5
Q ss_pred HhHHHHHHHhcCCCEEEEecC
Q 031355 106 RNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~ 126 (161)
.+.|++.+.+.++|+|++|-.
T Consensus 146 ~~~i~~~I~~s~~dil~VglG 166 (243)
T PRK03692 146 RQALFERIHASGAKIVTVAMG 166 (243)
T ss_pred HHHHHHHHHhcCCCEEEEECC
Confidence 355777788888888888754
No 301
>PRK12361 hypothetical protein; Provisional
Probab=35.74 E-value=2.4e+02 Score=22.87 Aligned_cols=69 Identities=16% Similarity=0.175 Sum_probs=37.1
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcC-ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEG-DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
..+++++.+.+. .+++...... ..+..+.+.+.+.++|+||+.... +.+ ..+.+.+. ...+|+-++|-.
T Consensus 261 ~~~~i~~~L~~~--~~~~v~~t~~~~~a~~la~~~~~~~~d~Viv~GGD-GTl-----~ev~~~l~-~~~~~lgiiP~G 330 (547)
T PRK12361 261 YGEQIQRELKAY--FDLTVKLTTPEISAEALAKQARKAGADIVIACGGD-GTV-----TEVASELV-NTDITLGIIPLG 330 (547)
T ss_pred HHHHHHHHHhcC--CceEEEECCCCccHHHHHHHHHhcCCCEEEEECCC-cHH-----HHHHHHHh-cCCCCEEEecCC
Confidence 344555555443 2243333332 346777777666678877664322 221 33444444 357889999864
No 302
>PRK07709 fructose-bisphosphate aldolase; Provisional
Probab=35.66 E-value=1.3e+02 Score=22.24 Aligned_cols=56 Identities=11% Similarity=0.095 Sum_probs=39.1
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcc-ee-eeccchHHHHhhcCC--CcEEE
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAI-KR-AVLGSVSDYCAHHAH--CTVMI 153 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~-~~-~~~gs~~~~ll~~~~--~pvlv 153 (161)
+-+..-.-..++++.|++.+.-+|+-.+.+.-.. .+ ..+......+..+.. .||.+
T Consensus 23 fN~~n~e~~~avi~AAe~~~sPvIiq~~~~~~~~~~~~~~~~~~~~~~a~~~~~~VPV~l 82 (285)
T PRK07709 23 FNMNNLEWTQAILAAAEEEKSPVILGVSEGAARHMTGFKTVVAMVKALIEEMNITVPVAI 82 (285)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEEcCcchhhhcCCHHHHHHHHHHHHHHcCCCCcEEE
Confidence 3334447889999999999999999987754332 11 234567778888766 57664
No 303
>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=35.49 E-value=1.3e+02 Score=19.92 Aligned_cols=41 Identities=10% Similarity=0.094 Sum_probs=20.9
Q ss_pred HHHHhhhcCCccEEEEEEcCCh---HhHHHHHHHhcCCCEEEEe
Q 031355 84 AKEICSSKSVHDFVVEVVEGDA---RNILCEAVEKHHASILVVG 124 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~---~~~I~~~a~~~~~dliVlg 124 (161)
+..++++.|.......+...+. .+.|.+.+...++|+||..
T Consensus 27 l~~~L~~~G~~v~~~~iv~Dd~~~i~~~l~~~~~~~~~DlVItt 70 (163)
T TIGR02667 27 LVERLTEAGHRLADRAIVKDDIYQIRAQVSAWIADPDVQVILIT 70 (163)
T ss_pred HHHHHHHCCCeEEEEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 3445555565434344444332 2333333333579999985
No 304
>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=35.32 E-value=1.3e+02 Score=19.63 Aligned_cols=41 Identities=15% Similarity=0.194 Sum_probs=21.6
Q ss_pred HHHHhhhcCCccEEEEEEcCChH---hHHHHHHHhcCCCEEEEe
Q 031355 84 AKEICSSKSVHDFVVEVVEGDAR---NILCEAVEKHHASILVVG 124 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliVlg 124 (161)
+.+++++.|.......+...++. +.|.+..++..+|+||..
T Consensus 25 l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVitt 68 (152)
T cd00886 25 LVELLEEAGHEVVAYEIVPDDKDEIREALIEWADEDGVDLILTT 68 (152)
T ss_pred HHHHHHHcCCeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 44556666765344444444432 333333333379999985
No 305
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=35.22 E-value=2e+02 Score=21.86 Aligned_cols=66 Identities=17% Similarity=0.226 Sum_probs=41.5
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEc----------C-ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVE----------G-DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA 147 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~----------g-~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~ 147 (161)
+.++++..+++..|...+...+.. | .-.++|.+.+++.++|++|+... .+ ++-...|-...
T Consensus 17 ~~~~E~~~L~~~~~~~v~~~~~~~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~-l~-------p~q~~nl~~~~ 88 (351)
T TIGR03156 17 ESLEELAELAETAGAEVVGTVTQKRSRPDPATYIGKGKVEEIAELVEELEADLVIFDHE-LS-------PSQERNLEKAL 88 (351)
T ss_pred hhHHHHHHHHHHCCCEEEEEEEEecCCCCCCeEecccHHHHHHHHHHhcCCCEEEECCC-CC-------HHHHHHHHHHh
Confidence 457788888888775544433332 2 24788999999999999998733 22 23334444445
Q ss_pred CCcEE
Q 031355 148 HCTVM 152 (161)
Q Consensus 148 ~~pvl 152 (161)
.|+|+
T Consensus 89 ~~~v~ 93 (351)
T TIGR03156 89 GCRVI 93 (351)
T ss_pred CCccc
Confidence 55553
No 306
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=35.14 E-value=1.4e+02 Score=19.99 Aligned_cols=26 Identities=23% Similarity=0.333 Sum_probs=22.4
Q ss_pred HHHHHHHhcCCCEEEEecCCCCccee
Q 031355 108 ILCEAVEKHHASILVVGSHGYGAIKR 133 (161)
Q Consensus 108 ~I~~~a~~~~~dliVlg~~~~~~~~~ 133 (161)
-+.++|+++++..||=|-+..+.++-
T Consensus 73 Llvd~ak~~~a~~ivRGLR~~sDfeY 98 (159)
T COG0669 73 LLVDYAKKLGATVLVRGLRAVSDFEY 98 (159)
T ss_pred HHHHHHHHcCCCEEEEeccccchHHH
Confidence 78899999999999999987776653
No 307
>PRK01565 thiamine biosynthesis protein ThiI; Provisional
Probab=35.05 E-value=2.1e+02 Score=22.11 Aligned_cols=35 Identities=11% Similarity=0.102 Sum_probs=26.5
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
-++++|.+++.-.|.-++.++.. . | .++..+|+..
T Consensus 176 ~gkvvvllSGGiDS~vaa~l~~k----~-G----~~v~av~~~~ 210 (394)
T PRK01565 176 SGKALLLLSGGIDSPVAGYLAMK----R-G----VEIEAVHFHS 210 (394)
T ss_pred CCCEEEEECCChhHHHHHHHHHH----C-C----CEEEEEEEeC
Confidence 36799999999888887766643 3 5 6888998843
No 308
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=34.93 E-value=1.9e+02 Score=21.59 Aligned_cols=47 Identities=15% Similarity=0.208 Sum_probs=30.4
Q ss_pred HHHHHHhcCCCEEEEecCCC---CcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 109 LCEAVEKHHASILVVGSHGY---GAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 109 I~~~a~~~~~dliVlg~~~~---~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
+..+.+ ++|.+++|++.- +.+-...-.+...-..++.+.|++++-..
T Consensus 181 ~~~~~~--~vd~VivGad~I~~nG~lvnkiGT~~lA~~A~e~~~Pf~v~aes 230 (301)
T COG1184 181 VGAFMS--RVDKVLVGADAILANGALVNKIGTSPLALAARELRVPFYVVAES 230 (301)
T ss_pred HHHHHH--hCCEEEECccceecCCcEEeccchHHHHHHHHHhCCCEEEEeee
Confidence 334455 899999999852 23332333344455677899999998554
No 309
>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=34.91 E-value=1.9e+02 Score=21.58 Aligned_cols=36 Identities=11% Similarity=0.093 Sum_probs=26.8
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
++++|++++.-.|.-++..+... . | .++..+|+...
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~---~-G----~~v~av~vd~G 52 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRA---I-G----DRLTCVFVDHG 52 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHH---h-C----CCEEEEEEeCC
Confidence 68999999998887777665442 2 4 38999998654
No 310
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=34.73 E-value=1.9e+02 Score=21.37 Aligned_cols=82 Identities=10% Similarity=0.108 Sum_probs=46.5
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHH
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAK 85 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 85 (161)
..||.|-..++.....++-.+..--.. + +++.++-...+ .+.
T Consensus 89 ~~ri~vl~Sg~g~nl~al~~~~~~~~~--~----~~i~~visn~~--------------------------------~~~ 130 (286)
T PRK13011 89 RPKVLIMVSKFDHCLNDLLYRWRIGEL--P----MDIVGVVSNHP--------------------------------DLE 130 (286)
T ss_pred CceEEEEEcCCcccHHHHHHHHHcCCC--C----cEEEEEEECCc--------------------------------cHH
Confidence 457888888876666666666554432 2 46555533221 122
Q ss_pred HHhhhcCCccEEEEE-EcC---ChHhHHHHHHHhcCCCEEEEecC
Q 031355 86 EICSSKSVHDFVVEV-VEG---DARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 86 ~~~~~~~~~~~~~~v-~~g---~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
.++++.|.. +.... ... +....+.+..++.++|++|+...
T Consensus 131 ~lA~~~gIp-~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK13011 131 PLAAWHGIP-FHHFPITPDTKPQQEAQVLDVVEESGAELVVLARY 174 (286)
T ss_pred HHHHHhCCC-EEEeCCCcCchhhhHHHHHHHHHHhCcCEEEEeCh
Confidence 234555554 32211 111 23456788888999999999855
No 311
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=34.73 E-value=1.3e+02 Score=23.33 Aligned_cols=54 Identities=15% Similarity=0.196 Sum_probs=37.8
Q ss_pred HHHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhc-CCCEEEEecCCCCcc
Q 031355 78 ARVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKH-HASILVVGSHGYGAI 131 (161)
Q Consensus 78 ~~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~-~~dliVlg~~~~~~~ 131 (161)
+..++.+++-++-+|...-.+..+.+|+.+-+-+..++. .+|+||+-.+....-
T Consensus 250 ~~al~~a~~N~~LNg~~~~~~~~i~~Dvf~~l~~~~~~g~~fDlIilDPPsF~r~ 304 (393)
T COG1092 250 KRALEWARENAELNGLDGDRHRFIVGDVFKWLRKAERRGEKFDLIILDPPSFARS 304 (393)
T ss_pred HHHHHHHHHHHHhcCCCccceeeehhhHHHHHHHHHhcCCcccEEEECCcccccC
Confidence 344455555555556554667788899999998887765 999999987754433
No 312
>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=34.54 E-value=1.2e+02 Score=23.95 Aligned_cols=53 Identities=13% Similarity=0.167 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 73 FKKIAARVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 73 ~~~~~~~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
.....++.++++.+.++..|.. +.+.-...+..+.|.+.++++++.-|+.|..
T Consensus 45 ~~~~ld~~l~~~~~~~~~~g~~-v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS 97 (432)
T TIGR00273 45 VLENLDFYLDQLKENVTQRGGH-VYYAKTAEEARKIIGKVAQEKNGKKVVKSKS 97 (432)
T ss_pred HHhhHHHHHHHHHHHHHHCCCE-EEEECCHHHHHHHHHHHHHHhCCCEEEEcCc
Confidence 3345566777777777666643 3222222356777889999999999999843
No 313
>PF13362 Toprim_3: Toprim domain
Probab=34.52 E-value=99 Score=18.13 Aligned_cols=30 Identities=10% Similarity=0.170 Sum_probs=22.8
Q ss_pred CceeEEEEecCChh--HHHHHHHHHHHhhccCC
Q 031355 5 ETQTMVVGIDDSEQ--STYALQWTLDHFFANST 35 (161)
Q Consensus 5 ~~~~ilv~~d~s~~--s~~al~~a~~la~~~~~ 35 (161)
..++|+|..|.+.. ..++...+...+... |
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~-g 71 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAA-G 71 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhC-C
Confidence 56889999998877 777777776666654 5
No 314
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.41 E-value=2.3e+02 Score=22.34 Aligned_cols=92 Identities=18% Similarity=0.225 Sum_probs=53.9
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
.+|.+.++......-.+|..+-+. | -++.++.. +.... ...++++..+
T Consensus 105 mfVGLqG~GKTTtc~KlA~y~kkk--G----~K~~Lvca-DTFRa-------------------------gAfDQLkqnA 152 (483)
T KOG0780|consen 105 MFVGLQGSGKTTTCTKLAYYYKKK--G----YKVALVCA-DTFRA-------------------------GAFDQLKQNA 152 (483)
T ss_pred EEEeccCCCcceeHHHHHHHHHhc--C----CceeEEee-ccccc-------------------------chHHHHHHHh
Confidence 456667787777888888888774 5 35555543 33221 2234555555
Q ss_pred hhcCCccEEEEEEcCCh---HhHHHHHHHhcCCCEEEEecCCCCccee
Q 031355 89 SSKSVHDFVVEVVEGDA---RNILCEAVEKHHASILVVGSHGYGAIKR 133 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~---~~~I~~~a~~~~~dliVlg~~~~~~~~~ 133 (161)
...+++ +...-.+-+| +.+=++..++.++|+||+...++.....
T Consensus 153 ~k~~iP-~ygsyte~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~ 199 (483)
T KOG0780|consen 153 TKARVP-FYGSYTEADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEA 199 (483)
T ss_pred HhhCCe-eEecccccchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhH
Confidence 544443 4333223343 4445566778899999998887665443
No 315
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=34.34 E-value=1.2e+02 Score=21.72 Aligned_cols=50 Identities=14% Similarity=0.042 Sum_probs=32.1
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
...+.+...+.++|.|++-...+.+......-+...++...+++||+..-
T Consensus 157 ~~~~~~~l~~~G~~~iivt~i~~~g~~~g~~~~~~~~i~~~~~ipvia~G 206 (254)
T TIGR00735 157 AVEWAKEVEKLGAGEILLTSMDKDGTKSGYDLELTKAVSEAVKIPVIASG 206 (254)
T ss_pred HHHHHHHHHHcCCCEEEEeCcCcccCCCCCCHHHHHHHHHhCCCCEEEeC
Confidence 45666777888999888844333222222223567778888899998763
No 316
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=34.30 E-value=80 Score=17.39 Aligned_cols=26 Identities=4% Similarity=0.023 Sum_probs=20.1
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhc
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFA 32 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~ 32 (161)
.+|.++.|.+...+.+.....+....
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~~~l~~ 73 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLAELLKP 73 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHHHHhhh
Confidence 56999999998888887777666553
No 317
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=34.20 E-value=78 Score=25.14 Aligned_cols=25 Identities=28% Similarity=0.546 Sum_probs=11.9
Q ss_pred CChHhHHHHHHH-hcCCCEEEEecCC
Q 031355 103 GDARNILCEAVE-KHHASILVVGSHG 127 (161)
Q Consensus 103 g~~~~~I~~~a~-~~~~dliVlg~~~ 127 (161)
|+-.+.+++.++ +.+..++.+...+
T Consensus 135 GdDi~~v~~~~~~~~~~pvi~v~t~G 160 (475)
T PRK14478 135 GDDIDAVCKRAAEKFGIPVIPVNSPG 160 (475)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCC
Confidence 444444444333 3455566554444
No 318
>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=33.92 E-value=2.3e+02 Score=22.10 Aligned_cols=33 Identities=12% Similarity=0.364 Sum_probs=25.7
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
+|+|++++.-.|..++.++.+. | .++..+|+..
T Consensus 1 kVvla~SGGlDSsvll~~l~e~-----g----~~V~av~id~ 33 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK-----G----YEVIAYTADV 33 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc-----C----CEEEEEEEec
Confidence 5899999998888888776542 4 5899999953
No 319
>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=33.92 E-value=1.9e+02 Score=21.15 Aligned_cols=64 Identities=13% Similarity=0.066 Sum_probs=34.2
Q ss_pred HhhhcCCccEEEEEEc-CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc---CCCcEEEEcCC
Q 031355 87 ICSSKSVHDFVVEVVE-GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH---AHCTVMIVKRP 157 (161)
Q Consensus 87 ~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~---~~~pvlvv~~~ 157 (161)
.+.+.+.. ++..... ..-+.++.+.+.+.++|.||+..- -+.+ ..+...++.. .++|+-++|-.
T Consensus 22 ~l~~~g~~-~~v~~t~~~~~a~~~a~~~~~~~~d~vv~~GG-DGTi-----~ev~ngl~~~~~~~~~~lgiiP~G 89 (293)
T TIGR03702 22 DLRDEGIQ-LHVRVTWEKGDAQRYVAEALALGVSTVIAGGG-DGTL-----REVATALAQIRDDAAPALGLLPLG 89 (293)
T ss_pred HHHHCCCe-EEEEEecCCCCHHHHHHHHHHcCCCEEEEEcC-ChHH-----HHHHHHHHhhCCCCCCcEEEEcCC
Confidence 34444432 4443333 245666776666667887765432 2222 3455555542 34688888854
No 320
>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=33.90 E-value=87 Score=23.32 Aligned_cols=46 Identities=15% Similarity=0.193 Sum_probs=29.8
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCC-Cccee-eeccchHHHHhhcCCCcEEEE
Q 031355 104 DARNILCEAVEKHHASILVVGSHGY-GAIKR-AVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~-~~~~~-~~~gs~~~~ll~~~~~pvlvv 154 (161)
.+..+.++..+ .+|+||+|-.+. ..+.. +.+..+.+.| ++ .||+.|
T Consensus 171 ~a~peal~AI~--~AD~IIlGPgsp~TSI~P~LlVpgIreAL-~~--a~vV~V 218 (297)
T TIGR01819 171 SIAPKVLEAIR--KEDNILIGPSNPITSIGPILSLPGIREAL-RD--KKVVAV 218 (297)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhcCchhHHHHH-Hc--CCEEEE
Confidence 56788899999 899999996542 33333 3344454444 44 677655
No 321
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=33.85 E-value=1.3e+02 Score=19.15 Aligned_cols=41 Identities=10% Similarity=0.074 Sum_probs=27.1
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
...+.+.+.++++|+||++.-+. -+-+.++...+-|+..+.
T Consensus 54 G~~~a~~l~~~gvdvvi~~~iG~----------~a~~~l~~~GIkv~~~~~ 94 (121)
T COG1433 54 GIRIAELLVDEGVDVVIASNIGP----------NAYNALKAAGIKVYVAPG 94 (121)
T ss_pred hHHHHHHHHHcCCCEEEECccCH----------HHHHHHHHcCcEEEecCC
Confidence 34578888889999999886543 334455555555555544
No 322
>TIGR02089 TTC tartrate dehydrogenase. Tartrate dehydrogenase catalyzes the oxidation of both meso- and (+)-tartrate as well as a D-malate. These enzymes are closely related to the 3-isopropylmalate and isohomocitrate dehydrogenases found in TIGR00169 and TIGR02088, respectively.
Probab=33.61 E-value=2.2e+02 Score=21.82 Aligned_cols=29 Identities=3% Similarity=0.012 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+++.+++|+++|+.. . -+|+++|=...
T Consensus 164 ~~~eRi~r~Af~~A~~r-r----~kVt~v~KaNv 192 (352)
T TIGR02089 164 KGVERIMRFAFELAQKR-R----KHLTSATKSNG 192 (352)
T ss_pred HHHHHHHHHHHHHHHHc-C----CCEEEEeCCcc
Confidence 46888999999999875 4 37888876544
No 323
>PRK05595 replicative DNA helicase; Provisional
Probab=33.53 E-value=1.6e+02 Score=23.18 Aligned_cols=47 Identities=15% Similarity=0.239 Sum_probs=26.8
Q ss_pred HHHHHHhcCCCEEEEecCC-----CCccee-eeccchHHH---HhhcCCCcEEEEc
Q 031355 109 LCEAVEKHHASILVVGSHG-----YGAIKR-AVLGSVSDY---CAHHAHCTVMIVK 155 (161)
Q Consensus 109 I~~~a~~~~~dliVlg~~~-----~~~~~~-~~~gs~~~~---ll~~~~~pvlvv~ 155 (161)
+.++..++++|+||+-.=+ ...-.+ .-++..++. +.....|||+++-
T Consensus 303 ~r~~~~~~~~~~vvIDylql~~~~~~~~~r~~~v~~is~~LK~lAke~~i~vi~ls 358 (444)
T PRK05595 303 CRRLKIEHGIDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVIALS 358 (444)
T ss_pred HHHHHHhcCCCEEEEeHHHhccCCCCCccHHHHHHHHHHHHHHHHHHhCCeEEEee
Confidence 3344455789999996521 110111 123445444 3667899999984
No 324
>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=33.43 E-value=2.1e+02 Score=21.66 Aligned_cols=23 Identities=17% Similarity=0.127 Sum_probs=18.8
Q ss_pred HhHHHHHHHhcCCCEEEEecCCC
Q 031355 106 RNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
...+.+.|++.++|.|+.|++..
T Consensus 102 f~~l~~~A~~~g~~~IatGHya~ 124 (349)
T cd01998 102 FGALLDYAKKLGADYIATGHYAR 124 (349)
T ss_pred HHHHHHHHHHcCcCEEEECCcCC
Confidence 35667789999999999998754
No 325
>PLN02476 O-methyltransferase
Probab=33.30 E-value=1.7e+02 Score=21.53 Aligned_cols=45 Identities=22% Similarity=0.165 Sum_probs=29.8
Q ss_pred HHHHHHhhhcCCccEEEEEEcCChHhHHHHHHH---hcCCCEEEEecCC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDARNILCEAVE---KHHASILVVGSHG 127 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~---~~~~dliVlg~~~ 127 (161)
+.+++.++..|.. -.+.+..|+..+.+-+... ...+|+|++...+
T Consensus 157 ~~Ar~n~~~aGl~-~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K 204 (278)
T PLN02476 157 EVAKRYYELAGVS-HKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADK 204 (278)
T ss_pred HHHHHHHHHcCCC-CcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCH
Confidence 3444444555654 4567778988887776543 2479999998764
No 326
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=33.18 E-value=1.4e+02 Score=19.38 Aligned_cols=44 Identities=16% Similarity=0.197 Sum_probs=29.4
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
...+++.++..++|+|++-..|.. +....++..+.-.++++.++
T Consensus 80 ~~~~~~~~~~~~~D~iiIDtaG~~--------~~~~~~~~~Ad~~ivv~tpe 123 (148)
T cd03114 80 TPEVIRVLDAAGFDVIIVETVGVG--------QSEVDIASMADTTVVVMAPG 123 (148)
T ss_pred HHHHHHHHHhcCCCEEEEECCccC--------hhhhhHHHhCCEEEEEECCC
Confidence 455667777779999999884422 22234677777777777665
No 327
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=33.14 E-value=2.3e+02 Score=21.83 Aligned_cols=29 Identities=10% Similarity=-0.033 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+.+.+++|+++|... + -+|+++|=...
T Consensus 166 ~~~~Ri~r~Af~~A~~r-~----~~Vt~v~KaNv 194 (358)
T PRK00772 166 EEIERIARVAFELARKR-R----KKVTSVDKANV 194 (358)
T ss_pred HHHHHHHHHHHHHHHHc-C----CcEEEEECccc
Confidence 46888999999999875 4 37888876544
No 328
>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=33.05 E-value=1.4e+02 Score=19.28 Aligned_cols=40 Identities=10% Similarity=0.101 Sum_probs=20.1
Q ss_pred HHHHhhhcCCccEEEEEEcCChHhHHHHHHHh--cCCCEEEEe
Q 031355 84 AKEICSSKSVHDFVVEVVEGDARNILCEAVEK--HHASILVVG 124 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliVlg 124 (161)
+.+.+++.|.. +.....-++-.+.|.+..++ .++|+||..
T Consensus 32 l~~~l~~~G~~-v~~~~~v~Dd~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 32 LAALLEEAGFN-VSRLGIVPDDPEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred HHHHHHHCCCe-EEEEeecCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 34455555654 33333333333334433221 279999985
No 329
>PRK08760 replicative DNA helicase; Provisional
Probab=32.95 E-value=1.8e+02 Score=23.23 Aligned_cols=47 Identities=11% Similarity=0.150 Sum_probs=26.7
Q ss_pred HHHHHHhcCCCEEEEecCC------CCcceeeeccchHHH---HhhcCCCcEEEEc
Q 031355 109 LCEAVEKHHASILVVGSHG------YGAIKRAVLGSVSDY---CAHHAHCTVMIVK 155 (161)
Q Consensus 109 I~~~a~~~~~dliVlg~~~------~~~~~~~~~gs~~~~---ll~~~~~pvlvv~ 155 (161)
+.+..+++++++||+-.=+ ...-...-++.+++. +.....|||+++-
T Consensus 331 ~r~l~~~~~~~lVvIDyLql~~~~~~~~~r~~ei~~Isr~LK~lAkel~ipVi~ls 386 (476)
T PRK08760 331 CRRLKREHDLGLIVIDYLQLMSVPGNSENRATEISEISRSLKGLAKELNVPVIALS 386 (476)
T ss_pred HHHHHHhcCCCEEEEecHHhcCCCCCCcccHHHHHHHHHHHHHHHHHhCCEEEEee
Confidence 3344456789999997521 111011113344444 6667899999984
No 330
>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=32.86 E-value=1.9e+02 Score=20.96 Aligned_cols=72 Identities=14% Similarity=0.144 Sum_probs=34.8
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEcCC-hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCC-CcEEEEcC
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVEGD-ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAH-CTVMIVKR 156 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~g~-~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~-~pvlvv~~ 156 (161)
+...++.+.+.+.+.. +........ ....+.+.+.+.++|+||+..-. +.+ ..++..+..... .|+-++|.
T Consensus 19 ~~~~~i~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~d~ivv~GGD-GTl-----~~v~~~l~~~~~~~~lgiiP~ 91 (293)
T TIGR00147 19 KPLREVIMLLREEGME-IHVRVTWEKGDAARYVEEARKFGVDTVIAGGGD-GTI-----NEVVNALIQLDDIPALGILPL 91 (293)
T ss_pred HHHHHHHHHHHHCCCE-EEEEEecCcccHHHHHHHHHhcCCCEEEEECCC-ChH-----HHHHHHHhcCCCCCcEEEEcC
Confidence 3344455556655543 443333322 33444555555578877764332 211 334445544223 36667875
Q ss_pred C
Q 031355 157 P 157 (161)
Q Consensus 157 ~ 157 (161)
.
T Consensus 92 G 92 (293)
T TIGR00147 92 G 92 (293)
T ss_pred c
Confidence 4
No 331
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=32.67 E-value=2.5e+02 Score=22.10 Aligned_cols=29 Identities=7% Similarity=0.019 Sum_probs=19.0
Q ss_pred cCChhHHHHHHHHHHHh-hccCCCCCCcEEEEEEe
Q 031355 14 DDSEQSTYALQWTLDHF-FANSTVNPPFKLVIVHA 47 (161)
Q Consensus 14 d~s~~s~~al~~a~~la-~~~~~~~~~a~l~~l~v 47 (161)
.++-.+..+...|..++ ... + .++.++..
T Consensus 230 tGvGKTTt~~kLA~~~~~~~~-g----~~V~li~~ 259 (424)
T PRK05703 230 TGVGKTTTLAKLAARYALLYG-K----KKVALITL 259 (424)
T ss_pred CCCCHHHHHHHHHHHHHHhcC-C----CeEEEEEC
Confidence 45567778888888887 332 3 36777654
No 332
>TIGR03609 S_layer_CsaB polysaccharide pyruvyl transferase CsaB. The CsaB protein (cell surface anchoring B) of Bacillus anthracis adds a pyruvoyl group to peptidoglycan-associated polysaccharide. This addition is required for proteins with an S-layer homology domain (pfam00395) to bind. Within the larger group of proteins described by Pfam model pfam04230, this model represents a distinct clade that nearly exactly follows the phylogenetic distribution of the S-layer homology domain (pfam00395).
Probab=32.61 E-value=2e+02 Score=20.95 Aligned_cols=47 Identities=13% Similarity=0.039 Sum_probs=27.0
Q ss_pred HHHHHHHhcCCCEEEEecCCCCcceeeeccch-----HHHHhhcCCCcEEEEcCC
Q 031355 108 ILCEAVEKHHASILVVGSHGYGAIKRAVLGSV-----SDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 108 ~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~-----~~~ll~~~~~pvlvv~~~ 157 (161)
.+.+..+ ++|++|+|..+.-.-. .-+.+. ...+.....+|++++...
T Consensus 57 ~~~~~l~--~~D~vI~gGG~l~~d~-~~~~~~~~~~~~~~~a~~~~k~~~~~g~g 108 (298)
T TIGR03609 57 AVLRALR--RADVVIWGGGSLLQDV-TSFRSLLYYLGLMRLARLFGKPVILWGQG 108 (298)
T ss_pred HHHHHHH--HCCEEEECCcccccCC-cccccHHHHHHHHHHHHHcCCCEEEEecc
Confidence 5677777 8899999865421100 001111 223455678899988654
No 333
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=32.61 E-value=1.8e+02 Score=20.49 Aligned_cols=57 Identities=9% Similarity=0.040 Sum_probs=35.3
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHH
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDY 142 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ 142 (161)
++.+..++.|.. .-..+.-+.|.+.+..+.. ..|++.+-+-..++-.+.|+....++
T Consensus 97 ~~l~~ik~~g~k-~GlalnP~Tp~~~i~~~l~--~~D~vlvMtV~PGfgGq~fi~~~lek 153 (220)
T PRK08883 97 RTLQLIKEHGCQ-AGVVLNPATPLHHLEYIMD--KVDLILLMSVNPGFGGQSFIPHTLDK 153 (220)
T ss_pred HHHHHHHHcCCc-EEEEeCCCCCHHHHHHHHH--hCCeEEEEEecCCCCCceecHhHHHH
Confidence 334444555543 5555566789999999998 88887776655444444454444333
No 334
>COG0320 LipA Lipoate synthase [Coenzyme metabolism]
Probab=32.54 E-value=2.1e+02 Score=21.27 Aligned_cols=51 Identities=20% Similarity=0.231 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHH---HHhcCCCEEEEecC
Q 031355 75 KIAARVVEEAKEICSSKSVHDFVVEVVEGDARNILCEA---VEKHHASILVVGSH 126 (161)
Q Consensus 75 ~~~~~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~---a~~~~~dliVlg~~ 126 (161)
++.-..++++++..-+.. ..-...+--|.-.++|.+. .++.++|++.+|++
T Consensus 197 ~~SL~~L~~~k~~~P~i~-TKSgiMlGLGEt~~Ev~e~m~DLr~~gvdilTiGQY 250 (306)
T COG0320 197 ERSLSLLERAKELGPDIP-TKSGLMVGLGETDEEVIEVMDDLRSAGVDILTIGQY 250 (306)
T ss_pred HHHHHHHHHHHHhCCCcc-cccceeeecCCcHHHHHHHHHHHHHcCCCEEEeccc
Confidence 344445555555442221 1233445557666666554 67789999999987
No 335
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=32.52 E-value=2.2e+02 Score=21.39 Aligned_cols=90 Identities=14% Similarity=0.151 Sum_probs=48.1
Q ss_pred EEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhh
Q 031355 10 VVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICS 89 (161)
Q Consensus 10 lv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 89 (161)
++...++-.+..+...|..+... | .++.++-. +.... ...+++..+..
T Consensus 119 lvGpnGsGKTTt~~kLA~~l~~~--g----~~V~Li~~-D~~r~-------------------------~a~eql~~~a~ 166 (318)
T PRK10416 119 VVGVNGVGKTTTIGKLAHKYKAQ--G----KKVLLAAG-DTFRA-------------------------AAIEQLQVWGE 166 (318)
T ss_pred EECCCCCcHHHHHHHHHHHHHhc--C----CeEEEEec-Cccch-------------------------hhHHHHHHHHH
Confidence 44445666777788888877754 3 36766543 22110 01223333343
Q ss_pred hcCCccEEEEEEcCChHhHH---HHHHHhcCCCEEEEecCCCCcce
Q 031355 90 SKSVHDFVVEVVEGDARNIL---CEAVEKHHASILVVGSHGYGAIK 132 (161)
Q Consensus 90 ~~~~~~~~~~v~~g~~~~~I---~~~a~~~~~dliVlg~~~~~~~~ 132 (161)
..+.. +...-...++...+ +..+...++|+|++-+.++....
T Consensus 167 ~~~i~-~~~~~~~~dpa~~v~~~l~~~~~~~~D~ViIDTaGr~~~~ 211 (318)
T PRK10416 167 RVGVP-VIAQKEGADPASVAFDAIQAAKARGIDVLIIDTAGRLHNK 211 (318)
T ss_pred HcCce-EEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCCcCC
Confidence 33422 32222223554322 34556789999999998876544
No 336
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=32.51 E-value=2.2e+02 Score=21.60 Aligned_cols=30 Identities=10% Similarity=0.088 Sum_probs=22.2
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+++.+++|+++|+.. + + -+|+++|=...
T Consensus 147 ~~~eRi~r~Af~~A~~r-~-~--~~Vt~v~KaNv 176 (334)
T PRK08997 147 KGAERIVRFAYELARKE-G-R--KKVTAVHKANI 176 (334)
T ss_pred HHHHHHHHHHHHHHHhc-C-C--CeEEEEeCCCc
Confidence 46889999999999875 3 1 26888876544
No 337
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=32.21 E-value=1.2e+02 Score=22.49 Aligned_cols=49 Identities=16% Similarity=0.169 Sum_probs=26.9
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
..++..++-+.-++...-.+....+++.+.+.+.-+...+|+||+-.+.
T Consensus 157 ~al~~a~~N~~lNg~~~~~~~~~~~Dvf~~l~~~~~~~~fD~IIlDPPs 205 (286)
T PF10672_consen 157 RALEWAKENAALNGLDLDRHRFIQGDVFKFLKRLKKGGRFDLIILDPPS 205 (286)
T ss_dssp HHHHHHHHHHHHTT-CCTCEEEEES-HHHHHHHHHHTT-EEEEEE--SS
T ss_pred HHHHHHHHHHHHcCCCccceEEEecCHHHHHHHHhcCCCCCEEEECCCC
Confidence 3444444444433432123445677888888776667799999998664
No 338
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=32.09 E-value=1.4e+02 Score=21.00 Aligned_cols=10 Identities=20% Similarity=0.165 Sum_probs=5.9
Q ss_pred EEEEEEcCCh
Q 031355 96 FVVEVVEGDA 105 (161)
Q Consensus 96 ~~~~v~~g~~ 105 (161)
....+..||.
T Consensus 33 ~d~vv~~GDl 42 (239)
T TIGR03729 33 IDHLHIAGDI 42 (239)
T ss_pred CCEEEECCcc
Confidence 4556666664
No 339
>COG0371 GldA Glycerol dehydrogenase and related enzymes [Energy production and conversion]
Probab=32.05 E-value=2.4e+02 Score=21.75 Aligned_cols=68 Identities=13% Similarity=0.108 Sum_probs=37.8
Q ss_pred HHHHHHhhhcCCccEEEEEEcCChHhH---HHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDARNI---LCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~~~~---I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
+.+.+.+...|.. .........-.++ +...+.+.++|.|| |-.|... -+++..+.+...+|++++|--
T Consensus 47 ~~~~~~l~~~g~~-~~~~~~~~a~~~ev~~~~~~~~~~~~d~vI-GVGGGk~------iD~aK~~A~~~~~pfIsvPT~ 117 (360)
T COG0371 47 EKVEKSLKDEGLV-VHVVFVGEASEEEVERLAAEAGEDGADVVI-GVGGGKT------IDTAKAAAYRLGLPFISVPTI 117 (360)
T ss_pred HHHHHHhcccCcc-eeeeecCccCHHHHHHHHHHhcccCCCEEE-EecCcHH------HHHHHHHHHHcCCCEEEecCc
Confidence 3445555555542 3332222234444 44444445666654 4332221 368888999999999999853
No 340
>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=32.02 E-value=1.1e+02 Score=21.74 Aligned_cols=49 Identities=4% Similarity=0.146 Sum_probs=29.6
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
..++++.+.+.+.|.|++|....-.... +..+.. .++....||++.|..
T Consensus 16 ~~~~~~~~~~~gtdai~vGGS~~vt~~~--~~~~v~-~ik~~~lPvilfp~~ 64 (223)
T TIGR01768 16 ADEIAKAAAESGTDAILIGGSQGVTYEK--TDTLIE-ALRRYGLPIILFPSN 64 (223)
T ss_pred cHHHHHHHHhcCCCEEEEcCCCcccHHH--HHHHHH-HHhccCCCEEEeCCC
Confidence 4557777778889999998654221111 122223 334456999998865
No 341
>PRK06247 pyruvate kinase; Provisional
Probab=31.85 E-value=1.5e+02 Score=23.69 Aligned_cols=44 Identities=11% Similarity=0.107 Sum_probs=33.0
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
.+......|...++.+||+-++. |+++..+.+. -+|||+.+-+.
T Consensus 357 ia~sa~~~A~~l~a~~Iv~~T~s---------G~ta~~isk~RP~~pI~a~t~~ 401 (476)
T PRK06247 357 ISYAARDIAERLDLAALVAYTSS---------GDTALRAARERPPLPILALTPN 401 (476)
T ss_pred HHHHHHHHHHhCCCCEEEEEcCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 45566678888899999987553 6777777774 56999998654
No 342
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=31.73 E-value=2.3e+02 Score=21.45 Aligned_cols=45 Identities=18% Similarity=0.171 Sum_probs=29.9
Q ss_pred hHhHHHHHHHhcCCCEEE-EecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILV-VGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliV-lg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
..+.+.+.+++.++|.|| +|... .++++.-+.....+|++.||-.
T Consensus 75 ~v~~~~~~~~~~~~d~IIaiGGGs--------v~D~ak~vA~~rgip~I~IPTT 120 (350)
T PRK00843 75 EVEKVEEKAKDVNAGFLIGVGGGK--------VIDVAKLAAYRLGIPFISVPTA 120 (350)
T ss_pred HHHHHHHHhhccCCCEEEEeCCch--------HHHHHHHHHHhcCCCEEEeCCC
Confidence 356777888888899887 44221 1445555555567899998854
No 343
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=31.53 E-value=92 Score=18.71 Aligned_cols=51 Identities=12% Similarity=0.003 Sum_probs=24.5
Q ss_pred EEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 99 EVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 99 ~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.+..|+-.+.+... -+.++..||+-... -......+++....+||+.+|..
T Consensus 44 vIt~gdR~di~~~a-~~~~i~~iIltg~~-------~~~~~v~~la~~~~i~vi~t~~d 94 (105)
T PF07085_consen 44 VITPGDREDIQLAA-IEAGIACIILTGGL-------EPSEEVLELAKELGIPVISTPYD 94 (105)
T ss_dssp EEEETT-HHHHHHH-CCTTECEEEEETT-----------HHHHHHHHHHT-EEEE-SS-
T ss_pred EEEeCCcHHHHHHH-HHhCCCEEEEeCCC-------CCCHHHHHHHHHCCCEEEEECCC
Confidence 34446665444444 44455555554211 11344556777778999988753
No 344
>cd08174 G1PDH-like Glycerol-1-phosphate dehydrogenase-like. Glycerol-1-phosphate dehydrogenase-like. The proteins of this family have not been characterized. The protein sequences have high similarity with that of glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. This family is bacteria specific.
Probab=31.51 E-value=2.2e+02 Score=21.23 Aligned_cols=46 Identities=11% Similarity=0.143 Sum_probs=28.7
Q ss_pred ChHhHHHHHHHhc-CCCEEE-EecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 104 DARNILCEAVEKH-HASILV-VGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~-~~dliV-lg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
...+.+.+.+++. ++|.|| +|.-. ..+++.-+.....+|++.||-.
T Consensus 61 ~~~~~i~~~~~~~~~~d~iIaiGGGs--------v~D~aK~vA~~~~~p~i~vPTt 108 (331)
T cd08174 61 SDAEEIGARARSIPNVDAVVGIGGGK--------VIDVAKYAAFLRGIPLSVPTTN 108 (331)
T ss_pred cCHHHHHHHHHhccCCCEEEEeCCcH--------HHHHHHHHHhhcCCCEEEecCc
Confidence 4567777777766 588877 44221 1344444555667899988853
No 345
>PRK05636 replicative DNA helicase; Provisional
Probab=31.42 E-value=1.9e+02 Score=23.34 Aligned_cols=46 Identities=13% Similarity=0.169 Sum_probs=26.5
Q ss_pred HHHHHhcCCCEEEEecCCC-----C-cceeeeccchHHH---HhhcCCCcEEEEc
Q 031355 110 CEAVEKHHASILVVGSHGY-----G-AIKRAVLGSVSDY---CAHHAHCTVMIVK 155 (161)
Q Consensus 110 ~~~a~~~~~dliVlg~~~~-----~-~~~~~~~gs~~~~---ll~~~~~pvlvv~ 155 (161)
.++..+++.++||+-.=+. . .-...-++.+++. +.....|||+++-
T Consensus 368 r~~~~~~~~~lvvIDYLql~~~~~~~~~r~~ei~~isr~LK~lAkel~ipVi~ls 422 (505)
T PRK05636 368 RRLKQKHDLKLIVVDYLQLMSSGKRVESRQQEVSEFSRQLKLLAKELDVPLIAIS 422 (505)
T ss_pred HHHHHhcCCCEEEEcchHhcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCeEEEEe
Confidence 3344567899999965221 0 0011123444444 6667899999984
No 346
>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=31.19 E-value=1e+02 Score=22.91 Aligned_cols=46 Identities=13% Similarity=0.114 Sum_probs=25.5
Q ss_pred HHHHHHhcCCCEEEEecCCCCcc-eeeeccchHHHHhhcCCCcEEEE
Q 031355 109 LCEAVEKHHASILVVGSHGYGAI-KRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 109 I~~~a~~~~~dliVlg~~~~~~~-~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
..+.+.+.++|.|++-.+..++- ..........++....++||+.-
T Consensus 121 ~a~~a~~~GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~~iPviaa 167 (307)
T TIGR03151 121 LAKRMEKAGADAVIAEGMESGGHIGELTTMALVPQVVDAVSIPVIAA 167 (307)
T ss_pred HHHHHHHcCCCEEEEECcccCCCCCCCcHHHHHHHHHHHhCCCEEEE
Confidence 34667777999999832211111 11111234456666678998764
No 347
>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=31.15 E-value=1.1e+02 Score=20.07 Aligned_cols=16 Identities=13% Similarity=-0.052 Sum_probs=9.4
Q ss_pred HHhhcCCCcEEEEcCC
Q 031355 142 YCAHHAHCTVMIVKRP 157 (161)
Q Consensus 142 ~ll~~~~~pvlvv~~~ 157 (161)
..+...++|+++|+..
T Consensus 46 ~~l~~~~~p~~~v~GN 61 (188)
T cd07392 46 NLLLAIGVPVLAVPGN 61 (188)
T ss_pred HHHHhcCCCEEEEcCC
Confidence 3445556777777643
No 348
>PRK08576 hypothetical protein; Provisional
Probab=31.13 E-value=2.7e+02 Score=22.10 Aligned_cols=32 Identities=22% Similarity=0.142 Sum_probs=23.8
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEec
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHAR 48 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~ 48 (161)
+++|++++...|..++..+.+. . + .+.++++.
T Consensus 236 rVvVafSGGKDStvLL~La~k~---~-~-----~V~aV~iD 267 (438)
T PRK08576 236 TVIVPWSGGKDSTAALLLAKKA---F-G-----DVTAVYVD 267 (438)
T ss_pred CEEEEEcChHHHHHHHHHHHHh---C-C-----CCEEEEeC
Confidence 8999999999999888666443 2 4 56777763
No 349
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=30.69 E-value=2e+02 Score=20.58 Aligned_cols=72 Identities=14% Similarity=0.167 Sum_probs=38.5
Q ss_pred HHHHHHHHHHhhhcCCccEEEEEEcCCh--HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 78 ARVVEEAKEICSSKSVHDFVVEVVEGDA--RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 78 ~~~l~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
.+....+.+.+++.|.. ........++ ....++....+++|-+|++....... ...-..+...++|++++-
T Consensus 42 ~~~~~~i~~~~~~~G~~-~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~------~~~l~~~~~~~ipvV~~~ 114 (295)
T PRK10653 42 VSLKDGAQKEADKLGYN-LVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAV------GNAVKMANQANIPVITLD 114 (295)
T ss_pred HHHHHHHHHHHHHcCCe-EEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHH------HHHHHHHHHCCCCEEEEc
Confidence 34555566666666643 3222222233 33455556677899888775322111 011235556788998885
Q ss_pred C
Q 031355 156 R 156 (161)
Q Consensus 156 ~ 156 (161)
.
T Consensus 115 ~ 115 (295)
T PRK10653 115 R 115 (295)
T ss_pred c
Confidence 3
No 350
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=30.56 E-value=1.2e+02 Score=21.61 Aligned_cols=50 Identities=20% Similarity=0.193 Sum_probs=32.2
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccc--hHHH-----HhhcCCCcEEEEcCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGS--VSDY-----CAHHAHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs--~~~~-----ll~~~~~pvlvv~~~ 157 (161)
+...++...+.+.++|++|++..=. .+-+|. .+.+ -+.....||+.||..
T Consensus 17 ~~~~k~~~~~~~~~~D~lviaGDlt----~~~~~~~~~~~~~~~~e~l~~~~~~v~avpGN 73 (226)
T COG2129 17 DSLKKLLNAAADIRADLLVIAGDLT----YFHFGPKEVAEELNKLEALKELGIPVLAVPGN 73 (226)
T ss_pred HHHHHHHHHHhhccCCEEEEeccee----hhhcCchHHHHhhhHHHHHHhcCCeEEEEcCC
Confidence 3468899999999999999984311 111121 2222 344578999999865
No 351
>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=30.28 E-value=1.7e+02 Score=19.53 Aligned_cols=44 Identities=18% Similarity=0.094 Sum_probs=28.1
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
..+.|++.+++.++|+|++|-..+.. .. ...+.....+.+|++.
T Consensus 87 ~~~~i~~~I~~~~pdiv~vglG~PkQ--E~----~~~~~~~~l~~~v~~~ 130 (171)
T cd06533 87 EEEEIIERINASGADILFVGLGAPKQ--EL----WIARHKDRLPVPVAIG 130 (171)
T ss_pred hHHHHHHHHHHcCCCEEEEECCCCHH--HH----HHHHHHHHCCCCEEEE
Confidence 34558999999999999999654322 12 2234444556666653
No 352
>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=30.23 E-value=1.3e+02 Score=20.57 Aligned_cols=41 Identities=17% Similarity=0.242 Sum_probs=27.3
Q ss_pred hHHHHHHH----hcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEE
Q 031355 107 NILCEAVE----KHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVM 152 (161)
Q Consensus 107 ~~I~~~a~----~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvl 152 (161)
+.+.+.++ +.++|.||+|.-+...+. ...+.+....+.||+
T Consensus 161 ~~~~~~~~~l~~~~~~d~iiLgCt~l~~~~-----~~~~~l~~~~gipVi 205 (216)
T PF01177_consen 161 EILAEAARELIKEDGADAIILGCTHLPLLL-----GAIEALEEELGIPVI 205 (216)
T ss_dssp HHHHHHHHHHHHCTTSSEEEEESTTGGGGH-----HHHHHHHHTCSSEEE
T ss_pred HHHHHHHHHHhccCCCCEEEECCCchHHHH-----HHHHhhcccCCCEEE
Confidence 35666655 889999999987655331 234556666677775
No 353
>PRK13396 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=30.13 E-value=2.5e+02 Score=21.50 Aligned_cols=104 Identities=12% Similarity=0.123 Sum_probs=57.0
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccEE
Q 031355 18 QSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDFV 97 (161)
Q Consensus 18 ~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 97 (161)
....++++|..+... + +++..-..+.+-..+..+.+. .++-+..+++..++.|.. +-
T Consensus 113 s~eq~l~~A~~lk~~--g----~~~~r~g~~kpRtsp~sf~G~----------------g~~gl~~L~~~~~e~Gl~-~~ 169 (352)
T PRK13396 113 NEEMIVETAKRVKAA--G----AKFLRGGAYKPRTSPYAFQGH----------------GESALELLAAAREATGLG-II 169 (352)
T ss_pred CHHHHHHHHHHHHHc--C----CCEEEeeeecCCCCCcccCCc----------------hHHHHHHHHHHHHHcCCc-EE
Confidence 456677777776664 5 566665566543333233222 134455555666666765 66
Q ss_pred EEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 98 VEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 98 ~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
+.+..-...+.+.++ +|++=+|++.-..+. ..++ +.+++.||++=+.
T Consensus 170 tev~d~~~v~~~~~~-----~d~lqIga~~~~n~~------LL~~-va~t~kPVllk~G 216 (352)
T PRK13396 170 TEVMDAADLEKIAEV-----ADVIQVGARNMQNFS------LLKK-VGAQDKPVLLKRG 216 (352)
T ss_pred EeeCCHHHHHHHHhh-----CCeEEECcccccCHH------HHHH-HHccCCeEEEeCC
Confidence 666555555554432 799999987644322 1222 2244677766543
No 354
>TIGR01064 pyruv_kin pyruvate kinase. This enzyme is a homotetramer. Some forms are active only in the presence of fructose-1,6-bisphosphate or similar phosphorylated sugars.
Probab=30.11 E-value=1.6e+02 Score=23.57 Aligned_cols=45 Identities=20% Similarity=0.200 Sum_probs=33.7
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
..+....+.|...+++.||+-+.. |+++..+.+. -+|||+.+-+.
T Consensus 360 ~ia~~a~~~a~~~~akaIVv~T~S---------G~TA~~vSr~rp~~PIiAvT~~ 405 (473)
T TIGR01064 360 AIALSAVEAAEKLDAKAIVVLTES---------GRTARLLSKYRPNAPIIAVTPN 405 (473)
T ss_pred HHHHHHHHHHhhcCCCEEEEEcCC---------hHHHHHHHhhCCCCCEEEEcCC
Confidence 355667788888999999997653 6777777774 56999988654
No 355
>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=30.11 E-value=2.4e+02 Score=21.28 Aligned_cols=28 Identities=18% Similarity=0.157 Sum_probs=20.8
Q ss_pred ChhHHHHHHHHHHHhhccCCCCCCcEEEEEEec
Q 031355 16 SEQSTYALQWTLDHFFANSTVNPPFKLVIVHAR 48 (161)
Q Consensus 16 s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~ 48 (161)
...+++.+++|+++|.+. + -+|+++|=.
T Consensus 140 r~~~eRi~r~AF~~A~~r-~----~~Vt~v~Ka 167 (322)
T TIGR02088 140 REGSERIARFAFNLAKER-N----RKVTCVHKA 167 (322)
T ss_pred HHHHHHHHHHHHHHHHHc-C----CcEEEEeCC
Confidence 357889999999999875 4 356666543
No 356
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=29.95 E-value=2.1e+02 Score=20.41 Aligned_cols=56 Identities=5% Similarity=-0.052 Sum_probs=36.1
Q ss_pred HHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHH
Q 031355 85 KEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYC 143 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~l 143 (161)
.+.+++.|.. .-..+.-+.+.+.+..+.. .+|+|.+-+-..++-.+.|..+..+++
T Consensus 101 i~~Ik~~G~k-aGlalnP~T~~~~l~~~l~--~vD~VLvMsV~PGf~GQ~fi~~~l~KI 156 (229)
T PRK09722 101 IDEIRRAGMK-VGLVLNPETPVESIKYYIH--LLDKITVMTVDPGFAGQPFIPEMLDKI 156 (229)
T ss_pred HHHHHHcCCC-EEEEeCCCCCHHHHHHHHH--hcCEEEEEEEcCCCcchhccHHHHHHH
Confidence 3444444543 5555566789999999999 889888876655555555555444444
No 357
>PTZ00300 pyruvate kinase; Provisional
Probab=29.80 E-value=2e+02 Score=22.92 Aligned_cols=44 Identities=23% Similarity=0.278 Sum_probs=32.8
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
.+....+.|.+.++++||+-++. |.++..+.+. -+||++.+-+.
T Consensus 336 ia~sa~~~a~~l~a~aIiv~T~s---------G~tA~~vs~~RP~~pIia~t~~ 380 (454)
T PTZ00300 336 VCSSAVNSVYETKAKALVVLSNT---------GRSARLVAKYRPNCPIVCVTTR 380 (454)
T ss_pred HHHHHHHHHHhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 45566788889999999886553 6677777775 56999888543
No 358
>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=29.73 E-value=1.1e+02 Score=17.06 Aligned_cols=27 Identities=22% Similarity=0.364 Sum_probs=21.8
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhcc
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFAN 33 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~ 33 (161)
++|++..|.+....++...+.......
T Consensus 44 ~~vii~~D~D~~G~~~~~~~~~~~~~~ 70 (79)
T cd01029 44 RTVILAFDNDEAGKKAAARALELLLAL 70 (79)
T ss_pred CEEEEEECCCHHHHHHHHHHHHHHHHC
Confidence 789999999988877777777776653
No 359
>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=29.62 E-value=1.5e+02 Score=20.57 Aligned_cols=56 Identities=9% Similarity=0.018 Sum_probs=33.6
Q ss_pred HHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHH
Q 031355 85 KEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYC 143 (161)
Q Consensus 85 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~l 143 (161)
.+..++.|.. .-..+.-+.+.+.+..+.. ..|+|.+-+-..++-.+.|...+.+++
T Consensus 98 i~~ik~~g~k-~GialnP~T~~~~~~~~l~--~vD~VlvMsV~PG~~Gq~f~~~~~~KI 153 (201)
T PF00834_consen 98 IKYIKEAGIK-AGIALNPETPVEELEPYLD--QVDMVLVMSVEPGFGGQKFIPEVLEKI 153 (201)
T ss_dssp HHHHHHTTSE-EEEEE-TTS-GGGGTTTGC--CSSEEEEESS-TTTSSB--HGGHHHHH
T ss_pred HHHHHHhCCC-EEEEEECCCCchHHHHHhh--hcCEEEEEEecCCCCcccccHHHHHHH
Confidence 3344444543 5555666788999988888 899977776666555556666555554
No 360
>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=29.60 E-value=2.3e+02 Score=20.81 Aligned_cols=50 Identities=10% Similarity=-0.056 Sum_probs=31.9
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
.-++.+.+++.++|-+++-.+-......--+-..-..|...+++||++..
T Consensus 88 ai~~a~~a~~~Gadav~~~pP~y~~~s~~~i~~~f~~v~~a~~~pvilYn 137 (296)
T TIGR03249 88 AIEIARLAEKAGADGYLLLPPYLINGEQEGLYAHVEAVCESTDLGVIVYQ 137 (296)
T ss_pred HHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhccCCCEEEEe
Confidence 33466889999999998876543222111112344557777889999875
No 361
>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=29.45 E-value=1.6e+02 Score=18.90 Aligned_cols=33 Identities=18% Similarity=0.359 Sum_probs=23.0
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEec
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHAR 48 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~ 48 (161)
.++|++.+...|..++..+... . + .++.++|+.
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~---~-~----~~v~~v~~~ 35 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEK---Y-G----LNPLAVTVD 35 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHH---h-C----CceEEEEeC
Confidence 4889999999888887766542 1 2 256667764
No 362
>cd02933 OYE_like_FMN Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include 12-oxophytodienoate reductase, pentaerythritol tetranitrate reductase, morphinone reductase, and related enzymes.
Probab=29.34 E-value=2.5e+02 Score=21.20 Aligned_cols=127 Identities=9% Similarity=0.008 Sum_probs=62.8
Q ss_pred HHHHHHHHHHhhccCCCCCCcEEEEEEecCCC---CcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccE
Q 031355 20 TYALQWTLDHFFANSTVNPPFKLVIVHARPSP---SAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDF 96 (161)
Q Consensus 20 ~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 96 (161)
...+..|+..|... | ..-.=+|.-.-+ ....+..+.-.+++... .+..-+...+.++.+++.+. ...+
T Consensus 151 i~~f~~aA~~a~~a-G----fDgVeih~ahGyLl~qFlSp~~N~R~D~yGGs-lenR~rf~~eii~air~~vg---~d~v 221 (338)
T cd02933 151 VADFRQAARNAIEA-G----FDGVEIHGANGYLIDQFLRDGSNKRTDEYGGS-IENRARFLLEVVDAVAEAIG---ADRV 221 (338)
T ss_pred HHHHHHHHHHHHHc-C----CCEEEEccccchhHHHhcCCccCCCCCcCCCc-HHHhhhHHHHHHHHHHHHhC---CCce
Confidence 44556667777764 5 444444433211 11111112223333333 23334555666666666553 2124
Q ss_pred EEEEEc---------C-Ch--HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 97 VVEVVE---------G-DA--RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 97 ~~~v~~---------g-~~--~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
..++.. | +. ...|++...+.++|+|-+...........+.-..+..+-...++||+++-
T Consensus 222 ~vRis~~~~~~~~~~~~~~ee~~~~~~~l~~~g~d~i~vs~g~~~~~~~~~~~~~~~~ik~~~~ipvi~~G 292 (338)
T cd02933 222 GIRLSPFGTFNDMGDSDPEATFSYLAKELNKRGLAYLHLVEPRVAGNPEDQPPDFLDFLRKAFKGPLIAAG 292 (338)
T ss_pred EEEECccccCCCCCCCCCHHHHHHHHHHHHHcCCcEEEEecCCCCCcccccchHHHHHHHHHcCCCEEEEC
Confidence 444321 1 11 23677777777899998843221111122334556666667889998873
No 363
>COG1171 IlvA Threonine dehydratase [Amino acid transport and metabolism]
Probab=29.13 E-value=2.1e+02 Score=21.87 Aligned_cols=81 Identities=17% Similarity=0.142 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCccEEE
Q 031355 19 STYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHDFVV 98 (161)
Q Consensus 19 s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 98 (161)
-..+.++|.+++... .++++|-++++.... ..-...-+.++++... ... +-.
T Consensus 130 ~dda~~~a~~~a~~~-------G~~~i~pfD~p~viA----------------GQGTi~lEileq~~~~----~d~-v~v 181 (347)
T COG1171 130 FDDAYAAAEELAEEE-------GLTFVPPFDDPDVIA----------------GQGTIALEILEQLPDL----PDA-VFV 181 (347)
T ss_pred HHHHHHHHHHHHHHc-------CCEEeCCCCCcceee----------------cccHHHHHHHHhcccc----CCE-EEE
Confidence 356778888888875 577888777654431 1122233333333221 111 334
Q ss_pred EEEcCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 99 EVVEGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 99 ~v~~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
-+-.|....+|..+.+....+.=|+|...
T Consensus 182 pvGGGGLisGia~~~k~~~p~~~vIGVEp 210 (347)
T COG1171 182 PVGGGGLISGIATALKALSPEIKVIGVEP 210 (347)
T ss_pred ecCccHHHHHHHHHHHHhCCCCeEEEEee
Confidence 44446899999999999998888888653
No 364
>PF05198 IF3_N: Translation initiation factor IF-3, N-terminal domain; InterPro: IPR019814 Initiation factor 3 (IF-3) (gene infC) is one of the three factors required for the initiation of protein biosynthesis in bacteria. IF-3 is thought to function as a fidelity factor during the assembly of the ternary initiation complex which consist of the 30S ribosomal subunit, the initiator tRNA and the messenger RNA. IF-3 is a basic protein that binds to the 30S ribosomal subunit []. The chloroplast initiation factor IF-3(chl) is a protein that enhances the poly(A,U,G)-dependent binding of the initiator tRNA to chloroplast ribosomal 30s subunits in which the central section is evolutionary related to the sequence of bacterial IF-3 []. ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1TIF_A.
Probab=29.07 E-value=1.2e+02 Score=17.40 Aligned_cols=31 Identities=3% Similarity=0.027 Sum_probs=22.8
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeee
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAV 135 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~ 135 (161)
+..+-++.|++.+-|||.+......+.-+++
T Consensus 29 ~~~eAl~~A~~~~lDLV~v~~~~~PPVcKi~ 59 (76)
T PF05198_consen 29 SLREALRLAKEKGLDLVEVSPNADPPVCKIM 59 (76)
T ss_dssp EHHHHHHHHHHTT-EEEEEETTSSS-EEEEE
T ss_pred EHHHHHHHHHHcCCcEEEEcCCCCCCeEEEe
Confidence 4677888999999999999976666666554
No 365
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=28.91 E-value=3.3e+02 Score=22.46 Aligned_cols=33 Identities=18% Similarity=0.143 Sum_probs=26.8
Q ss_pred EEEEEEcCChHhHHHHHHHhcCCCEEEEecCCC
Q 031355 96 FVVEVVEGDARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 96 ~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
.-+.+-.|.-.-+-+++|++.+.|+||..+|..
T Consensus 130 LiItvD~Gi~~~e~i~~a~~~gidvIVtDHH~~ 162 (575)
T PRK11070 130 LIVTVDNGISSHAGVAHAHALGIPVLVTDHHLP 162 (575)
T ss_pred EEEEEcCCcCCHHHHHHHHHCCCCEEEECCCCC
Confidence 555566687777888899999999999998854
No 366
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=28.87 E-value=1.4e+02 Score=22.94 Aligned_cols=22 Identities=5% Similarity=0.135 Sum_probs=17.3
Q ss_pred hHhHHHHHHHhcCCCEEE-EecC
Q 031355 105 ARNILCEAVEKHHASILV-VGSH 126 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliV-lg~~ 126 (161)
..+++.+.+++.++|.|| +|..
T Consensus 76 ~v~~~~~~~~~~~~D~IiaiGGG 98 (383)
T PRK09860 76 NVAAGLKLLKENNCDSVISLGGG 98 (383)
T ss_pred HHHHHHHHHHHcCCCEEEEeCCc
Confidence 356778889999999998 6643
No 367
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=28.80 E-value=2.4e+02 Score=20.86 Aligned_cols=116 Identities=14% Similarity=0.023 Sum_probs=63.8
Q ss_pred ChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHhhhcCCcc
Q 031355 16 SEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEICSSKSVHD 95 (161)
Q Consensus 16 s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 95 (161)
..-+..+++..++..... | +..+.+.-...... ....++..+.++...+... +..+
T Consensus 20 g~vD~~a~~~lv~~li~~-G------v~gi~~~GttGE~~---------------~Ls~eEr~~v~~~~v~~~~--grvp 75 (299)
T COG0329 20 GSVDEEALRRLVEFLIAA-G------VDGLVVLGTTGESP---------------TLTLEERKEVLEAVVEAVG--GRVP 75 (299)
T ss_pred CCcCHHHHHHHHHHHHHc-C------CCEEEECCCCccch---------------hcCHHHHHHHHHHHHHHHC--CCCc
Confidence 346778888888877764 3 44454443322110 1112222333444444443 2222
Q ss_pred EEEEEEcCC--hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 96 FVVEVVEGD--ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 96 ~~~~v~~g~--~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
+-..+...+ .+-++.+.|++.++|-+++-.+-......--+-..-..+...+..|+++.-
T Consensus 76 viaG~g~~~t~eai~lak~a~~~Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~~lPvilYN 137 (299)
T COG0329 76 VIAGVGSNSTAEAIELAKHAEKLGADGILVVPPYYNKPSQEGLYAHFKAIAEAVDLPVILYN 137 (299)
T ss_pred EEEecCCCcHHHHHHHHHHHHhcCCCEEEEeCCCCcCCChHHHHHHHHHHHHhcCCCEEEEe
Confidence 333333323 456677889999999999987654433322122344567888899998874
No 368
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=28.79 E-value=1.9e+02 Score=20.83 Aligned_cols=50 Identities=8% Similarity=-0.022 Sum_probs=32.7
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
...++.+.+.+.+++-+++-...+.+..+-+--....++...+++||+.-
T Consensus 153 ~~~e~~~~~~~~g~~~ii~~~i~~~G~~~G~d~~~i~~~~~~~~ipvIas 202 (258)
T PRK01033 153 DPLELAKEYEALGAGEILLNSIDRDGTMKGYDLELLKSFRNALKIPLIAL 202 (258)
T ss_pred CHHHHHHHHHHcCCCEEEEEccCCCCCcCCCCHHHHHHHHhhCCCCEEEe
Confidence 35677777888889988876544433222233345577788889999864
No 369
>PRK07667 uridine kinase; Provisional
Probab=28.53 E-value=88 Score=21.25 Aligned_cols=23 Identities=22% Similarity=0.434 Sum_probs=10.1
Q ss_pred HHHHHHHhcCCCEEEEecCCCCc
Q 031355 108 ILCEAVEKHHASILVVGSHGYGA 130 (161)
Q Consensus 108 ~I~~~a~~~~~dliVlg~~~~~~ 130 (161)
.|++...+++.+-+|+|-.|.++
T Consensus 5 ~~~~~~~~~~~~~~iIgI~G~~g 27 (193)
T PRK07667 5 ELINIMKKHKENRFILGIDGLSR 27 (193)
T ss_pred HHHHHHHhcCCCCEEEEEECCCC
Confidence 34444444444444444444333
No 370
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=28.53 E-value=3e+02 Score=21.84 Aligned_cols=56 Identities=21% Similarity=0.216 Sum_probs=34.5
Q ss_pred EEcCChHhHHHHHHHhcCCCEEEEecCCCCccee--eeccchH---------HHHhhcCCCcEEEEc
Q 031355 100 VVEGDARNILCEAVEKHHASILVVGSHGYGAIKR--AVLGSVS---------DYCAHHAHCTVMIVK 155 (161)
Q Consensus 100 v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~--~~~gs~~---------~~ll~~~~~pvlvv~ 155 (161)
+......+.|...+++.++++||+.+-..-.... -..|+.. .++++...++++++-
T Consensus 153 ~~~e~~~~~I~~~i~~~~~~~vVIDSIq~l~~~~~~~~~g~~~q~r~~~~~L~~~ak~~giTvllt~ 219 (454)
T TIGR00416 153 VLSETNWEQICANIEEENPQACVIDSIQTLYSPDISSAPGSVSQVRECTAELMRLAKTRGIAIFIVG 219 (454)
T ss_pred EcCCCCHHHHHHHHHhcCCcEEEEecchhhcccccccCCCCHHHHHHHHHHHHHHHHHhCCEEEEEe
Confidence 3344556889999999999999998754211111 0112222 234566789999983
No 371
>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=28.44 E-value=2.6e+02 Score=21.04 Aligned_cols=59 Identities=14% Similarity=0.012 Sum_probs=36.2
Q ss_pred CccEEEEEEcC-Ch----HhHHHHHHHhcCCCEEEEecCCCCcceee---eccchHHHHhhcCC-CcEEE
Q 031355 93 VHDFVVEVVEG-DA----RNILCEAVEKHHASILVVGSHGYGAIKRA---VLGSVSDYCAHHAH-CTVMI 153 (161)
Q Consensus 93 ~~~~~~~v~~g-~~----~~~I~~~a~~~~~dliVlg~~~~~~~~~~---~~gs~~~~ll~~~~-~pvlv 153 (161)
.++++.+++-| +. ...|.+.+++.+++.+.+=.+. ...+. .--....++-...+ +||+.
T Consensus 136 ~iPVTVKiRlG~d~~~~~~~~ia~~~~~~g~~~ltVHgRt--r~~~y~~~ad~~~I~~vk~~~~~ipvi~ 203 (323)
T COG0042 136 DIPVTVKIRLGWDDDDILALEIARILEDAGADALTVHGRT--RAQGYLGPADWDYIKELKEAVPSIPVIA 203 (323)
T ss_pred CCCeEEEEecccCcccccHHHHHHHHHhcCCCEEEEeccc--HHhcCCCccCHHHHHHHHHhCCCCeEEe
Confidence 35688888888 22 4579999999999999994432 22211 11123344555555 66664
No 372
>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=28.43 E-value=2.2e+02 Score=20.20 Aligned_cols=24 Identities=17% Similarity=0.250 Sum_probs=12.6
Q ss_pred CChHhHHHHHHHhcCCCEEEEecCCC
Q 031355 103 GDARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 103 g~~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
|+..+.++..-+ ++|.+++..+..
T Consensus 103 g~~~e~~~~~~~--~iDF~vVDc~~~ 126 (218)
T PF07279_consen 103 GEAPEEVMPGLK--GIDFVVVDCKRE 126 (218)
T ss_pred cCCHHHHHhhcc--CCCEEEEeCCch
Confidence 554444444334 666666665543
No 373
>PRK06354 pyruvate kinase; Provisional
Probab=28.41 E-value=1.7e+02 Score=24.17 Aligned_cols=44 Identities=9% Similarity=0.143 Sum_probs=32.8
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
.+......|...++++||+-++. |+++..+.+. -+|||+.+-+.
T Consensus 365 ia~aa~~~a~~~~a~~Iv~~T~s---------G~ta~~vsk~Rp~~pI~a~t~~ 409 (590)
T PRK06354 365 ISQAVSHIALQLDAAAIVTLTKS---------GATARNVSKYRPKTPILAVTPN 409 (590)
T ss_pred HHHHHHHHHhhcCCCEEEEECCC---------hHHHHHHHhhCCCCCEEEECCC
Confidence 44556677889999999987653 6778878774 56999988654
No 374
>PRK11823 DNA repair protein RadA; Provisional
Probab=28.23 E-value=3e+02 Score=21.75 Aligned_cols=55 Identities=18% Similarity=0.234 Sum_probs=34.2
Q ss_pred EEcCChHhHHHHHHHhcCCCEEEEecCCCC---cceeeeccchH---------HHHhhcCCCcEEEEc
Q 031355 100 VVEGDARNILCEAVEKHHASILVVGSHGYG---AIKRAVLGSVS---------DYCAHHAHCTVMIVK 155 (161)
Q Consensus 100 v~~g~~~~~I~~~a~~~~~dliVlg~~~~~---~~~~~~~gs~~---------~~ll~~~~~pvlvv~ 155 (161)
+......+.|.+..++.++++||+.+-..- .+.. ..|+.. .+++...+++++++-
T Consensus 139 ~~~e~~l~~i~~~i~~~~~~lVVIDSIq~l~~~~~~~-~~g~~~qvr~~~~~L~~~ak~~~itvilv~ 205 (446)
T PRK11823 139 LLAETNLEAILATIEEEKPDLVVIDSIQTMYSPELES-APGSVSQVRECAAELMRLAKQRGIAVFLVG 205 (446)
T ss_pred EeCCCCHHHHHHHHHhhCCCEEEEechhhhccccccC-CCCCHHHHHHHHHHHHHHHHHcCCEEEEEe
Confidence 333455778888999999999999874311 1110 112221 345567799999984
No 375
>PRK14177 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.15 E-value=1.7e+02 Score=21.63 Aligned_cols=47 Identities=15% Similarity=0.184 Sum_probs=33.7
Q ss_pred hHhHHHHHHHhcCCCE-----EEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 105 ARNILCEAVEKHHASI-----LVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dl-----iVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
...++++..+.+++++ +|+|+.. +.|.....+|.+-++.|.+++.+.
T Consensus 142 Tp~avi~ll~~y~i~l~Gk~vvViGrS~-------iVGkPla~lL~~~~atVt~chs~T 193 (284)
T PRK14177 142 TPYGMVLLLKEYGIDVTGKNAVVVGRSP-------ILGKPMAMLLTEMNATVTLCHSKT 193 (284)
T ss_pred CHHHHHHHHHHhCCCCCCCEEEEECCCC-------cchHHHHHHHHHCCCEEEEeCCCC
Confidence 4678888888887755 8888653 335556667777788888887654
No 376
>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=28.11 E-value=2.7e+02 Score=21.09 Aligned_cols=24 Identities=8% Similarity=0.080 Sum_probs=19.5
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
....+.+.|+++++.+|+-|....
T Consensus 148 ~~~~l~~~A~~~gi~~Il~G~~~d 171 (343)
T TIGR03573 148 IFASVYQVALKFNIPLIIWGENIA 171 (343)
T ss_pred HHHHHHHHHHHhCCCEEEeCCCHH
Confidence 356778899999999999997743
No 377
>TIGR03282 methan_mark_13 putative methanogenesis marker 13 metalloprotein. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. This metal cluster-binding family is related to nitrogenase structural protein NifD and accessory protein NifE, among others.
Probab=28.10 E-value=1.2e+02 Score=23.08 Aligned_cols=49 Identities=16% Similarity=0.150 Sum_probs=30.7
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhh--cCCCcEEEEcC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAH--HAHCTVMIVKR 156 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~--~~~~pvlvv~~ 156 (161)
...+.|.+..++.++++|++-+.-.+.+ +|...+.+++ ...+||+.|.-
T Consensus 62 KL~eaI~ea~e~y~P~lI~VvTTCvseI----IGDDIeaVvkE~~~giPVI~V~t 112 (352)
T TIGR03282 62 KLVKVIRYAEEKFKPELIGVVGTCASMI----IGEDLKEAVDEADVDAEVIAVEV 112 (352)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCchhh----ccCCHHHHHHHhCCCCCEEEEEC
Confidence 3566777777777888877765544433 3555555554 34578877753
No 378
>PLN02461 Probable pyruvate kinase
Probab=28.07 E-value=1.9e+02 Score=23.46 Aligned_cols=42 Identities=21% Similarity=0.290 Sum_probs=32.3
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEc
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVK 155 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~ 155 (161)
.+....+.|.+.++..||+-++. |.++..+.+. -+|||+.+-
T Consensus 383 ia~sav~~A~~l~a~aIiv~T~s---------G~tA~~iSk~RP~~pIia~t 425 (511)
T PLN02461 383 LASSAVRTANKVKASLIVVLTRG---------GTTARLVAKYRPAVPILSVV 425 (511)
T ss_pred HHHHHHHHHHhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEEe
Confidence 55666788889999999887653 6777877775 569999984
No 379
>PF00464 SHMT: Serine hydroxymethyltransferase; InterPro: IPR001085 Synonym(s): Serine hydroxymethyltransferase, Serine aldolase, Threonine aldolase Serine hydroxymethyltransferase (SHMT) is a pyridoxal phosphate (PLP) dependent enzyme and belongs to the aspartate aminotransferase superfamily (fold type I) []. The pyridoxal-P group is attached to a lysine residue around which the sequence is highly conserved in all forms of the enzyme []. The enzyme carries out interconversion of serine and glycine using PLP as the cofactor. SHMT catalyses the transfer of a hydroxymethyl group from N5, N10- methylene tetrahydrofolate to glycine, resulting in the formation of serine and tetrahydrofolate. Both eukaryotic and prokaryotic SHMT enzymes form tight obligate homodimers and the mammalian enzyme forms a homotetramer [, ]. PLP dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalysed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary history of these enzymes. Structure and sequence analysis has revealed that the PLP dependent enzymes can be classified into four major groups of different evolutionary origin: aspartate aminotransferase superfamily (fold type I), tryptophan synthase beta superfamily (fold type II), alanine racemase superfamily (fold type III), D-amino acid superfamily (fold type IV) and glycogen phophorylase family (fold type V) [, ]. In vertebrates, glycine hydroxymethyltransferase exists in a cytoplasmic and a mitochondrial form whereas only one form is found in prokaryotes.; GO: 0004372 glycine hydroxymethyltransferase activity, 0006544 glycine metabolic process, 0006563 L-serine metabolic process; PDB: 3GBX_B 3H7F_A 1YJS_A 2VMW_A 2W7H_A 2W7E_A 2VMY_B 2W7L_A 2VMZ_A 2VMS_A ....
Probab=27.86 E-value=1.3e+02 Score=23.50 Aligned_cols=26 Identities=15% Similarity=0.387 Sum_probs=18.7
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCc
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGA 130 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~ 130 (161)
-.+++.+.+++++++|||+|.....+
T Consensus 157 D~d~l~~~a~~~kPklIi~G~S~y~~ 182 (399)
T PF00464_consen 157 DYDELEKLAKEHKPKLIICGASSYPR 182 (399)
T ss_dssp -HHHHHHHHHHH--SEEEEE-SSTSS
T ss_pred CHHHHHHHHhhcCCCEEEECchhccC
Confidence 57899999999999999999876443
No 380
>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=27.74 E-value=1.1e+02 Score=21.28 Aligned_cols=7 Identities=0% Similarity=0.178 Sum_probs=4.0
Q ss_pred CCcEEEE
Q 031355 148 HCTVMIV 154 (161)
Q Consensus 148 ~~pvlvv 154 (161)
..|++|+
T Consensus 106 ~~~~iv~ 112 (214)
T cd07399 106 DRPAILT 112 (214)
T ss_pred CCCEEEE
Confidence 4566655
No 381
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=27.74 E-value=1.3e+02 Score=17.25 Aligned_cols=39 Identities=18% Similarity=0.232 Sum_probs=21.6
Q ss_pred HHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
..+++.+.+.| ++..+..+. ......... ++|+++++..
T Consensus 18 ~~i~~~~~~~g---i~~~~~~~~-~~~~~~~~~--~~D~il~~~~ 56 (90)
T PF02302_consen 18 NKIKKALKELG---IEVEVSAGS-ILEVEEIAD--DADLILLTPQ 56 (90)
T ss_dssp HHHHHHHHHTT---ECEEEEEEE-TTTHHHHHT--T-SEEEEEES
T ss_pred HHHHHHHHhcc---CceEEEEec-ccccccccC--CCcEEEEcCc
Confidence 55666666666 333344444 233333344 8999999865
No 382
>PF06050 HGD-D: 2-hydroxyglutaryl-CoA dehydratase, D-component ; InterPro: IPR010327 Degradation of glutamate via the hydroxyglutarate pathway involves the syn-elimination of water from 2-hydroxyglutaryl-CoA. This anaerobic process is catalysed by 2-hydroxyglutaryl-CoA dehydratase, an enzyme with two components (A and D) that reversibly associate during reaction cycles. This component contains one non-reducible [4Fe-4S]2+ cluster and a reduced riboflavin 5'-monophosphate [].; PDB: 3O3O_B 3O3N_D 3O3M_D.
Probab=27.48 E-value=67 Score=23.90 Aligned_cols=53 Identities=9% Similarity=-0.021 Sum_probs=34.9
Q ss_pred CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcC-CCcEEEEcC
Q 031355 103 GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHA-HCTVMIVKR 156 (161)
Q Consensus 103 g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~-~~pvlvv~~ 156 (161)
..-.+.+.+.+++.++|.+|......-.... ......++.++.. .+|+|.+-.
T Consensus 272 ~~r~~~~~~~~~~~~~dgvi~~~~~~C~~~~-~~~~~l~~~~~~~~gIP~l~le~ 325 (349)
T PF06050_consen 272 ERRIEYIDDLIEKYGADGVIFHGHKGCDPYS-YDQPLLKEALREFLGIPVLFLEG 325 (349)
T ss_dssp HCHHHHHHHHHHHTT-SEEEEEEETT-HHHH-CCHHHHHHHHHCCHT--EEEEEE
T ss_pred HhHHHHHHHHHHHhCCCEEEEhHhcCCCcHH-HHHHHHHHHHHHhcCCCeEeecc
Confidence 5678899999999999999998765422111 2234556677777 999999853
No 383
>PF08123 DOT1: Histone methylation protein DOT1 ; InterPro: IPR013110 The DOT1 domain regulates gene expression by methylating histone H3 []. H3 methylation by DOT1 has been shown to be required for the DNA damage checkpoint in yeast [].; GO: 0018024 histone-lysine N-methyltransferase activity; PDB: 4ER3_A 4ER6_A 4EQZ_A 1NW3_A 3UWP_A 4ER5_A 3QOX_A 3SX0_A 4ER7_A 3SR4_A ....
Probab=27.32 E-value=2.2e+02 Score=19.83 Aligned_cols=56 Identities=18% Similarity=0.163 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 71 SDFKKIAARVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 71 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
+.....++...+.+++.+...|.......+..|+..+.-.....-.++|+|.+-..
T Consensus 76 ~~~~~~a~~~~~~~~~~~~~~g~~~~~v~l~~gdfl~~~~~~~~~s~AdvVf~Nn~ 131 (205)
T PF08123_consen 76 PELHDLAEELLEELKKRMKHYGKRPGKVELIHGDFLDPDFVKDIWSDADVVFVNNT 131 (205)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCTB---EEEEECS-TTTHHHHHHHGHC-SEEEE--T
T ss_pred hHHHHHHHHHHHHHHHHHHHhhcccccceeeccCccccHhHhhhhcCCCEEEEecc
Confidence 33455566666777777666666556677778876543322211238999999754
No 384
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=27.31 E-value=2.3e+02 Score=20.01 Aligned_cols=91 Identities=15% Similarity=0.131 Sum_probs=41.7
Q ss_pred eEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHH
Q 031355 8 TMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEI 87 (161)
Q Consensus 8 ~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 87 (161)
++++-+.+...|.-|+..|.+. . . -..+++..+.......+..+. .+.. ..+
T Consensus 2 k~v~l~SGGKDS~lAl~~a~~~---~-~-----v~~L~t~~~~~~~s~~~H~~~--------~~~~-----------~~q 53 (218)
T PF01902_consen 2 KVVALWSGGKDSCLALYRALRQ---H-E-----VVCLLTMVPEEEDSYMFHGVN--------IELI-----------EAQ 53 (218)
T ss_dssp EEEEE--SSHHHHHHHHHHHHT-----E-----EEEEEEEEESTTT-SSS-STT--------GTCH-----------HHH
T ss_pred cEEEEEcCcHHHHHHHHHHHHh---C-C-----ccEEEEeccCCCCcccccccC--------HHHH-----------HHH
Confidence 6788899999999998888776 2 2 335555554433222222211 0111 111
Q ss_pred hhhcCCccEEEEEE--cCChHhHHHHHHHhcCCCEEEEecC
Q 031355 88 CSSKSVHDFVVEVV--EGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 88 ~~~~~~~~~~~~v~--~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
++..|.+-+...+. ..+-.+.+.+..++.+++-+|.|.=
T Consensus 54 A~algipl~~~~~~g~~~~~~~~l~~~l~~~~v~~vv~GdI 94 (218)
T PF01902_consen 54 AEALGIPLIEIPTSGDEEDYVEDLKEALKELKVEAVVFGDI 94 (218)
T ss_dssp HHHHT--EEEEEE---CCCHHHHHHHHHCTC--SEEE--TT
T ss_pred HHHCCCCEEEEEccCccchhhHHHHHHHHHcCCCEEEECcC
Confidence 12223321222222 2345566777777888888888854
No 385
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=27.13 E-value=2.8e+02 Score=20.93 Aligned_cols=28 Identities=25% Similarity=0.328 Sum_probs=18.5
Q ss_pred EEEEEEc---CC-hHhHHHHHHHhcCCCEEEE
Q 031355 96 FVVEVVE---GD-ARNILCEAVEKHHASILVV 123 (161)
Q Consensus 96 ~~~~v~~---g~-~~~~I~~~a~~~~~dliVl 123 (161)
+.+.+.+ ++ ..+.|.+.....++.++|=
T Consensus 101 v~~i~~Dft~~~~~ye~i~~~l~~~~VgILVN 132 (312)
T KOG1014|consen 101 VRIIAIDFTKGDEVYEKLLEKLAGLDVGILVN 132 (312)
T ss_pred EEEEEEecCCCchhHHHHHHHhcCCceEEEEe
Confidence 5555444 44 3788999999667766663
No 386
>PRK00748 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated
Probab=27.06 E-value=1.7e+02 Score=20.37 Aligned_cols=48 Identities=10% Similarity=0.036 Sum_probs=28.7
Q ss_pred HhHHHHHHHhcCCCEEEEecCCC-CcceeeeccchHHHHhhcCCCcEEEE
Q 031355 106 RNILCEAVEKHHASILVVGSHGY-GAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~-~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
..++.+..++.+++-|++-...+ ....+ .--....++...+++||+.-
T Consensus 148 ~~e~~~~~~~~g~~~ii~~~~~~~g~~~G-~d~~~i~~l~~~~~ipvia~ 196 (233)
T PRK00748 148 AEDLAKRFEDAGVKAIIYTDISRDGTLSG-PNVEATRELAAAVPIPVIAS 196 (233)
T ss_pred HHHHHHHHHhcCCCEEEEeeecCcCCcCC-CCHHHHHHHHHhCCCCEEEe
Confidence 35677777888899554443322 22222 22245677777888998764
No 387
>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=27.03 E-value=2.2e+02 Score=19.71 Aligned_cols=74 Identities=18% Similarity=0.072 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHhhhcCCccEEEEEEcCC----hHhHHHHHHHhcCCCEEEEecCCCCc-ceeeeccchHHHHhhcCCCcE
Q 031355 77 AARVVEEAKEICSSKSVHDFVVEVVEGD----ARNILCEAVEKHHASILVVGSHGYGA-IKRAVLGSVSDYCAHHAHCTV 151 (161)
Q Consensus 77 ~~~~l~~~~~~~~~~~~~~~~~~v~~g~----~~~~I~~~a~~~~~dliVlg~~~~~~-~~~~~~gs~~~~ll~~~~~pv 151 (161)
..+.++.+++.+ + .++...+..|. ....+++...+.++|.|.+-.+.... ......-.....+....++||
T Consensus 111 ~~eii~~v~~~~---~-~~v~vk~r~~~~~~~~~~~~~~~l~~~Gvd~i~v~~~~~~~~~~~~~~~~~~~~i~~~~~ipv 186 (231)
T cd02801 111 VAEIVRAVREAV---P-IPVTVKIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSGPADWDYIAEIKEAVSIPV 186 (231)
T ss_pred HHHHHHHHHHhc---C-CCEEEEEeeccCCchHHHHHHHHHHHhCCCEEEECCCCHHHcCCCCCCHHHHHHHHhCCCCeE
Confidence 344444444433 3 33666665552 45567777888899999885442211 110111123345666778898
Q ss_pred EEE
Q 031355 152 MIV 154 (161)
Q Consensus 152 lvv 154 (161)
+..
T Consensus 187 i~~ 189 (231)
T cd02801 187 IAN 189 (231)
T ss_pred EEe
Confidence 875
No 388
>PRK00074 guaA GMP synthase; Reviewed
Probab=26.97 E-value=3.4e+02 Score=21.94 Aligned_cols=36 Identities=14% Similarity=0.167 Sum_probs=27.2
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
++++|++.+.-.|..++..+.+.. | -++.++|+...
T Consensus 216 ~~vlva~SGGvDS~vll~ll~~~l----g----~~v~av~vd~g 251 (511)
T PRK00074 216 KKVILGLSGGVDSSVAAVLLHKAI----G----DQLTCVFVDHG 251 (511)
T ss_pred CcEEEEeCCCccHHHHHHHHHHHh----C----CceEEEEEeCC
Confidence 789999999988888777665532 4 37899998543
No 389
>PLN02329 3-isopropylmalate dehydrogenase
Probab=26.78 E-value=2.3e+02 Score=22.23 Aligned_cols=29 Identities=10% Similarity=-0.047 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+++.+++|+++|+.. + -+|+++|=...
T Consensus 211 ~~~eRI~r~AFe~A~~r-~----~kVT~v~KaNV 239 (409)
T PLN02329 211 HEIDRIARVAFETARKR-R----GKLCSVDKANV 239 (409)
T ss_pred HHHHHHHHHHHHHHHHc-C----CeEEEEECCCC
Confidence 46889999999999875 4 37777775443
No 390
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=26.77 E-value=1.3e+02 Score=23.95 Aligned_cols=27 Identities=11% Similarity=0.107 Sum_probs=18.9
Q ss_pred CChHhHHHHHH-HhcCCCEEEEecCCCC
Q 031355 103 GDARNILCEAV-EKHHASILVVGSHGYG 129 (161)
Q Consensus 103 g~~~~~I~~~a-~~~~~dliVlg~~~~~ 129 (161)
|+-.+.+++.+ ++.++.+|.+-+.|..
T Consensus 113 GdDle~va~~~~~~~gipVV~v~~~Gf~ 140 (457)
T CHL00073 113 KMDLEGMAPKLEAEIGIPIVVARANGLD 140 (457)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCCcc
Confidence 55566776554 4778999998876644
No 391
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=26.64 E-value=1.7e+02 Score=22.33 Aligned_cols=21 Identities=10% Similarity=0.055 Sum_probs=16.6
Q ss_pred HhHHHHHHHhcCCCEEE-EecC
Q 031355 106 RNILCEAVEKHHASILV-VGSH 126 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliV-lg~~ 126 (161)
.+.+.+.+++.++|.|| +|..
T Consensus 72 v~~~~~~~~~~~~D~IiavGGG 93 (380)
T cd08185 72 VMEGAALAREEGCDFVVGLGGG 93 (380)
T ss_pred HHHHHHHHHHcCCCEEEEeCCc
Confidence 56677889999999999 6643
No 392
>PRK14024 phosphoribosyl isomerase A; Provisional
Probab=26.58 E-value=1.8e+02 Score=20.69 Aligned_cols=49 Identities=10% Similarity=-0.069 Sum_probs=30.5
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
...+++..++.+++.|++-...+.+..+-.--+...++...+++||+.-
T Consensus 148 ~~~~~~~l~~~G~~~iiv~~~~~~g~~~G~d~~~i~~i~~~~~ipvias 196 (241)
T PRK14024 148 LWEVLERLDSAGCSRYVVTDVTKDGTLTGPNLELLREVCARTDAPVVAS 196 (241)
T ss_pred HHHHHHHHHhcCCCEEEEEeecCCCCccCCCHHHHHHHHhhCCCCEEEe
Confidence 3456666777888877776554332222223355567777888998864
No 393
>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=26.54 E-value=2.4e+02 Score=20.04 Aligned_cols=37 Identities=16% Similarity=0.280 Sum_probs=25.5
Q ss_pred HHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 111 EAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 111 ~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
+..+++++|+|||-.=|.+... -+.+-+.+.+||++-
T Consensus 172 ~~L~~~gadlIvLDCmGYt~~~-------r~~~~~~~g~PVlLs 208 (221)
T PF07302_consen 172 RELAEQGADLIVLDCMGYTQEM-------RDIVQRALGKPVLLS 208 (221)
T ss_pred HHHHhcCCCEEEEECCCCCHHH-------HHHHHHHhCCCEEeH
Confidence 3455668999999988766432 234555688999874
No 394
>PLN02762 pyruvate kinase complex alpha subunit
Probab=26.51 E-value=2.1e+02 Score=23.20 Aligned_cols=44 Identities=9% Similarity=0.209 Sum_probs=32.6
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
.+....+.|...++.+||+-++. |.++..+.+. -+|||+.+-+.
T Consensus 397 ia~sa~~~A~~l~a~aIv~~T~s---------G~tA~~iSk~RP~~pIia~t~~ 441 (509)
T PLN02762 397 ICNSAAKMANNLGVDAIFVYTKH---------GHMASLLSRNRPDCPIFAFTDT 441 (509)
T ss_pred HHHHHHHHHhhcCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 55666778889999999987553 6677777774 56999888554
No 395
>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=26.50 E-value=1.5e+02 Score=20.60 Aligned_cols=8 Identities=38% Similarity=0.559 Sum_probs=3.5
Q ss_pred EEEEEcCC
Q 031355 97 VVEVVEGD 104 (161)
Q Consensus 97 ~~~v~~g~ 104 (161)
...+..||
T Consensus 42 d~vi~~GD 49 (240)
T cd07402 42 DLVLVTGD 49 (240)
T ss_pred CEEEECcc
Confidence 34444444
No 396
>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=26.48 E-value=2.5e+02 Score=20.26 Aligned_cols=71 Identities=8% Similarity=0.120 Sum_probs=42.7
Q ss_pred HHHHHHHHHHhhhcCCccEEEEEEcCC-hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 78 ARVVEEAKEICSSKSVHDFVVEVVEGD-ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 78 ~~~l~~~~~~~~~~~~~~~~~~v~~g~-~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.+.+..+.+.+++.|.. .-..-..++ -.+..++...++++|=+|+.+...+ .+....+... .+||+++-.
T Consensus 17 ~~ii~gIe~~a~~~Gy~-l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s~~~~-------~~~l~~~~~~-~iPvV~~~~ 87 (279)
T PF00532_consen 17 AEIIRGIEQEAREHGYQ-LLLCNTGDDEEKEEYIELLLQRRVDGIILASSEND-------DEELRRLIKS-GIPVVLIDR 87 (279)
T ss_dssp HHHHHHHHHHHHHTTCE-EEEEEETTTHHHHHHHHHHHHTTSSEEEEESSSCT-------CHHHHHHHHT-TSEEEEESS
T ss_pred HHHHHHHHHHHHHcCCE-EEEecCCCchHHHHHHHHHHhcCCCEEEEecccCC-------hHHHHHHHHc-CCCEEEEEe
Confidence 45666667777777764 322223333 2336777788889999998854332 1233444444 899999865
Q ss_pred C
Q 031355 157 P 157 (161)
Q Consensus 157 ~ 157 (161)
.
T Consensus 88 ~ 88 (279)
T PF00532_consen 88 Y 88 (279)
T ss_dssp -
T ss_pred c
Confidence 4
No 397
>cd08199 EEVS 2-epi-5-epi-valiolone synthase (EEVS). 2-epi-5-epi-valiolone synthases catalyze the cyclization of sedoheptulose 7-phosphate to 2-epi-5-epi-valiolone in the biosynthesis of C(7)N-aminocyclitol-containing products. The cyclization product, 2-epi-5-epi-valiolone ((2S,3S,4S,5R)-5-(hydroxymethyl)cyclohexanon-2,3,4,5-tetrol), is a precursor of the valienamine moiety. The valienamine unit is responsible for their biological activities as various glycosidic hydrolases inhibitors. Two important microbial secondary metabolites, i.e., validamycin and acarbose, are used in agricultural and biomedical applications. Validamycine A is an antifungal antibiotic which has a strong trehalase inhibitory activity and has been used to control sheath blight disease in rice caused by Rhizoctonia solani. Acarbose is an alpha-glucosidase inhibitor used for the treatment of type II insulin-independent diabetes. Salbostatin produced by Streptomyces albus also belongs to this family. It exhibits s
Probab=26.46 E-value=2.9e+02 Score=21.01 Aligned_cols=44 Identities=9% Similarity=0.098 Sum_probs=26.1
Q ss_pred HhHHHHHHHhcCC----CEEE-EecCCCCcceeeeccchHHHHh--hcCCCcEEEEcCC
Q 031355 106 RNILCEAVEKHHA----SILV-VGSHGYGAIKRAVLGSVSDYCA--HHAHCTVMIVKRP 157 (161)
Q Consensus 106 ~~~I~~~a~~~~~----dliV-lg~~~~~~~~~~~~gs~~~~ll--~~~~~pvlvv~~~ 157 (161)
.+.+.+.+.+.++ |+|| +|.... ++++..+. ....+|++.||-.
T Consensus 73 v~~~~~~l~~~~~~r~~d~IVaiGGG~v--------~D~ak~~A~~~~rg~p~i~VPTT 123 (354)
T cd08199 73 VLKIVDALDAFGISRRREPVLAIGGGVL--------TDVAGLAASLYRRGTPYVRIPTT 123 (354)
T ss_pred HHHHHHHHHHcCCCCCCCEEEEECCcHH--------HHHHHHHHHHhcCCCCEEEEcCc
Confidence 5556666677777 9888 553211 33333333 3457888888853
No 398
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=26.36 E-value=1.9e+02 Score=20.63 Aligned_cols=49 Identities=12% Similarity=0.048 Sum_probs=29.4
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
...+.+.+.+.+++-|++....+.+....+--....++...+++||+..
T Consensus 155 ~~~~~~~~~~~g~~~ii~~~i~~~g~~~g~d~~~i~~~~~~~~ipvia~ 203 (253)
T PRK02083 155 AVEWAKEVEELGAGEILLTSMDRDGTKNGYDLELTRAVSDAVNVPVIAS 203 (253)
T ss_pred HHHHHHHHHHcCCCEEEEcCCcCCCCCCCcCHHHHHHHHhhCCCCEEEE
Confidence 3456666777899987775433322222222345566777778998875
No 399
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=26.33 E-value=3.3e+02 Score=21.57 Aligned_cols=52 Identities=19% Similarity=0.185 Sum_probs=35.9
Q ss_pred ChHhHHHHHHHh--cCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 104 DARNILCEAVEK--HHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 104 ~~~~~I~~~a~~--~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
...+.|++..++ .++|.+|+.-++.+.+.. -...-++.+..+.||||=|...
T Consensus 128 ~~~~~ll~~~~~~l~~~~~vVLSDY~KG~L~~---~q~~I~~ar~~~~pVLvDPKg~ 181 (467)
T COG2870 128 EDENKLLEKIKNALKSFDALVLSDYAKGVLTN---VQKMIDLAREAGIPVLVDPKGK 181 (467)
T ss_pred hhHHHHHHHHHHHhhcCCEEEEeccccccchh---HHHHHHHHHHcCCcEEECCCCc
Confidence 335566666555 699999999888766543 1233457778899999987653
No 400
>PRK05826 pyruvate kinase; Provisional
Probab=26.30 E-value=2.4e+02 Score=22.56 Aligned_cols=45 Identities=11% Similarity=0.109 Sum_probs=32.5
Q ss_pred ChHhHHHHHHHhcC-CCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 104 DARNILCEAVEKHH-ASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~-~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
..+......+.+.+ ++.||+-++. |.++..+.+. -+|||+.+-+.
T Consensus 359 ~ia~aa~~~a~~l~~a~~Ivv~T~s---------G~ta~~isk~RP~~pI~~~t~~ 405 (465)
T PRK05826 359 AIAMSAMYAANHLKGVKAIVALTES---------GRTARLISRFRPGAPIFAVTRD 405 (465)
T ss_pred HHHHHHHHHHHhcCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEEcCC
Confidence 35566667788888 9888886543 6677777774 67999988654
No 401
>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=26.29 E-value=1.9e+02 Score=18.76 Aligned_cols=40 Identities=13% Similarity=0.211 Sum_probs=25.6
Q ss_pred CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEE
Q 031355 103 GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVM 152 (161)
Q Consensus 103 g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvl 152 (161)
|.......++.... +|+||+-.... ...+.+..++.+||+
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 33333444444444 99999964432 356778888999996
No 402
>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=26.10 E-value=1.6e+02 Score=23.00 Aligned_cols=52 Identities=10% Similarity=-0.047 Sum_probs=33.8
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
-.+.|.+.+++.++|=||.-....=.....-...+-+.+.....+|+|.+--
T Consensus 338 R~~~l~~l~ke~~aDGVI~~~~~~C~~~~~e~~~~~~~l~e~~GIP~L~iE~ 389 (413)
T TIGR02260 338 RVDLLEKYINEYEADGLLINSIKSCNSFSAGQLLMMREIEKRTGKPAAFIET 389 (413)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCcchhhhHHHHHHHHHHcCCCEEEEEc
Confidence 5778999999999999998655321111011122335555668999999843
No 403
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=26.08 E-value=1.2e+02 Score=20.57 Aligned_cols=34 Identities=21% Similarity=0.296 Sum_probs=27.4
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
.+-|||+|..+.+....+|...+... | +.+.++.
T Consensus 36 DNTLv~wd~~~~tpe~~~W~~e~k~~--g----i~v~vvS 69 (175)
T COG2179 36 DNTLVPWDNPDATPELRAWLAELKEA--G----IKVVVVS 69 (175)
T ss_pred cCceecccCCCCCHHHHHHHHHHHhc--C----CEEEEEe
Confidence 46789999999999999999999774 5 5666653
No 404
>cd07410 MPP_CpdB_N Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain. CpdB is a bacterial periplasmic protein with an N-terminal metallophosphatase domain and a C-terminal 3'-nucleotidase domain. This alignment model represents the N-terminal metallophosphatase domain, which has 2',3'-cyclic phosphodiesterase activity, hydrolyzing the 2',3'-cyclic phosphates of adenosine, guanosine, cytosine and uridine to yield nucleoside and phosphate. CpdB also hydrolyzes the chromogenic substrates p-nitrophenyl phosphate (PNPP), bis(PNPP) and p-nitrophenyl phosphorylcholine (NPPC). CpdB is thought to play a scavenging role during RNA hydrolysis by converting the non-transportable nucleotides produced by RNaseI to nucleosides which can easily enter a cell for use as a carbon source. This family also includes YfkN, a Bacillus subtilis nucleotide phosphoesterase with two copies of each of the metallophosphatase and 3'-nucleotidase domains. The N-terminal metallophos
Probab=25.92 E-value=2.4e+02 Score=20.29 Aligned_cols=8 Identities=13% Similarity=0.364 Sum_probs=4.0
Q ss_pred CCCEEEEe
Q 031355 117 HASILVVG 124 (161)
Q Consensus 117 ~~dliVlg 124 (161)
++|+|+-|
T Consensus 218 ~vD~IlgG 225 (277)
T cd07410 218 GIDAILTG 225 (277)
T ss_pred CCcEEEeC
Confidence 56664433
No 405
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=25.90 E-value=2.9e+02 Score=20.71 Aligned_cols=60 Identities=7% Similarity=0.013 Sum_probs=37.2
Q ss_pred cEEEEEEcC-C----hHhHHHHHHHhcCCCEEEEecCCCC-cceeeeccchHHHHhhcCCCcEEEE
Q 031355 95 DFVVEVVEG-D----ARNILCEAVEKHHASILVVGSHGYG-AIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 95 ~~~~~v~~g-~----~~~~I~~~a~~~~~dliVlg~~~~~-~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
++...++.| + ...++.+.+++.++|.|.+-.+... ...+...-....++..++++||+..
T Consensus 135 pv~vKiR~G~~~~~~~~~~~a~~le~~G~d~i~vh~rt~~~~~~G~a~~~~i~~ik~~~~iPVI~n 200 (321)
T PRK10415 135 PVTLKIRTGWAPEHRNCVEIAQLAEDCGIQALTIHGRTRACLFNGEAEYDSIRAVKQKVSIPVIAN 200 (321)
T ss_pred ceEEEEEccccCCcchHHHHHHHHHHhCCCEEEEecCccccccCCCcChHHHHHHHHhcCCcEEEe
Confidence 477777766 2 2446777788889999988654322 1111111245566777788998875
No 406
>PF13155 Toprim_2: Toprim-like
Probab=25.88 E-value=1.3e+02 Score=17.46 Aligned_cols=28 Identities=14% Similarity=0.178 Sum_probs=23.5
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhcc
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFAN 33 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~ 33 (161)
.++|.+++|.+....++.+.........
T Consensus 47 ~~~i~l~~DnD~aG~~~~~~~~~~l~~~ 74 (96)
T PF13155_consen 47 YKKIVLAFDNDEAGRKAAEKLQKELKEE 74 (96)
T ss_pred CCcEEEEeCCCHHHHHHHHHHHHHHHhh
Confidence 3789999999999999988888776653
No 407
>TIGR03868 F420-O_ABCperi proposed F420-0 ABC transporter, periplasmic F420-0 binding protein. This small clade of ABC-type transporter periplasmic binding protein components is found as a three gene cassette along with a permease (TIGR03869) and an ATPase (TIGR03873). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this periplasmic binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.
Probab=25.80 E-value=1.1e+02 Score=22.09 Aligned_cols=42 Identities=12% Similarity=0.046 Sum_probs=24.3
Q ss_pred HHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 110 CEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 110 ~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
++.....++|+|+++........ +.-..+.+....+||+++|
T Consensus 71 ~E~i~~l~PDlvi~~~~~~~~~~----~~~~~~~l~~~gipv~~~p 112 (287)
T TIGR03868 71 PEAVLETEPDLVYAGWESNLTAE----GAGERADLASLGVNTYVAP 112 (287)
T ss_pred HhHhhcCCCCEEEeccccccCCC----CCCCHHHHHHCCCeEEECc
Confidence 34444568999998543211000 1112356678899999875
No 408
>cd00288 Pyruvate_Kinase Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low affinity T state. PK exists as several different isozymes, depending on organism and tissue type. In mammals, there are four PK isozymes: R, found in red blood cells, L, found in liver, M1, found in skeletal muscle, and M2, found in kidney, adipose tissue, and lung. PK forms a homotetramer, with each subunit containing three domains. The T state to R state transition of PK is more complex than in most allosteric enzymes, involving a concerted rotation of all 3 domains of each monomer in the homotetramer.
Probab=25.60 E-value=2.1e+02 Score=23.02 Aligned_cols=44 Identities=16% Similarity=0.158 Sum_probs=32.4
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
.+....+.|++.+++.||+-+.. |.++..+.+. .+|||+.+-+.
T Consensus 363 ia~sAv~~A~~l~akaIVv~T~S---------G~TA~~lS~~RP~~pIiavT~~ 407 (480)
T cd00288 363 VAMSAVRAAFELGAKAIVVLTTS---------GRTARLVSKYRPNAPIIAVTRN 407 (480)
T ss_pred HHHHHHHHHHhcCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEEcCC
Confidence 55666777888899988887653 6677777764 56999988654
No 409
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=25.54 E-value=1.6e+02 Score=23.30 Aligned_cols=18 Identities=17% Similarity=0.322 Sum_probs=8.8
Q ss_pred HhHHHHHHHhcCCCEEEE
Q 031355 106 RNILCEAVEKHHASILVV 123 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVl 123 (161)
.++|++.+++.++++.++
T Consensus 219 l~ell~~~~~~~v~V~iv 236 (463)
T PRK10124 219 VKKLVRQLADTTCSVLLI 236 (463)
T ss_pred HHHHHHHHHHcCCeEEEe
Confidence 344455555555554444
No 410
>PTZ00170 D-ribulose-5-phosphate 3-epimerase; Provisional
Probab=25.51 E-value=2.5e+02 Score=19.83 Aligned_cols=26 Identities=23% Similarity=0.332 Sum_probs=17.2
Q ss_pred EcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 101 VEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 101 ~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
..|..-.+-+..+.+.++|.+|+|+.
T Consensus 178 VdGGI~~~ti~~~~~aGad~iVvGsa 203 (228)
T PTZ00170 178 VDGGINLETIDIAADAGANVIVAGSS 203 (228)
T ss_pred ECCCCCHHHHHHHHHcCCCEEEEchH
Confidence 34544444455666679999999964
No 411
>PRK06278 cobyrinic acid a,c-diamide synthase; Validated
Probab=25.51 E-value=2e+02 Score=23.11 Aligned_cols=26 Identities=12% Similarity=0.091 Sum_probs=15.6
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhh
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFF 31 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~ 31 (161)
+++++|.-.+|...+..+..++.-+-
T Consensus 238 ~~~i~Iagt~Tg~GKT~vt~~L~~al 263 (476)
T PRK06278 238 PKGIILLATGSESGKTFLTTSIAGKL 263 (476)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence 44677777777666665555544443
No 412
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=25.49 E-value=3.6e+02 Score=21.65 Aligned_cols=68 Identities=9% Similarity=0.054 Sum_probs=37.6
Q ss_pred HHHHHhhhcCCccEEEEEEcC-ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc------CCCcEEEEc
Q 031355 83 EAKEICSSKSVHDFVVEVVEG-DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH------AHCTVMIVK 155 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~------~~~pvlvv~ 155 (161)
.++..++..+.. ++...... ..+..+++.+...++|.||+..-. +.+ ..+.+.|+.. ..+|+-++|
T Consensus 134 ~v~~~L~~~gi~-~~v~~T~~~ghA~~la~~~~~~~~D~VV~vGGD-GTl-----nEVvNGL~~~~~~~~~~~~pLGiIP 206 (481)
T PLN02958 134 VVKPLLEDADIQ-LTIQETKYQLHAKEVVRTMDLSKYDGIVCVSGD-GIL-----VEVVNGLLEREDWKTAIKLPIGMVP 206 (481)
T ss_pred HHHHHHHHcCCe-EEEEeccCccHHHHHHHHhhhcCCCEEEEEcCC-CHH-----HHHHHHHhhCccccccccCceEEec
Confidence 344455555543 55444443 456667766656678877764322 222 3344445432 368899998
Q ss_pred CC
Q 031355 156 RP 157 (161)
Q Consensus 156 ~~ 157 (161)
-.
T Consensus 207 aG 208 (481)
T PLN02958 207 AG 208 (481)
T ss_pred Cc
Confidence 65
No 413
>PRK03437 3-isopropylmalate dehydrogenase; Provisional
Probab=25.45 E-value=3.1e+02 Score=20.99 Aligned_cols=30 Identities=10% Similarity=0.032 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+++.+++|+++|+.. + + -+|+++|=...
T Consensus 160 ~~~~RIa~~AF~~A~~r-~-~--k~Vt~v~KaNv 189 (344)
T PRK03437 160 FGVERVVRDAFERAQKR-P-R--KHLTLVHKTNV 189 (344)
T ss_pred HHHHHHHHHHHHHHHhC-C-C--CeEEEEECCcc
Confidence 46888999999999875 3 1 26888876544
No 414
>KOG0830 consensus 40S ribosomal protein SA (P40)/Laminin receptor 1 [Translation, ribosomal structure and biogenesis]
Probab=25.35 E-value=1.1e+02 Score=21.98 Aligned_cols=24 Identities=13% Similarity=0.192 Sum_probs=14.6
Q ss_pred eeeccchHHHHhhcCCCc-EEEEcC
Q 031355 133 RAVLGSVSDYCAHHAHCT-VMIVKR 156 (161)
Q Consensus 133 ~~~~gs~~~~ll~~~~~p-vlvv~~ 156 (161)
++..|+++.++-....-| +|||-.
T Consensus 73 ~ftpg~ftn~iq~~f~epr~lvvtd 97 (254)
T KOG0830|consen 73 RFTPGTFTNQIQAAFREPRLLVVTD 97 (254)
T ss_pred cccccccchHHHHhhcCCceeeecC
Confidence 345677777777766555 555543
No 415
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=25.30 E-value=1e+02 Score=26.37 Aligned_cols=53 Identities=13% Similarity=0.178 Sum_probs=39.7
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcce------eeeccchHHHHhhcCCCcEEEEcC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIK------RAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~------~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
..-+.|+..|...+.+++++.-+++.... +..+-++-+.++.++||.|-+.=.
T Consensus 541 ~m~edic~la~~~~~~liilpfhk~~~~~~~~e~~~~~~r~in~~vl~~aPCSVgIlvd 599 (769)
T KOG1650|consen 541 LMHEDICTLALDKGVSLIILPFHKHWSDGGTLESDDPAIRELNRNVLKNAPCSVGILVD 599 (769)
T ss_pred hchhhhhHHHHhhCCcEEEeehhhhccCCCceecCcHHHHHHHHHHHhcCCCeEEEEEe
Confidence 45788999999999999999977653321 112346778899999999988744
No 416
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=25.30 E-value=1.5e+02 Score=17.56 Aligned_cols=29 Identities=7% Similarity=0.144 Sum_probs=23.6
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhcc
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFAN 33 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~ 33 (161)
...+|++++|.+...+........++...
T Consensus 59 ~~~~iiiatD~D~EGe~Ia~~i~~~~~~~ 87 (100)
T PF01751_consen 59 KADEIIIATDPDREGELIAWEIIELLGKN 87 (100)
T ss_dssp SCSEEEEEC-SSHHHHHHHHHHHHHHHHH
T ss_pred hccEeeecCCCChHHHHHHHHHHHHHhHh
Confidence 45789999999999998888888888764
No 417
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=25.28 E-value=1.4e+02 Score=21.46 Aligned_cols=9 Identities=22% Similarity=-0.045 Sum_probs=3.8
Q ss_pred CCCcEEEEc
Q 031355 147 AHCTVMIVK 155 (161)
Q Consensus 147 ~~~pvlvv~ 155 (161)
.++|++++|
T Consensus 72 l~~p~~~v~ 80 (267)
T cd07396 72 LKGPVHHVL 80 (267)
T ss_pred cCCCEEEec
Confidence 334444443
No 418
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=25.28 E-value=2.6e+02 Score=19.92 Aligned_cols=43 Identities=21% Similarity=0.384 Sum_probs=26.0
Q ss_pred HHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 81 VEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 81 l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
+.++++...+.+ ++...+ .|..-..-+..+.+-++|.+|.|+.
T Consensus 157 i~~lr~~~~~~~--~~~IeV-DGGI~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 157 IRELRAMIDERL--DILIEV-DGGINLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred HHHHHHHhcccC--CeEEEE-eCCcCHHHHHHHHHcCCCEEEEEEE
Confidence 344455554423 344444 4555555566666679999999973
No 419
>TIGR00007 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase. Examples of this enzyme in Actinobacteria have been found to be bifunctional, also possessing phosphoribosylanthranilate isomerase activity ; the trusted cutoff here has now been raised to 275.0 to exclude the bifunctional group, now represented by model TIGR01919. HisA from Lactococcus lactis was reported to be inactive (MEDLINE:93322317).
Probab=25.10 E-value=2e+02 Score=20.01 Aligned_cols=48 Identities=6% Similarity=-0.031 Sum_probs=27.1
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 107 NILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
..+.+...+.+++-+++....+.+...-..-....++...++.||++-
T Consensus 148 ~~~~~~~~~~g~~~ii~~~~~~~g~~~g~~~~~i~~i~~~~~ipvia~ 195 (230)
T TIGR00007 148 EELAKRLEELGLEGIIYTDISRDGTLSGPNFELTKELVKAVNVPVIAS 195 (230)
T ss_pred HHHHHHHHhCCCCEEEEEeecCCCCcCCCCHHHHHHHHHhCCCCEEEe
Confidence 356666777889966654333222111122345566777778887753
No 420
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=25.08 E-value=2e+02 Score=22.10 Aligned_cols=52 Identities=8% Similarity=0.197 Sum_probs=33.9
Q ss_pred HHHHHHHhcCCCEEEEecCC-------CCcceeeeccchHHHHhhcCCCcEEEEcCCCC
Q 031355 108 ILCEAVEKHHASILVVGSHG-------YGAIKRAVLGSVSDYCAHHAHCTVMIVKRPKT 159 (161)
Q Consensus 108 ~I~~~a~~~~~dliVlg~~~-------~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~~ 159 (161)
.-...+.+..+|++|+...- .+..+-..|-.-+++|.++..|.|+.|+...+
T Consensus 185 Rfek~~~Q~rp~~vViDp~v~f~~G~s~s~vqv~~fi~~~rkla~~l~caIiy~hHtsk 243 (402)
T COG3598 185 RFEKILEQKRPDFVVIDPFVAFYEGKSISDVQVKEFIKKTRKLARNLECAIIYIHHTSK 243 (402)
T ss_pred HHHHHHHHhCCCeEEEcchhhhcCCccchhHHHHHHHHHHHHHHHhcCCeEEEEecccc
Confidence 34455777789999996531 11111122345668899999999999987543
No 421
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=25.05 E-value=3.3e+02 Score=21.12 Aligned_cols=30 Identities=7% Similarity=0.059 Sum_probs=22.1
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+.+.+++|+++|+.. + . -+|+++|=...
T Consensus 184 ~~~eRIar~AF~~A~~r-~--~-k~Vt~v~KaNv 213 (372)
T PLN00118 184 QASLRVAEYAFHYAKTH-G--R-KRVSAIHKANI 213 (372)
T ss_pred HHHHHHHHHHHHHHHHc-C--C-CeEEEEECCcc
Confidence 46888999999999875 4 1 26888876444
No 422
>PRK04527 argininosuccinate synthase; Provisional
Probab=25.00 E-value=3.4e+02 Score=21.27 Aligned_cols=35 Identities=9% Similarity=0.335 Sum_probs=26.5
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
.++++|++.+.-.|.-++.++.. . | .++..+++..
T Consensus 2 ~~kVvVA~SGGvDSSvla~~l~e----~-G----~~Viavt~d~ 36 (400)
T PRK04527 2 SKDIVLAFSGGLDTSFCIPYLQE----R-G----YAVHTVFADT 36 (400)
T ss_pred CCcEEEEEcCChHHHHHHHHHHH----c-C----CcEEEEEEEe
Confidence 36899999999888888877655 2 4 4788888843
No 423
>PRK11058 GTPase HflX; Provisional
Probab=24.89 E-value=3.5e+02 Score=21.31 Aligned_cols=47 Identities=23% Similarity=0.260 Sum_probs=33.7
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEc----------C-ChHhHHHHHHHhcCCCEEEEec
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVE----------G-DARNILCEAVEKHHASILVVGS 125 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~----------g-~~~~~I~~~a~~~~~dliVlg~ 125 (161)
+.++++..+++..|...+...+.. | .-.++|.+.+++.++|++|+..
T Consensus 25 ~~~~El~~L~~~~g~~v~~~~~q~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~ 82 (426)
T PRK11058 25 EDLQEFESLVSSAGVEALQVITGSRKAPHPKYFVGEGKAVEIAEAVKATGASVVLFDH 82 (426)
T ss_pred hhHHHHHHHHHHCCCEEEEEEEEecCCCCCCeeecccHHHHHHHHHHhcCCCEEEECC
Confidence 457888888888876544433321 2 2478899999999999999974
No 424
>KOG1361 consensus Predicted hydrolase involved in interstrand cross-link repair [Replication, recombination and repair]
Probab=24.89 E-value=1.4e+02 Score=24.01 Aligned_cols=47 Identities=15% Similarity=0.213 Sum_probs=30.6
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
.++.|...+.+++=+|+++|...-+. +.+..++.+....++++.+.+
T Consensus 249 v~~~i~~~~~~~~~~Li~v~~ysiGk------E~l~~eia~~l~~kI~v~~~~ 295 (481)
T KOG1361|consen 249 VVDVIRSHASKNDRVLIVVGTYSIGK------EKLLLEIARILNSKIWVEPRR 295 (481)
T ss_pred HHHHHHhhhhhCCceEEEEEEEecch------hHHHHHHHHHhCCceEEehhh
Confidence 34555566666567788888775443 345566777778888887654
No 425
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=24.74 E-value=2.7e+02 Score=20.04 Aligned_cols=44 Identities=16% Similarity=0.209 Sum_probs=29.6
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHhHHHHHHHh----cCCCEEEEecCC
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARNILCEAVEK----HHASILVVGSHG 127 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~----~~~dliVlg~~~ 127 (161)
.+++.+...|.. -.+.+..|+..+.+-+...+ ..+|+|++-..+
T Consensus 119 ~Ar~~~~~ag~~-~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDadK 166 (247)
T PLN02589 119 LGLPVIQKAGVA-HKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDADK 166 (247)
T ss_pred HHHHHHHHCCCC-CceEEEeccHHHHHHHHHhccccCCcccEEEecCCH
Confidence 344455555543 45667788888888776543 589999998764
No 426
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=24.72 E-value=1.7e+02 Score=20.96 Aligned_cols=47 Identities=11% Similarity=0.099 Sum_probs=27.2
Q ss_pred HHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 108 ILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 108 ~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
..++.+.+.+.|.|++|....-... -+..+.. .+++.+.||++.|..
T Consensus 23 ~~~~~~~~~gtdai~vGGS~~vt~~--~~~~~v~-~ik~~~lPvilfp~~ 69 (232)
T PRK04169 23 EALEAICESGTDAIIVGGSDGVTEE--NVDELVK-AIKEYDLPVILFPGN 69 (232)
T ss_pred HHHHHHHhcCCCEEEEcCCCccchH--HHHHHHH-HHhcCCCCEEEeCCC
Confidence 3336677778999999865321111 1122233 333478899988765
No 427
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=24.62 E-value=3.4e+02 Score=21.08 Aligned_cols=34 Identities=15% Similarity=0.132 Sum_probs=25.5
Q ss_pred ceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEec
Q 031355 6 TQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHAR 48 (161)
Q Consensus 6 ~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~ 48 (161)
-+++|+.+++.-.|-.|+-...+ . | +++..+|+.
T Consensus 180 ~gkvlvllSGGiDSpVAa~ll~k----r-G----~~V~~v~f~ 213 (381)
T PRK08384 180 QGKVVALLSGGIDSPVAAFLMMK----R-G----VEVIPVHIY 213 (381)
T ss_pred CCcEEEEEeCChHHHHHHHHHHH----c-C----CeEEEEEEE
Confidence 47899999999888766544333 3 6 799999994
No 428
>TIGR01278 DPOR_BchB light-independent protochlorophyllide reductase, B subunit. This enzyme describes the B subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme. This subunit shows homology to the nitrogenase molybdenum-iron protein. It catalyzes a step in bacteriochlorophyll biosynthesis.
Probab=24.60 E-value=1.1e+02 Score=24.49 Aligned_cols=22 Identities=14% Similarity=0.182 Sum_probs=10.2
Q ss_pred HhHHHHHHHhcCCCEEEEecCC
Q 031355 106 RNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~ 127 (161)
.+.+++.++..++.+|.+...+
T Consensus 104 i~~~~~~~~~~~~pvi~v~t~g 125 (511)
T TIGR01278 104 LGNLAAAAGLDKSKVIVADVNA 125 (511)
T ss_pred HHHHHHHhccCCCcEEEecCCC
Confidence 3444444433345566555444
No 429
>PRK07695 transcriptional regulator TenI; Provisional
Probab=24.50 E-value=2.2e+02 Score=19.38 Aligned_cols=44 Identities=20% Similarity=0.119 Sum_probs=26.3
Q ss_pred HHHHhcCCCEEEEecCCCCcceee--ecc-chHHHHhhcCCCcEEEE
Q 031355 111 EAVEKHHASILVVGSHGYGAIKRA--VLG-SVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 111 ~~a~~~~~dliVlg~~~~~~~~~~--~~g-s~~~~ll~~~~~pvlvv 154 (161)
..+.+.++|.+++|.-..+..+.. ..| .....+....++||+.+
T Consensus 109 ~~a~~~Gadyi~~g~v~~t~~k~~~~~~g~~~l~~~~~~~~ipvia~ 155 (201)
T PRK07695 109 IQAEKNGADYVVYGHVFPTDCKKGVPARGLEELSDIARALSIPVIAI 155 (201)
T ss_pred HHHHHcCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHhCCCCEEEE
Confidence 456778999999986332221111 111 34455666778999876
No 430
>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=24.40 E-value=2.1e+02 Score=18.66 Aligned_cols=84 Identities=10% Similarity=0.074 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHHhhhcCCccEEEEEEcC--ChHhHHHHHHHhcCCCEEEEecCC-CCcceeeeccchHHHHhhcCCC
Q 031355 73 FKKIAARVVEEAKEICSSKSVHDFVVEVVEG--DARNILCEAVEKHHASILVVGSHG-YGAIKRAVLGSVSDYCAHHAHC 149 (161)
Q Consensus 73 ~~~~~~~~l~~~~~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliVlg~~~-~~~~~~~~~gs~~~~ll~~~~~ 149 (161)
......+.++..+++.+..|.. +...+..+ ...+.+.+.....++|-++.-... .......-......+++.....
T Consensus 13 l~~~~~e~l~~A~~La~~~g~~-v~av~~G~~~~~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~ 91 (164)
T PF01012_consen 13 LNPVSLEALEAARRLAEALGGE-VTAVVLGPAEEAAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGP 91 (164)
T ss_dssp E-HHHHHHHHHHHHHHHCTTSE-EEEEEEETCCCHHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-
T ss_pred cCHHHHHHHHHHHHHHhhcCCe-EEEEEEecchhhHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCC
Confidence 3445567777788888776553 55554443 345566666666899877665432 2222222234555667777778
Q ss_pred cEEEEcCC
Q 031355 150 TVMIVKRP 157 (161)
Q Consensus 150 pvlvv~~~ 157 (161)
.+++++..
T Consensus 92 ~lVl~~~t 99 (164)
T PF01012_consen 92 DLVLFGST 99 (164)
T ss_dssp SEEEEESS
T ss_pred CEEEEcCc
Confidence 88888754
No 431
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=24.36 E-value=2.7e+02 Score=19.93 Aligned_cols=33 Identities=12% Similarity=0.196 Sum_probs=24.6
Q ss_pred CChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCc
Q 031355 15 DSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSA 53 (161)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~ 53 (161)
|...+..++..|..++.+ | .+|.++-.-+..+.
T Consensus 12 GaGKTT~~~~LAs~la~~--G----~~V~lIDaDpn~pl 44 (231)
T PF07015_consen 12 GAGKTTAAMALASELAAR--G----ARVALIDADPNQPL 44 (231)
T ss_pred CCcHHHHHHHHHHHHHHC--C----CeEEEEeCCCCCcH
Confidence 456778888899999886 5 59998877665443
No 432
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=24.35 E-value=73 Score=20.83 Aligned_cols=33 Identities=30% Similarity=0.476 Sum_probs=26.0
Q ss_pred EEEEEEcCChHhHHHHHHHhcCCCEEEEecCCC
Q 031355 96 FVVEVVEGDARNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 96 ~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
+--.+..|.+.+.=.+..++.++|.+++|--..
T Consensus 65 yVD~vi~~~p~~~~~~~i~~~k~Div~lG~D~~ 97 (140)
T COG0615 65 YVDEVILGAPWDIKFEDIEEYKPDIVVLGDDQK 97 (140)
T ss_pred chheeeeCCccccChHHHHHhCCCEEEECCCCc
Confidence 445567788877768889999999999996654
No 433
>TIGR01862 N2-ase-Ialpha nitrogenase component I, alpha chain. This model represents the alpha chain of all three varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of nitrogenase.
Probab=24.32 E-value=1.2e+02 Score=23.75 Aligned_cols=26 Identities=19% Similarity=0.424 Sum_probs=13.2
Q ss_pred CChHhHHHHHHH-hcCCCEEEEecCCC
Q 031355 103 GDARNILCEAVE-KHHASILVVGSHGY 128 (161)
Q Consensus 103 g~~~~~I~~~a~-~~~~dliVlg~~~~ 128 (161)
|+-.+.+++.++ +....++.+-..+.
T Consensus 134 GdDi~~v~~~~~~~~~~pvi~v~t~gf 160 (443)
T TIGR01862 134 GDDIEAVAKEVSKEIGKDVVAVNCPGF 160 (443)
T ss_pred ccCHHHHHHHHHHhcCCCEEEEecCCc
Confidence 444555555443 34456666655543
No 434
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=24.30 E-value=1.6e+02 Score=21.34 Aligned_cols=39 Identities=18% Similarity=0.262 Sum_probs=25.1
Q ss_pred CCCEEEEecCCC---CcceeeeccchHHH-HhhcCCCcEEEEcC
Q 031355 117 HASILVVGSHGY---GAIKRAVLGSVSDY-CAHHAHCTVMIVKR 156 (161)
Q Consensus 117 ~~dliVlg~~~~---~~~~~~~~gs~~~~-ll~~~~~pvlvv~~ 156 (161)
++|.+++|...- ++.-. -.|+..-. +.+..++||+++-.
T Consensus 151 ~vd~VlvGAd~V~~nG~v~n-kvGT~~~Al~A~~~~vPv~V~~~ 193 (253)
T PRK06372 151 NVDAVIVGSDSVLYDGGLIH-KNGTFPLALCARYLKKPFYSLTI 193 (253)
T ss_pred hCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEEee
Confidence 699999999862 22222 23544444 44678999999854
No 435
>PRK13397 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=24.11 E-value=2.9e+02 Score=20.08 Aligned_cols=94 Identities=12% Similarity=0.081 Sum_probs=51.8
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcccccCCCCCcCcccccchHHHHHHHHHHHHHHHHh
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAVIGLAGPGAVEVLPHVDSDFKKIAARVVEEAKEIC 88 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 88 (161)
.+++---+-+|..-+...++..+.. | +++..--++++-..+..+.+++ .+-+..+.+.+
T Consensus 17 ~~iaGPC~vEs~e~~~~~a~~~~~~-g----~~~~r~g~~kpRts~~sf~G~G----------------~~gl~~L~~~~ 75 (250)
T PRK13397 17 NFIVGPCSIESYDHIRLAASSAKKL-G----YNYFRGGAYKPRTSAASFQGLG----------------LQGIRYLHEVC 75 (250)
T ss_pred cEEeccCccCCHHHHHHHHHHHHHc-C----CCEEEecccCCCCCCcccCCCC----------------HHHHHHHHHHH
Confidence 3444333334443333333335554 6 6777777777555554554443 23456667777
Q ss_pred hhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecCCCC
Q 031355 89 SSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSHGYG 129 (161)
Q Consensus 89 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~~~~ 129 (161)
++.|.. +-+.+..-...+.+ ++ .+|++=+|+..-.
T Consensus 76 ~~~Gl~-~~Tev~d~~~v~~~---~e--~vdilqIgs~~~~ 110 (250)
T PRK13397 76 QEFGLL-SVSEIMSERQLEEA---YD--YLDVIQVGARNMQ 110 (250)
T ss_pred HHcCCC-EEEeeCCHHHHHHH---Hh--cCCEEEECccccc
Confidence 777765 55555444443333 22 5888888877543
No 436
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=24.02 E-value=1.1e+02 Score=23.64 Aligned_cols=26 Identities=15% Similarity=0.098 Sum_probs=16.3
Q ss_pred CChHhHHHHHHH-hcCCCEEEEecCCC
Q 031355 103 GDARNILCEAVE-KHHASILVVGSHGY 128 (161)
Q Consensus 103 g~~~~~I~~~a~-~~~~dliVlg~~~~ 128 (161)
|+-.+.+++.++ +.++.+|.+-..+.
T Consensus 103 GDDi~~v~~~~~~~~~~pvi~v~t~gf 129 (396)
T cd01979 103 KMDLEGAAPRLSAEIGVPILVASASGL 129 (396)
T ss_pred hcCHHHHHHHHhhcCCCcEEEeeCCCc
Confidence 566667766654 45677777765553
No 437
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=23.96 E-value=3.4e+02 Score=20.91 Aligned_cols=56 Identities=14% Similarity=0.156 Sum_probs=34.5
Q ss_pred EEcCChHhHHHHHHHhcCCCEEEEecCCCCccee--eeccch---------HHHHhhcCCCcEEEEc
Q 031355 100 VVEGDARNILCEAVEKHHASILVVGSHGYGAIKR--AVLGSV---------SDYCAHHAHCTVMIVK 155 (161)
Q Consensus 100 v~~g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~--~~~gs~---------~~~ll~~~~~pvlvv~ 155 (161)
+......+.|.+.+++.++++||+.+=..-.... -..|+. -.+++...+++++++-
T Consensus 141 l~~e~~le~I~~~i~~~~~~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~lak~~~itvilvg 207 (372)
T cd01121 141 LLAETNLEDILASIEELKPDLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMRFAKERNIPIFIVG 207 (372)
T ss_pred EEccCcHHHHHHHHHhcCCcEEEEcchHHhhccccccCCCCHHHHHHHHHHHHHHHHHcCCeEEEEe
Confidence 3444567888899899999999998642110000 011222 1245567789999984
No 438
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=23.89 E-value=1.9e+02 Score=17.99 Aligned_cols=69 Identities=13% Similarity=0.147 Sum_probs=35.4
Q ss_pred HHHHHHhhhcCCccEEEEEEcC-ChHhHHHHHHHhcCC-CEEEEecCCCCcceeeeccchHHHHhhcC---CCcEEEEcC
Q 031355 82 EEAKEICSSKSVHDFVVEVVEG-DARNILCEAVEKHHA-SILVVGSHGYGAIKRAVLGSVSDYCAHHA---HCTVMIVKR 156 (161)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~-dliVlg~~~~~~~~~~~~gs~~~~ll~~~---~~pvlvv~~ 156 (161)
.++...+...+.. ++...... +..+.+.......+. |.||+..-. +. +..+...++... .+|+-++|-
T Consensus 18 ~~v~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~~ivv~GGD-GT-----l~~vv~~l~~~~~~~~~~l~iiP~ 90 (130)
T PF00781_consen 18 KKVEPALRAAGID-YEVIETESAGHAEALARILALDDYPDVIVVVGGD-GT-----LNEVVNGLMGSDREDKPPLGIIPA 90 (130)
T ss_dssp HHHHHHHHHTTCE-EEEEEESSTTHHHHHHHHHHHTTS-SEEEEEESH-HH-----HHHHHHHHCTSTSSS--EEEEEE-
T ss_pred HHHHHHHHHcCCc-eEEEEEeccchHHHHHHHHhhccCccEEEEEcCc-cH-----HHHHHHHHhhcCCCccceEEEecC
Confidence 4444455554433 55555554 677788775555555 677765332 11 123344444432 248888886
Q ss_pred C
Q 031355 157 P 157 (161)
Q Consensus 157 ~ 157 (161)
.
T Consensus 91 G 91 (130)
T PF00781_consen 91 G 91 (130)
T ss_dssp S
T ss_pred C
Confidence 4
No 439
>PRK13856 two-component response regulator VirG; Provisional
Probab=23.77 E-value=2.5e+02 Score=19.31 Aligned_cols=47 Identities=9% Similarity=0.096 Sum_probs=27.1
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
.+..........+|++++...-... .+ -.....+-...++|++++-.
T Consensus 34 ~~~~~~~~~~~~~dlvi~d~~l~~~-~g---~~l~~~i~~~~~~pii~lt~ 80 (241)
T PRK13856 34 SQQFNRVLASETVDVVVVDLNLGRE-DG---LEIVRSLATKSDVPIIIISG 80 (241)
T ss_pred HHHHHHHHhhCCCCEEEEeCCCCCC-CH---HHHHHHHHhcCCCcEEEEEC
Confidence 3445556677789999998653221 11 12233343345788888854
No 440
>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=23.75 E-value=2e+02 Score=18.12 Aligned_cols=40 Identities=20% Similarity=0.278 Sum_probs=20.5
Q ss_pred HHHHHhhhcCCccEEEEEEcCCh---HhHHHHHHHhcCCCEEEEe
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDA---RNILCEAVEKHHASILVVG 124 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~---~~~I~~~a~~~~~dliVlg 124 (161)
.+.+++++.|.......+...++ .+.|.+... .+|+||..
T Consensus 22 ~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~--~~dliitt 64 (135)
T smart00852 22 ALAELLTELGIEVTRYVIVPDDKEAIKEALREALE--RADLVITT 64 (135)
T ss_pred HHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHh--CCCEEEEc
Confidence 44555666665533444443322 233333333 58988875
No 441
>PTZ00066 pyruvate kinase; Provisional
Probab=23.72 E-value=2.6e+02 Score=22.71 Aligned_cols=45 Identities=13% Similarity=0.292 Sum_probs=34.3
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
..+....+.|.+.++..||+-++. |.++..+.+. -+|||+.+-+.
T Consensus 398 ~ia~aa~~~A~~l~a~aIv~~T~S---------G~TAr~iSk~RP~~pIia~t~~ 443 (513)
T PTZ00066 398 AVARSAVETAEDINAKLIIALTET---------GNTARLISKYRPSCTILALSAS 443 (513)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 466777788999999999987653 6677777774 56999988654
No 442
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=23.72 E-value=5e+02 Score=22.72 Aligned_cols=47 Identities=19% Similarity=0.179 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEe
Q 031355 77 AARVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVG 124 (161)
Q Consensus 77 ~~~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg 124 (161)
+++.+++++++..+.+. .+......|+...+--+...+..+|+|+--
T Consensus 128 a~DQ~~rl~~~~~~~~~-~v~~~~y~Gdt~~~~r~~~~~~pp~IllTN 174 (851)
T COG1205 128 ANDQAERLRELISDLPG-KVTFGRYTGDTPPEERRAIIRNPPDILLTN 174 (851)
T ss_pred HhhHHHHHHHHHHhCCC-cceeeeecCCCChHHHHHHHhCCCCEEEeC
Confidence 35566777777777765 488888899877666666666788887753
No 443
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=23.68 E-value=3.3e+02 Score=20.68 Aligned_cols=33 Identities=9% Similarity=0.030 Sum_probs=21.7
Q ss_pred hhHHHHHHHHHHHhhccCCCC-CCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVN-PPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~-~~a~l~~l~v~~~ 50 (161)
..+.+.+++|+++|++. +.. ..-+|+++|=...
T Consensus 140 ~~~~Ri~r~Af~~A~~r-~~~~~~k~Vt~v~KaNv 173 (330)
T PRK14025 140 KASERIFRFAFEMAKRR-KKMGKEGKVTCAHKANV 173 (330)
T ss_pred HHHHHHHHHHHHHHHhc-cccCCCCeEEEEECCCc
Confidence 46888999999999864 100 0136888876543
No 444
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=23.63 E-value=3.4e+02 Score=20.75 Aligned_cols=46 Identities=13% Similarity=0.142 Sum_probs=27.0
Q ss_pred HHHHHHHhcCCCEEEEecCCCCcceeeeccc-hHHHHhhcCCCcEEEEcCC
Q 031355 108 ILCEAVEKHHASILVVGSHGYGAIKRAVLGS-VSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 108 ~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs-~~~~ll~~~~~pvlvv~~~ 157 (161)
+++..|.+.+-..-|+-...+...+ |. .+..-|...++|+.+++..
T Consensus 169 ~~i~~A~~~gk~~~V~v~EsRP~~q----G~~lta~eL~~~GI~vtlI~Ds 215 (344)
T PRK05720 169 APIYAAKEKGIDIHVYADETRPRLQ----GARLTAWELYQAGIDVTVITDN 215 (344)
T ss_pred HHHHHHHHcCCceEEEEcCCCChhh----hHHHHHHHHHHCCCCEEEEccc
Confidence 4677776555555444444443333 54 4455566778999988754
No 445
>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=23.60 E-value=1.8e+02 Score=17.70 Aligned_cols=40 Identities=8% Similarity=0.108 Sum_probs=29.0
Q ss_pred CCceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 4 AETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 4 ~~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
...+.+++.+..+..+...++.+- .++.. | +++.++.-..
T Consensus 51 ~~~~d~vi~is~sg~~~~~~~~~~-~ak~~-g----~~vi~iT~~~ 90 (131)
T PF01380_consen 51 LDPDDLVIIISYSGETRELIELLR-FAKER-G----APVILITSNS 90 (131)
T ss_dssp CSTTEEEEEEESSSTTHHHHHHHH-HHHHT-T----SEEEEEESST
T ss_pred ccccceeEeeeccccchhhhhhhH-HHHhc-C----CeEEEEeCCC
Confidence 345678999998888888877776 77765 6 7886665443
No 446
>cd07394 MPP_Vps29 Homo sapiens Vps29 and related proteins, metallophosphatase domain. Vps29 (vacuolar sorting protein 29), also known as vacuolar membrane protein Pep11, is a subunit of the retromer complex which is responsible for the retrieval of mannose-6-phosphate receptors (MPRs) from the endosomes for retrograde transport back to the Golgi. Vps29 has a phosphoesterase fold that acts as a protein interaction scaffold for retromer complex assembly as well as a phosphatase with specificity for the cytoplasmic tail of the MPR. The retromer includes the following 5 subunits: Vps35, Vps26, Vps29, and a dimer of the sorting nexins Vps5 (Snx1), and Vps17 (Snx2). Vps29 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 incl
Probab=23.60 E-value=2.4e+02 Score=18.96 Aligned_cols=33 Identities=18% Similarity=0.352 Sum_probs=23.9
Q ss_pred EEEEEEcCCh------HhHHHHHHHhcCCCEEEEecCCC
Q 031355 96 FVVEVVEGDA------RNILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 96 ~~~~v~~g~~------~~~I~~~a~~~~~dliVlg~~~~ 128 (161)
....+.+|.. .+.+...+++.++|+++.|....
T Consensus 79 ~~i~l~HG~~~~~~~~~~~~~~~~~~~~~dvii~GHTH~ 117 (178)
T cd07394 79 FKIGLIHGHQVVPWGDPDSLAALQRQLDVDILISGHTHK 117 (178)
T ss_pred EEEEEEECCcCCCCCCHHHHHHHHHhcCCCEEEECCCCc
Confidence 3556777753 45677778889999999997643
No 447
>cd01147 HemV-2 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=23.59 E-value=2.3e+02 Score=19.89 Aligned_cols=40 Identities=10% Similarity=0.148 Sum_probs=23.5
Q ss_pred HHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 111 EAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 111 ~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
+.....++||||........ ...+.+......|++++...
T Consensus 68 E~i~~l~PDLIi~~~~~~~~-------~~~~~l~~~~gipvv~~~~~ 107 (262)
T cd01147 68 EKIAALKPDVVIDVGSDDPT-------SIADDLQKKTGIPVVVLDGG 107 (262)
T ss_pred HHHHhcCCCEEEEecCCccc-------hhHHHHHHhhCCCEEEEecC
Confidence 33445589999986432211 23344544477899888653
No 448
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=23.58 E-value=2.7e+02 Score=19.60 Aligned_cols=45 Identities=16% Similarity=0.268 Sum_probs=25.6
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
.+.++++...+.+. .+...+..|--.+.+. .+.+.++|.+|+|+.
T Consensus 153 kI~~l~~~~~~~~~-~~~I~vdGGI~~eni~-~l~~aGAd~vVvGSa 197 (220)
T PRK08883 153 KLRAVRKMIDESGR-DIRLEIDGGVKVDNIR-EIAEAGADMFVAGSA 197 (220)
T ss_pred HHHHHHHHHHhcCC-CeeEEEECCCCHHHHH-HHHHcCCCEEEEeHH
Confidence 34455555554443 2444454443344444 555679999999964
No 449
>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=23.56 E-value=1.5e+02 Score=16.56 Aligned_cols=36 Identities=11% Similarity=0.146 Sum_probs=24.4
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEE
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVH 46 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~ 46 (161)
..+.+++.++.+.++...++ +++.++.. | +++..+.
T Consensus 46 ~~~d~~i~iS~sg~t~~~~~-~~~~a~~~-g----~~ii~it 81 (87)
T cd04795 46 RKGDVVIALSYSGRTEELLA-ALEIAKEL-G----IPVIAIT 81 (87)
T ss_pred CCCCEEEEEECCCCCHHHHH-HHHHHHHc-C----CeEEEEe
Confidence 45678999998887777655 45566655 6 6766554
No 450
>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=23.52 E-value=2.7e+02 Score=19.50 Aligned_cols=71 Identities=10% Similarity=0.026 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHhhhcCCccEEEEEEc-C---------ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhh
Q 031355 76 IAARVVEEAKEICSSKSVHDFVVEVVE-G---------DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAH 145 (161)
Q Consensus 76 ~~~~~l~~~~~~~~~~~~~~~~~~v~~-g---------~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~ 145 (161)
...+...++.+.+.+++.. +-..... | +......+.+.+.++|.|-....+ . -...+++..
T Consensus 106 ~~~~~i~~v~~~~~~~g~~-~iie~~~~g~~~~~~~~~~~i~~~~~~a~~~GaD~Ik~~~~~--~------~~~~~~i~~ 176 (235)
T cd00958 106 EMLEELARVAAEAHKYGLP-LIAWMYPRGPAVKNEKDPDLIAYAARIGAELGADIVKTKYTG--D------AESFKEVVE 176 (235)
T ss_pred HHHHHHHHHHHHHHHcCCC-EEEEEeccCCcccCccCHHHHHHHHHHHHHHCCCEEEecCCC--C------HHHHHHHHh
Confidence 3344455566666666543 3222211 1 112222445778899999885321 1 135577888
Q ss_pred cCCCcEEEEc
Q 031355 146 HAHCTVMIVK 155 (161)
Q Consensus 146 ~~~~pvlvv~ 155 (161)
.+++||++.-
T Consensus 177 ~~~~pvv~~G 186 (235)
T cd00958 177 GCPVPVVIAG 186 (235)
T ss_pred cCCCCEEEeC
Confidence 8899986653
No 451
>PRK09206 pyruvate kinase; Provisional
Probab=23.34 E-value=2.5e+02 Score=22.47 Aligned_cols=45 Identities=20% Similarity=0.289 Sum_probs=33.7
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEcCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVKRP 157 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~~~ 157 (161)
..+......|.+.++..||+-++. |+++..+.+. -.|||+.+-+.
T Consensus 357 ~ia~sa~~~A~~l~a~aIv~~T~s---------G~tA~~is~~RP~~pIia~t~~ 402 (470)
T PRK09206 357 AVCRGAVETAEKLDAPLIVVATQG---------GKSARSVRKYFPDATILALTTN 402 (470)
T ss_pred HHHHHHHHHHhcCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 355666678888999999987553 7788888864 56999988654
No 452
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=23.25 E-value=2.3e+02 Score=18.64 Aligned_cols=24 Identities=13% Similarity=0.113 Sum_probs=19.5
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
...+++.+.|.+.++|.|++.+..
T Consensus 50 ~tp~e~v~aA~~~dv~vIgvSsl~ 73 (143)
T COG2185 50 QTPEEAVRAAVEEDVDVIGVSSLD 73 (143)
T ss_pred CCHHHHHHHHHhcCCCEEEEEecc
Confidence 556888888888899999997654
No 453
>PF01784 NIF3: NIF3 (NGG1p interacting factor 3); InterPro: IPR002678 This family contains several NIF3 (NGG1p interacting factor 3) protein homologues. NIF3 interacts with the yeast transcriptional coactivator NGG1p which is part of the ADA complex, the exact function of this interaction is unknown [][].; PDB: 1NMO_F 1NMP_B 2GX8_C 2FYW_B 2NYD_A 3LNL_A 2YYB_A 3RXY_F.
Probab=23.21 E-value=1.3e+02 Score=21.36 Aligned_cols=28 Identities=18% Similarity=0.152 Sum_probs=20.2
Q ss_pred EEEEEEcCChHhHHHHHHHhcCCCEEEE
Q 031355 96 FVVEVVEGDARNILCEAVEKHHASILVV 123 (161)
Q Consensus 96 ~~~~v~~g~~~~~I~~~a~~~~~dliVl 123 (161)
++.....-++-.++++.|.+.++||||.
T Consensus 32 v~~V~~~ld~t~~vi~~A~~~~~dlIIt 59 (241)
T PF01784_consen 32 VKKVLVALDATPEVIEEAIEKGADLIIT 59 (241)
T ss_dssp ESEEEEESS-SHHHHHHHHHTT-SEEEE
T ss_pred cCEEEEEEeCCHHHHHHHHHcCCCEEEE
Confidence 4444445588899999999999998876
No 454
>PLN02765 pyruvate kinase
Probab=23.19 E-value=2.6e+02 Score=22.83 Aligned_cols=42 Identities=21% Similarity=0.195 Sum_probs=32.2
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhc-CCCcEEEEc
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHH-AHCTVMIVK 155 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~-~~~pvlvv~ 155 (161)
.+....+.|...++..||+-+.. |.++..+.+. -.|||+.+-
T Consensus 396 ia~sav~~A~~l~a~aIvv~T~s---------G~tAr~isk~RP~~pIla~t 438 (526)
T PLN02765 396 IASSAVRAAIKVKASVIIVFTSS---------GRAARLIAKYRPTMPVLSVV 438 (526)
T ss_pred HHHHHHHHHhhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEEe
Confidence 55666778888999999987653 6778888775 569999875
No 455
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=23.17 E-value=2.7e+02 Score=19.95 Aligned_cols=52 Identities=13% Similarity=0.131 Sum_probs=27.6
Q ss_pred EEcCC---hHhHHHHHHHhcCCCE-EEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 100 VVEGD---ARNILCEAVEKHHASI-LVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 100 v~~g~---~~~~I~~~a~~~~~dl-iVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
|..|+ +.+.+.+.+. .+|+ ||||+...-... .+... .......+|+++-.+.
T Consensus 154 V~FGE~~~~~~~~~~~~~--~~DlllviGTSl~V~pa----~~l~~-~a~~~g~~vi~IN~~~ 209 (242)
T PTZ00408 154 VWFGEMPLYMDEIESVMS--KTDLFVAVGTSGNVYPA----AGFVG-RAQFYGATTLELNLEE 209 (242)
T ss_pred EEcCCCCCcHHHHHHHHH--hCCEEEEEccCCccccH----HHHHH-HHHHcCCeEEEECCCC
Confidence 44455 4556666666 6888 566665332111 11221 2345678888886543
No 456
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=23.15 E-value=3.8e+02 Score=21.11 Aligned_cols=17 Identities=6% Similarity=0.217 Sum_probs=13.1
Q ss_pred cCCCEEEEecCCCCcce
Q 031355 116 HHASILVVGSHGYGAIK 132 (161)
Q Consensus 116 ~~~dliVlg~~~~~~~~ 132 (161)
.++|+|++-..|++...
T Consensus 284 ~~~D~VLIDTAGr~~~d 300 (407)
T PRK12726 284 NCVDHILIDTVGRNYLA 300 (407)
T ss_pred CCCCEEEEECCCCCccC
Confidence 47899999988876543
No 457
>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D.
Probab=23.08 E-value=2.1e+02 Score=18.17 Aligned_cols=46 Identities=13% Similarity=0.157 Sum_probs=31.7
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRP 157 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~ 157 (161)
....+++.+++ .+|+||+-...... ...+..++..+..-++++.+.
T Consensus 106 ~~~~li~~l~~-~yd~IivD~~~~~~------~~~~~~~l~~~D~ii~v~~~~ 151 (157)
T PF13614_consen 106 DVEELIDALKE-HYDYIIVDLPSSLS------NPDTQAVLELADKIILVVRPD 151 (157)
T ss_dssp HHHHHHHHHHH-HSSEEEEEEESTTT------HTHHHHHHTTHSEEEEEEETT
T ss_pred HHHHHHHHHHH-cCCEEEEECcCCcc------HHHHHHHHHHCCEEEEEECCC
Confidence 35567777776 99999998664322 334445888888888888664
No 458
>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=23.03 E-value=3e+02 Score=19.99 Aligned_cols=61 Identities=13% Similarity=0.025 Sum_probs=36.4
Q ss_pred cEEEEEEcCCh--HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 95 DFVVEVVEGDA--RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 95 ~~~~~v~~g~~--~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
++-..+...+. .-++.+.+++.++|-+++..+-......--+-..-+.|...++.|+++..
T Consensus 72 ~vi~gv~~~st~~~i~~a~~a~~~Gad~v~v~~P~~~~~s~~~l~~y~~~ia~~~~~pi~iYn 134 (289)
T PF00701_consen 72 PVIAGVGANSTEEAIELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIADATDLPIIIYN 134 (289)
T ss_dssp EEEEEEESSSHHHHHHHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHHHHSSSEEEEEE
T ss_pred EEEecCcchhHHHHHHHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHHhhcCCCEEEEE
Confidence 34455554444 44456779999999888876533222211122344667778899999874
No 459
>PRK09875 putative hydrolase; Provisional
Probab=22.99 E-value=3.2e+02 Score=20.25 Aligned_cols=37 Identities=11% Similarity=0.001 Sum_probs=25.0
Q ss_pred hcCCccEEEEEEcCChHhHHHHHHHhcCC--CEEEEecCC
Q 031355 90 SKSVHDFVVEVVEGDARNILCEAVEKHHA--SILVVGSHG 127 (161)
Q Consensus 90 ~~~~~~~~~~v~~g~~~~~I~~~a~~~~~--dliVlg~~~ 127 (161)
+.|.. +.++...++..-++++.+++.++ +-+|+|+-.
T Consensus 150 ~TG~p-i~~Ht~~~~~g~e~l~il~e~Gvd~~rvvi~H~d 188 (292)
T PRK09875 150 QTGRP-ISTHTSFSTMGLEQLALLQAHGVDLSRVTVGHCD 188 (292)
T ss_pred HHCCc-EEEcCCCccchHHHHHHHHHcCcCcceEEEeCCC
Confidence 33443 66665556566666788888788 788888764
No 460
>cd08178 AAD_C C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD). Alcohol dehydrogenase domain located on the C-terminal of a bifunctional two-domain protein. The N-terminal of the protein contains an acetaldehyde-CoA dehydrogenase domain. This protein is involved in pyruvate metabolism. Pyruvate is converted to acetyl-CoA and formate by pyruvate formate-lysase (PFL). Under anaerobic condition, acetyl-CoA is reduced to acetaldehyde and ethanol by this two-domain protein. Acetyl-CoA is first converted into an enzyme-bound thiohemiacetal by the N-terminal acetaldehyde dehydrogenase domain. The enzyme-bound thiohemiacetal is subsequently reduced by the C-terminal NAD+-dependent alcohol dehydrogenase domain. In E. coli, this protein is called AdhE and was shown pyruvate formate-lysase (PFL) deactivase activity, which is involved in the inactivation of PFL, a key enzyme in anaerobic metabolism. In Escherichi
Probab=22.93 E-value=2e+02 Score=22.16 Aligned_cols=22 Identities=9% Similarity=0.152 Sum_probs=17.4
Q ss_pred hHhHHHHHHHhcCCCEEE-EecC
Q 031355 105 ARNILCEAVEKHHASILV-VGSH 126 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliV-lg~~ 126 (161)
..+.+.+.+++.++|.|| +|..
T Consensus 66 ~v~~~~~~~~~~~~D~IIaiGGG 88 (398)
T cd08178 66 TVRKGLELMNSFKPDTIIALGGG 88 (398)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCc
Confidence 366788889999999998 6643
No 461
>TIGR02924 ICDH_alpha isocitrate dehydrogenase. This family of mainly alphaproteobacterial enzymes is a member of the isocitrate/isopropylmalate dehydrogenase superfamily described by pfam00180. Every member of the seed of this model appears to have a TCA cycle lacking only a determined isocitrate dehydrogenase. The precise identity of the cofactor (NADH -- 1.1.1.41 vs. NADPH -- 1.1.1.42) is unclear.
Probab=22.92 E-value=3.5e+02 Score=21.75 Aligned_cols=30 Identities=7% Similarity=0.007 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+++.+++|+++|+.. + + -+|+++|=...
T Consensus 145 ~g~eRI~r~AFe~A~~r-~-r--kkVT~v~KaNV 174 (473)
T TIGR02924 145 SGSEKICRYAFEYARKH-N-R--KKVTCLTKDNI 174 (473)
T ss_pred HHHHHHHHHHHHHHHhc-C-C--CeEEEEECCcc
Confidence 56889999999999875 4 1 26888876544
No 462
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=22.91 E-value=2.8e+02 Score=19.62 Aligned_cols=73 Identities=12% Similarity=0.125 Sum_probs=37.3
Q ss_pred HHHHHHHHHhhhcCCccEEEEEEc-----CChHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEE
Q 031355 79 RVVEEAKEICSSKSVHDFVVEVVE-----GDARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMI 153 (161)
Q Consensus 79 ~~l~~~~~~~~~~~~~~~~~~v~~-----g~~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlv 153 (161)
..+..+.+.+++.|.. +...-.. ++-.+.|....++++++-|++-..+.-.+. ....++.....||+-+
T Consensus 49 saMRhfa~~L~~~G~~-V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~-----~~l~~~~~~~~i~~~~ 122 (224)
T PF04244_consen 49 SAMRHFADELRAKGFR-VHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLE-----QRLESLAQQLGIPLEV 122 (224)
T ss_dssp HHHHHHHHHHHHTT---EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHH-----HHHHH----SSS-EEE
T ss_pred HHHHHHHHHHHhCCCE-EEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHH-----HHHHhhhcccCCceEE
Confidence 3444556666666764 6555555 255789999999999999999876644333 2334566677899998
Q ss_pred EcCC
Q 031355 154 VKRP 157 (161)
Q Consensus 154 v~~~ 157 (161)
++.+
T Consensus 123 ~~~~ 126 (224)
T PF04244_consen 123 LEDP 126 (224)
T ss_dssp E--T
T ss_pred eCCC
Confidence 8764
No 463
>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=22.88 E-value=3.8e+02 Score=21.08 Aligned_cols=24 Identities=29% Similarity=0.313 Sum_probs=17.3
Q ss_pred ChHhHHHHHHHhcCCCEEEEecCC
Q 031355 104 DARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 104 ~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
..+..+++.+.+.+.+...+|+.+
T Consensus 243 ~~~~~ll~~a~~~g~~~~wigs~~ 266 (458)
T cd06375 243 EDARELLAAAKRLNASFTWVASDG 266 (458)
T ss_pred HHHHHHHHHHHHcCCcEEEEEecc
Confidence 456667778888888877777654
No 464
>cd07391 MPP_PF1019 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain. This family includes bacterial and archeal proteins homologous to PF1019, an uncharacterized Pyrococcus furiosus protein. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for pro
Probab=22.86 E-value=2.4e+02 Score=18.65 Aligned_cols=10 Identities=10% Similarity=0.248 Sum_probs=4.1
Q ss_pred HHHHHHHHhh
Q 031355 80 VVEEAKEICS 89 (161)
Q Consensus 80 ~l~~~~~~~~ 89 (161)
.++++.+.+.
T Consensus 29 ~~~~l~~~~~ 38 (172)
T cd07391 29 TLERLDRLIE 38 (172)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 465
>PRK10200 putative racemase; Provisional
Probab=22.82 E-value=1.4e+02 Score=21.15 Aligned_cols=22 Identities=9% Similarity=0.055 Sum_probs=13.8
Q ss_pred hHHHHHHHhcCCCEEEEecCCC
Q 031355 107 NILCEAVEKHHASILVVGSHGY 128 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~ 128 (161)
-+.++..++.++|+|||.....
T Consensus 65 ~~~~~~L~~~g~~~iviaCNTa 86 (230)
T PRK10200 65 AEAALGLQRAGAEGIVLCTNTM 86 (230)
T ss_pred HHHHHHHHHcCCCEEEECCchH
Confidence 3344455566788888877654
No 466
>cd00316 Oxidoreductase_nitrogenase The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase) and, both subunits of Protochlorophyllide (Pchlide) reductase and chlorophyllide (chlide) reductase. The nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized nitrogenase is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers whose alpha and beta subunits are similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molec
Probab=22.74 E-value=1.7e+02 Score=22.33 Aligned_cols=12 Identities=8% Similarity=0.185 Sum_probs=5.5
Q ss_pred cCCCEEEEecCC
Q 031355 116 HHASILVVGSHG 127 (161)
Q Consensus 116 ~~~dliVlg~~~ 127 (161)
.++.++.+...+
T Consensus 110 ~~~~vv~~~~~g 121 (399)
T cd00316 110 IGIPVVPASTPG 121 (399)
T ss_pred hCCceEEeeCCC
Confidence 344455444443
No 467
>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=22.64 E-value=1.9e+02 Score=17.61 Aligned_cols=40 Identities=20% Similarity=0.217 Sum_probs=27.5
Q ss_pred CceeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 5 ETQTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 5 ~~~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
..+.+++.+..|..+...++ +++.|+.. | +++..+.-.+.
T Consensus 45 ~~~d~~I~iS~sG~t~e~~~-~~~~a~~~-g----~~vi~iT~~~~ 84 (126)
T cd05008 45 DEDTLVIAISQSGETADTLA-ALRLAKEK-G----AKTVAITNVVG 84 (126)
T ss_pred CCCcEEEEEeCCcCCHHHHH-HHHHHHHc-C----CeEEEEECCCC
Confidence 45678999999888887655 45555655 6 67777765443
No 468
>COG4080 SpoU rRNA Methylase family enzyme [General function prediction only]
Probab=22.59 E-value=2.2e+02 Score=18.70 Aligned_cols=49 Identities=12% Similarity=-0.086 Sum_probs=23.5
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
...+.+.+-..+++.+|+..-..+..+.- =....++..+...|||++|+
T Consensus 16 v~e~ariaygfg~k~lV~tka~g~AAQsG--Ip~~~kla~k~G~~vlvf~d 64 (147)
T COG4080 16 VLEFARIAYGFGAKRLVLTKAKGSAAQSG--IPEVLKLAFKLGKPVLVFPD 64 (147)
T ss_pred HHHHHHHHcccCccEEEEEecccHhhhhc--cHHHHHHHHHhCCcEEEehh
Confidence 34444445555666666654322221111 02344555566666666653
No 469
>PRK09222 isocitrate dehydrogenase; Validated
Probab=22.46 E-value=4.2e+02 Score=21.41 Aligned_cols=30 Identities=13% Similarity=0.076 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCC
Q 031355 17 EQSTYALQWTLDHFFANSTVNPPFKLVIVHARPS 50 (161)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~ 50 (161)
+.+++.+++|+++|+.. + . -+|+++|=...
T Consensus 149 ~~~eRI~r~AFe~A~~r-~--r-kkVt~v~KaNV 178 (482)
T PRK09222 149 PGSEKIIRYAFEYARAN-G--R-KKVTCLTKDNI 178 (482)
T ss_pred HHHHHHHHHHHHHHHhc-C--C-CeEEEEECCCc
Confidence 46889999999999875 4 1 26888875443
No 470
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=22.46 E-value=1.7e+02 Score=21.14 Aligned_cols=44 Identities=18% Similarity=0.261 Sum_probs=23.6
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
...+.+.++..++|+||--..| ..-.++..+..+.++|.+.||-
T Consensus 64 ~~~~~~~~~~~~~d~ii~vGgG-------~i~D~~K~~A~~~~~p~isVPT 107 (250)
T PF13685_consen 64 VEKLVEALRPKDADLIIGVGGG-------TIIDIAKYAAFELGIPFISVPT 107 (250)
T ss_dssp HHHHHTTS--TT--EEEEEESH-------HHHHHHHHHHHHHT--EEEEES
T ss_pred HHHHHHHhcccCCCEEEEeCCc-------HHHHHHHHHHHhcCCCEEEecc
Confidence 3444455555577765532221 1246788888899999999984
No 471
>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=22.41 E-value=3.3e+02 Score=20.22 Aligned_cols=75 Identities=8% Similarity=0.018 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHhhhcCCccEEEEEEcC-----ChHhHHHHHHHhcCCCEEEEecCCC-CcceeeeccchHHHHhhcCCC
Q 031355 76 IAARVVEEAKEICSSKSVHDFVVEVVEG-----DARNILCEAVEKHHASILVVGSHGY-GAIKRAVLGSVSDYCAHHAHC 149 (161)
Q Consensus 76 ~~~~~l~~~~~~~~~~~~~~~~~~v~~g-----~~~~~I~~~a~~~~~dliVlg~~~~-~~~~~~~~gs~~~~ll~~~~~ 149 (161)
...+.++.+++.+ + .++...+..| .....+++.+++.++|.|.+..+.. ....+...-.....+...+++
T Consensus 118 ~~~ei~~~vr~~~---~-~pv~vKir~g~~~~~~~~~~~a~~l~~~G~d~i~vh~r~~~~~~~~~~~~~~i~~i~~~~~i 193 (319)
T TIGR00737 118 LIGKIVKAVVDAV---D-IPVTVKIRIGWDDAHINAVEAARIAEDAGAQAVTLHGRTRAQGYSGEANWDIIARVKQAVRI 193 (319)
T ss_pred HHHHHHHHHHhhc---C-CCEEEEEEcccCCCcchHHHHHHHHHHhCCCEEEEEcccccccCCCchhHHHHHHHHHcCCC
Confidence 3444444444433 3 3466666544 1245677778888999998854321 111111122445566677889
Q ss_pred cEEEE
Q 031355 150 TVMIV 154 (161)
Q Consensus 150 pvlvv 154 (161)
||+..
T Consensus 194 pvi~n 198 (319)
T TIGR00737 194 PVIGN 198 (319)
T ss_pred cEEEe
Confidence 98875
No 472
>PF01497 Peripla_BP_2: Periplasmic binding protein; InterPro: IPR002491 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These 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. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Most bacterial importers employ a periplasmic substrate-binding protein (PBP) that delivers the ligand to the extracellular gate of the TM domains. These proteins bind their substrates selectively and with high affinity, which is thought to ensure the specificity of the transport reaction. Binding proteins in Gram-negative bacteria are present within the periplasm, whereas those in Gram-positive bacteria are tethered to the cell membrane via the acylation of a cysteine residue that is an integral component of a lipoprotein signal sequence. In planta expression of a high-affinity iron-uptake system involving the siderophore chrysobactin in Erwinia chrysanthemi 3937 contributes greatly to invasive growth of this pathogen on its natural host, African violets []. The cobalamin (vitamin B12) and the iron transport systems share many common attributes and probably evolved from the same origin [, ]. The periplasmic-binding domain is composed of two subdomains, each consisting of a central beta-sheet and surrounding alpha-helices, linked by a rigid alpha-helix. The substrate binding site is located in a cleft between the two alpha/beta subdomains [].; GO: 0005488 binding; PDB: 2X4L_A 1N4A_B 1N2Z_B 1N4D_B 4DBL_J 2QI9_F 3EIW_A 3EIX_A 3MWG_A 3MWF_A ....
Probab=22.15 E-value=2.5e+02 Score=19.23 Aligned_cols=38 Identities=11% Similarity=-0.038 Sum_probs=24.2
Q ss_pred HHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCC
Q 031355 113 VEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPK 158 (161)
Q Consensus 113 a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~ 158 (161)
....++||||..... ..+....-+....+|++++....
T Consensus 56 i~~l~PDlIi~~~~~--------~~~~~~~~~~~~~ip~~~~~~~~ 93 (238)
T PF01497_consen 56 ILALKPDLIIGSSFY--------GQSEEIEKLLEAGIPVVVFDSSS 93 (238)
T ss_dssp HHHT--SEEEEETTS--------SCHHHHHHHHHTTSEEEEESSTT
T ss_pred HHhCCCCEEEEeccc--------cchHHHHHHhcccceEEEeeccc
Confidence 344589999998665 12344455666799999997653
No 473
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=22.14 E-value=1.7e+02 Score=21.34 Aligned_cols=47 Identities=13% Similarity=0.195 Sum_probs=22.1
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
-.+++.++.+++++|+||=.+|.... -....+-.+.+.+++|.+-..
T Consensus 54 ~~e~l~~~l~e~~i~llIDATHPyAa----~iS~Na~~aake~gipy~r~e 100 (257)
T COG2099 54 GAEGLAAFLREEGIDLLIDATHPYAA----RISQNAARAAKETGIPYLRLE 100 (257)
T ss_pred CHHHHHHHHHHcCCCEEEECCChHHH----HHHHHHHHHHHHhCCcEEEEE
Confidence 34555555555555555555543221 112233334444555555553
No 474
>PRK00865 glutamate racemase; Provisional
Probab=22.13 E-value=1.6e+02 Score=21.19 Aligned_cols=36 Identities=8% Similarity=-0.112 Sum_probs=23.3
Q ss_pred EEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCCCcc
Q 031355 10 VVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHARPSPSAV 54 (161)
Q Consensus 10 lv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~~~~ 54 (161)
+..+|.+-.....++...+.... ..++|+.+....+
T Consensus 8 IgvfDSGiGGLtvl~~i~~~lp~---------~~~iY~~D~~~~P 43 (261)
T PRK00865 8 IGVFDSGVGGLTVLREIRRLLPD---------EHIIYVGDTARFP 43 (261)
T ss_pred EEEEECCccHHHHHHHHHHHCCC---------CCEEEEecCCCCC
Confidence 44567777777777777666543 3577777775543
No 475
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=22.04 E-value=3.3e+02 Score=20.00 Aligned_cols=45 Identities=13% Similarity=0.211 Sum_probs=26.1
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCCC
Q 031355 107 NILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPKT 159 (161)
Q Consensus 107 ~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~~ 159 (161)
+.+.......++|.| +|....+ + ..+..+....++|+++++.+.+
T Consensus 118 ~~la~~~~~~~iD~V-vgvetkG----I---pLA~avA~~L~vp~vivRK~~K 162 (268)
T TIGR01743 118 KILASVFAEREIDAV-MTVATKG----I---PLAYAVASVLNVPLVIVRKDSK 162 (268)
T ss_pred HHHHHHhcCCCCCEE-EEEccch----H---HHHHHHHHHHCCCEEEEEECCC
Confidence 344444445578854 4533222 1 2445566667999999987643
No 476
>TIGR00035 asp_race aspartate racemase.
Probab=22.01 E-value=1.7e+02 Score=20.50 Aligned_cols=14 Identities=14% Similarity=0.292 Sum_probs=9.2
Q ss_pred HhcCCCEEEEecCC
Q 031355 114 EKHHASILVVGSHG 127 (161)
Q Consensus 114 ~~~~~dliVlg~~~ 127 (161)
++.++|+|||+...
T Consensus 72 ~~~g~d~iviaCNT 85 (229)
T TIGR00035 72 ENAGADFIIMPCNT 85 (229)
T ss_pred HHcCCCEEEECCcc
Confidence 34577777777664
No 477
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=21.99 E-value=2.3e+02 Score=18.10 Aligned_cols=50 Identities=14% Similarity=0.195 Sum_probs=30.8
Q ss_pred hHhHHHHHHHhcCCCEEEEecCCCCcceeee--ccchHHHHhhcCCCcEEEEcC
Q 031355 105 ARNILCEAVEKHHASILVVGSHGYGAIKRAV--LGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~~~~~~~~~~--~gs~~~~ll~~~~~pvlvv~~ 156 (161)
-.+.+++.+++..+|.||+-.- +.+.+-. +..+.+.+..+.++.++++..
T Consensus 56 ~l~~ll~~~~~g~vd~vvv~~l--dRl~R~~~d~~~~~~~l~~~~gv~l~~~~~ 107 (140)
T cd03770 56 GFNRMIEDIEAGKIDIVIVKDM--SRLGRNYLKVGLYMEILFPKKGVRFIAIND 107 (140)
T ss_pred HHHHHHHHHHcCCCCEEEEecc--chhccCHHHHHHHHHHHHhhcCcEEEEecC
Confidence 4678899999999999998542 3333221 122334444444788888764
No 478
>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=21.98 E-value=2.4e+02 Score=22.25 Aligned_cols=46 Identities=11% Similarity=0.046 Sum_probs=34.6
Q ss_pred hHhHHHHHHHhcCCCEEEEecC-CCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 105 ARNILCEAVEKHHASILVVGSH-GYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 105 ~~~~I~~~a~~~~~dliVlg~~-~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
-+.+|.+..++.++|-+||-+. +.-.. -|++..+-+.++.+|++.+
T Consensus 324 ~g~eIa~~Lk~dgVDAvILtstCgtCtr----cga~m~keiE~~GIPvV~i 370 (431)
T TIGR01917 324 FAKEFSKELLAAGVDAVILTSTUGTCTR----CGATMVKEIERAGIPVVHI 370 (431)
T ss_pred HHHHHHHHHHHcCCCEEEEcCCCCcchh----HHHHHHHHHHHcCCCEEEE
Confidence 3678999999999999999854 32211 1667777888899999876
No 479
>COG4034 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.97 E-value=1.8e+02 Score=21.51 Aligned_cols=45 Identities=20% Similarity=0.186 Sum_probs=30.5
Q ss_pred HHHHHHHHhhhcCCccEEEEEEcC--ChHhHHHHHHHhcCCCEEEEe
Q 031355 80 VVEEAKEICSSKSVHDFVVEVVEG--DARNILCEAVEKHHASILVVG 124 (161)
Q Consensus 80 ~l~~~~~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliVlg 124 (161)
...++...++..+...+-.-+..| .+++.+-.+++..+.|+||=-
T Consensus 92 ~~pqi~raaralg~e~v~v~~~~gv~gl~e~lk~lv~~~~id~Ivgv 138 (328)
T COG4034 92 VKPQIVRAARALGKEAVAVDLVDGVRGLAEGLKALVEKEGIDLIVGV 138 (328)
T ss_pred ecHHHHHHHHHhCceeEEEeccCCcccHHHHHHHHHHhhCccEEEEe
Confidence 445555555555653244444444 589999999999999998853
No 480
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=21.84 E-value=2.9e+02 Score=19.38 Aligned_cols=50 Identities=16% Similarity=0.216 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHhhhcCCccEEEEEEcCChHhHHHHHHHhcCCCEEEEecC
Q 031355 74 KKIAARVVEEAKEICSSKSVHDFVVEVVEGDARNILCEAVEKHHASILVVGSH 126 (161)
Q Consensus 74 ~~~~~~~l~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliVlg~~ 126 (161)
++..++.+...+.+-+.++.. ...+-.|--.+.| ..+.+-++++||.|+.
T Consensus 150 QkFme~mm~KV~~lR~kyp~l--~ievDGGv~~~ti-~~~a~AGAN~iVaGsa 199 (224)
T KOG3111|consen 150 QKFMEDMMPKVEWLREKYPNL--DIEVDGGVGPSTI-DKAAEAGANMIVAGSA 199 (224)
T ss_pred hhhHHHHHHHHHHHHHhCCCc--eEEecCCcCcchH-HHHHHcCCCEEEecce
Confidence 345555666665555555543 3334444333444 4444569999999975
No 481
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=21.84 E-value=2.7e+02 Score=21.46 Aligned_cols=43 Identities=14% Similarity=0.118 Sum_probs=27.1
Q ss_pred HhcCCCEEEEecCCCCccee--eeccchHHH-HhhcCCCcEEEEcC
Q 031355 114 EKHHASILVVGSHGYGAIKR--AVLGSVSDY-CAHHAHCTVMIVKR 156 (161)
Q Consensus 114 ~~~~~dliVlg~~~~~~~~~--~~~gs~~~~-ll~~~~~pvlvv~~ 156 (161)
.+..+|.+++|..+-..-.. --.|...-. +.++.++|++++-+
T Consensus 243 ~~~~Vd~VivGAD~I~~NG~v~NKiGTy~lA~~Ak~~~vPfyV~ap 288 (363)
T PRK05772 243 YKDMVNNVMVGADRILRDGHVFNKIGTFKEAVIAHELGIPFYALAP 288 (363)
T ss_pred hhcCCCEEEECccEEecCCCEeehhhhHHHHHHHHHhCCCEEEEcc
Confidence 34589999999885322111 124555544 44667899999854
No 482
>cd01977 Nitrogenase_VFe_alpha Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V- and Fe- nitrogenases there is a molybdenum (Mo)-dependent nitrogenase which is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha sub
Probab=21.83 E-value=2.2e+02 Score=22.12 Aligned_cols=25 Identities=24% Similarity=0.404 Sum_probs=14.3
Q ss_pred CChHhHHHHHHHhcC--CCEEEEecCC
Q 031355 103 GDARNILCEAVEKHH--ASILVVGSHG 127 (161)
Q Consensus 103 g~~~~~I~~~a~~~~--~dliVlg~~~ 127 (161)
|+-.+.+++.+++.. +.+|.+...+
T Consensus 104 GdDi~~v~~~~~~~~~~~~vi~v~tpg 130 (415)
T cd01977 104 GDDIKAVAKEVMEELPDVDIFVCNAPG 130 (415)
T ss_pred cCCHHHHHHHHHHhcCCCeEEEEeCCC
Confidence 666666766655433 5566665444
No 483
>COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=21.76 E-value=1e+02 Score=21.69 Aligned_cols=38 Identities=16% Similarity=0.192 Sum_probs=26.7
Q ss_pred CCCEEEEecCCCCcceeeecc-chHHHHhhcCCCcEEEEc
Q 031355 117 HASILVVGSHGYGAIKRAVLG-SVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 117 ~~dliVlg~~~~~~~~~~~~g-s~~~~ll~~~~~pvlvv~ 155 (161)
+.|.|+++. |++.+.++-+| ++++.+.....+|++-|.
T Consensus 58 dld~iav~~-GPGSFTGlRIG~~~AkgLA~~l~iplvgvs 96 (220)
T COG1214 58 DLDAIAVAK-GPGSFTGLRIGVAFAKGLALALNIPLVGVS 96 (220)
T ss_pred HCCEEEEcc-CCCcccchhhHHHHHHHHHHHcCCCEEEeC
Confidence 778888874 45555555445 677778888889988773
No 484
>PF13684 Dak1_2: Dihydroxyacetone kinase family
Probab=21.72 E-value=3.5e+02 Score=20.24 Aligned_cols=28 Identities=18% Similarity=0.214 Sum_probs=17.6
Q ss_pred EEcCChHhHHHHHHHhcCCCEEEEecCC
Q 031355 100 VVEGDARNILCEAVEKHHASILVVGSHG 127 (161)
Q Consensus 100 v~~g~~~~~I~~~a~~~~~dliVlg~~~ 127 (161)
+..=.+.+++.+..++.++|.+|-|...
T Consensus 99 vVAv~~g~g~~~lf~~~Gv~~vi~ggqt 126 (313)
T PF13684_consen 99 VVAVAPGEGLAELFRSLGVDVVISGGQT 126 (313)
T ss_pred EEEEecCccHHHHHHhCCCeEEEeCCCC
Confidence 3333445556666677788888777654
No 485
>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=21.65 E-value=2e+02 Score=22.43 Aligned_cols=17 Identities=12% Similarity=0.130 Sum_probs=8.3
Q ss_pred chHHHHhhcCCCcEEEE
Q 031355 138 SVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 138 s~~~~ll~~~~~pvlvv 154 (161)
.++++++..+.+|+++.
T Consensus 178 ~~vk~V~~av~vPLIL~ 194 (389)
T TIGR00381 178 KVLEDVLQAVDVPIVIG 194 (389)
T ss_pred HHHHHHHHhCCCCEEEe
Confidence 34444445555555444
No 486
>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=21.49 E-value=3.2e+02 Score=19.73 Aligned_cols=42 Identities=14% Similarity=0.097 Sum_probs=25.0
Q ss_pred HHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEc
Q 031355 108 ILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVK 155 (161)
Q Consensus 108 ~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~ 155 (161)
++++.+..+++|-||+........ ..... -+...++||+++-
T Consensus 48 ~~i~~l~~~~vdgiii~~~~~~~~-----~~~~~-~~~~~giPvV~~~ 89 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVDPTAA-----QTVIN-KAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHcCCCEEEEecCchhhH-----HHHHH-HHHHCCCCEEEeC
Confidence 456667778999888864321111 12223 3456789998874
No 487
>PF13528 Glyco_trans_1_3: Glycosyl transferase family 1
Probab=21.46 E-value=1.9e+02 Score=20.95 Aligned_cols=35 Identities=6% Similarity=0.140 Sum_probs=22.4
Q ss_pred eeEEEEecCC--hhHHHHHHHHHHHhhccCCCCCCcEEEEEEecC
Q 031355 7 QTMVVGIDDS--EQSTYALQWTLDHFFANSTVNPPFKLVIVHARP 49 (161)
Q Consensus 7 ~~ilv~~d~s--~~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~ 49 (161)
+||++.+++. -...+++..|-.+ + | .+++++..-.
T Consensus 1 MkIl~~v~~~G~GH~~R~~~la~~L-r---g----~~v~~~~~~~ 37 (318)
T PF13528_consen 1 MKILFYVQGHGLGHASRCLALARAL-R---G----HEVTFITSGP 37 (318)
T ss_pred CEEEEEeCCCCcCHHHHHHHHHHHH-c---c----CceEEEEcCC
Confidence 4788888864 4566667766666 2 3 3677766543
No 488
>PRK13435 response regulator; Provisional
Probab=21.32 E-value=2.2e+02 Score=17.68 Aligned_cols=16 Identities=6% Similarity=0.133 Sum_probs=9.4
Q ss_pred HHHHHhcCCCEEEEec
Q 031355 110 CEAVEKHHASILVVGS 125 (161)
Q Consensus 110 ~~~a~~~~~dliVlg~ 125 (161)
.....+..+|++|+..
T Consensus 43 ~~~~~~~~~dliivd~ 58 (145)
T PRK13435 43 IALGRRRQPDVALVDV 58 (145)
T ss_pred HHHhhhcCCCEEEEee
Confidence 3334445677777764
No 489
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=21.30 E-value=3.1e+02 Score=19.39 Aligned_cols=42 Identities=14% Similarity=0.205 Sum_probs=26.4
Q ss_pred HHHHhhhcCCccEEEEEEcCChHhHHHHHHHh---cCCCEEEEecC
Q 031355 84 AKEICSSKSVHDFVVEVVEGDARNILCEAVEK---HHASILVVGSH 126 (161)
Q Consensus 84 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~---~~~dliVlg~~ 126 (161)
+++.+...+.. -...+..|+..+.+-+...+ ..+|+|++...
T Consensus 109 A~~n~~~~gl~-~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~ 153 (234)
T PLN02781 109 GLEFIKKAGVD-HKINFIQSDALSALDQLLNNDPKPEFDFAFVDAD 153 (234)
T ss_pred HHHHHHHcCCC-CcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCC
Confidence 33344444543 34567788888777665443 47999999864
No 490
>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=21.22 E-value=2.5e+02 Score=18.35 Aligned_cols=33 Identities=24% Similarity=0.257 Sum_probs=20.8
Q ss_pred EEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEEEe
Q 031355 9 MVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIVHA 47 (161)
Q Consensus 9 ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l~v 47 (161)
+++.-.++-.+.-+...+..++.. | -++.++..
T Consensus 4 ~~~G~~G~GKTt~~~~la~~~~~~--g----~~v~~i~~ 36 (173)
T cd03115 4 LLVGLQGVGKTTTAAKLALYLKKK--G----KKVLLVAA 36 (173)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHC--C----CcEEEEEc
Confidence 344445666777788888877764 3 35666553
No 491
>PF04412 DUF521: Protein of unknown function (DUF521); InterPro: IPR007506 This is a group of hypothetical proteins.
Probab=21.18 E-value=2.8e+02 Score=21.69 Aligned_cols=27 Identities=4% Similarity=-0.117 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEEEEecCCC
Q 031355 18 QSTYALQWTLDHFFANSTVNPPFKLVIVHARPSP 51 (161)
Q Consensus 18 ~s~~al~~a~~la~~~~~~~~~a~l~~l~v~~~~ 51 (161)
.....-.+.+.+|.. | .+-++|+.-..
T Consensus 225 ~~d~lK~lgAA~Ats--g-----s~~m~Hi~GvT 251 (400)
T PF04412_consen 225 SEDDLKALGAAMATS--G-----SVAMFHIVGVT 251 (400)
T ss_pred CHHHHHHHhhhhhcc--c-----ceeeEEEeCCC
Confidence 344444455555553 4 67777775443
No 492
>COG2257 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]
Probab=21.15 E-value=75 Score=19.02 Aligned_cols=20 Identities=20% Similarity=0.353 Sum_probs=15.7
Q ss_pred EcCChHhHHHHHHHhcCCCE
Q 031355 101 VEGDARNILCEAVEKHHASI 120 (161)
Q Consensus 101 ~~g~~~~~I~~~a~~~~~dl 120 (161)
..|.+++.|++.|+++++-+
T Consensus 29 G~G~iAe~II~~Ake~~Vpi 48 (92)
T COG2257 29 GKGEIAEKIIEKAKEHGVPI 48 (92)
T ss_pred cchHHHHHHHHHHHHcCCCc
Confidence 34579999999999877643
No 493
>cd04732 HisA HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene.
Probab=21.02 E-value=3e+02 Score=19.13 Aligned_cols=49 Identities=8% Similarity=-0.063 Sum_probs=30.9
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
...+.+...+.+++-+++....+.+...-..-....++...+++||+.-
T Consensus 148 ~~~~~~~~~~~ga~~iii~~~~~~g~~~g~~~~~i~~i~~~~~ipvi~~ 196 (234)
T cd04732 148 LEELAKRFEELGVKAIIYTDISRDGTLSGPNFELYKELAAATGIPVIAS 196 (234)
T ss_pred HHHHHHHHHHcCCCEEEEEeecCCCccCCCCHHHHHHHHHhcCCCEEEe
Confidence 3456666777789988887543332222222355677777788998764
No 494
>TIGR01391 dnaG DNA primase, catalytic core. This protein contains a CHC2 zinc finger (Pfam:PF01807) and a Toprim domain (Pfam:PF01751).
Probab=20.89 E-value=2.6e+02 Score=21.84 Aligned_cols=34 Identities=6% Similarity=0.219 Sum_probs=27.4
Q ss_pred eeEEEEecCChhHHHHHHHHHHHhhccCCCCCCcEEEEE
Q 031355 7 QTMVVGIDDSEQSTYALQWTLDHFFANSTVNPPFKLVIV 45 (161)
Q Consensus 7 ~~ilv~~d~s~~s~~al~~a~~la~~~~~~~~~a~l~~l 45 (161)
.+|+++.|++.....|...++..+... | ..+.++
T Consensus 301 ~~vvl~~D~D~aG~~aa~r~~~~l~~~-g----~~v~v~ 334 (415)
T TIGR01391 301 DEIILCFDGDKAGRKAALRAIELLLPL-G----INVKVI 334 (415)
T ss_pred CeEEEEeCCCHHHHHHHHHHHHHHHHc-C----CeEEEE
Confidence 589999999999999988888888764 5 455554
No 495
>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=20.87 E-value=2.7e+02 Score=18.62 Aligned_cols=41 Identities=15% Similarity=0.222 Sum_probs=20.8
Q ss_pred HHHHHhhhcCCccEEEEEEcCChHhHHHHHHHh--cCCCEEEEe
Q 031355 83 EAKEICSSKSVHDFVVEVVEGDARNILCEAVEK--HHASILVVG 124 (161)
Q Consensus 83 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliVlg 124 (161)
.+.+.+.+.|.. +.....-++-.+.|.+..++ ..+|+||..
T Consensus 23 ~l~~~L~~~G~~-v~~~~~v~Dd~~~I~~~l~~~~~~~dlVItt 65 (170)
T cd00885 23 FLAKELAELGIE-VYRVTVVGDDEDRIAEALRRASERADLVITT 65 (170)
T ss_pred HHHHHHHHCCCE-EEEEEEeCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 344555666765 33333334433333333222 278988885
No 496
>PRK11173 two-component response regulator; Provisional
Probab=20.83 E-value=2.9e+02 Score=18.88 Aligned_cols=47 Identities=6% Similarity=0.113 Sum_probs=26.0
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcC
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKR 156 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~ 156 (161)
............+|++++...-... .+ -...+.+-....+|++++-.
T Consensus 36 ~~~~~~~~~~~~~dlvild~~l~~~-~g---~~~~~~lr~~~~~pii~lt~ 82 (237)
T PRK11173 36 GAEMHQILSENDINLVIMDINLPGK-NG---LLLARELREQANVALMFLTG 82 (237)
T ss_pred HHHHHHHHhhCCCCEEEEcCCCCCC-CH---HHHHHHHhcCCCCCEEEEEC
Confidence 3444455566789999998653221 11 12333333344678888754
No 497
>PRK13585 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=20.77 E-value=2.4e+02 Score=19.78 Aligned_cols=49 Identities=8% Similarity=-0.022 Sum_probs=29.2
Q ss_pred HhHHHHHHHhcCCCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEE
Q 031355 106 RNILCEAVEKHHASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIV 154 (161)
Q Consensus 106 ~~~I~~~a~~~~~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv 154 (161)
...+.+.+.+.+++-|++-.....+...-.--....++....++||++.
T Consensus 151 ~~~~~~~~~~~G~~~i~~~~~~~~g~~~g~~~~~i~~i~~~~~iPvia~ 199 (241)
T PRK13585 151 PVEAAKRFEELGAGSILFTNVDVEGLLEGVNTEPVKELVDSVDIPVIAS 199 (241)
T ss_pred HHHHHHHHHHcCCCEEEEEeecCCCCcCCCCHHHHHHHHHhCCCCEEEe
Confidence 3455566677788888775433222111122245677888888998875
No 498
>cd07385 MPP_YkuE_C Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain. YkuE is an uncharacterized Bacillus subtilis protein with a C-terminal metallophosphatase domain and an N-terminal twin-arginine (RR) motif. An RR-signal peptide derived from the Bacillus subtilis YkuE protein can direct Tat-dependent secretion of agarase in Streptomyces lividans. This is an indication that YkuE is transported by the Bacillus subtilis Tat (Twin-arginine translocation) pathway machinery. YkuE belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-dia
Probab=20.71 E-value=2.9e+02 Score=18.85 Aligned_cols=10 Identities=40% Similarity=0.790 Sum_probs=5.6
Q ss_pred CEEEEecCCC
Q 031355 119 SILVVGSHGY 128 (161)
Q Consensus 119 dliVlg~~~~ 128 (161)
-..+.|.+..
T Consensus 66 v~~v~GNHD~ 75 (223)
T cd07385 66 VYAVLGNHDY 75 (223)
T ss_pred EEEECCCccc
Confidence 3456666653
No 499
>COG0190 FolD 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]
Probab=20.70 E-value=3.6e+02 Score=20.01 Aligned_cols=47 Identities=17% Similarity=0.232 Sum_probs=34.2
Q ss_pred HhHHHHHHHhcCC-----CEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCCC
Q 031355 106 RNILCEAVEKHHA-----SILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPKT 159 (161)
Q Consensus 106 ~~~I~~~a~~~~~-----dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~~ 159 (161)
..+|++..++.++ +.+|+|+.. +.|..-..+|.+..|.|-+++...+
T Consensus 140 p~gi~~ll~~~~i~l~Gk~~vVVGrS~-------iVGkPla~lL~~~naTVtvcHs~T~ 191 (283)
T COG0190 140 PAGIMTLLEEYGIDLRGKNVVVVGRSN-------IVGKPLALLLLNANATVTVCHSRTK 191 (283)
T ss_pred HHHHHHHHHHhCCCCCCCEEEEECCCC-------cCcHHHHHHHHhCCCEEEEEcCCCC
Confidence 5678888777666 568888553 3366666788889999999987643
No 500
>PF01949 DUF99: Protein of unknown function DUF99; InterPro: IPR002802 The function of the archaebacterial proteins in this family is unknown.; PDB: 2QH9_A.
Probab=20.70 E-value=1.5e+02 Score=20.35 Aligned_cols=60 Identities=17% Similarity=0.250 Sum_probs=29.5
Q ss_pred EEEEEEcC-ChHhHHHHHHHh-cC--CCEEEEecCCCCcceeeeccchHHHHhhcCCCcEEEEcCCCC
Q 031355 96 FVVEVVEG-DARNILCEAVEK-HH--ASILVVGSHGYGAIKRAVLGSVSDYCAHHAHCTVMIVKRPKT 159 (161)
Q Consensus 96 ~~~~v~~g-~~~~~I~~~a~~-~~--~dliVlg~~~~~~~~~~~~gs~~~~ll~~~~~pvlvv~~~~~ 159 (161)
+......| |.-+.|++..+. +. +++|++..-..+++. =-..++|-+.+.+||++|-.+.+
T Consensus 39 ~~~itvdG~DaT~~i~~m~~~~~r~~i~~v~LdGit~agFN----iiD~~~l~~~tg~PVI~V~~~~p 102 (187)
T PF01949_consen 39 FGRITVDGMDATEAIIEMVKRLFRPDIRVVMLDGITFAGFN----IIDIERLYEETGLPVIVVMRKEP 102 (187)
T ss_dssp EEEE-TT-S-HHHHHHHHHCCTTTTTEEEEEESSSEETTTE----E--HHHHHHHH---EEEEESS--
T ss_pred EEEEEECCchHHHHHHHHHHhcccCcceEEEECCEeEEeeE----EecHHHHHHHHCCCEEEEEEeCC
Confidence 33444456 677888888763 32 455565543333332 12346677788999998865543
Done!