Query 032042
Match_columns 148
No_of_seqs 125 out of 1034
Neff 10.4
Searched_HMMs 46136
Date Fri Mar 29 08:49:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032042.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032042hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15456 universal stress prot 99.9 2.7E-25 5.9E-30 142.0 10.5 128 4-147 2-131 (142)
2 cd01989 STK_N The N-terminal d 99.9 1.6E-24 3.4E-29 139.0 10.7 129 6-147 1-131 (146)
3 PRK15005 universal stress prot 99.9 4.5E-24 9.7E-29 136.6 10.3 130 4-147 2-133 (144)
4 PRK09982 universal stress prot 99.9 3.1E-24 6.6E-29 137.2 7.3 127 2-147 1-127 (142)
5 PRK15118 universal stress glob 99.9 1E-22 2.2E-27 130.4 7.6 126 2-147 1-127 (144)
6 cd01988 Na_H_Antiporter_C The 99.9 3E-21 6.6E-26 121.5 10.4 120 6-147 1-121 (132)
7 PRK11175 universal stress prot 99.9 7.9E-22 1.7E-26 140.4 8.6 133 2-147 1-134 (305)
8 PF00582 Usp: Universal stress 99.9 1.2E-21 2.7E-26 123.6 7.1 129 3-147 1-129 (140)
9 PRK10116 universal stress prot 99.9 2.5E-21 5.4E-26 123.6 8.2 126 2-147 1-127 (142)
10 cd01987 USP_OKCHK USP domain i 99.9 4E-21 8.6E-26 120.0 8.2 112 6-147 1-112 (124)
11 cd00293 USP_Like Usp: Universa 99.8 2.1E-18 4.6E-23 107.6 10.2 120 6-147 1-120 (130)
12 PRK11175 universal stress prot 99.8 7E-19 1.5E-23 125.3 8.2 129 3-147 151-288 (305)
13 PRK12652 putative monovalent c 99.8 2.4E-18 5.3E-23 123.8 10.9 105 1-129 2-122 (357)
14 COG0589 UspA Universal stress 99.7 7.3E-17 1.6E-21 103.7 11.6 135 2-147 3-140 (154)
15 PRK10490 sensor protein KdpD; 99.3 1.9E-11 4.2E-16 98.1 10.3 112 4-147 250-361 (895)
16 COG2205 KdpD Osmosensitive K+ 99.2 1.1E-10 2.3E-15 90.5 8.1 113 5-147 249-361 (890)
17 cd01984 AANH_like Adenine nucl 98.0 2.6E-05 5.6E-10 45.3 6.1 74 7-146 1-75 (86)
18 TIGR02432 lysidine_TilS_N tRNA 97.5 0.0029 6.4E-08 42.1 10.0 94 6-132 1-111 (189)
19 PLN03159 cation/H(+) antiporte 97.3 0.0066 1.4E-07 49.4 11.2 40 5-44 631-670 (832)
20 PF01171 ATP_bind_3: PP-loop f 97.3 0.018 3.8E-07 38.2 11.6 94 6-132 1-108 (182)
21 cd01992 PP-ATPase N-terminal d 97.0 0.021 4.5E-07 37.8 10.2 95 6-133 1-109 (185)
22 PRK03359 putative electron tra 96.9 0.0057 1.2E-07 42.9 6.7 87 13-133 34-125 (256)
23 PRK12342 hypothetical protein; 96.8 0.0061 1.3E-07 42.7 6.2 86 13-133 33-122 (254)
24 cd01993 Alpha_ANH_like_II This 96.2 0.17 3.7E-06 33.3 10.1 94 6-132 1-118 (185)
25 COG0037 MesJ tRNA(Ile)-lysidin 95.9 0.11 2.3E-06 37.1 8.9 94 5-133 22-133 (298)
26 COG2086 FixA Electron transfer 95.8 0.061 1.3E-06 37.8 6.9 84 13-132 35-123 (260)
27 PLN03159 cation/H(+) antiporte 95.8 0.22 4.8E-06 40.9 10.8 116 5-132 459-582 (832)
28 PF01012 ETF: Electron transfe 95.2 0.49 1.1E-05 30.7 9.9 88 6-131 1-101 (164)
29 PRK05253 sulfate adenylyltrans 95.0 0.51 1.1E-05 34.1 9.6 95 3-132 26-139 (301)
30 PRK10696 tRNA 2-thiocytidine b 94.9 0.86 1.9E-05 32.0 10.8 93 4-132 29-143 (258)
31 PRK13820 argininosuccinate syn 93.7 2.2 4.8E-05 32.1 11.0 36 4-42 2-38 (394)
32 TIGR00591 phr2 photolyase PhrI 93.6 0.27 5.9E-06 37.5 6.1 90 12-128 32-121 (454)
33 PF00448 SRP54: SRP54-type pro 93.6 1.5 3.2E-05 29.6 9.3 91 7-135 5-98 (196)
34 COG0299 PurN Folate-dependent 93.5 1.5 3.3E-05 29.5 9.4 83 5-129 1-88 (200)
35 PRK06027 purU formyltetrahydro 93.3 1.7 3.7E-05 31.2 9.4 43 89-131 130-176 (286)
36 TIGR00268 conserved hypothetic 92.9 2.3 5E-05 29.8 9.9 36 3-42 11-46 (252)
37 TIGR02039 CysD sulfate adenyly 92.9 2.6 5.7E-05 30.4 9.9 93 4-131 19-130 (294)
38 PRK13010 purU formyltetrahydro 92.7 1.9 4.1E-05 31.0 8.8 42 89-130 134-179 (289)
39 PRK12563 sulfate adenylyltrans 91.4 3.8 8.2E-05 29.9 9.1 39 4-42 37-75 (312)
40 TIGR00655 PurU formyltetrahydr 91.4 3.4 7.5E-05 29.6 8.9 40 91-130 127-170 (280)
41 PRK10660 tilS tRNA(Ile)-lysidi 90.8 5.8 0.00013 30.3 10.1 41 3-43 14-55 (436)
42 cd01985 ETF The electron trans 90.6 3.3 7.3E-05 27.3 7.9 24 109-132 80-103 (181)
43 cd01713 PAPS_reductase This do 90.4 3.2 7E-05 26.5 9.9 36 6-42 1-36 (173)
44 PRK13011 formyltetrahydrofolat 90.1 5.4 0.00012 28.7 9.0 40 91-130 132-175 (286)
45 PLN00200 argininosuccinate syn 89.6 7.4 0.00016 29.5 11.6 37 4-43 5-41 (404)
46 PRK10867 signal recognition pa 89.5 4.6 9.9E-05 30.9 8.6 88 12-136 109-199 (433)
47 TIGR01162 purE phosphoribosyla 89.3 1.2 2.6E-05 28.9 4.7 62 83-144 12-77 (156)
48 PLN02331 phosphoribosylglycina 88.8 5.7 0.00012 27.1 9.7 42 89-130 42-88 (207)
49 cd01990 Alpha_ANH_like_I This 88.7 5.5 0.00012 26.7 9.7 88 7-132 1-107 (202)
50 COG0541 Ffh Signal recognition 88.2 5.8 0.00013 30.3 8.2 93 7-137 104-199 (451)
51 TIGR00959 ffh signal recogniti 87.3 8 0.00017 29.5 8.7 90 9-135 105-197 (428)
52 PF00875 DNA_photolyase: DNA p 87.3 1.3 2.8E-05 28.8 4.0 85 16-128 12-96 (165)
53 PF02844 GARS_N: Phosphoribosy 86.8 0.58 1.3E-05 28.0 2.0 24 107-130 49-72 (100)
54 cd01714 ETF_beta The electron 86.6 7.8 0.00017 26.2 8.3 32 9-40 29-60 (202)
55 PF00731 AIRC: AIR carboxylase 86.6 2.3 4.9E-05 27.5 4.7 62 82-143 13-78 (150)
56 cd03364 TOPRIM_DnaG_primases T 85.7 3.2 7E-05 23.3 4.7 34 4-37 43-76 (79)
57 TIGR02765 crypto_DASH cryptoch 85.5 4.4 9.6E-05 30.7 6.6 94 12-127 10-103 (429)
58 TIGR03556 photolyase_8HDF deox 85.1 3.7 8E-05 31.6 6.1 86 15-128 13-98 (471)
59 COG0036 Rpe Pentose-5-phosphat 84.9 3.9 8.5E-05 28.1 5.4 64 81-146 94-157 (220)
60 KOG1650 Predicted K+/H+-antipo 84.8 5.2 0.00011 32.9 7.0 41 5-45 615-655 (769)
61 COG1058 CinA Predicted nucleot 84.7 5.7 0.00012 28.0 6.3 53 82-136 20-75 (255)
62 COG1606 ATP-utilizing enzymes 84.3 12 0.00027 26.5 9.4 91 3-131 16-124 (269)
63 PF13662 Toprim_4: Toprim doma 83.6 2.3 4.9E-05 24.1 3.5 34 4-37 46-79 (81)
64 PF12683 DUF3798: Protein of u 83.6 6.9 0.00015 27.8 6.3 92 6-130 4-96 (275)
65 TIGR00032 argG argininosuccina 83.4 17 0.00038 27.4 10.2 33 6-42 1-33 (394)
66 COG1597 LCB5 Sphingosine kinas 83.0 3.9 8.4E-05 29.6 5.2 55 81-136 18-73 (301)
67 cd02067 B12-binding B12 bindin 82.9 5.6 0.00012 24.2 5.3 43 86-129 17-59 (119)
68 PF07279 DUF1442: Protein of u 82.6 12 0.00027 25.7 7.0 20 111-130 131-150 (218)
69 cd01995 ExsB ExsB is a transcr 81.4 12 0.00026 24.2 9.9 33 6-42 1-33 (169)
70 COG0041 PurE Phosphoribosylcar 80.6 7 0.00015 25.4 5.0 54 83-136 16-73 (162)
71 TIGR01425 SRP54_euk signal rec 80.6 20 0.00044 27.4 8.3 49 88-136 147-198 (429)
72 PLN02828 formyltetrahydrofolat 79.6 20 0.00043 25.6 10.1 87 3-130 69-157 (268)
73 PF13167 GTP-bdg_N: GTP-bindin 78.4 12 0.00025 22.2 6.0 48 81-128 6-65 (95)
74 PLN02285 methionyl-tRNA formyl 78.3 25 0.00053 26.0 8.9 43 88-130 60-103 (334)
75 cd02071 MM_CoA_mut_B12_BD meth 77.9 9.5 0.00021 23.4 5.1 45 85-130 16-60 (122)
76 TIGR01501 MthylAspMutase methy 77.7 11 0.00023 23.9 5.2 43 87-130 20-62 (134)
77 PRK09590 celB cellobiose phosp 77.3 10 0.00022 22.9 4.8 45 84-131 17-61 (104)
78 PRK06029 3-octaprenyl-4-hydrox 76.8 6.9 0.00015 26.2 4.4 37 5-41 2-38 (185)
79 TIGR00646 MG010 DNA primase-re 76.7 8.9 0.00019 26.4 5.0 36 4-39 154-189 (218)
80 cd01986 Alpha_ANH_like Adenine 76.3 13 0.00029 21.9 7.7 33 7-43 1-33 (103)
81 PRK05920 aromatic acid decarbo 76.2 8 0.00017 26.4 4.7 35 5-40 4-38 (204)
82 PRK08305 spoVFB dipicolinate s 75.9 9.5 0.00021 25.8 4.9 38 2-40 3-41 (196)
83 TIGR02855 spore_yabG sporulati 75.8 15 0.00032 26.3 5.9 48 82-129 114-162 (283)
84 PF02441 Flavoprotein: Flavopr 75.6 6.8 0.00015 24.3 4.0 35 5-40 1-35 (129)
85 PRK08745 ribulose-phosphate 3- 75.5 11 0.00024 26.0 5.3 44 86-130 159-202 (223)
86 cd05565 PTS_IIB_lactose PTS_II 75.5 12 0.00025 22.4 4.7 45 83-132 15-59 (99)
87 PRK08576 hypothetical protein; 74.8 37 0.00079 26.2 9.0 32 6-41 236-267 (438)
88 PF05582 Peptidase_U57: YabG p 74.6 16 0.00035 26.2 5.9 48 82-129 115-163 (287)
89 cd02072 Glm_B12_BD B12 binding 74.5 15 0.00032 23.1 5.2 41 88-129 19-59 (128)
90 TIGR02069 cyanophycinase cyano 74.5 19 0.0004 25.4 6.3 31 8-38 1-34 (250)
91 cd01029 TOPRIM_primases TOPRIM 74.5 12 0.00027 20.7 4.7 33 5-37 44-76 (79)
92 PHA02031 putative DnaG-like pr 74.3 7.3 0.00016 27.7 4.2 36 5-40 207-242 (266)
93 TIGR00930 2a30 K-Cl cotranspor 73.8 48 0.001 28.3 9.3 95 6-130 577-677 (953)
94 PRK02261 methylaspartate mutas 73.7 13 0.00029 23.5 5.0 44 86-130 21-64 (137)
95 PRK10674 deoxyribodipyrimidine 73.7 24 0.00052 27.3 7.2 91 12-127 11-103 (472)
96 KOG0780 Signal recognition par 73.5 32 0.0007 26.2 7.4 52 83-134 143-197 (483)
97 PRK08091 ribulose-phosphate 3- 73.2 14 0.00029 25.7 5.3 43 86-129 167-209 (228)
98 cd02070 corrinoid_protein_B12- 73.1 13 0.00029 25.0 5.2 44 86-130 100-143 (201)
99 PRK11070 ssDNA exonuclease Rec 72.8 47 0.001 26.6 9.3 93 4-130 69-161 (575)
100 TIGR00640 acid_CoA_mut_C methy 72.1 13 0.00029 23.3 4.7 45 85-130 19-63 (132)
101 PRK08745 ribulose-phosphate 3- 72.0 17 0.00036 25.2 5.5 58 85-144 99-156 (223)
102 PRK14057 epimerase; Provisiona 71.5 15 0.00032 26.0 5.2 44 86-130 181-224 (254)
103 PF02310 B12-binding: B12 bind 71.3 20 0.00043 21.6 6.0 43 85-128 17-59 (121)
104 COG1066 Sms Predicted ATP-depe 70.6 46 0.001 25.6 8.7 72 16-130 106-178 (456)
105 COG0036 Rpe Pentose-5-phosphat 70.4 22 0.00047 24.6 5.6 42 86-129 158-199 (220)
106 PRK05234 mgsA methylglyoxal sy 70.4 25 0.00055 22.4 7.7 37 92-128 45-83 (142)
107 TIGR00177 molyb_syn molybdenum 70.3 18 0.00038 23.0 5.1 45 83-127 27-73 (144)
108 PRK07313 phosphopantothenoylcy 69.9 14 0.0003 24.6 4.7 35 5-40 2-36 (182)
109 PRK04527 argininosuccinate syn 69.7 47 0.001 25.3 10.8 35 5-43 3-37 (400)
110 PRK08005 epimerase; Validated 69.5 22 0.00047 24.4 5.6 58 85-144 95-152 (210)
111 PRK12569 hypothetical protein; 69.2 36 0.00078 24.0 6.6 103 10-130 38-150 (245)
112 PRK03670 competence damage-ind 69.1 26 0.00057 24.7 6.1 51 82-133 19-72 (252)
113 cd03145 GAT1_cyanophycinase Ty 69.0 34 0.00074 23.4 7.2 29 9-37 3-34 (217)
114 PF13362 Toprim_3: Toprim doma 68.9 17 0.00037 21.1 4.5 38 3-40 40-79 (96)
115 PRK09722 allulose-6-phosphate 68.7 21 0.00046 24.8 5.4 43 86-129 157-199 (229)
116 PRK11914 diacylglycerol kinase 68.5 13 0.00028 26.8 4.6 54 83-137 26-80 (306)
117 PLN02948 phosphoribosylaminoim 67.7 16 0.00034 29.1 5.2 64 82-145 423-490 (577)
118 COG0669 CoaD Phosphopantethein 67.6 32 0.00068 22.5 8.0 23 111-133 73-95 (159)
119 PF02601 Exonuc_VII_L: Exonucl 67.1 22 0.00047 25.8 5.6 48 85-132 28-87 (319)
120 TIGR00696 wecB_tagA_cpsF bacte 66.8 33 0.00072 22.8 5.9 47 82-130 58-110 (177)
121 COG0794 GutQ Predicted sugar p 66.6 13 0.00029 25.3 4.0 45 1-46 83-127 (202)
122 PF00834 Ribul_P_3_epim: Ribul 66.6 7.8 0.00017 26.3 3.0 45 83-128 151-195 (201)
123 cd01994 Alpha_ANH_like_IV This 66.1 38 0.00082 22.8 9.6 91 6-130 1-98 (194)
124 TIGR00639 PurN phosphoribosylg 65.9 38 0.00082 22.8 9.9 42 89-130 43-89 (190)
125 PRK14665 mnmA tRNA-specific 2- 65.8 54 0.0012 24.5 10.8 35 4-42 5-39 (360)
126 PF02878 PGM_PMM_I: Phosphoglu 65.7 11 0.00024 23.6 3.4 40 4-43 40-79 (137)
127 smart00852 MoCF_biosynth Proba 65.3 31 0.00066 21.5 6.0 44 83-126 18-63 (135)
128 PRK05579 bifunctional phosphop 64.4 19 0.00041 27.3 4.9 39 1-40 3-41 (399)
129 PRK05406 LamB/YcsF family prot 64.3 48 0.001 23.4 6.6 104 9-130 34-147 (246)
130 PRK11889 flhF flagellar biosyn 64.1 65 0.0014 24.8 7.7 47 87-133 287-333 (436)
131 PRK08883 ribulose-phosphate 3- 63.9 32 0.00069 23.7 5.6 45 84-129 153-197 (220)
132 PF00994 MoCF_biosynth: Probab 63.4 35 0.00075 21.5 5.7 45 82-126 16-62 (144)
133 PRK08091 ribulose-phosphate 3- 63.4 35 0.00077 23.7 5.7 56 85-142 105-162 (228)
134 TIGR02113 coaC_strep phosphopa 63.0 22 0.00047 23.6 4.5 35 5-40 1-35 (177)
135 cd08170 GlyDH Glycerol dehydro 62.9 29 0.00062 25.6 5.6 43 84-126 37-83 (351)
136 COG0284 PyrF Orotidine-5'-phos 62.7 34 0.00074 24.0 5.6 34 5-43 12-45 (240)
137 PF03575 Peptidase_S51: Peptid 62.5 28 0.0006 22.3 4.9 43 85-129 2-44 (154)
138 TIGR00273 iron-sulfur cluster- 62.4 15 0.00032 28.2 4.1 56 72-127 40-95 (432)
139 cd00886 MogA_MoaB MogA_MoaB fa 62.3 39 0.00084 21.6 5.9 44 84-127 21-68 (152)
140 PRK09875 putative hydrolase; P 62.2 25 0.00055 25.4 5.0 49 82-130 138-188 (292)
141 PF03746 LamB_YcsF: LamB/YcsF 62.1 53 0.0012 23.1 9.7 111 2-130 25-145 (242)
142 smart00493 TOPRIM topoisomeras 61.9 17 0.00037 19.9 3.4 26 5-30 48-73 (76)
143 PRK05647 purN phosphoribosylgl 61.8 47 0.001 22.5 9.5 42 88-129 43-89 (200)
144 PF01261 AP_endonuc_2: Xylose 61.8 14 0.00031 24.3 3.6 80 18-122 70-157 (213)
145 TIGR02852 spore_dpaB dipicolin 61.3 23 0.00049 23.8 4.4 35 5-40 1-36 (187)
146 PRK00509 argininosuccinate syn 61.1 72 0.0016 24.3 11.4 36 5-43 3-38 (399)
147 cd01424 MGS_CPS_II Methylglyox 61.1 30 0.00066 20.6 4.6 42 89-130 36-77 (110)
148 PRK06988 putative formyltransf 61.0 62 0.0013 23.6 8.5 40 88-130 47-87 (312)
149 cd00885 cinA Competence-damage 60.7 45 0.00098 21.9 6.6 49 83-132 19-69 (170)
150 TIGR02370 pyl_corrinoid methyl 60.6 31 0.00068 23.2 5.0 44 86-130 102-145 (197)
151 cd06533 Glyco_transf_WecG_TagA 60.6 28 0.00061 22.8 4.7 50 82-131 56-110 (171)
152 cd01996 Alpha_ANH_like_III Thi 60.6 40 0.00087 21.3 9.3 34 6-42 3-36 (154)
153 cd06361 PBP1_GPC6A_like Ligand 60.4 71 0.0015 24.1 10.6 45 88-132 226-270 (403)
154 PRK00074 guaA GMP synthase; Re 60.2 83 0.0018 24.8 9.8 36 5-43 216-251 (511)
155 PF01596 Methyltransf_3: O-met 59.9 18 0.00039 24.6 3.8 50 82-131 80-132 (205)
156 PF01751 Toprim: Toprim domain 59.5 20 0.00043 21.0 3.5 30 3-32 59-88 (100)
157 cd01997 GMP_synthase_C The C-t 59.5 65 0.0014 23.4 10.7 35 6-43 1-35 (295)
158 TIGR02667 moaB_proteo molybden 59.3 47 0.001 21.6 5.6 44 83-126 22-69 (163)
159 PRK09722 allulose-6-phosphate 58.6 37 0.00081 23.6 5.2 56 85-142 97-152 (229)
160 PRK13337 putative lipid kinase 58.5 32 0.00069 24.8 5.1 53 85-138 21-74 (304)
161 PF03808 Glyco_tran_WecB: Glyc 58.5 50 0.0011 21.7 7.9 50 82-131 58-112 (172)
162 PRK08883 ribulose-phosphate 3- 58.4 49 0.0011 22.8 5.7 53 85-139 95-147 (220)
163 cd05569 PTS_IIB_fructose PTS_I 57.5 30 0.00064 20.3 4.0 46 85-132 18-65 (96)
164 TIGR03573 WbuX N-acetyl sugar 57.5 76 0.0016 23.5 8.9 34 6-42 61-94 (343)
165 cd08550 GlyDH-like Glycerol_de 57.4 40 0.00087 24.8 5.5 43 85-127 38-85 (349)
166 COG0788 PurU Formyltetrahydrof 57.0 71 0.0015 23.0 8.1 43 87-129 129-175 (287)
167 PRK00919 GMP synthase subunit 56.6 76 0.0016 23.2 10.3 36 5-43 22-57 (307)
168 PLN02476 O-methyltransferase 56.6 38 0.00083 24.3 5.1 52 80-131 151-205 (278)
169 TIGR00884 guaA_Cterm GMP synth 56.3 77 0.0017 23.2 10.5 36 5-43 17-52 (311)
170 PRK13055 putative lipid kinase 56.2 34 0.00074 25.1 5.0 55 83-138 20-76 (334)
171 PRK03673 hypothetical protein; 56.2 67 0.0014 24.4 6.5 51 82-133 20-72 (396)
172 PF03652 UPF0081: Uncharacteri 56.2 15 0.00034 23.1 2.8 25 106-130 37-61 (135)
173 cd00532 MGS-like MGS-like doma 56.2 31 0.00067 20.8 4.1 42 90-131 36-79 (112)
174 PF03358 FMN_red: NADPH-depend 56.1 48 0.001 20.8 5.4 49 82-132 17-82 (152)
175 TIGR02766 crypt_chrom_pln cryp 56.0 68 0.0015 24.8 6.7 47 82-129 50-96 (475)
176 cd05014 SIS_Kpsf KpsF-like pro 55.9 29 0.00064 21.0 4.1 41 4-45 47-87 (128)
177 cd05008 SIS_GlmS_GlmD_1 SIS (S 55.9 27 0.00059 21.1 3.9 42 3-45 45-86 (126)
178 PRK14974 cell division protein 55.8 82 0.0018 23.4 8.0 48 86-133 185-235 (336)
179 PRK08392 hypothetical protein; 55.7 50 0.0011 22.5 5.4 50 83-133 137-186 (215)
180 cd00758 MoCF_BD MoCF_BD: molyb 55.4 48 0.0011 20.6 5.5 44 83-126 19-64 (133)
181 cd06375 PBP1_mGluR_groupII Lig 55.3 94 0.002 23.9 10.9 25 107-131 243-267 (458)
182 smart00851 MGS MGS-like domain 54.7 20 0.00043 20.6 2.9 41 89-129 23-64 (90)
183 cd05564 PTS_IIB_chitobiose_lic 54.6 42 0.00092 19.7 4.6 44 84-132 15-58 (96)
184 cd01712 ThiI ThiI is required 54.4 58 0.0013 21.2 10.2 35 6-44 1-35 (177)
185 TIGR03127 RuMP_HxlB 6-phospho 54.1 29 0.00062 22.7 4.0 42 3-45 71-112 (179)
186 cd04795 SIS SIS domain. SIS (S 53.9 30 0.00066 19.2 3.7 36 3-39 46-81 (87)
187 TIGR00147 lipid kinase, YegS/R 53.8 42 0.00091 23.9 5.0 53 83-136 19-72 (293)
188 PF10087 DUF2325: Uncharacteri 53.7 43 0.00094 19.5 4.4 45 83-129 10-57 (97)
189 cd02069 methionine_synthase_B1 53.7 48 0.001 22.7 5.1 44 86-130 106-149 (213)
190 PRK00143 mnmA tRNA-specific 2- 53.5 90 0.002 23.1 10.7 34 5-42 1-34 (346)
191 COG0552 FtsY Signal recognitio 53.1 45 0.00098 24.7 5.0 53 83-135 181-236 (340)
192 PRK14057 epimerase; Provisiona 53.0 59 0.0013 23.1 5.5 58 85-144 112-178 (254)
193 COG0151 PurD Phosphoribosylami 52.5 14 0.0003 28.2 2.4 24 107-130 50-73 (428)
194 PRK10310 PTS system galactitol 52.4 41 0.00088 19.7 4.0 43 85-132 20-62 (94)
195 PF00834 Ribul_P_3_epim: Ribul 52.3 21 0.00046 24.2 3.2 57 85-143 94-150 (201)
196 PF02142 MGS: MGS-like domain 52.2 36 0.00078 19.8 3.8 43 88-130 22-70 (95)
197 PRK13054 lipid kinase; Reviewe 52.0 45 0.00098 23.9 5.0 52 86-138 21-73 (300)
198 PRK05568 flavodoxin; Provision 51.9 56 0.0012 20.3 5.4 44 82-131 16-59 (142)
199 TIGR03702 lip_kinase_YegS lipi 51.5 46 0.001 23.8 5.0 51 87-138 18-69 (293)
200 PRK14561 hypothetical protein; 51.3 72 0.0016 21.4 10.0 32 5-41 1-32 (194)
201 COG1737 RpiR Transcriptional r 51.2 24 0.00053 25.2 3.5 42 3-45 176-217 (281)
202 COG2185 Sbm Methylmalonyl-CoA 51.0 64 0.0014 20.7 4.9 44 86-130 30-73 (143)
203 PRK05703 flhF flagellar biosyn 50.9 1.1E+02 0.0024 23.4 7.5 25 16-40 234-259 (424)
204 PRK00109 Holliday junction res 50.8 21 0.00045 22.7 2.8 23 108-130 42-64 (138)
205 cd05006 SIS_GmhA Phosphoheptos 50.7 33 0.00072 22.4 3.8 42 3-45 100-141 (177)
206 PRK12726 flagellar biosynthesi 50.6 1.1E+02 0.0024 23.4 7.9 44 87-133 252-298 (407)
207 PLN02781 Probable caffeoyl-CoA 50.5 62 0.0013 22.4 5.3 50 80-129 101-153 (234)
208 PRK10481 hypothetical protein; 50.4 84 0.0018 21.9 6.2 39 94-132 151-194 (224)
209 cd05710 SIS_1 A subgroup of th 49.8 42 0.00091 20.4 4.0 41 4-45 47-87 (120)
210 COG3969 Predicted phosphoadeno 49.5 36 0.00077 25.4 4.0 41 3-43 26-67 (407)
211 COG0655 WrbA Multimeric flavod 49.4 79 0.0017 21.3 7.4 31 14-44 13-43 (207)
212 PF01380 SIS: SIS domain SIS d 49.3 41 0.00088 20.3 3.9 41 3-44 52-92 (131)
213 KOG3111 D-ribulose-5-phosphate 49.3 62 0.0013 22.1 4.8 53 85-139 101-153 (224)
214 TIGR02088 LEU3_arch isopropylm 49.1 63 0.0014 23.8 5.3 28 14-41 140-167 (322)
215 PRK00771 signal recognition pa 49.1 1.2E+02 0.0027 23.4 8.1 28 12-40 104-131 (437)
216 PLN02589 caffeoyl-CoA O-methyl 48.9 64 0.0014 22.7 5.2 50 82-131 114-167 (247)
217 TIGR00200 cinA_nterm competenc 48.3 62 0.0013 24.8 5.3 51 83-134 20-72 (413)
218 TIGR00342 thiazole biosynthesi 48.1 1.2E+02 0.0025 22.8 10.6 35 4-42 172-206 (371)
219 TIGR00441 gmhA phosphoheptose 47.7 41 0.00089 21.5 3.9 42 3-45 78-119 (154)
220 cd01422 MGS Methylglyoxal synt 47.6 57 0.0012 19.8 4.3 38 91-129 39-79 (115)
221 COG1831 Predicted metal-depend 47.4 71 0.0015 23.0 5.1 46 81-126 143-192 (285)
222 COG2242 CobL Precorrin-6B meth 47.3 26 0.00057 23.6 2.9 51 75-129 61-111 (187)
223 PF07476 MAAL_C: Methylasparta 46.9 78 0.0017 22.2 5.1 52 83-134 123-175 (248)
224 PF13155 Toprim_2: Toprim-like 46.5 56 0.0012 18.7 4.2 29 4-32 47-75 (96)
225 TIGR02151 IPP_isom_2 isopenten 46.0 99 0.0021 22.8 6.0 48 83-130 166-213 (333)
226 PRK05437 isopentenyl pyrophosp 45.9 78 0.0017 23.6 5.5 48 83-130 173-220 (352)
227 PF01645 Glu_synthase: Conserv 45.8 1.1E+02 0.0024 23.0 6.2 32 96-127 203-234 (368)
228 PRK09271 flavodoxin; Provision 45.7 32 0.00069 22.2 3.1 46 82-130 15-61 (160)
229 TIGR01753 flav_short flavodoxi 45.7 70 0.0015 19.6 5.1 44 82-131 13-56 (140)
230 PF08915 tRNA-Thr_ED: Archaea- 45.6 68 0.0015 20.5 4.4 58 17-101 56-113 (138)
231 PRK11921 metallo-beta-lactamas 45.6 1.3E+02 0.0028 22.7 8.9 49 82-132 262-312 (394)
232 PF00072 Response_reg: Respons 45.4 59 0.0013 18.7 5.4 46 83-132 9-55 (112)
233 PF14639 YqgF: Holliday-juncti 45.3 25 0.00054 22.7 2.5 22 109-130 52-73 (150)
234 KOG2310 DNA repair exonuclease 45.2 20 0.00043 28.4 2.3 22 108-129 40-61 (646)
235 PRK10799 metal-binding protein 44.8 36 0.00077 23.9 3.4 27 100-126 36-62 (247)
236 PRK01215 competence damage-ind 44.4 1.1E+02 0.0025 21.7 6.1 50 83-133 23-74 (264)
237 PRK05569 flavodoxin; Provision 44.3 76 0.0017 19.7 5.8 44 82-131 16-59 (141)
238 cd00861 ProRS_anticodon_short 44.0 60 0.0013 18.4 4.6 43 86-129 21-64 (94)
239 COG2179 Predicted hydrolase of 43.8 29 0.00064 23.0 2.6 103 3-126 34-137 (175)
240 PRK00286 xseA exodeoxyribonucl 43.7 97 0.0021 23.7 5.8 28 105-132 173-204 (438)
241 PRK06096 molybdenum transport 43.4 1.2E+02 0.0027 21.9 6.0 37 98-135 236-272 (284)
242 COG0415 PhrB Deoxyribodipyrimi 43.3 1.3E+02 0.0027 23.6 6.3 46 82-129 54-99 (461)
243 PF07355 GRDB: Glycine/sarcosi 43.3 81 0.0018 23.6 5.1 23 108-130 68-90 (349)
244 PF01729 QRPTase_C: Quinolinat 43.2 57 0.0012 21.5 4.0 44 85-129 114-157 (169)
245 TIGR00064 ftsY signal recognit 43.2 1.2E+02 0.0026 21.6 9.4 48 87-134 118-168 (272)
246 TIGR01755 flav_wrbA NAD(P)H:qu 43.1 1E+02 0.0022 20.7 6.0 51 82-132 15-80 (197)
247 PF02302 PTS_IIB: PTS system, 43.1 62 0.0013 18.2 5.0 41 86-131 18-58 (90)
248 PRK10886 DnaA initiator-associ 42.8 53 0.0012 22.2 3.9 42 3-45 108-149 (196)
249 TIGR00521 coaBC_dfp phosphopan 42.8 61 0.0013 24.6 4.5 36 4-40 3-38 (390)
250 cd01974 Nitrogenase_MoFe_beta 42.7 1.5E+02 0.0033 22.7 7.8 25 106-130 363-387 (435)
251 COG5012 Predicted cobalamin bi 42.5 70 0.0015 22.3 4.4 40 88-128 124-163 (227)
252 PF01784 NIF3: NIF3 (NGG1p int 41.9 41 0.00088 23.4 3.4 29 98-126 31-59 (241)
253 COG4122 Predicted O-methyltran 41.7 98 0.0021 21.5 5.1 49 80-129 92-141 (219)
254 PRK13936 phosphoheptose isomer 41.7 54 0.0012 22.0 3.8 41 3-44 110-150 (197)
255 COG4635 HemG Flavodoxin [Energ 41.5 57 0.0012 21.6 3.6 46 81-132 14-59 (175)
256 PRK06731 flhF flagellar biosyn 41.3 72 0.0016 22.8 4.5 49 86-134 120-168 (270)
257 cd08183 Fe-ADH2 Iron-containin 41.3 91 0.002 23.3 5.3 42 85-126 36-81 (374)
258 TIGR01391 dnaG DNA primase, ca 41.1 74 0.0016 24.3 4.8 34 5-38 301-334 (415)
259 PRK08417 dihydroorotase; Provi 41.1 74 0.0016 23.8 4.8 28 16-43 179-206 (386)
260 COG1139 Uncharacterized conser 41.0 58 0.0013 25.1 4.1 57 73-129 55-111 (459)
261 PRK13059 putative lipid kinase 41.0 71 0.0015 22.9 4.6 51 85-137 21-72 (295)
262 PRK05395 3-dehydroquinate dehy 40.9 77 0.0017 20.5 4.1 47 82-130 29-77 (146)
263 COG1922 WecG Teichoic acid bio 40.8 1.3E+02 0.0028 21.4 5.6 21 110-130 151-171 (253)
264 COG1092 Predicted SAM-dependen 40.8 88 0.0019 23.8 5.1 54 80-133 248-303 (393)
265 TIGR00421 ubiX_pad polyprenyl 40.6 61 0.0013 21.6 3.9 35 6-41 1-35 (181)
266 PRK02261 methylaspartate mutas 40.5 94 0.002 19.6 6.4 41 2-42 1-41 (137)
267 PRK15454 ethanol dehydrogenase 40.4 78 0.0017 23.9 4.9 42 85-126 66-112 (395)
268 cd05005 SIS_PHI Hexulose-6-pho 40.2 68 0.0015 21.0 4.1 42 3-45 74-115 (179)
269 PRK14664 tRNA-specific 2-thiou 40.0 1.6E+02 0.0035 22.1 11.0 34 4-41 5-38 (362)
270 PRK10624 L-1,2-propanediol oxi 39.9 83 0.0018 23.6 4.9 44 84-127 46-95 (382)
271 TIGR00420 trmU tRNA (5-methyla 39.7 1.6E+02 0.0034 22.0 10.2 34 5-42 1-34 (352)
272 PF12683 DUF3798: Protein of u 39.7 1.4E+02 0.0031 21.5 5.7 49 82-130 149-209 (275)
273 PRK05452 anaerobic nitric oxid 39.6 1.8E+02 0.004 22.7 8.8 50 81-132 265-316 (479)
274 KOG2697 Histidinol dehydrogena 39.6 1.1E+02 0.0024 22.5 5.2 40 4-43 244-284 (446)
275 PRK12723 flagellar biosynthesi 39.6 1.7E+02 0.0037 22.3 7.6 42 88-133 225-267 (388)
276 COG3414 SgaB Phosphotransferas 39.4 33 0.00073 20.2 2.2 47 83-134 17-63 (93)
277 cd01715 ETF_alpha The electron 39.3 1.1E+02 0.0023 19.9 8.7 24 109-132 72-95 (168)
278 COG3640 CooC CO dehydrogenase 39.1 93 0.002 22.1 4.6 35 4-38 156-191 (255)
279 cd00860 ThrRS_anticodon ThrRS 39.1 71 0.0015 17.8 5.1 42 87-129 19-61 (91)
280 TIGR00829 FRU PTS system, fruc 39.0 66 0.0014 18.5 3.4 43 86-130 18-62 (85)
281 PRK07178 pyruvate carboxylase 39.0 1.7E+02 0.0038 22.6 6.6 36 4-44 2-37 (472)
282 KOG4518 Hydroxypyruvate isomer 38.9 53 0.0012 22.6 3.3 50 93-143 26-76 (264)
283 TIGR00250 RNAse_H_YqgF RNAse H 38.9 42 0.00091 21.0 2.8 23 107-129 35-57 (130)
284 TIGR02826 RNR_activ_nrdG3 anae 38.6 1.1E+02 0.0023 19.7 4.6 44 83-129 75-118 (147)
285 PF00465 Fe-ADH: Iron-containi 38.6 1.4E+02 0.0031 22.1 5.9 43 84-126 37-84 (366)
286 cd06346 PBP1_ABC_ligand_bindin 38.6 1.4E+02 0.0031 21.2 10.1 17 111-127 183-199 (312)
287 PRK14467 ribosomal RNA large s 38.4 76 0.0017 23.6 4.4 26 83-108 305-330 (348)
288 cd00466 DHQase_II Dehydroquina 38.3 1.1E+02 0.0023 19.7 4.5 47 82-130 27-75 (140)
289 COG1927 Mtd Coenzyme F420-depe 38.2 1.3E+02 0.0028 21.0 5.0 44 89-132 24-72 (277)
290 PF04007 DUF354: Protein of un 38.2 88 0.0019 23.2 4.7 47 85-134 16-62 (335)
291 PF02568 ThiI: Thiamine biosyn 38.1 1.3E+02 0.0028 20.5 7.6 36 5-44 4-39 (197)
292 cd01025 TOPRIM_recR TOPRIM_rec 37.8 74 0.0016 19.5 3.6 34 3-36 56-89 (112)
293 TIGR01279 DPOR_bchN light-inde 37.8 1.8E+02 0.0039 22.1 7.4 36 101-136 324-359 (407)
294 cd05017 SIS_PGI_PMI_1 The memb 37.6 78 0.0017 19.1 3.8 37 3-40 42-78 (119)
295 cd01423 MGS_CPS_I_III Methylgl 37.6 92 0.002 18.7 4.1 39 90-128 37-79 (116)
296 PRK00549 competence damage-ind 37.6 1.8E+02 0.0038 22.3 6.3 50 83-133 20-71 (414)
297 PRK14025 multifunctional 3-iso 37.5 1.5E+02 0.0032 22.0 5.7 28 15-42 140-172 (330)
298 TIGR00486 YbgI_SA1388 dinuclea 37.4 52 0.0011 23.1 3.3 28 99-126 36-63 (249)
299 PRK08385 nicotinate-nucleotide 37.4 1.6E+02 0.0034 21.3 5.7 48 84-132 215-264 (278)
300 cd06295 PBP1_CelR Ligand bindi 37.2 1.4E+02 0.003 20.6 5.6 45 83-127 27-71 (275)
301 COG4126 Hydantoin racemase [Am 37.1 19 0.0004 25.0 1.0 27 110-136 164-190 (230)
302 COG0615 TagD Cytidylyltransfer 37.0 31 0.00067 22.1 1.9 30 102-131 68-97 (140)
303 COG0683 LivK ABC-type branched 36.8 1.7E+02 0.0038 21.6 9.7 50 83-132 163-215 (366)
304 PRK13398 3-deoxy-7-phosphohept 36.8 1.6E+02 0.0034 21.1 9.5 94 6-132 27-122 (266)
305 TIGR02699 archaeo_AfpA archaeo 36.7 82 0.0018 20.9 4.0 35 6-40 1-36 (174)
306 PF00551 Formyl_trans_N: Formy 36.6 1.3E+02 0.0027 19.9 7.7 21 109-129 68-88 (181)
307 COG0816 Predicted endonuclease 36.5 47 0.001 21.3 2.7 23 108-130 41-63 (141)
308 COG0426 FpaA Uncharacterized f 36.4 1.9E+02 0.0042 22.0 9.0 48 82-131 261-308 (388)
309 cd02811 IDI-2_FMN Isopentenyl- 36.3 1.7E+02 0.0037 21.5 6.0 48 83-130 165-212 (326)
310 CHL00073 chlN photochlorophyll 36.1 2.1E+02 0.0046 22.4 7.6 49 87-136 359-407 (457)
311 PF13433 Peripla_BP_5: Peripla 36.0 1.9E+02 0.0041 21.8 7.0 50 83-132 149-201 (363)
312 cd02173 ECT CTP:phosphoethanol 35.8 47 0.001 21.4 2.7 26 105-130 73-98 (152)
313 cd01999 Argininosuccinate_Synt 35.8 2E+02 0.0042 21.9 9.9 34 7-43 1-34 (385)
314 COG0761 lytB 4-Hydroxy-3-methy 35.7 24 0.00052 25.5 1.4 54 81-136 173-229 (294)
315 COG1570 XseA Exonuclease VII, 35.7 95 0.0021 24.0 4.6 28 105-132 173-205 (440)
316 PF03853 YjeF_N: YjeF-related 35.6 1.3E+02 0.0027 19.7 7.4 40 3-43 24-63 (169)
317 PF10672 Methyltrans_SAM: S-ad 35.6 71 0.0015 23.1 3.8 52 80-131 154-206 (286)
318 PLN02204 diacylglycerol kinase 35.5 96 0.0021 25.1 4.7 58 82-140 176-237 (601)
319 PF01220 DHquinase_II: Dehydro 35.4 73 0.0016 20.4 3.4 49 81-131 27-77 (140)
320 PRK13938 phosphoheptose isomer 35.4 86 0.0019 21.2 4.0 42 3-45 112-153 (196)
321 PRK10416 signal recognition pa 35.2 1.8E+02 0.0039 21.3 9.2 48 88-135 161-211 (318)
322 PF09043 Lys-AminoMut_A: D-Lys 35.1 82 0.0018 24.4 4.1 46 99-144 149-197 (509)
323 PRK11543 gutQ D-arabinose 5-ph 35.1 69 0.0015 23.1 3.8 43 3-46 88-130 (321)
324 PRK03692 putative UDP-N-acetyl 35.0 1.6E+02 0.0035 20.7 5.5 49 81-130 114-167 (243)
325 PRK07627 dihydroorotase; Provi 34.6 1.1E+02 0.0023 23.5 4.8 27 17-43 211-237 (425)
326 PRK15128 23S rRNA m(5)C1962 me 34.5 1.3E+02 0.0029 22.8 5.3 52 79-130 250-303 (396)
327 KOG3180 Electron transfer flav 34.4 1.6E+02 0.0034 20.3 6.1 25 107-131 101-125 (254)
328 PF01507 PAPS_reduct: Phosphoa 34.4 1.2E+02 0.0027 19.2 9.7 33 6-42 1-33 (174)
329 PF03129 HGTP_anticodon: Antic 34.3 92 0.002 17.6 5.0 47 83-130 16-63 (94)
330 cd01027 TOPRIM_RNase_M5_like T 34.1 93 0.002 17.6 4.4 27 4-30 45-71 (81)
331 TIGR00853 pts-lac PTS system, 34.0 1E+02 0.0022 18.1 4.7 38 4-41 3-40 (95)
332 PRK00994 F420-dependent methyl 33.8 1.1E+02 0.0024 21.7 4.2 43 89-131 24-71 (277)
333 PRK09261 phospho-2-dehydro-3-d 33.7 2.1E+02 0.0045 21.5 7.8 106 5-130 52-166 (349)
334 PF10609 ParA: ParA/MinD ATPas 33.6 97 0.0021 17.8 4.0 34 5-38 26-59 (81)
335 PF05198 IF3_N: Translation in 33.5 79 0.0017 17.8 3.1 30 109-138 30-59 (76)
336 TIGR01088 aroQ 3-dehydroquinat 33.5 1.2E+02 0.0026 19.5 4.1 47 82-130 27-75 (141)
337 PLN02958 diacylglycerol kinase 33.4 2.4E+02 0.0051 22.1 9.3 52 86-138 133-185 (481)
338 PRK13937 phosphoheptose isomer 33.2 90 0.002 20.7 3.9 41 4-45 106-146 (188)
339 cd05009 SIS_GlmS_GlmD_2 SIS (S 33.1 94 0.002 19.3 3.8 40 4-43 61-100 (153)
340 TIGR00336 pyrE orotate phospho 33.1 1.1E+02 0.0023 20.1 4.1 38 5-43 109-146 (173)
341 cd06334 PBP1_ABC_ligand_bindin 32.8 2E+02 0.0043 21.1 9.2 22 106-127 205-226 (351)
342 PF00464 SHMT: Serine hydroxym 32.7 55 0.0012 24.9 3.0 24 109-132 158-181 (399)
343 PRK02628 nadE NAD synthetase; 32.6 2.8E+02 0.0062 22.8 7.7 38 3-40 360-400 (679)
344 PLN02496 probable phosphopanto 32.5 1.4E+02 0.0029 20.6 4.6 37 4-42 19-55 (209)
345 cd02065 B12-binding_like B12 b 32.5 1.1E+02 0.0025 18.2 5.3 41 88-129 19-59 (125)
346 PF04244 DPRP: Deoxyribodipyri 32.3 1.5E+02 0.0034 20.5 4.9 53 82-134 48-105 (224)
347 COG0279 GmhA Phosphoheptose is 32.3 97 0.0021 20.6 3.7 40 4-44 109-148 (176)
348 PF12965 DUF3854: Domain of un 32.2 1.3E+02 0.0028 18.8 4.8 38 3-40 67-110 (130)
349 cd03522 MoeA_like MoeA_like. T 32.2 2.1E+02 0.0045 21.1 6.1 45 83-127 179-226 (312)
350 PF00070 Pyr_redox: Pyridine n 32.1 93 0.002 17.1 5.7 26 18-44 9-34 (80)
351 PRK07322 adenine phosphoribosy 32.1 1.1E+02 0.0023 20.3 4.0 38 5-43 121-159 (178)
352 TIGR01367 pyrE_Therm orotate p 32.0 1E+02 0.0022 20.7 3.9 37 4-41 105-141 (187)
353 PF00496 SBP_bac_5: Bacterial 32.0 1.5E+02 0.0033 21.6 5.2 49 82-132 308-356 (374)
354 PRK05265 pyridoxine 5'-phospha 31.8 1.8E+02 0.0039 20.6 5.1 46 82-130 112-157 (239)
355 PRK07896 nicotinate-nucleotide 31.8 2E+02 0.0042 21.0 5.5 35 97-132 245-279 (289)
356 PRK14557 pyrH uridylate kinase 31.7 81 0.0018 22.2 3.5 41 1-41 1-52 (247)
357 PRK06849 hypothetical protein; 31.6 2.2E+02 0.0048 21.2 6.1 38 1-42 1-38 (389)
358 COG1197 Mfd Transcription-repa 31.6 2.8E+02 0.0061 24.6 6.9 49 81-130 656-706 (1139)
359 PRK13982 bifunctional SbtC-lik 31.6 1.3E+02 0.0028 23.6 4.8 37 4-41 70-106 (475)
360 PLN02716 nicotinate-nucleotide 31.5 2E+02 0.0043 21.2 5.5 31 101-132 265-295 (308)
361 PRK14072 6-phosphofructokinase 31.4 1E+02 0.0023 23.6 4.3 123 1-130 1-140 (416)
362 PRK06455 riboflavin synthase; 31.4 1.2E+02 0.0027 19.7 4.0 54 85-138 17-75 (155)
363 PRK13015 3-dehydroquinate dehy 31.4 1.5E+02 0.0032 19.2 4.7 47 82-130 29-77 (146)
364 COG0496 SurE Predicted acid ph 31.3 2E+02 0.0042 20.5 6.1 35 5-43 1-37 (252)
365 PRK07369 dihydroorotase; Provi 31.1 1E+02 0.0023 23.4 4.3 28 16-43 211-238 (418)
366 cd00003 PNPsynthase Pyridoxine 30.9 1.9E+02 0.0041 20.4 5.1 46 82-130 109-154 (234)
367 PF14097 SpoVAE: Stage V sporu 30.9 67 0.0015 21.4 2.8 27 6-35 1-27 (180)
368 PRK00414 gmhA phosphoheptose i 30.9 93 0.002 20.8 3.6 41 4-45 111-151 (192)
369 COG4607 CeuA ABC-type enteroch 30.8 37 0.00079 24.8 1.7 20 114-133 112-131 (320)
370 cd02174 CCT CTP:phosphocholine 30.7 56 0.0012 21.0 2.5 25 105-129 73-97 (150)
371 PF01207 Dus: Dihydrouridine s 30.7 2.1E+02 0.0046 20.8 6.4 47 85-131 111-162 (309)
372 PRK15482 transcriptional regul 30.4 97 0.0021 22.0 3.9 41 4-45 182-222 (285)
373 cd00198 vWFA Von Willebrand fa 30.2 81 0.0017 19.2 3.2 39 4-42 102-141 (161)
374 PRK03767 NAD(P)H:quinone oxido 30.2 1.6E+02 0.0036 19.6 4.8 37 6-42 3-41 (200)
375 PRK03604 moaC bifunctional mol 29.9 2.2E+02 0.0048 21.0 5.5 45 82-126 174-221 (312)
376 COG0452 Dfp Phosphopantothenoy 29.8 1.3E+02 0.0029 22.8 4.6 42 1-43 1-42 (392)
377 PRK02947 hypothetical protein; 29.8 1E+02 0.0022 21.6 3.8 39 3-42 105-143 (246)
378 cd00851 MTH1175 This uncharact 29.8 46 0.00099 19.3 1.8 10 6-15 2-11 (103)
379 PF03740 PdxJ: Pyridoxal phosp 29.7 2E+02 0.0044 20.3 5.1 44 82-128 110-153 (239)
380 PRK07328 histidinol-phosphatas 29.7 2E+02 0.0044 20.3 5.6 50 83-133 177-233 (269)
381 PF04392 ABC_sub_bind: ABC tra 29.5 1.7E+02 0.0036 20.9 4.9 39 2-40 129-168 (294)
382 COG0608 RecJ Single-stranded D 29.4 2.8E+02 0.006 21.7 8.7 39 91-129 84-122 (491)
383 COG1759 5-formaminoimidazole-4 29.3 2.1E+02 0.0047 21.3 5.3 37 99-135 19-55 (361)
384 cd01537 PBP1_Repressors_Sugar_ 29.3 1.8E+02 0.0039 19.5 6.3 50 83-132 16-67 (264)
385 TIGR00559 pdxJ pyridoxine 5'-p 29.3 2.1E+02 0.0045 20.2 5.1 46 82-130 109-154 (237)
386 TIGR00237 xseA exodeoxyribonuc 29.2 1.3E+02 0.0029 23.1 4.6 28 105-132 167-199 (432)
387 COG1419 FlhF Flagellar GTP-bin 29.0 1.3E+02 0.0027 23.1 4.3 48 85-135 249-296 (407)
388 PRK15437 histidine ABC transpo 29.0 1.7E+02 0.0036 20.2 4.8 40 85-127 53-92 (259)
389 PRK10474 putative PTS system f 28.8 1.2E+02 0.0026 17.4 3.4 43 87-131 5-49 (88)
390 PRK00861 putative lipid kinase 28.7 2.2E+02 0.0048 20.4 6.0 50 86-137 23-73 (300)
391 PRK09016 quinolinate phosphori 28.7 2.3E+02 0.005 20.7 5.4 34 99-133 253-286 (296)
392 TIGR01090 apt adenine phosphor 28.7 1.5E+02 0.0033 19.2 4.3 38 5-43 110-147 (169)
393 PF11965 DUF3479: Domain of un 28.6 1.8E+02 0.0039 19.2 7.8 46 83-128 46-93 (164)
394 cd07186 CofD_like LPPG:FO 2-ph 28.6 1.2E+02 0.0026 22.2 4.0 22 107-130 172-193 (303)
395 smart00062 PBPb Bacterial peri 28.5 1.6E+02 0.0035 18.7 5.0 39 88-129 30-68 (219)
396 PRK02842 light-independent pro 28.5 2.7E+02 0.0059 21.3 7.6 34 102-135 342-375 (427)
397 PRK10653 D-ribose transporter 28.5 2.1E+02 0.0046 20.1 5.5 47 83-129 43-91 (295)
398 cd00858 GlyRS_anticodon GlyRS 28.4 1.4E+02 0.0031 18.1 5.2 41 87-129 46-87 (121)
399 PRK05848 nicotinate-nucleotide 28.4 2.2E+02 0.0049 20.4 5.3 26 106-132 236-262 (273)
400 PRK11557 putative DNA-binding 28.4 91 0.002 22.0 3.4 42 3-45 174-215 (278)
401 PRK08558 adenine phosphoribosy 28.3 1.1E+02 0.0024 21.4 3.8 39 4-43 176-214 (238)
402 PRK05667 dnaG DNA primase; Val 28.3 1.4E+02 0.0029 24.1 4.6 34 5-38 297-333 (580)
403 PRK08349 hypothetical protein; 28.0 1.8E+02 0.0039 19.4 4.7 34 5-42 1-34 (198)
404 PRK09426 methylmalonyl-CoA mut 27.9 1.4E+02 0.003 24.8 4.6 43 86-130 600-643 (714)
405 KOG0781 Signal recognition par 27.8 56 0.0012 25.7 2.3 34 109-142 455-488 (587)
406 cd00019 AP2Ec AP endonuclease 27.7 1.8E+02 0.0039 20.4 4.8 24 17-40 83-106 (279)
407 cd03114 ArgK-like The function 27.7 71 0.0015 20.3 2.5 25 109-133 80-104 (148)
408 PF02952 Fucose_iso_C: L-fucos 27.6 1E+02 0.0022 19.3 3.2 33 94-126 109-141 (142)
409 PRK04148 hypothetical protein; 27.5 94 0.002 19.7 3.0 30 107-136 89-118 (134)
410 TIGR03234 OH-pyruv-isom hydrox 27.4 2.1E+02 0.0046 19.7 5.4 80 18-122 83-170 (254)
411 KOG1336 Monodehydroascorbate/f 27.4 2.7E+02 0.0059 21.9 5.8 91 5-130 213-311 (478)
412 TIGR01334 modD putative molybd 27.2 2.4E+02 0.0053 20.3 5.9 37 97-134 234-270 (277)
413 cd06318 PBP1_ABC_sugar_binding 27.1 2.1E+02 0.0046 19.7 6.1 48 83-130 16-65 (282)
414 TIGR00169 leuB 3-isopropylmala 27.1 80 0.0017 23.6 3.0 28 15-42 163-190 (349)
415 PRK01033 imidazole glycerol ph 26.8 2.3E+02 0.005 19.9 7.3 13 2-14 1-13 (258)
416 cd08181 PPD-like 1,3-propanedi 26.8 1.9E+02 0.0041 21.5 4.9 42 85-126 43-89 (357)
417 PF06925 MGDG_synth: Monogalac 26.5 75 0.0016 20.5 2.6 19 109-127 78-96 (169)
418 COG0391 Uncharacterized conser 26.4 69 0.0015 23.7 2.5 22 107-130 178-199 (323)
419 PRK08194 tartrate dehydrogenas 26.3 84 0.0018 23.5 3.0 28 15-42 161-188 (352)
420 cd01998 tRNA_Me_trans tRNA met 26.3 2.8E+02 0.006 20.7 10.3 33 6-42 1-33 (349)
421 PF00195 Chal_sti_synt_N: Chal 26.3 1.6E+02 0.0035 20.5 4.2 41 3-43 151-192 (226)
422 TIGR01917 gly_red_sel_B glycin 26.2 2.4E+02 0.0051 21.9 5.2 21 109-129 65-85 (431)
423 TIGR00460 fmt methionyl-tRNA f 26.2 1.3E+02 0.0029 21.9 4.0 41 88-130 48-88 (313)
424 cd01979 Pchlide_reductase_N Pc 26.2 2.9E+02 0.0063 20.9 7.4 28 102-129 327-354 (396)
425 PHA02091 hypothetical protein 26.1 1.1E+02 0.0024 16.5 2.6 26 107-134 23-48 (72)
426 COG3340 PepE Peptidase E [Amin 26.0 2.3E+02 0.0051 19.7 9.4 45 83-129 49-93 (224)
427 PF00885 DMRL_synthase: 6,7-di 25.9 1.9E+02 0.004 18.6 5.4 53 82-134 19-79 (144)
428 COG1433 Uncharacterized conser 25.9 39 0.00085 21.0 1.1 12 88-99 57-68 (121)
429 PRK11104 hemG protoporphyrinog 25.8 1.7E+02 0.0036 19.3 4.1 42 82-130 15-56 (177)
430 PRK06031 phosphoribosyltransfe 25.7 1.3E+02 0.0027 21.1 3.6 38 4-42 154-191 (233)
431 PRK07308 flavodoxin; Validated 25.6 1.8E+02 0.0038 18.2 5.0 45 82-132 16-60 (146)
432 cd08179 NADPH_BDH NADPH-depend 25.6 2.2E+02 0.0048 21.3 5.1 43 84-126 40-87 (375)
433 PF00148 Oxidored_nitro: Nitro 25.5 2.9E+02 0.0063 20.6 6.1 26 105-130 326-351 (398)
434 PRK12361 hypothetical protein; 25.4 1.6E+02 0.0034 23.3 4.5 53 84-138 261-314 (547)
435 PF01406 tRNA-synt_1e: tRNA sy 25.4 2.2E+02 0.0048 20.9 4.8 39 84-122 32-70 (300)
436 TIGR00583 mre11 DNA repair pro 25.4 67 0.0015 24.5 2.4 21 108-128 30-50 (405)
437 PRK15010 ABC transporter lysin 25.3 1.9E+02 0.0041 20.0 4.6 38 86-126 54-91 (260)
438 TIGR03590 PseG pseudaminic aci 25.2 2.6E+02 0.0055 19.9 8.5 36 6-42 1-41 (279)
439 PRK11302 DNA-binding transcrip 25.1 1E+02 0.0022 21.8 3.2 36 4-40 175-210 (284)
440 PRK00772 3-isopropylmalate deh 25.1 93 0.002 23.4 3.0 28 15-42 166-193 (358)
441 PRK14690 molybdopterin biosynt 25.1 3.1E+02 0.0067 21.1 5.8 46 82-127 219-266 (419)
442 PF03464 eRF1_2: eRF1 domain 2 25.0 1E+02 0.0022 19.2 2.9 20 99-118 74-95 (133)
443 PRK13057 putative lipid kinase 25.0 2.6E+02 0.0056 19.9 5.4 52 84-137 14-66 (287)
444 cd06346 PBP1_ABC_ligand_bindin 25.0 2.6E+02 0.0056 19.9 6.4 21 108-128 204-224 (312)
445 PRK10680 molybdopterin biosynt 25.0 2.7E+02 0.0058 21.4 5.5 43 84-126 205-249 (411)
446 TIGR03282 methan_mark_13 putat 25.0 2.6E+02 0.0057 21.0 5.2 45 86-130 241-289 (352)
447 PRK11337 DNA-binding transcrip 24.9 1.3E+02 0.0028 21.4 3.7 42 3-45 186-227 (292)
448 PLN02152 indole-3-acetate beta 24.9 1.7E+02 0.0037 22.7 4.5 42 1-42 1-42 (455)
449 cd06274 PBP1_FruR Ligand bindi 24.8 2.3E+02 0.005 19.3 6.3 47 83-129 16-64 (264)
450 TIGR02700 flavo_MJ0208 archaeo 24.8 1.6E+02 0.0034 20.5 4.0 37 6-42 1-39 (234)
451 COG1810 Uncharacterized protei 24.7 2.5E+02 0.0054 19.6 7.4 31 106-136 66-96 (224)
452 PF13407 Peripla_BP_4: Peripla 24.7 2.3E+02 0.005 19.2 5.4 51 83-133 15-68 (257)
453 PTZ00441 sporozoite surface pr 24.7 1.1E+02 0.0023 24.7 3.4 37 5-42 151-188 (576)
454 cd06389 PBP1_iGluR_AMPA_GluR2 24.6 3E+02 0.0064 20.4 10.0 38 3-41 117-154 (370)
455 COG2876 AroA 3-deoxy-D-arabino 24.6 1E+02 0.0022 22.2 3.0 46 82-132 95-140 (286)
456 COG1162 Predicted GTPases [Gen 24.6 2.9E+02 0.0063 20.3 6.6 44 87-132 132-176 (301)
457 cd08186 Fe-ADH8 Iron-containin 24.5 2.3E+02 0.005 21.2 5.1 43 85-127 44-92 (383)
458 cd02068 radical_SAM_B12_BD B12 24.4 1.7E+02 0.0038 17.7 5.3 23 108-130 54-77 (127)
459 PRK14466 ribosomal RNA large s 24.3 3.1E+02 0.0067 20.5 7.6 26 82-107 300-325 (345)
460 COG1201 Lhr Lhr-like helicases 24.3 4.3E+02 0.0094 22.5 6.8 85 7-127 41-130 (814)
461 cd01297 D-aminoacylase D-amino 24.3 3.2E+02 0.0069 20.7 7.8 28 16-43 225-252 (415)
462 cd04725 OMP_decarboxylase_like 24.2 2.4E+02 0.0052 19.2 6.3 26 7-37 1-26 (216)
463 PF02126 PTE: Phosphotriestera 24.2 1.4E+02 0.0031 21.8 3.8 49 82-130 141-192 (308)
464 PRK13964 coaD phosphopantethei 24.2 89 0.0019 19.9 2.4 24 110-133 72-95 (140)
465 cd00995 PBP2_NikA_DppA_OppA_li 24.1 2.8E+02 0.0061 20.9 5.6 47 82-131 337-384 (466)
466 cd01310 TatD_DNAse TatD like p 24.1 2.4E+02 0.0052 19.2 5.1 43 82-126 107-150 (251)
467 TIGR01918 various_sel_PB selen 24.1 2.6E+02 0.0057 21.7 5.1 21 109-129 65-85 (431)
468 COG2262 HflX GTPases [General 24.1 3.4E+02 0.0074 20.9 6.1 47 82-128 19-77 (411)
469 PRK13606 LPPG:FO 2-phospho-L-l 24.0 1.7E+02 0.0036 21.5 4.0 22 107-130 174-195 (303)
470 smart00732 YqgFc Likely ribonu 24.0 1.3E+02 0.0027 17.2 3.0 24 108-131 39-62 (99)
471 PF09967 DUF2201: VWA-like dom 24.0 1.9E+02 0.0041 17.9 4.1 36 7-42 1-41 (126)
472 PRK00005 fmt methionyl-tRNA fo 23.8 1.5E+02 0.0032 21.6 3.8 40 88-130 48-88 (309)
473 PRK13789 phosphoribosylamine-- 23.7 74 0.0016 24.3 2.4 24 107-130 55-78 (426)
474 cd06366 PBP1_GABAb_receptor Li 23.7 2.9E+02 0.0062 20.0 9.0 16 27-42 129-145 (350)
475 PTZ00170 D-ribulose-5-phosphat 23.6 2.6E+02 0.0055 19.4 4.8 42 85-126 103-144 (228)
476 PRK10222 PTS system L-ascorbat 23.6 1.5E+02 0.0033 16.9 3.2 39 87-130 6-44 (85)
477 PRK14722 flhF flagellar biosyn 23.4 3.3E+02 0.0073 20.6 8.1 47 87-136 185-231 (374)
478 PF02670 DXP_reductoisom: 1-de 23.3 75 0.0016 20.0 2.0 26 109-134 79-104 (129)
479 TIGR01856 hisJ_fam histidinol 23.3 2.7E+02 0.0058 19.5 5.3 48 85-133 187-241 (253)
480 cd01542 PBP1_TreR_like Ligand- 23.2 2.5E+02 0.0053 19.0 5.8 47 83-129 16-64 (259)
481 TIGR01819 F420_cofD LPPG:FO 2- 23.1 89 0.0019 22.8 2.5 22 107-130 171-192 (297)
482 PRK02304 adenine phosphoribosy 23.1 1.9E+02 0.0041 18.9 4.0 37 4-41 114-150 (175)
483 PRK13209 L-xylulose 5-phosphat 23.0 2.8E+02 0.006 19.5 5.4 78 18-120 98-178 (283)
484 COG2248 Predicted hydrolase (m 22.9 90 0.002 22.4 2.4 25 106-130 187-211 (304)
485 PRK10892 D-arabinose 5-phospha 22.8 1.6E+02 0.0034 21.4 3.8 43 4-47 94-136 (326)
486 COG0301 ThiI Thiamine biosynth 22.8 3.5E+02 0.0076 20.6 5.8 21 24-44 191-211 (383)
487 cd06360 PBP1_alkylbenzenes_lik 22.7 2.9E+02 0.0063 19.7 10.1 44 86-129 152-198 (336)
488 COG4034 Uncharacterized protei 22.7 2.6E+02 0.0055 20.4 4.6 43 84-126 92-137 (328)
489 PLN02329 3-isopropylmalate deh 22.6 1.2E+02 0.0025 23.3 3.1 28 15-42 211-238 (409)
490 PLN02699 Bifunctional molybdop 22.6 2.7E+02 0.0059 22.9 5.3 45 83-127 209-256 (659)
491 COG0042 tRNA-dihydrouridine sy 22.5 2.9E+02 0.0063 20.4 5.1 35 96-130 136-175 (323)
492 PF00202 Aminotran_3: Aminotra 22.5 1.6E+02 0.0035 21.6 3.9 23 3-25 75-97 (339)
493 PF00497 SBP_bac_3: Bacterial 22.4 2.3E+02 0.005 18.4 5.0 38 85-125 26-63 (225)
494 KOG2584 Dihydroorotase and rel 22.4 81 0.0017 24.5 2.2 28 17-44 231-258 (522)
495 PLN02257 phosphoribosylamine-- 22.4 82 0.0018 24.2 2.4 23 107-129 49-71 (434)
496 PF00258 Flavodoxin_1: Flavodo 22.4 2E+02 0.0044 17.7 4.4 45 82-130 11-55 (143)
497 COG0137 ArgG Argininosuccinate 22.3 3.7E+02 0.008 20.7 11.5 108 1-132 1-124 (403)
498 COG1440 CelA Phosphotransferas 22.2 1.9E+02 0.0042 17.4 4.2 41 85-130 18-58 (102)
499 cd01473 vWA_CTRP CTRP for CS 22.2 2.1E+02 0.0045 19.1 4.1 38 5-42 110-149 (192)
500 PF02680 DUF211: Uncharacteriz 22.2 1.4E+02 0.003 17.8 2.7 33 1-34 1-33 (95)
No 1
>PRK15456 universal stress protein UspG; Provisional
Probab=99.93 E-value=2.7e-25 Score=142.05 Aligned_cols=128 Identities=15% Similarity=0.132 Sum_probs=96.3
Q ss_pred ccEEEEEecCCH--hHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 4 TRRVGVAVDFSA--CSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 4 ~~~ILv~~d~s~--~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
|++||+|+|+|+ .+.+++++|..+|+.. ++++++||+++..... . ... .. +.+...+...+..
T Consensus 2 ~~~ILv~vD~S~~~~s~~al~~A~~la~~~-~~l~llhv~~~~~~~~-----~---~~~---~~---~~~~~~~~~~~~~ 66 (142)
T PRK15456 2 YKTIIMPVDVFEMELSDKAVRHAEFLAQDD-GVIHLLHVLPGSASLS-----L---HRF---AA---DVRRFEEHLQHEA 66 (142)
T ss_pred CccEEEeccCCchhHHHHHHHHHHHHHhcC-CeEEEEEEecCccccc-----c---ccc---cc---chhhHHHHHHHHH
Confidence 699999999994 8999999999999874 6999999998653211 0 000 00 0012333333344
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
++.++.+.+.+...+++++.++..|+|.+.|++++++.++||||||++|++ +.+.++|||+++|+
T Consensus 67 ~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~ 131 (142)
T PRK15456 67 EERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVI 131 (142)
T ss_pred HHHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHH
Confidence 555666665554457788888989999999999999999999999999987 78899999999885
No 2
>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=99.92 E-value=1.6e-24 Score=139.05 Aligned_cols=129 Identities=22% Similarity=0.234 Sum_probs=100.4
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
+||||+|+|+.+.+|++||+.++...+++++++|+.++...... .. ......+...+...+..++.+
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~----------~~---~~~~~~~~~~~~~~~~~~~~l 67 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPS----------SS---GKLEVASAYKQEEDKEAKELL 67 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCC----------Cc---cchHHHHHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999999999876432110 00 000011122233333456677
Q ss_pred HHHHHHhhhcCceEEEEEeeC-ChhHHHHHHHhhcCCcEEEEEecCCCccceeecc-ccccccc
Q 032042 86 DIVNTVARQKQIVVVMKIFWG-DPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFI-NIELLIF 147 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~G-s~a~~vl 147 (148)
+.+.+.+...++.++..+..| +|.+.|++++++.++|+||||++|++.+.++++| |++++|+
T Consensus 68 ~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi 131 (146)
T cd01989 68 LPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVL 131 (146)
T ss_pred HHHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHH
Confidence 777777777789988888876 8999999999999999999999999999999998 6999886
No 3
>PRK15005 universal stress protein F; Provisional
Probab=99.91 E-value=4.5e-24 Score=136.59 Aligned_cols=130 Identities=16% Similarity=0.202 Sum_probs=94.7
Q ss_pred ccEEEEEecCCHh--HHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 4 TRRVGVAVDFSAC--SKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 4 ~~~ILv~~d~s~~--s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
|++||+|+|+|+. +.+++++|..+|+..+++++++||+++...... . ......+....+... +..
T Consensus 2 ~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~----~-----~~~~~~~~~~~~~~~----~~~ 68 (144)
T PRK15005 2 NRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYAS----L-----GLAYSAELPAMDDLK----AEA 68 (144)
T ss_pred CccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCccccc----c-----cccccccchHHHHHH----HHH
Confidence 6999999999997 579999999999999999999999986442110 0 000001111101111 122
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
++.++.+.+.+...+++++.++..|+|.+.|++++++.++||||||+++ +.+.+.++||++.+|+
T Consensus 69 ~~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~~~llGS~a~~vl 133 (144)
T PRK15005 69 KSQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASHR-PDITTYLLGSNAAAVV 133 (144)
T ss_pred HHHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCCC-CCchheeecchHHHHH
Confidence 3444455554545567788888899999999999999999999999984 5689999999999886
No 4
>PRK09982 universal stress protein UspD; Provisional
Probab=99.91 E-value=3.1e-24 Score=137.21 Aligned_cols=127 Identities=16% Similarity=0.082 Sum_probs=91.3
Q ss_pred CCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 2 DGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
|+|++||||+|+|+.+..|+++|..+|+.++++++++||.++...... ....+ ... ...+...+..
T Consensus 1 ~~~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~---------~~~~~--~~~---~~~~~~~~~~ 66 (142)
T PRK09982 1 MAYKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELYP---------GIYFP--ATE---DILQLLKNKS 66 (142)
T ss_pred CCceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhch---------hhhcc--chH---HHHHHHHHHH
Confidence 349999999999999999999999999999999999999876432110 00000 000 1222222223
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
++.++.+.+.+. ...++.++..|+|.+.|+++|++.++||||||++ ++.+++++ | ++++|+
T Consensus 67 ~~~l~~~~~~~~--~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~-~-va~~V~ 127 (142)
T PRK09982 67 DNKLYKLTKNIQ--WPKTKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM-P-AYRGMI 127 (142)
T ss_pred HHHHHHHHHhcC--CCcceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH-H-HHHHHH
Confidence 344444444332 2346777788999999999999999999999986 88888887 5 888875
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.88 E-value=1e-22 Score=130.42 Aligned_cols=126 Identities=17% Similarity=0.121 Sum_probs=86.7
Q ss_pred CCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 2 DGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
|+|++||+|+|+|+.+..|+++|..+|+.++++++++||..+.... +. +.. + .... ...+.. .
T Consensus 1 ~~~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~------~~--~~~--~-~~~~---~~~~~~---~ 63 (144)
T PRK15118 1 MAYKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDL------YT--GLI--D-VNLG---DMQKRI---S 63 (144)
T ss_pred CCceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhh------hh--hhh--h-cchH---HHHHHH---H
Confidence 5699999999999999999999999999999999999994332110 00 000 0 0000 111111 1
Q ss_pred hhhHHHHHHHhhhcCceEE-EEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 82 PETLDIVNTVARQKQIVVV-MKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~-~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
++..+.+.+.....|+++. ..+..|+|.+.|+++|++.++||||||+++ +.+. . +||++++|+
T Consensus 64 ~~~~~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~-~-lgSva~~v~ 127 (144)
T PRK15118 64 EETHHALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQ-DFWS-K-LMSSARQLI 127 (144)
T ss_pred HHHHHHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCcc-cHHH-H-HHHHHHHHH
Confidence 2222334444455677753 445579999999999999999999999996 3344 3 589999886
No 6
>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=99.86 E-value=3e-21 Score=121.51 Aligned_cols=120 Identities=16% Similarity=0.120 Sum_probs=98.5
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
+||||+|+++++..++++|..+++..+++++++|+.+.+.... .. ... .. .+..++.+
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~---------------~~-~~~--~~----~~~~~~~~ 58 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSS---------------PS-QLE--VN----VQRARKLL 58 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCC---------------cc-hhH--HH----HHHHHHHH
Confidence 6999999999999999999999999999999999998653210 00 000 11 12345777
Q ss_pred HHHHHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 86 DIVNTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
+.+.+.+.+.|++++..+.. |++.+.|++.+++.++|+||||+++++.+.+.++||++++|+
T Consensus 59 ~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~ 121 (132)
T cd01988 59 RQAERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVL 121 (132)
T ss_pred HHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHH
Confidence 77888888889988887754 799999999999999999999999999999999999999886
No 7
>PRK11175 universal stress protein UspE; Provisional
Probab=99.86 E-value=7.9e-22 Score=140.39 Aligned_cols=133 Identities=16% Similarity=0.097 Sum_probs=100.0
Q ss_pred CCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 2 DGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
|+|++||||+|+|+.+..|+++|+.+|+..+++++++|+.++...... ........ +...+...+..
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~----------~~~~~~~~---~~~~~~~~~~~ 67 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMT----------TLLSPDER---EAMRQGVISQR 67 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhhh----------cccchhHH---HHHHHHHHHHH
Confidence 569999999999999999999999999999999999999865432110 00000000 01111111223
Q ss_pred hhhHHHHHHHhhhcCceEEEEEe-eCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIF-WGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
++.++.+.+.+...+++++..+. .|++.+.|++.+++.++||||||+++++.+.+.++||++.+|+
T Consensus 68 ~~~l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~ 134 (305)
T PRK11175 68 TAWIREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLL 134 (305)
T ss_pred HHHHHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHH
Confidence 45556666556667888888776 4899999999999999999999999999999999999998875
No 8
>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=99.86 E-value=1.2e-21 Score=123.59 Aligned_cols=129 Identities=22% Similarity=0.266 Sum_probs=92.6
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCCh
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDP 82 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (148)
+++|||||+|+++.+..++++|..+++..+++|+++|+.+........ .... ............
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~~---------------~~~~-~~~~~~~~~~~~ 64 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYSFS---------------AAED-EESEEEAEEEEQ 64 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHHH---------------HHHH-HHHHHHHHHHHH
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeeccccccccc---------------cccc-cccccccchhhh
Confidence 479999999999999999999999999999999999999976532100 0000 000000000000
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
.............+......+..|++.++|++++++.++|+||||+++++++.++++||++++|+
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~ 129 (140)
T PF00582_consen 65 ARQAEAEEAEAEGGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLL 129 (140)
T ss_dssp HHHHHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHH
T ss_pred hhhHHHHHHhhhccceeEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHH
Confidence 00000012233345667777778999999999999999999999999999999999999999886
No 9
>PRK10116 universal stress protein UspC; Provisional
Probab=99.86 E-value=2.5e-21 Score=123.62 Aligned_cols=126 Identities=15% Similarity=0.135 Sum_probs=90.8
Q ss_pred CCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 2 DGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
|+|++|||++|+++.+..++++|..+|+.++++++++|+++.+.... . .. ... .+...+...
T Consensus 1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~-------~--~~---~~~---~~~~~~~~~--- 62 (142)
T PRK10116 1 MSYSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYN-------Q--FA---APM---LEDLRSVMQ--- 62 (142)
T ss_pred CCCceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccch-------h--hh---HHH---HHHHHHHHH---
Confidence 56999999999999999999999999999999999999987643210 0 00 000 011222221
Q ss_pred hhhHHHHHHHhhhcCceEE-EEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 82 PETLDIVNTVARQKQIVVV-MKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~-~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
++..+.+.+.....|++.. ..+..|++.+.|++++++.++||||||+++++.+.+++ |++++|+
T Consensus 63 ~~~~~~l~~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~--s~a~~v~ 127 (142)
T PRK10116 63 EETQSFLDKLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS--CSAKRVI 127 (142)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH--HHHHHHH
Confidence 1222333343445576543 45567999999999999999999999999999888874 8888876
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=99.85 E-value=4e-21 Score=120.00 Aligned_cols=112 Identities=17% Similarity=0.091 Sum_probs=91.9
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
+||||+|+++.+.+++++|..+++..+++++++|+.++... . .. +..++.+
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~----------------~---~~----------~~~~~~l 51 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLN----------------R---LS----------EAERRRL 51 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCccc----------------c---CC----------HHHHHHH
Confidence 69999999999999999999999999999999999875321 0 00 0123556
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
+.+.+.+++.++++.. +..+++.+.|.+++++.++|+||||+++++++.++++||++++|+
T Consensus 52 ~~~~~~~~~~~~~~~~-~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~ 112 (124)
T cd01987 52 AEALRLAEELGAEVVT-LPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLL 112 (124)
T ss_pred HHHHHHHHHcCCEEEE-EeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHH
Confidence 6677777776776432 334689999999999999999999999999999999999999886
No 11
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=99.79 E-value=2.1e-18 Score=107.57 Aligned_cols=120 Identities=29% Similarity=0.383 Sum_probs=97.2
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
+||||+|+++.+..++++|..+|...+++++++|+.++..... . . ..+......++.+
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~------------~----~------~~~~~~~~~~~~l 58 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSA------------A----E------LAELLEEEARALL 58 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcc------------h----h------HHHHHHHHHHHHH
Confidence 5899999999999999999999999999999999987654211 0 0 1111111234566
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
+.+...+...+++++..+..|++.++|.+++++.++|++|||+++++.+.+.++||++.+++
T Consensus 59 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll 120 (130)
T cd00293 59 EALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVL 120 (130)
T ss_pred HHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHH
Confidence 66666666678888888888888999999999999999999999999999999999999876
No 12
>PRK11175 universal stress protein UspE; Provisional
Probab=99.78 E-value=7e-19 Score=125.28 Aligned_cols=129 Identities=17% Similarity=0.156 Sum_probs=91.8
Q ss_pred CccEEEEEecCCHhH-------HHHHHHHHhhcccC-CCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHH
Q 032042 3 GTRRVGVAVDFSACS-------KKALQWAADNVVRN-GDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMK 74 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s-------~~al~~a~~la~~~-~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 74 (148)
.+++||+|+|+++.+ ..++++|..+++.. +++++++|+.+...... . .. .+ .... +...
T Consensus 151 ~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~-----~----~~-~~--~~~~-~~~~ 217 (305)
T PRK11175 151 EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINI-----A----IE-LP--EFDP-SVYN 217 (305)
T ss_pred CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhc-----c----cc-cc--ccch-hhHH
Confidence 368999999998653 68999999999998 99999999987543211 0 00 00 0000 0111
Q ss_pred hhcCCCChhhHHHHHHHhhhcCceE-EEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 75 KYGAKPDPETLDIVNTVARQKQIVV-VMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
+... ++..+.+.++.+..+++. ..++..|++.+.|.+++++.++||||||+++++.+.++++||++++|+
T Consensus 218 ~~~~---~~~~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~ 288 (305)
T PRK11175 218 DAIR---GQHLLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVI 288 (305)
T ss_pred HHHH---HHHHHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHH
Confidence 1111 122334444445556653 455667999999999999999999999999999999999999999886
No 13
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.78 E-value=2.4e-18 Score=123.78 Aligned_cols=105 Identities=15% Similarity=0.181 Sum_probs=80.0
Q ss_pred CCCccEEEEEecCCHhHHHHHHHHHhhcccC--CCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcC
Q 032042 1 MDGTRRVGVAVDFSACSKKALQWAADNVVRN--GDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGA 78 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~--~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (148)
||+|+|||||+|+|+.+++|+++|+++|+.. +++++++||.+...... . . . ...+
T Consensus 2 ~~~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~-----------~----~--~---~~~~--- 58 (357)
T PRK12652 2 MMAANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDP-----------E----G--Q---DELA--- 58 (357)
T ss_pred CcccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCccccc-----------c----h--h---HHHH---
Confidence 7889999999999999999999999999984 69999999988543110 0 0 0 1111
Q ss_pred CCChhhHHHHHHHhhh------cCceEEEEEee--------CChhHHHHHHHhhcCCcEEEEEec
Q 032042 79 KPDPETLDIVNTVARQ------KQIVVVMKIFW--------GDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 79 ~~~~~~~~~~~~~~~~------~~~~~~~~~~~--------g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
..++.++.+.+.+++ .|++++..+.. |+|++.|+++|+++++|+||||..
T Consensus 59 -~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~ 122 (357)
T PRK12652 59 -AAEELLERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPE 122 (357)
T ss_pred -HHHHHHHHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCC
Confidence 123444555554443 58888888865 899999999999999999999865
No 14
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.74 E-value=7.3e-17 Score=103.66 Aligned_cols=135 Identities=24% Similarity=0.229 Sum_probs=103.6
Q ss_pred CCccEEEEEec-CCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCC
Q 032042 2 DGTRRVGVAVD-FSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKP 80 (148)
Q Consensus 2 ~~~~~ILv~~d-~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (148)
+.+++||+++| +++.+..+++.+..++...+..+.++++.+........ .... .... ...........
T Consensus 3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~---------~~~~-~~~~-~~~~~~~~~~~ 71 (154)
T COG0589 3 AMYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALV---------SVAL-ADAP-IPLSEEELEEE 71 (154)
T ss_pred cccceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEeccccccccc---------cccc-ccch-hhhhHHHHHHH
Confidence 45799999999 99999999999999999999999999998865532110 0000 0000 00111222233
Q ss_pred ChhhHHHHHHHhhhcCce-EEEEEeeCCh-hHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 81 DPETLDIVNTVARQKQIV-VVMKIFWGDP-REKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~-~~~~~~~g~~-~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
..+..+.+.+.....++. ++..+..|+| .+.|++++++.++|+||||+++++.++++++||++++|+
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~ 140 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVL 140 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHH
Confidence 467777788888888888 5888888988 799999999999999999999999999999999999886
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.31 E-value=1.9e-11 Score=98.13 Aligned_cols=112 Identities=13% Similarity=0.035 Sum_probs=85.9
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChh
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPE 83 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (148)
-.+||||+++++.+.++++++.++|...+++++++||..+.... ... ..++
T Consensus 250 ~eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~-------------------~~~----------~~~~ 300 (895)
T PRK10490 250 RDAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLHR-------------------LPE----------KKRR 300 (895)
T ss_pred CCeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcCc-------------------CCH----------HHHH
Confidence 36799999999999999999999999999999999998653210 000 0122
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
.+....+.+++.|.++.. +..++++++|+++|++.+++.||||.++++++ ++.||++++++
T Consensus 301 ~l~~~~~lA~~lGa~~~~-~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~ 361 (895)
T PRK10490 301 AILSALRLAQELGAETAT-LSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLA 361 (895)
T ss_pred HHHHHHHHHHHcCCEEEE-EeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHH
Confidence 233333567777888443 34459999999999999999999999998876 55779988775
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.18 E-value=1.1e-10 Score=90.53 Aligned_cols=113 Identities=19% Similarity=0.083 Sum_probs=93.3
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhh
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPET 84 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (148)
.+||||++.++.+.+.+++|.++|.+.+++++++||..+..... + +..++.
T Consensus 249 e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~--------------~---------------~~~~~~ 299 (890)
T COG2205 249 ERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELHRL--------------S---------------EKEARR 299 (890)
T ss_pred ceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEeccccccc--------------c---------------HHHHHH
Confidence 68999999999999999999999999999999999987643211 0 112466
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccccccc
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLIF 147 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~vl 147 (148)
+....+.+++.|-++.+.. .++.+++|.++|+.+++.-||+|.+.++.+.++|.||..++++
T Consensus 300 l~~~~~Lae~lGae~~~l~-~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~ 361 (890)
T COG2205 300 LHENLRLAEELGAEIVTLY-GGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLA 361 (890)
T ss_pred HHHHHHHHHHhCCeEEEEe-CCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHH
Confidence 7777777777777755533 3699999999999999999999999999999999999887653
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=98.04 E-value=2.6e-05 Score=45.26 Aligned_cols=74 Identities=15% Similarity=0.046 Sum_probs=57.0
Q ss_pred EEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHH
Q 032042 7 VGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLD 86 (148)
Q Consensus 7 ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (148)
|++|++++..|..++.++..++ ..+.++..+|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~~--------------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVVV--------------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEeH---------------------------------------------
Confidence 5889999999999999998876 345556555552
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeecc-cccccc
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFI-NIELLI 146 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~G-s~a~~v 146 (148)
...+.+.+.+++.++|+|++|.++.+..+..+.| |++.++
T Consensus 35 --------------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~ 75 (86)
T cd01984 35 --------------------AFVRILKRLAAEEGADVIILGHNADDVAGRRLGASANVLVV 75 (86)
T ss_pred --------------------HHHHHHHHHHHHcCCCEEEEcCCchhhhhhccCchhhhhhc
Confidence 4466777788888999999999998888888777 666554
No 18
>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=97.48 E-value=0.0029 Score=42.10 Aligned_cols=94 Identities=16% Similarity=0.028 Sum_probs=67.5
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
+|+|++.++.+|..++..+..+++..+.++.++|+...... ...+..
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~~~---------------------------------~~~~~~ 47 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLRP---------------------------------ESDEEA 47 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCh---------------------------------hHHHHH
Confidence 58999999999999999999987777778999998653210 002335
Q ss_pred HHHHHHhhhcCceEEEEEee-C--------Chh--------HHHHHHHhhcCCcEEEEEecCCC
Q 032042 86 DIVNTVARQKQIVVVMKIFW-G--------DPR--------EKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-g--------~~~--------~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
+.+.+.++..|+++...-.. . +.. ..+.+.+++++++.|+.|.+...
T Consensus 48 ~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D 111 (189)
T TIGR02432 48 EFVQQFCKKLNIPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADD 111 (189)
T ss_pred HHHHHHHHHcCCCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHH
Confidence 56677777778875554321 1 112 57778899999999999987655
No 19
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.25 E-value=0.0066 Score=49.43 Aligned_cols=40 Identities=20% Similarity=0.179 Sum_probs=36.7
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
++|.++.=+.+++..|+.+|.++++.++.+++++|..+..
T Consensus 631 ~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~ 670 (832)
T PLN03159 631 HHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGE 670 (832)
T ss_pred eeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEccc
Confidence 5899999899999999999999999999999999998753
No 20
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=97.25 E-value=0.018 Score=38.22 Aligned_cols=94 Identities=20% Similarity=0.102 Sum_probs=63.3
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
+|+|++.|..+|...+..+..+....+.++.++|+...... ......
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~~---------------------------------~s~~~~ 47 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLRE---------------------------------ESDEEA 47 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STSC---------------------------------CHHHHH
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCCc---------------------------------ccchhH
Confidence 69999999999999999999999988899999999874321 012345
Q ss_pred HHHHHHhhhcCceEEEEEee-----C-Ch--------hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 86 DIVNTVARQKQIVVVMKIFW-----G-DP--------REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-----g-~~--------~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
+.+.+.++..|++..+.... + +. ...+.+.|++.+++.|++|-+..+
T Consensus 48 ~~v~~~~~~~~i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~dD 108 (182)
T PF01171_consen 48 EFVEEICEQLGIPLYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHLDD 108 (182)
T ss_dssp HHHHHHHHHTT-EEEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BHHH
T ss_pred HHHHHHHHhcCCceEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcCCc
Confidence 66788888888886665432 1 11 146778899999999999976543
No 21
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=97.02 E-value=0.021 Score=37.80 Aligned_cols=95 Identities=16% Similarity=0.053 Sum_probs=67.0
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
+|+|++.+.-+|.-++..+.......+.++.++|+...... ...+..
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~~~---------------------------------~~~~~~ 47 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLRP---------------------------------ESDEEA 47 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCCCc---------------------------------hHHHHH
Confidence 58999999999999999998887666778999998643210 002445
Q ss_pred HHHHHHhhhcCceEEEE--Ee-eC-Ch----------hHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 86 DIVNTVARQKQIVVVMK--IF-WG-DP----------REKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~--~~-~g-~~----------~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
+.+.+.+...|++.... .. .+ .. ...+.++|++++++.|+.|.+....
T Consensus 48 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD~ 109 (185)
T cd01992 48 AFVADLCAKLGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADDQ 109 (185)
T ss_pred HHHHHHHHHcCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHHH
Confidence 56667777778876654 11 11 11 1567788999999999999876553
No 22
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=96.87 E-value=0.0057 Score=42.87 Aligned_cols=87 Identities=15% Similarity=0.115 Sum_probs=56.7
Q ss_pred CCHhHHHHHHHHHhhcccCC-CEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHH
Q 032042 13 FSACSKKALQWAADNVVRNG-DHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTV 91 (148)
Q Consensus 13 ~s~~s~~al~~a~~la~~~~-~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (148)
.++.+.+|++.|+++..+.+ .+|+++++=++... ....+.....+
T Consensus 34 iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a~----------------------------------~~~~lr~aLAm 79 (256)
T PRK03359 34 ISQYDLNAIEAACQLKQQAAEAQVTALSVGGKALT----------------------------------NAKGRKDVLSR 79 (256)
T ss_pred cChhhHHHHHHHHHHhhhcCCCEEEEEEECCcchh----------------------------------hHHHHHHHHHc
Confidence 46788999999999998865 89999988664310 01223333333
Q ss_pred hhhcCceEEEEEeeC-Ch---hHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 92 ARQKQIVVVMKIFWG-DP---REKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 92 ~~~~~~~~~~~~~~g-~~---~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
-.+.++-+.-....| |+ +..|..++++.++|||++|......
T Consensus 80 GaD~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D~ 125 (256)
T PRK03359 80 GPDELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSDL 125 (256)
T ss_pred CCCEEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCccccC
Confidence 333333333322222 43 6788888888899999999887554
No 23
>PRK12342 hypothetical protein; Provisional
Probab=96.76 E-value=0.0061 Score=42.66 Aligned_cols=86 Identities=19% Similarity=0.137 Sum_probs=56.1
Q ss_pred CCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHHh
Q 032042 13 FSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTVA 92 (148)
Q Consensus 13 ~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (148)
.++...+|++.|+++. ..+.+|+++++=++... ..+.+.....+-
T Consensus 33 iNp~D~~AlE~AlrLk-~~g~~Vtvls~Gp~~a~----------------------------------~~~l~r~alamG 77 (254)
T PRK12342 33 ISQFDLNAIEAASQLA-TDGDEIAALTVGGSLLQ----------------------------------NSKVRKDVLSRG 77 (254)
T ss_pred CChhhHHHHHHHHHHh-hcCCEEEEEEeCCChHh----------------------------------HHHHHHHHHHcC
Confidence 4678899999999998 67899999988654210 011223233323
Q ss_pred hhcCceEEEEEeeC-Ch---hHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 93 RQKQIVVVMKIFWG-DP---REKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 93 ~~~~~~~~~~~~~g-~~---~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
.+.++-+.-....| |+ +..|..++++.++|||++|...-..
T Consensus 78 aD~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D~ 122 (254)
T PRK12342 78 PHSLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGDL 122 (254)
T ss_pred CCEEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcccC
Confidence 33334343222233 65 6888888998899999999877543
No 24
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=96.16 E-value=0.17 Score=33.28 Aligned_cols=94 Identities=21% Similarity=0.087 Sum_probs=60.3
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccC--CCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChh
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRN--GDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPE 83 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~--~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (148)
+|+|++.+..+|..++..+..+.... +.++.++|+....... ...
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d~~~~~~---------------------------------~~~ 47 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGIPGY---------------------------------RDE 47 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEECCCCCC---------------------------------cHH
Confidence 58999999999999988888876554 6688888887542200 012
Q ss_pred hHHHHHHHhhhcCceEEEEEee-------------C---------ChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 84 TLDIVNTVARQKQIVVVMKIFW-------------G---------DPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~-------------g---------~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
..+.+++.+...|+++...-.. + .-...+.+.+++++++.|+.|.+...
T Consensus 48 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~r~~~l~~~a~~~g~~~l~~Gh~~dD 118 (185)
T cd01993 48 SLEVVERLAEELGIELEIVSFKEEYTDDIEVKKRGGKSPCSLCGVLRRGLLNKIAKELGADKLATGHNLDD 118 (185)
T ss_pred HHHHHHHHHHHcCCceEEEehhhhcchhhhhhccCCCCCCCccHHHHHHHHHHHHHHcCCCEEEEcCChHH
Confidence 2334455555556654432211 0 01256677889999999999977533
No 25
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=95.94 E-value=0.11 Score=37.13 Aligned_cols=94 Identities=14% Similarity=0.079 Sum_probs=62.7
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhh
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPET 84 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (148)
.+|+|++.|..+|..++..+..+... ..+.++||......+ ....
T Consensus 22 ~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd~~~~~~---------------------------------~~~~ 66 (298)
T COG0037 22 YKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVDHGLRGY---------------------------------SDQE 66 (298)
T ss_pred CeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEecCCCCCc---------------------------------cchH
Confidence 68999999999999999999987766 889999997754310 0133
Q ss_pred HHHHHHHhhhcCceEEE-EEe--eC-C------h--------hHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 85 LDIVNTVARQKQIVVVM-KIF--WG-D------P--------REKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~-~~~--~g-~------~--------~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
.+.....+...+++..+ .+. .+ . + ...+-+.|++.++|.|+.|-+..+.
T Consensus 67 ~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD~ 133 (298)
T COG0037 67 AELVEKLCEKLGIPLIVERVTDDLGRETLDGKSICAACRRLRRGLLYKIAKELGADKIATGHHLDDQ 133 (298)
T ss_pred HHHHHHHHHHhCCceEEEEEEeeccccccCCCChhHHHHHHHHHHHHHHHHHcCCCeEEeccCcHHH
Confidence 34455555555553211 111 11 1 1 2557778999999999998665553
No 26
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=95.81 E-value=0.061 Score=37.83 Aligned_cols=84 Identities=19% Similarity=0.311 Sum_probs=55.9
Q ss_pred CCHhHHHHHHHHHhhcc-cCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHH
Q 032042 13 FSACSKKALQWAADNVV-RNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTV 91 (148)
Q Consensus 13 ~s~~s~~al~~a~~la~-~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (148)
.++....|++.|+.+.. ..+.+|+++++=++.. ++.+..+...
T Consensus 35 in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~~a------------------------------------~~~lr~aLAm 78 (260)
T COG2086 35 INPFDLNAVEEALRLKEKGYGGEVTVLTMGPPQA------------------------------------EEALREALAM 78 (260)
T ss_pred cChhhHHHHHHHHHhhccCCCceEEEEEecchhh------------------------------------HHHHHHHHhc
Confidence 45788999999999999 5899999999865421 2333332222
Q ss_pred hhhcCceEEEEEeeC-Ch---hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 92 ARQKQIVVVMKIFWG-DP---REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 92 ~~~~~~~~~~~~~~g-~~---~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
-.+..+-++-+...+ ++ +..|...+++.++|||++|...-.
T Consensus 79 GaDraili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~D 123 (260)
T COG2086 79 GADRAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAID 123 (260)
T ss_pred CCCeEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEeccccc
Confidence 222233333222222 33 688888999999999999988754
No 27
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=95.75 E-value=0.22 Score=40.89 Aligned_cols=116 Identities=9% Similarity=0.102 Sum_probs=67.8
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcc--cCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCch-h-HHHHhhcCCC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVV--RNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSE-P-TIMKKYGAKP 80 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~--~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~ 80 (148)
-|||+|+-..++-...+..+-.... +....++++|.++-..... +..-..+..+ . ....+ ....
T Consensus 459 lriL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~-----------~~l~~h~~~~~~~~~~~~-~~~~ 526 (832)
T PLN03159 459 LRMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRAS-----------AMLIVHNTRKSGRPALNR-TQAQ 526 (832)
T ss_pred eeEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCc-----------cceeeeeccccccccccc-cccc
Confidence 4899999988777777665443222 2335799999988554221 0000000000 0 00000 0112
Q ss_pred ChhhHHHHHHHhhhc-CceEEEEEee---CChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 81 DPETLDIVNTVARQK-QIVVVMKIFW---GDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~-~~~~~~~~~~---g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.++....++.+.+.. ++.++..... .+-.+.|+..|++..+++||++-|.+.
T Consensus 527 ~~~i~~af~~~~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~ 582 (832)
T PLN03159 527 SDHIINAFENYEQHAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQ 582 (832)
T ss_pred ccHHHHHHHHHHhhcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCcc
Confidence 346666666655443 5666654432 367899999999999999999998643
No 28
>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=95.20 E-value=0.49 Score=30.71 Aligned_cols=88 Identities=17% Similarity=0.143 Sum_probs=58.4
Q ss_pred EEEEEecC-----CHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCC
Q 032042 6 RVGVAVDF-----SACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKP 80 (148)
Q Consensus 6 ~ILv~~d~-----s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (148)
+|||-.+- ++.+..++..|..++...+.++.++.+-+..
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~g~~v~av~~G~~~------------------------------------ 44 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAEALGGEVTAVVLGPAE------------------------------------ 44 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHHCTTSEEEEEEEETCC------------------------------------
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHhhcCCeEEEEEEecch------------------------------------
Confidence 46666653 4789999999999999999999998775311
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEee---C--C---hhHHHHHHHhhcCCcEEEEEecCC
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFW---G--D---PREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~---g--~---~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
...+.+++.+...|++--..+.. . + ..+.|.+.+++.++|+|++|....
T Consensus 45 --~~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~~ 101 (164)
T PF01012_consen 45 --EAAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTSF 101 (164)
T ss_dssp --CHHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSHH
T ss_pred --hhHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcCC
Confidence 22333445555567763333321 1 2 257888999999999999987543
No 29
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=95.03 E-value=0.51 Score=34.07 Aligned_cols=95 Identities=15% Similarity=0.123 Sum_probs=63.4
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCCh
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDP 82 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (148)
.+.++++++.+..+|.-.+..+.......+.++.++|+.....+ .
T Consensus 26 ~f~~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iDTG~~F-----------------------------------p 70 (301)
T PRK05253 26 EFENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVDTGWKF-----------------------------------P 70 (301)
T ss_pred hCCCEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEeCCCCC-----------------------------------H
Confidence 36789999999999999998887755444567888888653221 1
Q ss_pred hhHHHHHHHhhhcCceEEEEEe-----eC-C-------------hhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIF-----WG-D-------------PREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~-----~g-~-------------~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
+..+...+.++..|+++.+... .| . -...+.++++++++|.++.|.+...
T Consensus 71 Et~ef~d~~a~~~gl~l~v~~~~~~i~~g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~RrDE 139 (301)
T PRK05253 71 EMIEFRDRRAKELGLELIVHSNPEGIARGINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARRDE 139 (301)
T ss_pred HHHHHHHHHHHHhCCCEEEEeChHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEeccccch
Confidence 3334445555666776555421 11 0 1256778888999999999988744
No 30
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=94.92 E-value=0.86 Score=32.04 Aligned_cols=93 Identities=13% Similarity=0.064 Sum_probs=60.1
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccC--CCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRN--GDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~--~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
-.+|+|++.+..+|...+..+..+.... +-++..+|+...... ..
T Consensus 29 ~~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd~g~~~--------------------~~------------- 75 (258)
T PRK10696 29 GDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLDQKQPG--------------------FP------------- 75 (258)
T ss_pred CCEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEecCCCCC--------------------CC-------------
Confidence 4689999999999999888887766543 346777787542110 00
Q ss_pred hhhHHHHHHHhhhcCceEEEEEee-----------CC---------hhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFW-----------GD---------PREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~-----------g~---------~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+ .+.+.|.+.|+++.+.-.. +. -...+.+.|++.++|.|++|-+...
T Consensus 76 ~~---~~~~~~~~lgI~~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~dD 143 (258)
T PRK10696 76 EH---VLPEYLESLGVPYHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHRDD 143 (258)
T ss_pred HH---HHHHHHHHhCCCEEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCchHH
Confidence 11 2456667777775543211 10 0245677899999999999977544
No 31
>PRK13820 argininosuccinate synthase; Provisional
Probab=93.73 E-value=2.2 Score=32.06 Aligned_cols=36 Identities=19% Similarity=0.153 Sum_probs=29.1
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCC-EEEEEEEec
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGD-HLILVTVVP 42 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~-~v~ll~v~~ 42 (148)
+++|+|++.+.-+|.-++.++.. .++. +|+.+|+..
T Consensus 2 ~~kVvvA~SGGvDSsvll~lL~e---~~g~~~Viav~vd~ 38 (394)
T PRK13820 2 MKKVVLAYSGGLDTSVCVPLLKE---KYGYDEVITVTVDV 38 (394)
T ss_pred CCeEEEEEeCcHHHHHHHHHHHH---hcCCCEEEEEEEEC
Confidence 38999999999999988888754 3464 899999865
No 32
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.60 E-value=0.27 Score=37.46 Aligned_cols=90 Identities=17% Similarity=-0.006 Sum_probs=61.2
Q ss_pred cCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHH
Q 032042 12 DFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTV 91 (148)
Q Consensus 12 d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (148)
|..=....||..|+..|...+.+|..+++.++..... . . ....-..+.+..+.+.
T Consensus 32 DLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~-------------------~---~---~r~~Fl~esL~~L~~~ 86 (454)
T TIGR00591 32 DQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLAA-------------------T---R---RHYFFMLGGLDEVANE 86 (454)
T ss_pred chhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCcccc-------------------c---H---HHHHHHHHHHHHHHHH
Confidence 3333556788888876665567899999987643110 0 0 0111234666777777
Q ss_pred hhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEe
Q 032042 92 ARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 92 ~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~ 128 (148)
+++.|+... +..|++.+.|.+.+++.+++.|+...
T Consensus 87 L~~~g~~L~--v~~g~~~~~l~~l~~~~~i~~V~~~~ 121 (454)
T TIGR00591 87 CERLIIPFH--LLDGPPKELLPYFVDLHAAAAVVTDF 121 (454)
T ss_pred HHHcCCceE--EeecChHHHHHHHHHHcCCCEEEEec
Confidence 777776653 45689999999999999999999854
No 33
>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=93.58 E-value=1.5 Score=29.56 Aligned_cols=91 Identities=15% Similarity=0.087 Sum_probs=57.7
Q ss_pred EEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHH
Q 032042 7 VGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLD 86 (148)
Q Consensus 7 ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (148)
++|.-.+..-.-.+.+.|..+..+ +.+|.++..-.. . -...+
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~-R------------------------------------~ga~e 46 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTY-R------------------------------------IGAVE 46 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTS-S------------------------------------THHHH
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCC-C------------------------------------ccHHH
Confidence 445555666677888889888877 888888775321 1 13455
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHH---HHHHhhcCCcEEEEEecCCCccc
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKI---CEAIDKIPLSCLVIGNRGLGKLK 135 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~~ 135 (148)
.++.+++..|+++...-...++.+.+ ++..+..++|+|++-+.|+++..
T Consensus 47 QL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d 98 (196)
T PF00448_consen 47 QLKTYAEILGVPFYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRD 98 (196)
T ss_dssp HHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTH
T ss_pred HHHHHHHHhccccchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhh
Confidence 56777777788765533233554433 45556678999999999998754
No 34
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=93.52 E-value=1.5 Score=29.51 Aligned_cols=83 Identities=13% Similarity=0.018 Sum_probs=54.6
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhh
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPET 84 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (148)
++|.|-+.++.....++-.|+. ....++++.++-...+.. .
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~~~~a~i~~Visd~~~A-------------------------------------~- 41 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GGKLDAEIVAVISDKADA-------------------------------------Y- 41 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cCCCCcEEEEEEeCCCCC-------------------------------------H-
Confidence 3677888888777777777777 445567776665543221 1
Q ss_pred HHHHHHHhhhcCceEEEEEeeCC-----hhHHHHHHHhhcCCcEEEEEec
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGD-----PREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~-----~~~~I~~~a~~~~~dliV~g~~ 129 (148)
..+++++.|++....-...- -..+|.+..++.++|+||+...
T Consensus 42 ---~lerA~~~gIpt~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAGy 88 (200)
T COG0299 42 ---ALERAAKAGIPTVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAGY 88 (200)
T ss_pred ---HHHHHHHcCCCEEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcch
Confidence 34556677887544322221 3588999999999999999543
No 35
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=93.32 E-value=1.7 Score=31.18 Aligned_cols=43 Identities=12% Similarity=0.084 Sum_probs=29.0
Q ss_pred HHHhhhcCceEEEEEe----eCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 89 NTVARQKQIVVVMKIF----WGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~----~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
...+++.|+++...-. ..+....+.+..++.++|+||+...++
T Consensus 130 ~~lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~~ 176 (286)
T PRK06027 130 RSLVERFGIPFHHVPVTKETKAEAEARLLELIDEYQPDLVVLARYMQ 176 (286)
T ss_pred HHHHHHhCCCEEEeccCccccchhHHHHHHHHHHhCCCEEEEecchh
Confidence 3446777888655221 123355788889999999999976553
No 36
>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=92.92 E-value=2.3 Score=29.82 Aligned_cols=36 Identities=22% Similarity=0.211 Sum_probs=29.0
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
..++++|++.+.-+|.-++..+... +.++..+|+..
T Consensus 11 ~~~~vlVa~SGGvDSs~ll~la~~~----g~~v~av~~~~ 46 (252)
T TIGR00268 11 EFKKVLIAYSGGVDSSLLAAVCSDA----GTEVLAITVVS 46 (252)
T ss_pred hcCCEEEEecCcHHHHHHHHHHHHh----CCCEEEEEecC
Confidence 3578999999999998888887764 56788888854
No 37
>TIGR02039 CysD sulfate adenylyltransferase, small subunit. In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules.
Probab=92.87 E-value=2.6 Score=30.38 Aligned_cols=93 Identities=16% Similarity=0.123 Sum_probs=60.1
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChh
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPE 83 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (148)
+.++++++.+..+|.-++..+.......+.++.++|+-....+ .+
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~IDTG~~F-----------------------------------~E 63 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVDTGWKF-----------------------------------RE 63 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEecCCCC-----------------------------------HH
Confidence 5567888999999999998888765444567889998653221 13
Q ss_pred hHHHHHHHhhhcCceEEEEEee-----C-Ch-------------hHHHHHHHhhcCCcEEEEEecCC
Q 032042 84 TLDIVNTVARQKQIVVVMKIFW-----G-DP-------------REKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~-----g-~~-------------~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
..+...+.++..|+++.+.... | ++ ...+.++++++++|.++.|.+..
T Consensus 64 t~efrd~~a~~~gl~l~v~~~~~~~~~g~~~~~~~~~~~c~vlK~~pL~~al~e~g~da~itG~RRD 130 (294)
T TIGR02039 64 MIAFRDHMVAKYGLRLIVHSNEEGIADGINPFTEGSALHTDIMKTEALRQALDKNQFDAAFGGARRD 130 (294)
T ss_pred HHHHHHHHHHHhCCCEEEEechhhhhcCccccccChHHHhhHHHHHHHHHHHHHcCCCEEEecCChh
Confidence 3344444445556654443211 1 01 24577788889999999997763
No 38
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=92.69 E-value=1.9 Score=31.00 Aligned_cols=42 Identities=14% Similarity=0.078 Sum_probs=29.0
Q ss_pred HHHhhhcCceEEEEEee----CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 89 NTVARQKQIVVVMKIFW----GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~~----g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.+++.|+++...-.. ......+.+..+++++|+||+....
T Consensus 134 ~~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagym 179 (289)
T PRK13010 134 QPLAVQHDIPFHHLPVTPDTKAQQEAQILDLIETSGAELVVLARYM 179 (289)
T ss_pred HHHHHHcCCCEEEeCCCcccccchHHHHHHHHHHhCCCEEEEehhh
Confidence 36677788886642211 2234578889999999999997654
No 39
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=91.42 E-value=3.8 Score=29.85 Aligned_cols=39 Identities=13% Similarity=-0.003 Sum_probs=30.8
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
+.++.+++.+..+|.-.+..+...+...+.++-++|+-.
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~VDT 75 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVDT 75 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEeCC
Confidence 567888999999999999988886654456788888854
No 40
>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=91.41 E-value=3.4 Score=29.56 Aligned_cols=40 Identities=8% Similarity=0.028 Sum_probs=26.6
Q ss_pred HhhhcCceEEEEEee--C--ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 91 VARQKQIVVVMKIFW--G--DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 91 ~~~~~~~~~~~~~~~--g--~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++.|+++...-.. . .....+.+..++.++|+||+....
T Consensus 127 ~A~~~gIp~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagym 170 (280)
T TIGR00655 127 LVERFGIPFHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKYM 170 (280)
T ss_pred HHHHhCCCEEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCch
Confidence 366678876543321 1 224578888889999999997554
No 41
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=90.82 E-value=5.8 Score=30.31 Aligned_cols=41 Identities=20% Similarity=0.037 Sum_probs=32.9
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhc-ccCCCEEEEEEEecC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNV-VRNGDHLILVTVVPE 43 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la-~~~~~~v~ll~v~~~ 43 (148)
+..+|+|++.|..+|...+.....+. ...+.++.++|+...
T Consensus 14 ~~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvnhg 55 (436)
T PRK10660 14 TSRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVHHG 55 (436)
T ss_pred CCCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEeCC
Confidence 34789999999999998888887755 235778999999754
No 42
>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=90.62 E-value=3.3 Score=27.27 Aligned_cols=24 Identities=17% Similarity=0.322 Sum_probs=19.9
Q ss_pred hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 109 REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+.|.+.+++.++|+|++|....+
T Consensus 80 a~~l~~~i~~~~p~~Vl~g~t~~g 103 (181)
T cd01985 80 AKALAALIKKEKPDLILAGATSIG 103 (181)
T ss_pred HHHHHHHHHHhCCCEEEECCcccc
Confidence 577888888889999999987664
No 43
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=90.42 E-value=3.2 Score=26.50 Aligned_cols=36 Identities=14% Similarity=0.003 Sum_probs=26.7
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
+|+|++.+..+|..++..+....... .++.++|+..
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~dt 36 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFLDT 36 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEeCC
Confidence 57899999999988888887755432 3677777754
No 44
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=90.09 E-value=5.4 Score=28.66 Aligned_cols=40 Identities=8% Similarity=0.012 Sum_probs=26.4
Q ss_pred HhhhcCceEEEEEee----CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 91 VARQKQIVVVMKIFW----GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 91 ~~~~~~~~~~~~~~~----g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++.|+++...-.. .+....+.+..++.++|++|+...+
T Consensus 132 lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK13011 132 LAAWHGIPFHHFPITPDTKPQQEAQVLDVVEESGAELVVLARYM 175 (286)
T ss_pred HHHHhCCCEEEeCCCcCchhhhHHHHHHHHHHhCcCEEEEeChh
Confidence 366778886542111 1234567888899999999997554
No 45
>PLN00200 argininosuccinate synthase; Provisional
Probab=89.61 E-value=7.4 Score=29.46 Aligned_cols=37 Identities=16% Similarity=0.175 Sum_probs=29.6
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
.++|+|++.+.-+|.-++.++.. ..+.+|+.+|+...
T Consensus 5 ~~kVvva~SGGlDSsvla~~L~e---~~G~eViav~id~G 41 (404)
T PLN00200 5 LNKVVLAYSGGLDTSVILKWLRE---NYGCEVVCFTADVG 41 (404)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHH---hhCCeEEEEEEECC
Confidence 37999999999999888888866 24678999888643
No 46
>PRK10867 signal recognition particle protein; Provisional
Probab=89.53 E-value=4.6 Score=30.85 Aligned_cols=88 Identities=14% Similarity=0.097 Sum_probs=51.0
Q ss_pred cCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHH
Q 032042 12 DFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTV 91 (148)
Q Consensus 12 d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (148)
-++.-+..+...|..+....+.++.++..-... ....+.+..+
T Consensus 109 ~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R-------------------------------------~aa~eQL~~~ 151 (433)
T PRK10867 109 QGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYR-------------------------------------PAAIEQLKTL 151 (433)
T ss_pred CCCcHHHHHHHHHHHHHHhcCCcEEEEEccccc-------------------------------------hHHHHHHHHH
Confidence 344555667777777665546777766553211 0122334445
Q ss_pred hhhcCceEEEEEeeCChh---HHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 92 ARQKQIVVVMKIFWGDPR---EKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 92 ~~~~~~~~~~~~~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
+...|+++...-...+|. ...++.++..++|+|++-+.|+.....
T Consensus 152 a~~~gv~v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~ 199 (433)
T PRK10867 152 GEQIGVPVFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDE 199 (433)
T ss_pred HhhcCCeEEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccCH
Confidence 556677654332223553 334456677789999999999876543
No 47
>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=89.29 E-value=1.2 Score=28.90 Aligned_cols=62 Identities=10% Similarity=0.132 Sum_probs=43.2
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeC-Chh---HHHHHHHhhcCCcEEEEEecCCCccceeecccccc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWG-DPR---EKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIEL 144 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g-~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~ 144 (148)
...++....+++.|++++..+..- ... ..+.+.+++.+++.||.+......+-..+-|.|.-
T Consensus 12 ~~~~~a~~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpgvva~~t~~ 77 (156)
T TIGR01162 12 PTMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPGMVAALTPL 77 (156)
T ss_pred HHHHHHHHHHHHcCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHHHHHhccCC
Confidence 556677777888999999988752 333 44444456678999999888877776666555543
No 48
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=88.84 E-value=5.7 Score=27.11 Aligned_cols=42 Identities=12% Similarity=0.101 Sum_probs=26.8
Q ss_pred HHHhhhcCceEEEEEeeC-----ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 89 NTVARQKQIVVVMKIFWG-----DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~~g-----~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.+++.|+++...-... .-.+.+.+..++.++|++|+...+
T Consensus 42 ~~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~~l~~~~~Dliv~agy~ 88 (207)
T PLN02331 42 AEYARENGIPVLVYPKTKGEPDGLSPDELVDALRGAGVDFVLLAGYL 88 (207)
T ss_pred HHHHHHhCCCEEEeccccCCCcccchHHHHHHHHhcCCCEEEEeCcc
Confidence 345666788764422211 114577888899999999996544
No 49
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=88.65 E-value=5.5 Score=26.68 Aligned_cols=88 Identities=20% Similarity=0.128 Sum_probs=54.0
Q ss_pred EEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHH
Q 032042 7 VGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLD 86 (148)
Q Consensus 7 ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (148)
|+|++.+.-+|..++..+.... +.++..+|+..... .....+
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~---~~~v~~v~vd~g~~-----------------------------------~~~~~~ 42 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDAL---GDRVLAVTATSPLF-----------------------------------PRRELE 42 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHh---CCcEEEEEeCCCCC-----------------------------------CHHHHH
Confidence 5788888888888887776643 23788888864321 012233
Q ss_pred HHHHHhhhcCceEEEEEee-------------------CChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 87 IVNTVARQKQIVVVMKIFW-------------------GDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~-------------------g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+.+.+++.|++....-.. .-....+.++|++.+++.|+.|.+...
T Consensus 43 ~~~~~a~~lgi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~~dD 107 (202)
T cd01990 43 EAKRLAKEIGIRHEVIETDELDDPEFAKNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTNADD 107 (202)
T ss_pred HHHHHHHHcCCcEEEEeCCccccHHHhcCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCcccc
Confidence 4555555566653332111 011346667899999999999976543
No 50
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=88.20 E-value=5.8 Score=30.25 Aligned_cols=93 Identities=15% Similarity=0.114 Sum_probs=62.2
Q ss_pred EEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHH
Q 032042 7 VGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLD 86 (148)
Q Consensus 7 ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (148)
.+|.+-++.-.-.+-+.|..+-+ .+..+.++..-... -...+
T Consensus 104 mmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~R-------------------------------------pAA~e 145 (451)
T COG0541 104 LMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYR-------------------------------------PAAIE 145 (451)
T ss_pred EEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCC-------------------------------------hHHHH
Confidence 45666777777777777877666 67777776553211 13445
Q ss_pred HHHHHhhhcCceEEEEEeeCChh---HHHHHHHhhcCCcEEEEEecCCCcccee
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPR---EKICEAIDKIPLSCLVIGNRGLGKLKRL 137 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~~ 137 (148)
.+++...+.++++-......+|. ..=++.+++.++|+||+-+-||-.+..-
T Consensus 146 QL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~ 199 (451)
T COG0541 146 QLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEE 199 (451)
T ss_pred HHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHH
Confidence 56677777788765552223553 5566788999999999999998776543
No 51
>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=87.33 E-value=8 Score=29.54 Aligned_cols=90 Identities=12% Similarity=0.091 Sum_probs=50.0
Q ss_pred EEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHH
Q 032042 9 VAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIV 88 (148)
Q Consensus 9 v~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (148)
+..-++.-+..+...|..+....+.++.++..-...+ ...+.+
T Consensus 105 vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~-------------------------------------~a~~QL 147 (428)
T TIGR00959 105 VGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRP-------------------------------------AAIEQL 147 (428)
T ss_pred ECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccch-------------------------------------HHHHHH
Confidence 3334455556677777776544566776665432110 122234
Q ss_pred HHHhhhcCceEEEEEeeCChh---HHHHHHHhhcCCcEEEEEecCCCccc
Q 032042 89 NTVARQKQIVVVMKIFWGDPR---EKICEAIDKIPLSCLVIGNRGLGKLK 135 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~~ 135 (148)
..++...++++.......+|. ...++.+...++|+|++-+.|+....
T Consensus 148 ~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d 197 (428)
T TIGR00959 148 KVLGQQVGVPVFALGKGQSPVEIARRALEYAKENGFDVVIVDTAGRLQID 197 (428)
T ss_pred HHHHHhcCCceEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCccccC
Confidence 444555566654422223453 33445566678999999998877543
No 52
>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=87.28 E-value=1.3 Score=28.76 Aligned_cols=85 Identities=22% Similarity=0.299 Sum_probs=52.2
Q ss_pred hHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHHhhhc
Q 032042 16 CSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTVARQK 95 (148)
Q Consensus 16 ~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (148)
....||..|+ ..+.+|..++++++.... +. ...+ .+. .-..+.+..+.+.+++.
T Consensus 12 ~DN~aL~~A~----~~~~~v~~vfv~d~~~~~------------~~----~~~~---~r~---~Fl~~sL~~L~~~L~~~ 65 (165)
T PF00875_consen 12 HDNPALHAAA----QNGDPVLPVFVFDPEEFH------------PY----RIGP---RRR---RFLLESLADLQESLRKL 65 (165)
T ss_dssp TT-HHHHHHH----HTTSEEEEEEEE-HHGGT------------TC----SSCH---HHH---HHHHHHHHHHHHHHHHT
T ss_pred hhhHHHHHHH----HcCCCeEEEEEecccccc------------cc----cCcc---hHH---HHHHHHHHHHHHHHHhc
Confidence 4456666663 356789999999875210 00 0000 111 11245666677777776
Q ss_pred CceEEEEEeeCChhHHHHHHHhhcCCcEEEEEe
Q 032042 96 QIVVVMKIFWGDPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 96 ~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~ 128 (148)
|+. ..+..|++.+.|.+.+++.+++.|+...
T Consensus 66 g~~--L~v~~g~~~~~l~~l~~~~~~~~V~~~~ 96 (165)
T PF00875_consen 66 GIP--LLVLRGDPEEVLPELAKEYGATAVYFNE 96 (165)
T ss_dssp TS---EEEEESSHHHHHHHHHHHHTESEEEEE-
T ss_pred Ccc--eEEEecchHHHHHHHHHhcCcCeeEecc
Confidence 765 5556689999999999999999999853
No 53
>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=86.79 E-value=0.58 Score=28.01 Aligned_cols=24 Identities=13% Similarity=0.295 Sum_probs=20.3
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.-.+.|.++++++++||+|+|.-.
T Consensus 49 ~d~~~l~~~a~~~~idlvvvGPE~ 72 (100)
T PF02844_consen 49 TDPEELADFAKENKIDLVVVGPEA 72 (100)
T ss_dssp T-HHHHHHHHHHTTESEEEESSHH
T ss_pred CCHHHHHHHHHHcCCCEEEECChH
Confidence 557899999999999999999653
No 54
>cd01714 ETF_beta The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=86.62 E-value=7.8 Score=26.22 Aligned_cols=32 Identities=16% Similarity=0.177 Sum_probs=22.9
Q ss_pred EEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 9 VAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 9 v~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
++.-.++.+..++..+..+++..+.++.++.+
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~g~~v~av~~ 60 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKYGGEVTVVSM 60 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhcCCEEEEEEE
Confidence 34445677888888999988777777666554
No 55
>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=86.61 E-value=2.3 Score=27.48 Aligned_cols=62 Identities=6% Similarity=-0.052 Sum_probs=38.9
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeC-ChhHHHHHHHhh---cCCcEEEEEecCCCccceeeccccc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWG-DPREKICEAIDK---IPLSCLVIGNRGLGKLKRLDFINIE 143 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g-~~~~~I~~~a~~---~~~dliV~g~~~~~~~~~~~~Gs~a 143 (148)
....+++...+++.|++++.++... ...+.+.+++++ .+++.+|.++...+.+-.++-|.|.
T Consensus 13 ~~~~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpgvva~~t~ 78 (150)
T PF00731_consen 13 LPIAEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALPGVVASLTT 78 (150)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HHHHHHHHSS
T ss_pred HHHHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccchhhheeccC
Confidence 3556777888888899999888753 334555555544 5679888888777776666555554
No 56
>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=85.75 E-value=3.2 Score=23.30 Aligned_cols=34 Identities=21% Similarity=0.195 Sum_probs=27.9
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEE
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLIL 37 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~l 37 (148)
.++|.++.|.++....+.+.+.......+..+..
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~ 76 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKLGLNVRV 76 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEE
Confidence 3899999999999999988888877777766554
No 57
>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=85.47 E-value=4.4 Score=30.71 Aligned_cols=94 Identities=18% Similarity=0.157 Sum_probs=56.6
Q ss_pred cCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHH
Q 032042 12 DFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTV 91 (148)
Q Consensus 12 d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (148)
|..=....||..|+..+ .+|..|+++++..... ...+. .+ .... . ...-..+.++.+.+.
T Consensus 10 DLRl~DN~aL~~A~~~~----~~vl~vfi~dp~~~~~------~~~~~--~~--~~~~---~---r~~Fl~esL~~L~~~ 69 (429)
T TIGR02765 10 DLRVHDNPALYKASSSS----DTLIPLYCFDPRQFKL------THFFG--FP--KTGP---A---RGKFLLESLKDLRTS 69 (429)
T ss_pred CCccccHHHHHHHHhcC----CeEEEEEEECchHhcc------ccccc--cC--CCCH---H---HHHHHHHHHHHHHHH
Confidence 33335567787777533 4689999988643210 00000 00 0000 1 111234666777777
Q ss_pred hhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEE
Q 032042 92 ARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 92 ~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g 127 (148)
+++.|++. .+..|++.+.|.+.+++.+++.|+.-
T Consensus 70 L~~~g~~L--~v~~G~~~~vl~~L~~~~~~~~V~~~ 103 (429)
T TIGR02765 70 LRKLGSDL--LVRSGKPEDVLPELIKELGVRTVFLH 103 (429)
T ss_pred HHHcCCCe--EEEeCCHHHHHHHHHHHhCCCEEEEe
Confidence 77777765 34468999999999999999999985
No 58
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=85.13 E-value=3.7 Score=31.63 Aligned_cols=86 Identities=12% Similarity=0.076 Sum_probs=54.6
Q ss_pred HhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHHhhh
Q 032042 15 ACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTVARQ 94 (148)
Q Consensus 15 ~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (148)
=....||..|+. .+.+|.+++++++..... + .... .+ ..-..+.+..+.+.+++
T Consensus 13 l~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~-----------~-----~~~~---~r---~~Fl~esL~~L~~~L~~ 66 (471)
T TIGR03556 13 LSDNIGLAAARQ----QSAKVVGLFCLDPNILQA-----------D-----DMAP---AR---VAYLIGCLQELQQRYQQ 66 (471)
T ss_pred cchHHHHHHHHh----cCCCEEEEEEEchhhhcc-----------c-----cCCH---HH---HHHHHHHHHHHHHHHHH
Confidence 345667777764 245799999988642100 0 0000 00 01224556667777777
Q ss_pred cCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEe
Q 032042 95 KQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 95 ~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~ 128 (148)
.|+.. .+..|++.+.|.+.+++.+++.|+.-.
T Consensus 67 ~G~~L--~v~~G~p~~vl~~l~~~~~~~~V~~~~ 98 (471)
T TIGR03556 67 AGSQL--LILQGDPVQLIPQLAQQLGAKAVYWNL 98 (471)
T ss_pred CCCCe--EEEECCHHHHHHHHHHHcCCCEEEEec
Confidence 77665 445699999999999999999999743
No 59
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=84.91 E-value=3.9 Score=28.14 Aligned_cols=64 Identities=9% Similarity=0.034 Sum_probs=50.4
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeecccccccc
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELLI 146 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~v 146 (148)
+.....++.+..++.|+.+-..+..+.|.+.+..+..+ +|+|.+-+-.++.-++.|+.++-++|
T Consensus 94 ~~~~~~r~i~~Ik~~G~kaGv~lnP~Tp~~~i~~~l~~--vD~VllMsVnPGfgGQ~Fi~~~l~Ki 157 (220)
T COG0036 94 ATEHIHRTIQLIKELGVKAGLVLNPATPLEALEPVLDD--VDLVLLMSVNPGFGGQKFIPEVLEKI 157 (220)
T ss_pred cCcCHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHHhh--CCEEEEEeECCCCcccccCHHHHHHH
Confidence 34456667777888899988888778999999999988 99999888888877777776665443
No 60
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=84.84 E-value=5.2 Score=32.90 Aligned_cols=41 Identities=17% Similarity=0.099 Sum_probs=34.3
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
.+|.+..=+.+....|+.++.+++.++...+++++.++...
T Consensus 615 ~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~~ 655 (769)
T KOG1650|consen 615 YKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDES 655 (769)
T ss_pred eEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccch
Confidence 35666666777888899999999999999999999998654
No 61
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=84.70 E-value=5.7 Score=28.05 Aligned_cols=53 Identities=13% Similarity=0.182 Sum_probs=38.4
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHH---HHhhcCCcEEEEEecCCCccce
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICE---AIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~---~a~~~~~dliV~g~~~~~~~~~ 136 (148)
......+.+.+...|+++..+...||..+.|.+ .+.+. +|+||+ +.|-++..+
T Consensus 20 dtNa~~la~~L~~~G~~v~~~~~VgD~~~~I~~~l~~a~~r-~D~vI~-tGGLGPT~D 75 (255)
T COG1058 20 DTNAAFLADELTELGVDLARITTVGDNPDRIVEALREASER-ADVVIT-TGGLGPTHD 75 (255)
T ss_pred cchHHHHHHHHHhcCceEEEEEecCCCHHHHHHHHHHHHhC-CCEEEE-CCCcCCCcc
Confidence 466778889999999999988888866555544 45555 999988 456665443
No 62
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=84.32 E-value=12 Score=26.46 Aligned_cols=91 Identities=18% Similarity=0.143 Sum_probs=58.3
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCCh
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDP 82 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (148)
...+++|++.+.-+|.-.+..|...+ |.++..+++..+.. | +
T Consensus 16 ~~~kv~vAfSGGvDSslLa~la~~~l---G~~v~AvTv~sP~~-----------------p------------------~ 57 (269)
T COG1606 16 EKKKVVVAFSGGVDSSLLAKLAKEAL---GDNVVAVTVDSPYI-----------------P------------------R 57 (269)
T ss_pred hcCeEEEEecCCccHHHHHHHHHHHh---ccceEEEEEecCCC-----------------C------------------h
Confidence 34589999999888877777776644 46777777765321 1 1
Q ss_pred hhHHHHHHHhhhcCceEEEEE------------------eeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 83 ETLDIVNTVARQKQIVVVMKI------------------FWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~------------------~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
..++.+...+++.|+..++.- ......+.|++.|.+.+.|.++=|+...
T Consensus 58 ~e~e~A~~~A~~iGi~H~~i~~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtNas 124 (269)
T COG1606 58 REIEEAKNIAKEIGIRHEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTNAS 124 (269)
T ss_pred hhhhHHHHHHHHhCCcceeeehhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCcHH
Confidence 223334444555555433321 1123458999999999999999987643
No 63
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=83.63 E-value=2.3 Score=24.07 Aligned_cols=34 Identities=24% Similarity=0.198 Sum_probs=22.6
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEE
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLIL 37 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~l 37 (148)
.++|++++|++...+.+...........+.+++.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~~ 79 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVTR 79 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG--------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhcccccc
Confidence 4889999999999999999988866666665544
No 64
>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=83.56 E-value=6.9 Score=27.85 Aligned_cols=92 Identities=13% Similarity=0.200 Sum_probs=53.2
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
+|-|.+...++++.-++-|-.+.+.++.. .+.|+.-|..+.. +.+...
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~~Yg~~-~I~h~tyPdnf~~-------------------------------e~EttI 51 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIKKYGDV-MIKHVTYPDNFMS-------------------------------EQETTI 51 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHHHHHHH-EEEEEE--TTGGG-------------------------------CHHHHH
T ss_pred EEEEEeCCcccChHHHHHHHHHHHHhCcc-eEEEEeCCCcccc-------------------------------hHHHHH
Confidence 56677777778888888888888777765 7778776543211 124556
Q ss_pred HHHHHHhhhcCceEEEEEeeCCh-hHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDP-REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~-~~~I~~~a~~~~~dliV~g~~~ 130 (148)
..+...+.+..+.+-+.. .+.| ...-.+.+++..+|+|.+....
T Consensus 52 skI~~lAdDp~mKaIVv~-q~vpGt~~af~kIkekRpDIl~ia~~~ 96 (275)
T PF12683_consen 52 SKIVSLADDPDMKAIVVS-QAVPGTAEAFRKIKEKRPDILLIAGEP 96 (275)
T ss_dssp HHHHGGGG-TTEEEEEEE--SS---HHHHHHHHHH-TTSEEEESS-
T ss_pred HHHHHhccCCCccEEEEe-CCCcchHHHHHHHHhcCCCeEEEcCCC
Confidence 666776666555543322 3444 4555678888999999997653
No 65
>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=83.38 E-value=17 Score=27.45 Aligned_cols=33 Identities=21% Similarity=0.250 Sum_probs=27.2
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
+|++++.+.-+|.-++.++.+. +.+|+.+|+..
T Consensus 1 kVvla~SGGlDSsvll~~l~e~----g~~V~av~id~ 33 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK----GYEVIAYTADV 33 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc----CCEEEEEEEec
Confidence 5889999998998888888763 67899999964
No 66
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=83.00 E-value=3.9 Score=29.56 Aligned_cols=55 Identities=9% Similarity=0.081 Sum_probs=41.2
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEeeCC-hhHHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFWGD-PREKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~-~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
.++....+.+.+.+.+.+.+.+..+.. .+..+++.+...++|.||.+ .|.+.+.+
T Consensus 18 ~~~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~-GGDGTv~e 73 (301)
T COG1597 18 AKKLLREVEELLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAA-GGDGTVNE 73 (301)
T ss_pred hhhHHHHHHHHHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEe-cCcchHHH
Confidence 457778888888899999888887653 67777777777799999985 44554443
No 67
>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=82.94 E-value=5.6 Score=24.17 Aligned_cols=43 Identities=21% Similarity=0.209 Sum_probs=29.8
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.-+...++..|.++.. .-...+.+.+++.+.+.++|+|++...
T Consensus 17 ~~~~~~l~~~G~~V~~-lg~~~~~~~l~~~~~~~~pdvV~iS~~ 59 (119)
T cd02067 17 NIVARALRDAGFEVID-LGVDVPPEEIVEAAKEEDADAIGLSGL 59 (119)
T ss_pred HHHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEecc
Confidence 3455666777877622 223466788888888889998888765
No 68
>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=82.60 E-value=12 Score=25.71 Aligned_cols=20 Identities=15% Similarity=0.250 Sum_probs=11.5
Q ss_pred HHHHHHhhcCCcEEEEEecC
Q 032042 111 KICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 111 ~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++.++-..-..||++...
T Consensus 131 ~vl~~~~~~~~GaVVV~~Na 150 (218)
T PF07279_consen 131 RVLRAAKLSPRGAVVVCYNA 150 (218)
T ss_pred HHHHHhccCCCceEEEEecc
Confidence 55666665444566665544
No 69
>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=81.43 E-value=12 Score=24.24 Aligned_cols=33 Identities=18% Similarity=0.195 Sum_probs=25.1
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
++++.+.+.-+|..++..+... +.++..+|+..
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~~----~~~v~~~~~~~ 33 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKKE----GYEVHALSFDY 33 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHHc----CCcEEEEEEEC
Confidence 5788999988888888777652 45688888854
No 70
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=80.63 E-value=7 Score=25.36 Aligned_cols=54 Identities=9% Similarity=0.179 Sum_probs=38.9
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeC-Chh---HHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWG-DPR---EKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g-~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
...+...+.+.+.|++++.++... ..- .+..+.+++.+...||-|+.|...+-.
T Consensus 16 ~~mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPG 73 (162)
T COG0041 16 DTMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPG 73 (162)
T ss_pred HHHHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcch
Confidence 556677888888999999998753 333 445555678888899999887554433
No 71
>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=80.61 E-value=20 Score=27.44 Aligned_cols=49 Identities=16% Similarity=0.172 Sum_probs=28.2
Q ss_pred HHHHhhhcCceEEEEEeeCChhH---HHHHHHhhcCCcEEEEEecCCCccce
Q 032042 88 VNTVARQKQIVVVMKIFWGDPRE---KICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~---~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
++.++...++++.......+|.. .-++.++..++|+|++-+.|+.....
T Consensus 147 Lk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~ 198 (429)
T TIGR01425 147 LKQNATKARIPFYGSYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQED 198 (429)
T ss_pred HHHHhhccCCeEEeecCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchH
Confidence 34445455666543332345533 23445555678999998888876543
No 72
>PLN02828 formyltetrahydrofolate deformylase
Probab=79.58 E-value=20 Score=25.62 Aligned_cols=87 Identities=14% Similarity=-0.026 Sum_probs=54.4
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCCh
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDP 82 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (148)
..+||.|-+.++.....++-++.. ....+++|.++-..++.+.
T Consensus 69 ~~~riavlvSg~g~nl~~ll~~~~-~g~l~~eI~~ViSn~~~~~------------------------------------ 111 (268)
T PLN02828 69 PKYKIAVLASKQDHCLIDLLHRWQ-DGRLPVDITCVISNHERGP------------------------------------ 111 (268)
T ss_pred CCcEEEEEEcCCChhHHHHHHhhh-cCCCCceEEEEEeCCCCCC------------------------------------
Confidence 357899999998888888888766 4455677666555443210
Q ss_pred hhHHHHHHHhhhcCceEEEEEee--CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFW--GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
...+.+.+++.|+++...-.. ....+.+.+..+ ++|+||+....
T Consensus 112 --~a~~~~~A~~~gIP~~~~~~~~~~~~e~~~~~~l~--~~DliVLAgym 157 (268)
T PLN02828 112 --NTHVMRFLERHGIPYHYLPTTKENKREDEILELVK--GTDFLVLARYM 157 (268)
T ss_pred --CchHHHHHHHcCCCEEEeCCCCCCCHHHHHHHHHh--cCCEEEEeeeh
Confidence 002445566778887643322 222345666666 49999997654
No 73
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=78.42 E-value=12 Score=22.25 Aligned_cols=48 Identities=25% Similarity=0.290 Sum_probs=36.1
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEee-----------C-ChhHHHHHHHhhcCCcEEEEEe
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFW-----------G-DPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~-----------g-~~~~~I~~~a~~~~~dliV~g~ 128 (148)
.+..++++.+.++..|+.+-..+.. | .-.++|.+.++..++|+||.-.
T Consensus 6 ~~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~ 65 (95)
T PF13167_consen 6 FEESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDN 65 (95)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECC
Confidence 3577888999888888875544332 2 3358999999999999999953
No 74
>PLN02285 methionyl-tRNA formyltransferase
Probab=78.26 E-value=25 Score=25.96 Aligned_cols=43 Identities=12% Similarity=0.098 Sum_probs=27.2
Q ss_pred HHHHhhhcCceEEEEEeeCCh-hHHHHHHHhhcCCcEEEEEecC
Q 032042 88 VNTVARQKQIVVVMKIFWGDP-REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~-~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+.+.+.+.|+++......... .+.+++..++.++|++|+...+
T Consensus 60 v~~~A~~~gIp~~~v~~~~~~~~~~~~~~l~~~~~Dliv~~~~~ 103 (334)
T PLN02285 60 VAQLALDRGFPPDLIFTPEKAGEEDFLSALRELQPDLCITAAYG 103 (334)
T ss_pred HHHHHHHcCCCcceecCccccCCHHHHHHHHhhCCCEEEhhHhh
Confidence 455566778874432221222 3456677888899999997654
No 75
>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=77.90 E-value=9.5 Score=23.44 Aligned_cols=45 Identities=13% Similarity=0.150 Sum_probs=32.2
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+..+...++..|+++...- ...|.+.+++.+.+.++|.|++....
T Consensus 16 ~~~~~~~l~~~G~~vi~lG-~~vp~e~~~~~a~~~~~d~V~iS~~~ 60 (122)
T cd02071 16 AKVIARALRDAGFEVIYTG-LRQTPEEIVEAAIQEDVDVIGLSSLS 60 (122)
T ss_pred HHHHHHHHHHCCCEEEECC-CCCCHHHHHHHHHHcCCCEEEEcccc
Confidence 3445666777788755422 23678899999999999999997654
No 76
>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=77.69 E-value=11 Score=23.93 Aligned_cols=43 Identities=14% Similarity=0.115 Sum_probs=30.1
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+...++..|+++.. +-...+.+.+++.|+++++|+|.+++..
T Consensus 20 iv~~~l~~~GfeVi~-LG~~v~~e~~v~aa~~~~adiVglS~l~ 62 (134)
T TIGR01501 20 ILDHAFTNAGFNVVN-LGVLSPQEEFIKAAIETKADAILVSSLY 62 (134)
T ss_pred HHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 355556677777433 2223678999999999999999986643
No 77
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=77.28 E-value=10 Score=22.87 Aligned_cols=45 Identities=4% Similarity=-0.009 Sum_probs=29.1
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
..+.+++.+++.|+++++... +...+.+.....++|+|++|.+-+
T Consensus 17 la~k~k~~~~e~gi~~~i~a~---~~~e~~~~~~~~~~DvIll~PQi~ 61 (104)
T PRK09590 17 MAKKTTEYLKEQGKDIEVDAI---TATEGEKAIAAAEYDLYLVSPQTK 61 (104)
T ss_pred HHHHHHHHHHHCCCceEEEEe---cHHHHHHhhccCCCCEEEEChHHH
Confidence 345567777888988766443 233455555556789999986543
No 78
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=76.79 E-value=6.9 Score=26.21 Aligned_cols=37 Identities=11% Similarity=-0.087 Sum_probs=30.5
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
+||++++.++-.+-++.+.+-.+.+..+.+|.++-..
T Consensus 2 k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv~T~ 38 (185)
T PRK06029 2 KRLIVGISGASGAIYGVRLLQVLRDVGEIETHLVISQ 38 (185)
T ss_pred CEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEEECH
Confidence 6999999999999999999999876567777766543
No 79
>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=76.71 E-value=8.9 Score=26.43 Aligned_cols=36 Identities=11% Similarity=0.083 Sum_probs=30.7
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEE
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVT 39 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~ 39 (148)
.++|.+++|++...+.|...+..+....+..+.++.
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~ 189 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIE 189 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEe
Confidence 478999999999999999999999988787766543
No 80
>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=76.33 E-value=13 Score=21.86 Aligned_cols=33 Identities=27% Similarity=-0.018 Sum_probs=25.3
Q ss_pred EEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 7 VGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 7 ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
|+|++.+..+|.-.+..+.... .++.++|+.+.
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~~----~~~~~~~~~~~ 33 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKLG----YQVIAVTVDHG 33 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHhC----CCEEEEEEcCC
Confidence 5789999989988888887753 26888888654
No 81
>PRK05920 aromatic acid decarboxylase; Validated
Probab=76.20 E-value=8 Score=26.36 Aligned_cols=35 Identities=11% Similarity=0.064 Sum_probs=28.7
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
+||++++.++..+-++++..-.+.+. |.+|.++-.
T Consensus 4 krIllgITGsiaa~ka~~lvr~L~~~-g~~V~vi~T 38 (204)
T PRK05920 4 KRIVLAITGASGAIYGVRLLECLLAA-DYEVHLVIS 38 (204)
T ss_pred CEEEEEEeCHHHHHHHHHHHHHHHHC-CCEEEEEEC
Confidence 89999999999998888888887654 777766654
No 82
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=75.92 E-value=9.5 Score=25.84 Aligned_cols=38 Identities=16% Similarity=0.245 Sum_probs=29.2
Q ss_pred CCccEEEEEecCCHhHHH-HHHHHHhhcccCCCEEEEEEE
Q 032042 2 DGTRRVGVAVDFSACSKK-ALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 2 ~~~~~ILv~~d~s~~s~~-al~~a~~la~~~~~~v~ll~v 40 (148)
+.-++|++++.++..+-+ +++.+-.+. +.|.+|.++-.
T Consensus 3 l~~k~IllgVTGsiaa~k~a~~lir~L~-k~G~~V~vv~T 41 (196)
T PRK08305 3 LKGKRIGFGLTGSHCTYDEVMPEIEKLV-DEGAEVTPIVS 41 (196)
T ss_pred CCCCEEEEEEcCHHHHHHHHHHHHHHHH-hCcCEEEEEEC
Confidence 467899999999999988 577777764 45777776543
No 83
>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=75.81 E-value=15 Score=26.31 Aligned_cols=48 Identities=23% Similarity=0.214 Sum_probs=35.9
Q ss_pred hhhHHHHHHHhhhcCceEEEEEe-eCChhHHHHHHHhhcCCcEEEEEec
Q 032042 82 PETLDIVNTVARQKQIVVVMKIF-WGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
...++...+..++.++++.-... +..-.+.|.+..+++++|++|+..|
T Consensus 114 ~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGH 162 (283)
T TIGR02855 114 PEYLRKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLIEEVRPDILVITGH 162 (283)
T ss_pred HHHHHHHHHHHHHhCCceEEEEecchhchHHHHHHHHHhCCCEEEEeCc
Confidence 45555556666677888666554 4577899999999999999999544
No 84
>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=75.58 E-value=6.8 Score=24.31 Aligned_cols=35 Identities=20% Similarity=0.057 Sum_probs=26.4
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
|||++++.++.....+.++...+.+. +.+|.++-.
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~-g~~v~vv~S 35 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA-GWEVRVVLS 35 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT-TSEEEEEES
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC-CCEEEEEEC
Confidence 68999999999988888888887665 777666544
No 85
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=75.54 E-value=11 Score=26.02 Aligned_cols=44 Identities=14% Similarity=0.074 Sum_probs=27.8
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.++++...+.+.++...+. |.....-+....+.++|.+|+|+.-
T Consensus 159 ~~l~~~~~~~~~~~~IeVD-GGI~~eti~~l~~aGaDi~V~GSai 202 (223)
T PRK08745 159 RAIRKKIDALGKPIRLEID-GGVKADNIGAIAAAGADTFVAGSAI 202 (223)
T ss_pred HHHHHHHHhcCCCeeEEEE-CCCCHHHHHHHHHcCCCEEEEChhh
Confidence 3444555555666555554 5555555566667899999999653
No 86
>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=75.52 E-value=12 Score=22.39 Aligned_cols=45 Identities=7% Similarity=0.043 Sum_probs=30.1
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
-..+++++.+++.|+++++... +...+.+.... +|+|++|++-+-
T Consensus 15 ~la~km~~~a~~~gi~~~i~a~---~~~e~~~~~~~--~Dvill~PQv~~ 59 (99)
T cd05565 15 LLANALNKGAKERGVPLEAAAG---AYGSHYDMIPD--YDLVILAPQMAS 59 (99)
T ss_pred HHHHHHHHHHHHCCCcEEEEEe---eHHHHHHhccC--CCEEEEcChHHH
Confidence 3456677888889998876543 33445455554 899999887554
No 87
>PRK08576 hypothetical protein; Provisional
Probab=74.77 E-value=37 Score=26.19 Aligned_cols=32 Identities=25% Similarity=-0.005 Sum_probs=24.4
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
+++|++.+.-+|..++..+..... .+.++++.
T Consensus 236 rVvVafSGGKDStvLL~La~k~~~----~V~aV~iD 267 (438)
T PRK08576 236 TVIVPWSGGKDSTAALLLAKKAFG----DVTAVYVD 267 (438)
T ss_pred CEEEEEcChHHHHHHHHHHHHhCC----CCEEEEeC
Confidence 899999999999988877766432 26667664
No 88
>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=74.64 E-value=16 Score=26.22 Aligned_cols=48 Identities=25% Similarity=0.162 Sum_probs=36.4
Q ss_pred hhhHHHHHHHhhhcCceEEEEEe-eCChhHHHHHHHhhcCCcEEEEEec
Q 032042 82 PETLDIVNTVARQKQIVVVMKIF-WGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
...|+...+..++.++++.-... +.+-.+.|.+..+++++|++|+..|
T Consensus 115 ~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGH 163 (287)
T PF05582_consen 115 EEYLNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGH 163 (287)
T ss_pred HHHHHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCc
Confidence 45566666666778898776655 4577899999999999999999544
No 89
>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=74.54 E-value=15 Score=23.09 Aligned_cols=41 Identities=12% Similarity=0.139 Sum_probs=28.5
Q ss_pred HHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 88 VNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
+...++..|+++-- +-...+.+.+++.|.++++|+|.+.+-
T Consensus 19 v~~~L~~~GfeVid-LG~~v~~e~~v~aa~~~~adiVglS~L 59 (128)
T cd02072 19 LDHAFTEAGFNVVN-LGVLSPQEEFIDAAIETDADAILVSSL 59 (128)
T ss_pred HHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEecc
Confidence 44456667776432 222367899999999999999988653
No 90
>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=74.49 E-value=19 Score=25.39 Aligned_cols=31 Identities=6% Similarity=0.054 Sum_probs=21.2
Q ss_pred EEEecCCH---hHHHHHHHHHhhcccCCCEEEEE
Q 032042 8 GVAVDFSA---CSKKALQWAADNVVRNGDHLILV 38 (148)
Q Consensus 8 Lv~~d~s~---~s~~al~~a~~la~~~~~~v~ll 38 (148)
|+++.+.+ .+...+++.+.++...+++|.++
T Consensus 1 l~~iGG~~~~~~~~~i~~~~~~lag~~~~rI~~i 34 (250)
T TIGR02069 1 LVIIGGAEDKVGDREILREFVSRAGGEDAIIVII 34 (250)
T ss_pred CeEEeCccccCChHHHHHHHHHHhCCCCceEEEE
Confidence 35565543 34558999999998877777653
No 91
>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=74.49 E-value=12 Score=20.65 Aligned_cols=33 Identities=27% Similarity=0.263 Sum_probs=25.6
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLIL 37 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~l 37 (148)
++|.++.|.+.....+...+.......+..+.+
T Consensus 44 ~~vii~~D~D~~G~~~~~~~~~~~~~~~~~~~i 76 (79)
T cd01029 44 RTVILAFDNDEAGKKAAARALELLLALGGRVRV 76 (79)
T ss_pred CEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEE
Confidence 899999999998888888887777665554443
No 92
>PHA02031 putative DnaG-like primase
Probab=74.34 E-value=7.3 Score=27.67 Aligned_cols=36 Identities=11% Similarity=-0.114 Sum_probs=30.8
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
++|++++|++....+|...++.+....+..+.++..
T Consensus 207 ~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~vv~l 242 (266)
T PHA02031 207 PRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQVIIT 242 (266)
T ss_pred CCEEEEeCCCHHHHHHHHHHHHHHHHcCCceEEEEC
Confidence 789999999999999999999998887777665554
No 93
>TIGR00930 2a30 K-Cl cotransporter.
Probab=73.77 E-value=48 Score=28.33 Aligned_cols=95 Identities=17% Similarity=0.207 Sum_probs=58.5
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
++||.+.........++.+-.+.+ ...-.++.|+...+.. . ..+ +.++..
T Consensus 577 qiLvl~~~p~~~~~Ll~f~~~l~~-~~gl~i~~~v~~~~~~------------------~------~~~-----~~~~~~ 626 (953)
T TIGR00930 577 QCLVLTGPPVCRPALLDFASQFTK-GKGLMICGSVIQGPRL------------------E------CVK-----EAQAAE 626 (953)
T ss_pred eEEEEeCCCcCcHHHHHHHHHhcc-CCcEEEEEEEecCchh------------------h------hHH-----HHHHHH
Confidence 689999887788889999999873 3445666788764210 0 011 112334
Q ss_pred HHHHHHhhhcCceEEEEEee-CChhHHHHHHHhh-----cCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFW-GDPREKICEAIDK-----IPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~-----~~~dliV~g~~~ 130 (148)
+.+..+++..+++.-..+.. .+..+++....+. .+++.++||-+.
T Consensus 627 ~~~~~~~~~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~ 677 (953)
T TIGR00930 627 AKIQTWLEKNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKK 677 (953)
T ss_pred HHHHHHHHHhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCcc
Confidence 45556666677775554444 3666666665554 347788888764
No 94
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=73.74 E-value=13 Score=23.46 Aligned_cols=44 Identities=9% Similarity=0.092 Sum_probs=31.5
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
..+...++..|+++.. +-...|.+.+++.+.+.++|+|.+....
T Consensus 21 ~iv~~~lr~~G~eVi~-LG~~vp~e~i~~~a~~~~~d~V~lS~~~ 64 (137)
T PRK02261 21 KILDRALTEAGFEVIN-LGVMTSQEEFIDAAIETDADAILVSSLY 64 (137)
T ss_pred HHHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEcCcc
Confidence 3455566777877543 2234678999999999999999997544
No 95
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=73.72 E-value=24 Score=27.31 Aligned_cols=91 Identities=11% Similarity=0.110 Sum_probs=56.9
Q ss_pred cCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHH
Q 032042 12 DFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTV 91 (148)
Q Consensus 12 d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (148)
|..=....+|..|+..+ +.+|..++|+++..... + .... ....-..+.+..+.+.
T Consensus 11 DLRl~DN~aL~~A~~~~---~~~vlpvyv~dp~~~~~-----------~-----~~~~------~r~~Fl~esL~~L~~~ 65 (472)
T PRK10674 11 DLRLHDNLALAAACRDP---SARVLALFIATPAQWAA-----------H-----DMAP------RQAAFINAQLNALQIA 65 (472)
T ss_pred CCCcchHHHHHHHHhCC---CCCEEEEEEECchhhcc-----------C-----CCCH------HHHHHHHHHHHHHHHH
Confidence 44445567787776533 24699999998743110 0 0000 0111234666777777
Q ss_pred hhhcCceEEEEEe--eCChhHHHHHHHhhcCCcEEEEE
Q 032042 92 ARQKQIVVVMKIF--WGDPREKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 92 ~~~~~~~~~~~~~--~g~~~~~I~~~a~~~~~dliV~g 127 (148)
+++.|....+... .|++.+.|.+.+++.+++-|+.-
T Consensus 66 L~~~g~~L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~ 103 (472)
T PRK10674 66 LAEKGIPLLFHEVDDFAASVEWLKQFCQQHQVTHLFYN 103 (472)
T ss_pred HHHcCCceEEEecCCcCCHHHHHHHHHHHcCCCEEEEe
Confidence 7777877654433 36899999999999999999885
No 96
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.53 E-value=32 Score=26.22 Aligned_cols=52 Identities=13% Similarity=0.174 Sum_probs=31.7
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChh---HHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPR---EKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
...+.+++.+.+.++++-..-.+.+|+ .+=++..++.++|+||+-+.||..-
T Consensus 143 gAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~fKke~fdvIIvDTSGRh~q 197 (483)
T KOG0780|consen 143 GAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDRFKKENFDVIIVDTSGRHKQ 197 (483)
T ss_pred chHHHHHHHhHhhCCeeEecccccchHHHHHHHHHHHHhcCCcEEEEeCCCchhh
Confidence 334556666666677755544444553 3334556777888888888887653
No 97
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=73.17 E-value=14 Score=25.75 Aligned_cols=43 Identities=12% Similarity=0.170 Sum_probs=27.5
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.++++...+.+.++...+ .|.....=+..+.+.++|.+|.|+.
T Consensus 167 ~~lr~~~~~~~~~~~IeV-DGGI~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 167 IQVENRLGNRRVEKLISI-DGSMTLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred HHHHHHHHhcCCCceEEE-ECCCCHHHHHHHHHCCCCEEEEChh
Confidence 344455555676655545 4555555556666789999999965
No 98
>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=73.12 E-value=13 Score=25.04 Aligned_cols=44 Identities=18% Similarity=0.193 Sum_probs=32.4
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.-+...++..|.++ ..+-..-|.+.+++.+++.++|+|.+....
T Consensus 100 ~~v~~~l~~~G~~v-i~lG~~~p~~~l~~~~~~~~~d~v~lS~~~ 143 (201)
T cd02070 100 NLVATMLEANGFEV-IDLGRDVPPEEFVEAVKEHKPDILGLSALM 143 (201)
T ss_pred HHHHHHHHHCCCEE-EECCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 34566677788886 223234678999999999999999997643
No 99
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=72.78 E-value=47 Score=26.58 Aligned_cols=93 Identities=16% Similarity=0.083 Sum_probs=52.5
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChh
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPE 83 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (148)
-++|+|.-|.+-+.-.+..-.....+..+..-...++-+.... ++|. ...
T Consensus 69 ~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~IP~R~~e---------GYGl---------------------~~~ 118 (575)
T PRK11070 69 GTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYLVPNRFED---------GYGL---------------------SPE 118 (575)
T ss_pred CCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEEeCCCCcC---------CCCC---------------------CHH
Confidence 4688888888766665555556656666663222233221110 1110 012
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
..+. +.+.|.+.-.-+-.|.....-++++++.+.|+||+--|.
T Consensus 119 ~i~~----~~~~~~~LiItvD~Gi~~~e~i~~a~~~gidvIVtDHH~ 161 (575)
T PRK11070 119 VVDQ----AHARGAQLIVTVDNGISSHAGVAHAHALGIPVLVTDHHL 161 (575)
T ss_pred HHHH----HHhcCCCEEEEEcCCcCCHHHHHHHHHCCCCEEEECCCC
Confidence 2222 223455544445557667777789999999999997554
No 100
>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=72.11 E-value=13 Score=23.34 Aligned_cols=45 Identities=9% Similarity=0.036 Sum_probs=30.7
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.+...++..|+++...-. -.+.+.+++.+.+.++|.|++.+..
T Consensus 19 ~~iv~~~l~~~GfeVi~lg~-~~s~e~~v~aa~e~~adii~iSsl~ 63 (132)
T TIGR00640 19 AKVIATAYADLGFDVDVGPL-FQTPEEIARQAVEADVHVVGVSSLA 63 (132)
T ss_pred HHHHHHHHHhCCcEEEECCC-CCCHHHHHHHHHHcCCCEEEEcCch
Confidence 34566667777877544221 2557788888889999999986654
No 101
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=72.02 E-value=17 Score=25.17 Aligned_cols=58 Identities=5% Similarity=-0.087 Sum_probs=42.9
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeecccccc
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIEL 144 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~ 144 (148)
..++.+..++.|..+-..+-.+.|.+.+..+... +|+|.+=+-.++.-++-|..++-+
T Consensus 99 ~~~~l~~Ir~~g~k~GlalnP~T~~~~i~~~l~~--vD~VlvMtV~PGf~GQ~fi~~~l~ 156 (223)
T PRK08745 99 VHRTIQLIKSHGCQAGLVLNPATPVDILDWVLPE--LDLVLVMSVNPGFGGQAFIPSALD 156 (223)
T ss_pred HHHHHHHHHHCCCceeEEeCCCCCHHHHHHHHhh--cCEEEEEEECCCCCCccccHHHHH
Confidence 4556666778888877777778899999999887 998877677777666666555443
No 102
>PRK14057 epimerase; Provisional
Probab=71.49 E-value=15 Score=26.00 Aligned_cols=44 Identities=11% Similarity=0.026 Sum_probs=28.3
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++++..+.+.++...+- |.....-+..+.+.++|.+|+|+.-
T Consensus 181 ~~lr~~~~~~~~~~~IeVD-GGI~~~ti~~l~~aGad~~V~GSal 224 (254)
T PRK14057 181 AQLLCLLGDKREGKIIVID-GSLTQDQLPSLIAQGIDRVVSGSAL 224 (254)
T ss_pred HHHHHHHHhcCCCceEEEE-CCCCHHHHHHHHHCCCCEEEEChHh
Confidence 3444555566766555554 5555555566667899999999653
No 103
>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=71.31 E-value=20 Score=21.57 Aligned_cols=43 Identities=19% Similarity=0.068 Sum_probs=27.2
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEe
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~ 128 (148)
+.-+...+++.|.++...= ...+.+.+.+.+++.++|+|.++.
T Consensus 17 l~~la~~l~~~G~~v~~~d-~~~~~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILD-ANVPPEELVEALRAERPDVVGISV 59 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEE-SSB-HHHHHHHHHHTTCSEEEEEE
T ss_pred HHHHHHHHHHCCCeEEEEC-CCCCHHHHHHHHhcCCCcEEEEEc
Confidence 3445566666677655321 122358888888888888888876
No 104
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=70.62 E-value=46 Score=25.57 Aligned_cols=72 Identities=19% Similarity=0.118 Sum_probs=46.2
Q ss_pred hHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHHhhhc
Q 032042 16 CSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTVARQK 95 (148)
Q Consensus 16 ~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (148)
-|.-.++.+..+|.+. .++||.-.. ..+.++-+++..
T Consensus 106 KSTLLLQva~~lA~~~----~vLYVsGEE---------------------------------------S~~QiklRA~RL 142 (456)
T COG1066 106 KSTLLLQVAARLAKRG----KVLYVSGEE---------------------------------------SLQQIKLRADRL 142 (456)
T ss_pred HHHHHHHHHHHHHhcC----cEEEEeCCc---------------------------------------CHHHHHHHHHHh
Confidence 5667888888888664 667775432 122233334445
Q ss_pred CceE-EEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 96 QIVV-VMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 96 ~~~~-~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
|++. ...+....-.+.|.+.+++.++|++|+-+-.
T Consensus 143 ~~~~~~l~l~aEt~~e~I~~~l~~~~p~lvVIDSIQ 178 (456)
T COG1066 143 GLPTNNLYLLAETNLEDIIAELEQEKPDLVVIDSIQ 178 (456)
T ss_pred CCCccceEEehhcCHHHHHHHHHhcCCCEEEEeccc
Confidence 5432 3334444568899999999999999996543
No 105
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=70.44 E-value=22 Score=24.63 Aligned_cols=42 Identities=7% Similarity=0.154 Sum_probs=27.0
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
++++++..+.+ ++...+ .|.....-...+.+-++|.+|.|+-
T Consensus 158 ~~lr~~~~~~~-~~~IeV-DGGI~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 158 RELRAMIDERL-DILIEV-DGGINLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred HHHHHHhcccC-CeEEEE-eCCcCHHHHHHHHHcCCCEEEEEEE
Confidence 33444444444 545544 4666666667777789999999984
No 106
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=70.37 E-value=25 Score=22.43 Aligned_cols=37 Identities=11% Similarity=-0.012 Sum_probs=25.1
Q ss_pred hhhc-CceEEEEEeeCC-hhHHHHHHHhhcCCcEEEEEe
Q 032042 92 ARQK-QIVVVMKIFWGD-PREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 92 ~~~~-~~~~~~~~~~g~-~~~~I~~~a~~~~~dliV~g~ 128 (148)
+++. |++++..+.... -...|.+.+++.++|+||--.
T Consensus 45 L~~~~Gi~v~~vi~~~~gg~~~i~~~I~~g~i~lVInt~ 83 (142)
T PRK05234 45 IQEATGLDVTRLLSGPLGGDQQIGALIAEGKIDMLIFFR 83 (142)
T ss_pred HHhccCCeeEEEEcCCCCCchhHHHHHHcCceeEEEEec
Confidence 4455 888776643211 136688999999999998854
No 107
>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=70.29 E-value=18 Score=22.98 Aligned_cols=45 Identities=13% Similarity=0.051 Sum_probs=28.7
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEEE
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVIG 127 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~g 127 (148)
.....+.+.+++.|+++.......|-.+.|.+..++ .++|+||+.
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVPDDPEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 444556777777888877665555555555554332 269999983
No 108
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=69.93 E-value=14 Score=24.63 Aligned_cols=35 Identities=17% Similarity=0.169 Sum_probs=28.2
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
+||++++.++..+-++.++.-.+.+ .+.+|.++-.
T Consensus 2 k~Ill~vtGsiaa~~~~~li~~L~~-~g~~V~vv~T 36 (182)
T PRK07313 2 KNILLAVSGSIAAYKAADLTSQLTK-RGYQVTVLMT 36 (182)
T ss_pred CEEEEEEeChHHHHHHHHHHHHHHH-CCCEEEEEEC
Confidence 7999999999999998888888754 5777766543
No 109
>PRK04527 argininosuccinate synthase; Provisional
Probab=69.65 E-value=47 Score=25.28 Aligned_cols=35 Identities=9% Similarity=0.040 Sum_probs=28.2
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
++++|++.+.=+|.-++.++.. .+.+|+.+++...
T Consensus 3 ~kVvVA~SGGvDSSvla~~l~e----~G~~Viavt~d~g 37 (400)
T PRK04527 3 KDIVLAFSGGLDTSFCIPYLQE----RGYAVHTVFADTG 37 (400)
T ss_pred CcEEEEEcCChHHHHHHHHHHH----cCCcEEEEEEEeC
Confidence 7899999998888888888766 2667888888653
No 110
>PRK08005 epimerase; Validated
Probab=69.53 E-value=22 Score=24.40 Aligned_cols=58 Identities=9% Similarity=-0.148 Sum_probs=42.2
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeecccccc
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIEL 144 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~ 144 (148)
..++.+.+++.|..+-..+-.+.|.+.+..++.. +|+|.+=+-.++.-++-|..++-+
T Consensus 95 ~~~~l~~Ik~~G~k~GlAlnP~Tp~~~i~~~l~~--vD~VlvMsV~PGf~GQ~f~~~~~~ 152 (210)
T PRK08005 95 PSEILADIRAIGAKAGLALNPATPLLPYRYLALQ--LDALMIMTSEPDGRGQQFIAAMCE 152 (210)
T ss_pred HHHHHHHHHHcCCcEEEEECCCCCHHHHHHHHHh--cCEEEEEEecCCCccceecHHHHH
Confidence 4456666778888887777778899999988887 998877677777666666554433
No 111
>PRK12569 hypothetical protein; Provisional
Probab=69.19 E-value=36 Score=23.99 Aligned_cols=103 Identities=12% Similarity=0.006 Sum_probs=59.9
Q ss_pred EecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHH
Q 032042 10 AVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVN 89 (148)
Q Consensus 10 ~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (148)
+..+.......++.++.+|+..+..|-. |.-.+. ..+.|-..+..+ . +++.+.. ...+..+.
T Consensus 38 ACG~HAGDp~~M~~tv~lA~~~~V~IGA-HPsyPD---------~~gFGRr~m~~s---~-~el~~~v----~yQigaL~ 99 (245)
T PRK12569 38 ATGFHAGDPNIMRRTVELAKAHGVGIGA-HPGFRD---------LVGFGRRHINAS---P-QELVNDV----LYQLGALR 99 (245)
T ss_pred hccccCCCHHHHHHHHHHHHHcCCEecc-CCCCCc---------CCCCCCCCCCCC---H-HHHHHHH----HHHHHHHH
Confidence 3444445567788888989888776543 222211 111222221111 1 1222222 23455677
Q ss_pred HHhhhcCceEEEEEe----------eCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 90 TVARQKQIVVVMKIF----------WGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 90 ~~~~~~~~~~~~~~~----------~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
..++..|.+++..-- ....++.|++.++..+++|++++..+
T Consensus 100 ~~~~~~g~~l~hVKPHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~~ 150 (245)
T PRK12569 100 EFARAHGVRLQHVKPHGALYMHAARDEALARLLVEALARLDPLLILYCMDG 150 (245)
T ss_pred HHHHHcCCeeEEecCCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCC
Confidence 778888888665421 12457999999999999999998665
No 112
>PRK03670 competence damage-inducible protein A; Provisional
Probab=69.07 E-value=26 Score=24.71 Aligned_cols=51 Identities=24% Similarity=0.189 Sum_probs=34.0
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh---cCCcEEEEEecCCCc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK---IPLSCLVIGNRGLGK 133 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~---~~~dliV~g~~~~~~ 133 (148)
......+.+.+...|+++......+|-.+.|.+..++ ..+|+||+. .|-++
T Consensus 19 dtN~~~la~~L~~~G~~v~~~~iV~Dd~~~I~~~l~~a~~~~~DlVItt-GGlGp 72 (252)
T PRK03670 19 DSNSAFIAQKLTEKGYWVRRITTVGDDVEEIKSVVLEILSRKPEVLVIS-GGLGP 72 (252)
T ss_pred ehhHHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhhCCCCEEEEC-CCccC
Confidence 3455567787888999987766667666667666543 247888873 44443
No 113
>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=69.01 E-value=34 Score=23.40 Aligned_cols=29 Identities=14% Similarity=0.132 Sum_probs=19.4
Q ss_pred EEecCC---HhHHHHHHHHHhhcccCCCEEEE
Q 032042 9 VAVDFS---ACSKKALQWAADNVVRNGDHLIL 37 (148)
Q Consensus 9 v~~d~s---~~s~~al~~a~~la~~~~~~v~l 37 (148)
+.+.+. .....+.++.++++...+.++.+
T Consensus 3 ~~iGGg~~~~~~~~i~~~~~~~ag~~~~~i~~ 34 (217)
T cd03145 3 VLIGGAEDKYDNRAILQRFVARAGGAGARIVV 34 (217)
T ss_pred EEEeCCCCCcCHHHHHHHHHHHcCCCCCcEEE
Confidence 444444 36678888899988765666644
No 114
>PF13362 Toprim_3: Toprim domain
Probab=68.94 E-value=17 Score=21.08 Aligned_cols=38 Identities=29% Similarity=0.274 Sum_probs=29.4
Q ss_pred CccEEEEEecCCHh--HHHHHHHHHhhcccCCCEEEEEEE
Q 032042 3 GTRRVGVAVDFSAC--SKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 3 ~~~~ILv~~d~s~~--s~~al~~a~~la~~~~~~v~ll~v 40 (148)
..++|+|+.|.+.. ..++...+...+...+..+.++..
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p 79 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP 79 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC
Confidence 46889999999887 788888887777777777666544
No 115
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=68.72 E-value=21 Score=24.82 Aligned_cols=43 Identities=9% Similarity=0.244 Sum_probs=27.2
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+++++..+.+.++...+- |.....=+..+.+.++|.+|+|+.
T Consensus 157 ~~lr~~~~~~~~~~~IeVD-GGI~~~~i~~~~~aGad~~V~Gss 199 (229)
T PRK09722 157 AELKALRERNGLEYLIEVD-GSCNQKTYEKLMEAGADVFIVGTS 199 (229)
T ss_pred HHHHHHHHhcCCCeEEEEE-CCCCHHHHHHHHHcCCCEEEEChH
Confidence 3444555556776666554 555444445666679999999964
No 116
>PRK11914 diacylglycerol kinase; Reviewed
Probab=68.48 E-value=13 Score=26.79 Aligned_cols=54 Identities=13% Similarity=0.049 Sum_probs=32.2
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeC-ChhHHHHHHHhhcCCcEEEEEecCCCcccee
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWG-DPREKICEAIDKIPLSCLVIGNRGLGKLKRL 137 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~ 137 (148)
+..+++.+.+.+.++++....... ..+..+.+.+...++|+||+. .|.+.+.++
T Consensus 26 ~~~~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~-GGDGTi~ev 80 (306)
T PRK11914 26 HAAERAIARLHHRGVDVVEIVGTDAHDARHLVAAALAKGTDALVVV-GGDGVISNA 80 (306)
T ss_pred HHHHHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEE-CCchHHHHH
Confidence 344455666777788776655432 335666666666778977763 455554443
No 117
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=67.70 E-value=16 Score=29.13 Aligned_cols=64 Identities=13% Similarity=0.078 Sum_probs=46.0
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeC--Ch--hHHHHHHHhhcCCcEEEEEecCCCccceeeccccccc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWG--DP--REKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIELL 145 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g--~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~~ 145 (148)
....+++...++..|++++..+..- .| ...+++.+++.+++.||.++.....+-.++-|.|+--
T Consensus 423 ~~~~~~~~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~~~a~~t~~p 490 (577)
T PLN02948 423 LPTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPGMVASMTPLP 490 (577)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchHHHhhccCCC
Confidence 3566777788888999999888642 22 3455566677789999998888777777766666543
No 118
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=67.61 E-value=32 Score=22.49 Aligned_cols=23 Identities=22% Similarity=0.322 Sum_probs=20.4
Q ss_pred HHHHHHhhcCCcEEEEEecCCCc
Q 032042 111 KICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 111 ~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
-++++|++.++..||=|-|.-+.
T Consensus 73 Llvd~ak~~~a~~ivRGLR~~sD 95 (159)
T COG0669 73 LLVDYAKKLGATVLVRGLRAVSD 95 (159)
T ss_pred HHHHHHHHcCCCEEEEeccccch
Confidence 88899999999999999887654
No 119
>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=67.14 E-value=22 Score=25.83 Aligned_cols=48 Identities=15% Similarity=0.265 Sum_probs=26.4
Q ss_pred HHHHHHHhhhcCceEEEEEe----eC-ChhHHHHHHHhhc-------CCcEEEEEecCCC
Q 032042 85 LDIVNTVARQKQIVVVMKIF----WG-DPREKICEAIDKI-------PLSCLVIGNRGLG 132 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~----~g-~~~~~I~~~a~~~-------~~dliV~g~~~~~ 132 (148)
+.-+...+...+..+++.+. .| +....|++..+.. ++|+||+++.|-|
T Consensus 28 ~~D~~~~~~~r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs 87 (319)
T PF02601_consen 28 IQDFLRTLKRRNPIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGGS 87 (319)
T ss_pred HHHHHHHHHHhCCCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEecCCCC
Confidence 33344444444443444433 35 4456666654433 4899999876655
No 120
>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=66.82 E-value=33 Score=22.78 Aligned_cols=47 Identities=17% Similarity=0.345 Sum_probs=29.6
Q ss_pred hhhHHHHHHHhhhc--CceEEEEEeeC--Ch--hHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQK--QIVVVMKIFWG--DP--REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~--~~~~~~~~~~g--~~--~~~I~~~a~~~~~dliV~g~~~ 130 (148)
...++.+.+.+++. ++.+... .| ++ .+.|++.+++.++|+|++|-..
T Consensus 58 ~~v~~~~~~~l~~~yP~l~i~g~--~g~f~~~~~~~i~~~I~~s~~dil~VglG~ 110 (177)
T TIGR00696 58 PDVLQQLKVKLIKEYPKLKIVGA--FGPLEPEERKAALAKIARSGAGIVFVGLGC 110 (177)
T ss_pred HHHHHHHHHHHHHHCCCCEEEEE--CCCCChHHHHHHHHHHHHcCCCEEEEEcCC
Confidence 34444455555433 5554443 22 22 4778999999999999997554
No 121
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=66.59 E-value=13 Score=25.26 Aligned_cols=45 Identities=31% Similarity=0.336 Sum_probs=36.2
Q ss_pred CCCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCC
Q 032042 1 MDGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGL 46 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~ 46 (148)
|-....|++++.+|.++...+..+-. +++.+++++.+...+.+..
T Consensus 83 ~i~~~DvviaiS~SGeT~el~~~~~~-aK~~g~~liaiT~~~~SsL 127 (202)
T COG0794 83 MITPGDVVIAISGSGETKELLNLAPK-AKRLGAKLIAITSNPDSSL 127 (202)
T ss_pred CCCCCCEEEEEeCCCcHHHHHHHHHH-HHHcCCcEEEEeCCCCChH
Confidence 34567899999999888877766555 8899999999999887653
No 122
>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=66.55 E-value=7.8 Score=26.31 Aligned_cols=45 Identities=11% Similarity=0.172 Sum_probs=28.1
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEe
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~ 128 (148)
+..+++++...+.|..+...+- |.....-+....+.++|.+|.|+
T Consensus 151 ~KI~~l~~~~~~~~~~~~I~vD-GGI~~~~~~~~~~aGad~~V~Gs 195 (201)
T PF00834_consen 151 EKIRELRKLIPENGLDFEIEVD-GGINEENIKQLVEAGADIFVAGS 195 (201)
T ss_dssp HHHHHHHHHHHHHTCGSEEEEE-SSESTTTHHHHHHHT--EEEESH
T ss_pred HHHHHHHHHHHhcCCceEEEEE-CCCCHHHHHHHHHcCCCEEEECH
Confidence 3345566666666777666664 55544455666677999999996
No 123
>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=66.12 E-value=38 Score=22.82 Aligned_cols=91 Identities=14% Similarity=0.133 Sum_probs=52.8
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhH
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETL 85 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
++++++.+.-+|.-++.++.. .+.++..++...+..... .. .. ....
T Consensus 1 kv~v~~SGGkDS~~al~~a~~----~G~~v~~l~~~~~~~~~~-----------~~-----~h-------------~~~~ 47 (194)
T cd01994 1 KVVALISGGKDSCYALYRALE----EGHEVVALLNLTPEEGSS-----------MM-----YH-------------TVNH 47 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCEEEEEEEEecCCCCc-----------cc-----cc-------------ccCH
Confidence 478889999999988888887 356777777665332100 00 00 0123
Q ss_pred HHHHHHhhhcCceEEEEEeeC-------ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWG-------DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g-------~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+.+..+++..|++....-..+ +..+.|.+..++ +++.||-|.--
T Consensus 48 e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~vv~G~i~ 98 (194)
T cd01994 48 ELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAVVFGAIL 98 (194)
T ss_pred HHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEEEECccc
Confidence 445566667788755433211 122344444444 68999988764
No 124
>TIGR00639 PurN phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent. In phylogenetic analyses, the member from Saccharomyces cerevisiae shows a long branch length but membership in the family, while the formyltetrahydrofolate deformylases form a closely related outgroup.
Probab=65.87 E-value=38 Score=22.76 Aligned_cols=42 Identities=14% Similarity=0.014 Sum_probs=26.5
Q ss_pred HHHhhhcCceEEEEEee-----CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 89 NTVARQKQIVVVMKIFW-----GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~~-----g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.+++.|+++...-.. ....+.+.+..++.++|++|+-..+
T Consensus 43 ~~~A~~~gip~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~iv~~~~~ 89 (190)
T TIGR00639 43 LERAAQAGIPTFVLSLKDFPSREAFDQAIIEELRAHEVDLVVLAGFM 89 (190)
T ss_pred HHHHHHcCCCEEEECccccCchhhhhHHHHHHHHhcCCCEEEEeCcc
Confidence 34566778876541111 1124578888888999999886554
No 125
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=65.85 E-value=54 Score=24.53 Aligned_cols=35 Identities=20% Similarity=0.052 Sum_probs=27.4
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
-++|+|++.+.-+|.-++..+.. .+.++..+|...
T Consensus 5 ~~kVlValSGGVDSsvaa~LL~~----~G~~V~~v~~~~ 39 (360)
T PRK14665 5 NKRVLLGMSGGTDSSVAAMLLLE----AGYEVTGVTFRF 39 (360)
T ss_pred CCEEEEEEcCCHHHHHHHHHHHH----cCCeEEEEEEec
Confidence 46899999999888877776655 367788888764
No 126
>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=65.73 E-value=11 Score=23.58 Aligned_cols=40 Identities=28% Similarity=0.241 Sum_probs=33.6
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
..+|+|+-|....+....+.++.-....|.+|..+...+.
T Consensus 40 ~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g~~~t 79 (137)
T PF02878_consen 40 GSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIGLVPT 79 (137)
T ss_dssp SSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEEEB-H
T ss_pred CCeEEEEEcccCCHHHHHHHHHHHHhhcccccccccccCc
Confidence 5789999999999999999999999999999998885443
No 127
>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=65.25 E-value=31 Score=21.47 Aligned_cols=44 Identities=16% Similarity=0.124 Sum_probs=26.6
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEE
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVI 126 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~ 126 (148)
.....+.+.+++.|.++.......|..+.|.+..++ .++|+||.
T Consensus 18 ~~~~~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~~~dliit 63 (135)
T smart00852 18 SNGPALAELLTELGIEVTRYVIVPDDKEAIKEALREALERADLVIT 63 (135)
T ss_pred CcHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHhCCCEEEE
Confidence 444557777888888866554444544444444322 24898887
No 128
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=64.42 E-value=19 Score=27.27 Aligned_cols=39 Identities=21% Similarity=0.215 Sum_probs=30.9
Q ss_pred CCCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 1 MDGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
|+..++|++++.++..+-++++..-.+. +.+.+|.++-.
T Consensus 3 ~l~~k~IllgvTGsiaa~k~~~lv~~L~-~~g~~V~vv~T 41 (399)
T PRK05579 3 MLAGKRIVLGVSGGIAAYKALELVRRLR-KAGADVRVVMT 41 (399)
T ss_pred CCCCCeEEEEEeCHHHHHHHHHHHHHHH-hCCCEEEEEEC
Confidence 4567899999999998889988888864 45788776654
No 129
>PRK05406 LamB/YcsF family protein; Provisional
Probab=64.31 E-value=48 Score=23.41 Aligned_cols=104 Identities=16% Similarity=0.104 Sum_probs=60.3
Q ss_pred EEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHH
Q 032042 9 VAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIV 88 (148)
Q Consensus 9 v~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (148)
|+..+.......++.++.+|+..+..|-. |.-.+ ...+.|-..+..+ .+++.+.. ......+
T Consensus 34 IACG~HAGDp~~M~~tv~lA~~~gV~IGA-HPgyp---------D~~gFGRR~m~~s----~~el~~~v----~yQigAL 95 (246)
T PRK05406 34 IACGFHAGDPAVMRRTVRLAKENGVAIGA-HPGYP---------DLEGFGRRNMDLS----PEELYALV----LYQIGAL 95 (246)
T ss_pred HhccccCCCHHHHHHHHHHHHHcCCeEcc-CCCCC---------ccCCCCCCCCCCC----HHHHHHHH----HHHHHHH
Confidence 34445455567788888888887766543 22111 1112222211111 11222222 2345567
Q ss_pred HHHhhhcCceEEEEEe----------eCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 89 NTVARQKQIVVVMKIF----------WGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~----------~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
...++..|.+++..-- ....+++|++.++..+++|++++..+
T Consensus 96 ~~~a~~~g~~l~hVKPHGALYN~~~~d~~~a~av~~ai~~~~~~l~l~~~~~ 147 (246)
T PRK05406 96 QAIARAAGGRVSHVKPHGALYNMAAKDPALADAVAEAVAAVDPSLILVGLAG 147 (246)
T ss_pred HHHHHHcCCeeEEeCccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCC
Confidence 7778888887666421 13457999999999999999998765
No 130
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=64.06 E-value=65 Score=24.81 Aligned_cols=47 Identities=6% Similarity=-0.002 Sum_probs=25.1
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
.+..++...++++.......+..++|....+..++|+|++-+.|++.
T Consensus 287 QLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~ 333 (436)
T PRK11889 287 QLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNY 333 (436)
T ss_pred HHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCccccC
Confidence 34445555566654322112233444333333468999998888775
No 131
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=63.86 E-value=32 Score=23.73 Aligned_cols=45 Identities=16% Similarity=0.164 Sum_probs=27.6
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
..+++++...+.+.++...+ .|.....=+....+.++|.+|+|+.
T Consensus 153 kI~~l~~~~~~~~~~~~I~v-dGGI~~eni~~l~~aGAd~vVvGSa 197 (220)
T PRK08883 153 KLRAVRKMIDESGRDIRLEI-DGGVKVDNIREIAEAGADMFVAGSA 197 (220)
T ss_pred HHHHHHHHHHhcCCCeeEEE-ECCCCHHHHHHHHHcCCCEEEEeHH
Confidence 34445555555566655555 4544444445556689999999965
No 132
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=63.42 E-value=35 Score=21.49 Aligned_cols=45 Identities=13% Similarity=0.076 Sum_probs=28.2
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEE
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVI 126 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~ 126 (148)
......+.+.+++.|+++.......|-.+.|.+..+. .+.|+||+
T Consensus 16 d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~D~Vit 62 (144)
T PF00994_consen 16 DSNGPFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDRADLVIT 62 (144)
T ss_dssp BHHHHHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHTTSEEEE
T ss_pred EhHHHHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhccCCEEEE
Confidence 4556678888888999876654444444444444332 23698888
No 133
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=63.39 E-value=35 Score=23.74 Aligned_cols=56 Identities=9% Similarity=-0.003 Sum_probs=39.6
Q ss_pred HHHHHHHhhhcCc--eEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeecccc
Q 032042 85 LDIVNTVARQKQI--VVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINI 142 (148)
Q Consensus 85 ~~~~~~~~~~~~~--~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~ 142 (148)
..++.+.+++.|. .+-..+-.+.|.+.|..++.. +|+|.+=+-.++.-++.|..++
T Consensus 105 ~~~~l~~Ik~~g~~~kaGlalnP~Tp~~~i~~~l~~--vD~VLiMtV~PGfgGQ~f~~~~ 162 (228)
T PRK08091 105 LALTIEWLAKQKTTVLIGLCLCPETPISLLEPYLDQ--IDLIQILTLDPRTGTKAPSDLI 162 (228)
T ss_pred HHHHHHHHHHCCCCceEEEEECCCCCHHHHHHHHhh--cCEEEEEEECCCCCCccccHHH
Confidence 4455666777887 666656567889999999887 9988776776665555555443
No 134
>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=62.96 E-value=22 Score=23.62 Aligned_cols=35 Identities=17% Similarity=0.190 Sum_probs=26.9
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
+||++++.++..+-++.+..-.+. +.+.+|.++-.
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L~-~~g~~V~vi~T 35 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQLT-KLGYDVTVLMT 35 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHHH-HCCCEEEEEEC
Confidence 589999999999988887777654 45777766543
No 135
>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=62.93 E-value=29 Score=25.58 Aligned_cols=43 Identities=12% Similarity=0.093 Sum_probs=26.7
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCCh----hHHHHHHHhhcCCcEEEE
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDP----REKICEAIDKIPLSCLVI 126 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~----~~~I~~~a~~~~~dliV~ 126 (148)
..+.+.+.+.+.++.+.+....++| .+.+.+.+++.++|+||=
T Consensus 37 ~~~~v~~~L~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIa 83 (351)
T cd08170 37 VGAKIEESLAAAGIDARFEVFGGECTRAEIERLAEIARDNGADVVIG 83 (351)
T ss_pred HHHHHHHHHHhCCCeEEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEE
Confidence 4555666666677776544444444 356666777888887654
No 136
>COG0284 PyrF Orotidine-5'-phosphate decarboxylase [Nucleotide transport and metabolism]
Probab=62.71 E-value=34 Score=24.00 Aligned_cols=34 Identities=26% Similarity=0.216 Sum_probs=20.7
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
+|+.|++|+...... ..+++..+..+..+.+-.+
T Consensus 12 ~~livaLD~~~~~~~-----~~~~~~~~~~~~~~Kvg~~ 45 (240)
T COG0284 12 RRLIVALDVPTEEEA-----LAFVDKLGPTVDFVKVGKP 45 (240)
T ss_pred cCeEEEECCCCHHHH-----HHHHHHhhccccEEEEchH
Confidence 349999998754443 4444555555666666544
No 137
>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=62.45 E-value=28 Score=22.29 Aligned_cols=43 Identities=16% Similarity=0.151 Sum_probs=25.7
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+.+.+.+++.|++++..-......+.+.+.+++ +|.|.++..
T Consensus 2 ~~~~~~~f~~~g~~v~~l~~~~~~~~~~~~~i~~--ad~I~~~GG 44 (154)
T PF03575_consen 2 VEKFRKAFRKLGFEVDQLDLSDRNDADILEAIRE--ADAIFLGGG 44 (154)
T ss_dssp HHHHHHHHHHCT-EEEECCCTSCGHHHHHHHHHH--SSEEEE--S
T ss_pred HHHHHHHHHHCCCEEEEEeccCCChHHHHHHHHh--CCEEEECCC
Confidence 3556677777787754443333345577777776 888888643
No 138
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=62.45 E-value=15 Score=28.16 Aligned_cols=56 Identities=14% Similarity=-0.076 Sum_probs=40.6
Q ss_pred HHHhhcCCCChhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEE
Q 032042 72 IMKKYGAKPDPETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g 127 (148)
.++++..+...+.++.+.+.+...|..+...-...+..+.|.+.++++++..|+.|
T Consensus 40 ~ik~~~~~~ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~ 95 (432)
T TIGR00273 40 EIKLKVLENLDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKS 95 (432)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEc
Confidence 45555556667777777777777777765543334667888899999999999997
No 139
>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=62.32 E-value=39 Score=21.64 Aligned_cols=44 Identities=16% Similarity=0.122 Sum_probs=26.3
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHH----hhcCCcEEEEE
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAI----DKIPLSCLVIG 127 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a----~~~~~dliV~g 127 (148)
....+.+.+++.|.++.......|..+.|.+.. ++.++|+||+.
T Consensus 21 n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVitt 68 (152)
T cd00886 21 SGPALVELLEEAGHEVVAYEIVPDDKDEIREALIEWADEDGVDLILTT 68 (152)
T ss_pred hHHHHHHHHHHcCCeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 334466678888888666544444444444443 32269988883
No 140
>PRK09875 putative hydrolase; Provisional
Probab=62.19 E-value=25 Score=25.41 Aligned_cols=49 Identities=6% Similarity=-0.006 Sum_probs=35.9
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCC--cEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPL--SCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~--dliV~g~~~ 130 (148)
++.++.......+.|+++.++.-.++....+++.+++.++ +-+|+|--.
T Consensus 138 ~kvl~Aaa~a~~~TG~pi~~Ht~~~~~g~e~l~il~e~Gvd~~rvvi~H~d 188 (292)
T PRK09875 138 EKVFIAAALAHNQTGRPISTHTSFSTMGLEQLALLQAHGVDLSRVTVGHCD 188 (292)
T ss_pred HHHHHHHHHHHHHHCCcEEEcCCCccchHHHHHHHHHcCcCcceEEEeCCC
Confidence 4555665665666799988887666667777888888888 788887554
No 141
>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=62.05 E-value=53 Score=23.14 Aligned_cols=111 Identities=13% Similarity=0.088 Sum_probs=59.2
Q ss_pred CCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 2 DGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
+-+...=|+..+.......++.++.+|+..+..|-. |.-.|.. .+.|-..+..+ .+++.+..
T Consensus 25 p~I~saNIACG~HAGDp~~M~~tv~lA~~~gV~iGA-HPsyPD~---------~gFGRr~m~~s----~~el~~~v---- 86 (242)
T PF03746_consen 25 PYISSANIACGFHAGDPETMRRTVRLAKEHGVAIGA-HPSYPDR---------EGFGRRSMDIS----PEELRDSV---- 86 (242)
T ss_dssp TT-SEEEEE-SSSS--HHHHHHHHHHHHHTT-EEEE-E---S-T---------TTTT-S---------HHHHHHHH----
T ss_pred HHhhhHHHhhcccccCHHHHHHHHHHHHHcCCEecc-CCCCCCC---------CCCCCCCCCCC----HHHHHHHH----
Confidence 334556678888888888999999999998876654 4332221 11121111111 11232222
Q ss_pred hhhHHHHHHHhhhcCceEEEEEe----------eCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIF----------WGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~----------~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
...+..+...++..|.++...-- ....++.|++.++..++++.++|..+
T Consensus 87 ~yQigaL~~~a~~~g~~l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~ag 145 (242)
T PF03746_consen 87 LYQIGALQAIAAAEGVPLHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLAG 145 (242)
T ss_dssp HHHHHHHHHHHHHTT--EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEETT
T ss_pred HHHHHHHHHHHHHcCCeeEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcCC
Confidence 23455677777788888665431 12447999999999999999999775
No 142
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=61.87 E-value=17 Score=19.85 Aligned_cols=26 Identities=15% Similarity=-0.034 Sum_probs=19.8
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhccc
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVR 30 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~ 30 (148)
.+|.++.|.+...+.+...+.+....
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~~~l~~ 73 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLAELLKP 73 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHHHHhhh
Confidence 46889999988888887777665543
No 143
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=61.82 E-value=47 Score=22.49 Aligned_cols=42 Identities=14% Similarity=0.004 Sum_probs=25.9
Q ss_pred HHHHhhhcCceEEEEEee---C--ChhHHHHHHHhhcCCcEEEEEec
Q 032042 88 VNTVARQKQIVVVMKIFW---G--DPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~---g--~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
..+.+++.|+++...-.. + .-...+.+..+..++|++|+...
T Consensus 43 ~~~~a~~~gIp~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~iv~~~~ 89 (200)
T PRK05647 43 GLERAEAAGIPTFVLDHKDFPSREAFDAALVEALDAYQPDLVVLAGF 89 (200)
T ss_pred HHHHHHHcCCCEEEECccccCchhHhHHHHHHHHHHhCcCEEEhHHh
Confidence 345567778885441111 1 12456778888889999988443
No 144
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=61.81 E-value=14 Score=24.32 Aligned_cols=80 Identities=19% Similarity=0.174 Sum_probs=50.0
Q ss_pred HHHHHHHHhhcccCCCEEEEEEEec--CCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHHhhhc
Q 032042 18 KKALQWAADNVVRNGDHLILVTVVP--EGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTVARQK 95 (148)
Q Consensus 18 ~~al~~a~~la~~~~~~v~ll~v~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (148)
..-++.++.+|+..+++...+|.-. ... .....+.+ +...+.++.+.+.+++.
T Consensus 70 ~~~~~~~i~~a~~lg~~~i~~~~g~~~~~~--------------------~~~~~~~~-----~~~~~~l~~l~~~a~~~ 124 (213)
T PF01261_consen 70 LEYLKKAIDLAKRLGAKYIVVHSGRYPSGP--------------------EDDTEENW-----ERLAENLRELAEIAEEY 124 (213)
T ss_dssp HHHHHHHHHHHHHHTBSEEEEECTTESSST--------------------TSSHHHHH-----HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCceeecCccccccc--------------------CCCHHHHH-----HHHHHHHHHHHhhhhhh
Confidence 6678888899999999998888541 111 00000011 12356777888888888
Q ss_pred CceEEEEEeeCC---hh---HHHHHHHhhcCCc
Q 032042 96 QIVVVMKIFWGD---PR---EKICEAIDKIPLS 122 (148)
Q Consensus 96 ~~~~~~~~~~g~---~~---~~I~~~a~~~~~d 122 (148)
|+.+..+...+. .. +.+.+..++.+.+
T Consensus 125 gv~i~lE~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (213)
T PF01261_consen 125 GVRIALENHPGPFSETPFSVEEIYRLLEEVDSP 157 (213)
T ss_dssp TSEEEEE-SSSSSSSEESSHHHHHHHHHHHTTT
T ss_pred cceEEEecccCccccchhhHHHHHHHHhhcCCC
Confidence 988777655432 22 7777887776644
No 145
>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=61.34 E-value=23 Score=23.85 Aligned_cols=35 Identities=20% Similarity=0.355 Sum_probs=26.4
Q ss_pred cEEEEEecCCHhHHHHH-HHHHhhcccCCCEEEEEEE
Q 032042 5 RRVGVAVDFSACSKKAL-QWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al-~~a~~la~~~~~~v~ll~v 40 (148)
++|++++.++..+-+++ +..-.+ .+.+.+|+++-.
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L-~~~g~~V~vI~S 36 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKL-VDEGAEVTPIVS 36 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHH-HhCcCEEEEEEc
Confidence 58999999999999997 666665 455787766543
No 146
>PRK00509 argininosuccinate synthase; Provisional
Probab=61.11 E-value=72 Score=24.33 Aligned_cols=36 Identities=17% Similarity=0.218 Sum_probs=29.1
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
++|+|++.+.-+|.-++.++.+. .+.+|+.+|+...
T Consensus 3 ~kVvva~SGGlDSsvla~~l~e~---lG~eViavt~d~G 38 (399)
T PRK00509 3 KKVVLAYSGGLDTSVIIKWLKET---YGCEVIAFTADVG 38 (399)
T ss_pred CeEEEEEcCCHHHHHHHHHHHHh---hCCeEEEEEEecC
Confidence 79999999998888888887662 3678999988653
No 147
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=61.05 E-value=30 Score=20.62 Aligned_cols=42 Identities=14% Similarity=0.117 Sum_probs=28.1
Q ss_pred HHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 89 NTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++++.|++++...........|.+..++.++|+||-...+
T Consensus 36 ~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~~ 77 (110)
T cd01424 36 AKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPSG 77 (110)
T ss_pred HHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCCC
Confidence 334555788766544332334678888999999999986543
No 148
>PRK06988 putative formyltransferase; Provisional
Probab=60.98 E-value=62 Score=23.59 Aligned_cols=40 Identities=20% Similarity=0.209 Sum_probs=27.4
Q ss_pred HHHHhhhcCceEEEEEeeCCh-hHHHHHHHhhcCCcEEEEEecC
Q 032042 88 VNTVARQKQIVVVMKIFWGDP-REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~-~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+.+.+.+.|+++..- .+. .+.+++..++.++|++|+...+
T Consensus 47 v~~~A~~~gip~~~~---~~~~~~~~~~~l~~~~~Dliv~~~~~ 87 (312)
T PRK06988 47 VAAVAAEHGIPVITP---ADPNDPELRAAVAAAAPDFIFSFYYR 87 (312)
T ss_pred HHHHHHHcCCcEEcc---ccCCCHHHHHHHHhcCCCEEEEehhc
Confidence 566677788886431 222 3466788888999999986654
No 149
>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=60.68 E-value=45 Score=21.91 Aligned_cols=49 Identities=20% Similarity=0.274 Sum_probs=30.1
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEEEecCCC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVIGNRGLG 132 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~g~~~~~ 132 (148)
.....+.+.+.+.|+++......+|-.+.|.+..++ ..+|+||+. .|-+
T Consensus 19 ~n~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~~~~~~dlVItt-GG~G 69 (170)
T cd00885 19 TNAAFLAKELAELGIEVYRVTVVGDDEDRIAEALRRASERADLVITT-GGLG 69 (170)
T ss_pred hHHHHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHHHhCCCEEEEC-CCCC
Confidence 445567777888899876665555555545544332 258988873 4433
No 150
>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=60.62 E-value=31 Score=23.21 Aligned_cols=44 Identities=20% Similarity=0.122 Sum_probs=32.5
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
..+...++..|.++.. +-..-|.+.+++.+++.++|+|.+....
T Consensus 102 ~~v~~~l~~~G~~vi~-LG~~vp~e~~v~~~~~~~pd~v~lS~~~ 145 (197)
T TIGR02370 102 NIVVTMLRANGFDVID-LGRDVPIDTVVEKVKKEKPLMLTGSALM 145 (197)
T ss_pred HHHHHHHHhCCcEEEE-CCCCCCHHHHHHHHHHcCCCEEEEcccc
Confidence 3455566777877544 2234778999999999999999997654
No 151
>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=60.61 E-value=28 Score=22.82 Aligned_cols=50 Identities=24% Similarity=0.371 Sum_probs=29.5
Q ss_pred hhhHHHHHHHhhhc--CceEEEEE--eeC-ChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 82 PETLDIVNTVARQK--QIVVVMKI--FWG-DPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~--~~~~~~~~--~~g-~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
++.++.+.+.+++. ++.+.... ..+ .....|++.+++.++|+|++|-..+
T Consensus 56 ~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~pdiv~vglG~P 110 (171)
T cd06533 56 PEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGADILFVGLGAP 110 (171)
T ss_pred HHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCCCEEEEECCCC
Confidence 34455555545443 55544321 112 3345588999999999999975543
No 152
>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=60.60 E-value=40 Score=21.29 Aligned_cols=34 Identities=24% Similarity=0.080 Sum_probs=24.2
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
.++|++.+.-+|..++..+.... +.++..+|+..
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~~---~~~v~~v~~~~ 36 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEKY---GLNPLAVTVDN 36 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHHh---CCceEEEEeCC
Confidence 58899999888888887776532 23666677643
No 153
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=60.41 E-value=71 Score=24.06 Aligned_cols=45 Identities=4% Similarity=-0.008 Sum_probs=29.4
Q ss_pred HHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 88 VNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
+.+..+..+.++-+..........+++.+++.+.+.+.+|+.+-.
T Consensus 226 ~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~~~~wigs~~w~ 270 (403)
T cd06361 226 TEKIIEENKVNVIVVFARQFHVFLLFNKAIERNINKVWIASDNWS 270 (403)
T ss_pred HHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCCCeEEEEECccc
Confidence 333344445554443333456788888999999999999887744
No 154
>PRK00074 guaA GMP synthase; Reviewed
Probab=60.17 E-value=83 Score=24.78 Aligned_cols=36 Identities=22% Similarity=0.097 Sum_probs=27.5
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
++++|++.+.-+|.-++..+... .+.++..+|+...
T Consensus 216 ~~vlva~SGGvDS~vll~ll~~~---lg~~v~av~vd~g 251 (511)
T PRK00074 216 KKVILGLSGGVDSSVAAVLLHKA---IGDQLTCVFVDHG 251 (511)
T ss_pred CcEEEEeCCCccHHHHHHHHHHH---hCCceEEEEEeCC
Confidence 68999999988887777777653 2567888988653
No 155
>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=59.88 E-value=18 Score=24.64 Aligned_cols=50 Identities=18% Similarity=0.202 Sum_probs=34.6
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhc---CCcEEEEEecCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKI---PLSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~---~~dliV~g~~~~ 131 (148)
.+..+.+++.++..|+.=.+.+..|+..+.|-+...+. .+|+|.+-....
T Consensus 80 ~~~~~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K~ 132 (205)
T PF01596_consen 80 PERAEIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFDFVFIDADKR 132 (205)
T ss_dssp HHHHHHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTGG
T ss_pred HHHHHHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCceeEEEEccccc
Confidence 35566677777777776455566688888887777654 599999976543
No 156
>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=59.53 E-value=20 Score=21.05 Aligned_cols=30 Identities=10% Similarity=-0.047 Sum_probs=24.3
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNG 32 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~ 32 (148)
+...|++++|.+...+........++...+
T Consensus 59 ~~~~iiiatD~D~EGe~Ia~~i~~~~~~~~ 88 (100)
T PF01751_consen 59 KADEIIIATDPDREGELIAWEIIELLGKNN 88 (100)
T ss_dssp SCSEEEEEC-SSHHHHHHHHHHHHHHHHHS
T ss_pred hccEeeecCCCChHHHHHHHHHHHHHhHhC
Confidence 467999999999999998888888876654
No 157
>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=59.53 E-value=65 Score=23.36 Aligned_cols=35 Identities=26% Similarity=0.088 Sum_probs=26.2
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
+++|++.+.-+|.-++..+... .+.++..+|+...
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~---lG~~v~aV~vd~g 35 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA---IGDRLTCVFVDNG 35 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH---hCCcEEEEEecCC
Confidence 5789999988888777777652 3567889998653
No 158
>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=59.28 E-value=47 Score=21.64 Aligned_cols=44 Identities=7% Similarity=0.009 Sum_probs=26.4
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHh----hcCCcEEEE
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAID----KIPLSCLVI 126 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~----~~~~dliV~ 126 (148)
..-..+...+++.|.++.......|-.+.|.+..+ ..++|+||+
T Consensus 22 ~n~~~l~~~L~~~G~~v~~~~iv~Dd~~~i~~~l~~~~~~~~~DlVIt 69 (163)
T TIGR02667 22 TSGQYLVERLTEAGHRLADRAIVKDDIYQIRAQVSAWIADPDVQVILI 69 (163)
T ss_pred CcHHHHHHHHHHCCCeEEEEEEcCCCHHHHHHHHHHHHhcCCCCEEEE
Confidence 33445666677788886655444444444444433 246998888
No 159
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=58.62 E-value=37 Score=23.62 Aligned_cols=56 Identities=14% Similarity=-0.029 Sum_probs=40.3
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeecccc
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINI 142 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~ 142 (148)
...+.+.+++.|..+-..+-.+.+.+.+..+... +|+|.+=+-.++.-++-|..++
T Consensus 97 ~~~~i~~Ik~~G~kaGlalnP~T~~~~l~~~l~~--vD~VLvMsV~PGf~GQ~fi~~~ 152 (229)
T PRK09722 97 AFRLIDEIRRAGMKVGLVLNPETPVESIKYYIHL--LDKITVMTVDPGFAGQPFIPEM 152 (229)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCCHHHHHHHHHh--cCEEEEEEEcCCCcchhccHHH
Confidence 4455566778888887777677889999999887 8977776666665555555443
No 160
>PRK13337 putative lipid kinase; Reviewed
Probab=58.49 E-value=32 Score=24.79 Aligned_cols=53 Identities=13% Similarity=-0.011 Sum_probs=31.3
Q ss_pred HHHHHHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEecCCCccceee
Q 032042 85 LDIVNTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNRGLGKLKRLD 138 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~ 138 (148)
...+...+.+.+++++..... ...+..+.+.+.+.++|+||+ ..|.+.+..++
T Consensus 21 ~~~~~~~l~~~~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vvv-~GGDGTl~~vv 74 (304)
T PRK13337 21 LPDVLQKLEQAGYETSAHATTGPGDATLAAERAVERKFDLVIA-AGGDGTLNEVV 74 (304)
T ss_pred HHHHHHHHHHcCCEEEEEEecCCCCHHHHHHHHHhcCCCEEEE-EcCCCHHHHHH
Confidence 444566677788887765544 233555555555566787665 34555555443
No 161
>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=58.48 E-value=50 Score=21.66 Aligned_cols=50 Identities=16% Similarity=0.137 Sum_probs=32.2
Q ss_pred hhhHHHHHHHhhhc--CceEEEEEe---eCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 82 PETLDIVNTVARQK--QIVVVMKIF---WGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~--~~~~~~~~~---~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
.+.++.+.+.+++. ++.+..... .....+.|++.+++.++|+|++|-...
T Consensus 58 ~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~pdiv~vglG~P 112 (172)
T PF03808_consen 58 EEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGPDIVFVGLGAP 112 (172)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCCCEEEEECCCC
Confidence 34455555555554 454433221 124579999999999999999986553
No 162
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=58.40 E-value=49 Score=22.82 Aligned_cols=53 Identities=9% Similarity=0.027 Sum_probs=36.9
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeec
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDF 139 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~ 139 (148)
..++.+..++.|..+-..+-.+.|.+.+..++.. .|+|.+=+-..+.-.+-|+
T Consensus 95 ~~~~l~~ik~~g~k~GlalnP~Tp~~~i~~~l~~--~D~vlvMtV~PGfgGq~fi 147 (220)
T PRK08883 95 VDRTLQLIKEHGCQAGVVLNPATPLHHLEYIMDK--VDLILLMSVNPGFGGQSFI 147 (220)
T ss_pred HHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHh--CCeEEEEEecCCCCCceec
Confidence 4556666777888877777667899999999887 8877664555554444333
No 163
>cd05569 PTS_IIB_fructose PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and FruB) each containing 3 domains. The FruA protein contains two tandem nonidentical IIB domains and a C-terminal IIC transmembrane domain. Both IIB domains of FruA are included in this alignment. The FruB protein (also referred to as diphosphoryl transfer protein) contains a IIA domain, a domain of unknown function, and an Hpr-like domain called FPr (fructose-inducible HPr). This familiy also includes the IIB domains of several fructose-like PTS permeases including the Frv permease encoded by the frvABXR operon, the Frw permease encoded by the frwACBD operon, the Frx permease encoded by the hrsA gene, and the Fry permease encoded by the fryABC (ypdDGH) operon. FruAB takes up exogenous fructose, releasing the 1-p
Probab=57.52 E-value=30 Score=20.35 Aligned_cols=46 Identities=7% Similarity=0.032 Sum_probs=27.6
Q ss_pred HHHHHHHhhhcCceEEEEEeeCC-hhHHHH-HHHhhcCCcEEEEEecCCC
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGD-PREKIC-EAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~-~~~~I~-~~a~~~~~dliV~g~~~~~ 132 (148)
.+.+.+.+++.|+++.+...... +...+- +... .+|+||+......
T Consensus 18 a~~L~~aa~~~g~~~~ve~~~~~g~~~~l~~~~i~--~Ad~vi~~~~~~~ 65 (96)
T cd05569 18 AEALEKAAKKLGWEIKVETQGSLGIENELTAEDIA--EADAVILAADVPV 65 (96)
T ss_pred HHHHHHHHHHCCCeEEEEEecCcCccCcCCHHHHh--hCCEEEEecCCCC
Confidence 35677778888988777655422 122222 2333 3899999766543
No 164
>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=57.51 E-value=76 Score=23.48 Aligned_cols=34 Identities=24% Similarity=0.126 Sum_probs=23.5
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
.++||+.|.-.|..++..+.. ..+.++.++|+..
T Consensus 61 D~iV~lSGGkDSs~la~ll~~---~~gl~~l~vt~~~ 94 (343)
T TIGR03573 61 DCIIGVSGGKDSTYQAHVLKK---KLGLNPLLVTVDP 94 (343)
T ss_pred CEEEECCCCHHHHHHHHHHHH---HhCCceEEEEECC
Confidence 489999998888877765543 3455666677743
No 165
>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=57.39 E-value=40 Score=24.84 Aligned_cols=43 Identities=16% Similarity=0.189 Sum_probs=26.2
Q ss_pred HHHHHHHhhhcCceEEEEEeeCCh----hHHHHHHHhhcCCcEEE-EE
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDP----REKICEAIDKIPLSCLV-IG 127 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~----~~~I~~~a~~~~~dliV-~g 127 (148)
.+.+.+.+++.++.+...+..++| .+.+.+.+++.++|+|| +|
T Consensus 38 ~~~v~~~l~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavG 85 (349)
T cd08550 38 RPRFEAALAKSIIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVG 85 (349)
T ss_pred HHHHHHHHHhcCCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 455566666666665554444443 34566677778888776 44
No 166
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=56.95 E-value=71 Score=22.97 Aligned_cols=43 Identities=7% Similarity=0.069 Sum_probs=31.1
Q ss_pred HHHHHhhhcCceEEEEEeeC----ChhHHHHHHHhhcCCcEEEEEec
Q 032042 87 IVNTVARQKQIVVVMKIFWG----DPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g----~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.++.....+|+++...-... ...+.+++..+++++|+||+...
T Consensus 129 dl~~~v~~~~IPfhhip~~~~~k~e~E~~~~~ll~~~~~DlvVLARY 175 (287)
T COG0788 129 DLRPLVERFDIPFHHIPVTKENKAEAEARLLELLEEYGADLVVLARY 175 (287)
T ss_pred HHHHHHHHcCCCeeeccCCCCcchHHHHHHHHHHHHhCCCEEeehhh
Confidence 35555667788877765432 23578889999999999999654
No 167
>PRK00919 GMP synthase subunit B; Validated
Probab=56.64 E-value=76 Score=23.21 Aligned_cols=36 Identities=25% Similarity=0.083 Sum_probs=28.7
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
.+++|++.+.-+|.-++.++.. ..+.+++.+|+...
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~---~lG~~v~aV~vD~G 57 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHR---AIGDRLTPVFVDTG 57 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHH---HhCCeEEEEEEECC
Confidence 6899999998888888777765 24678999999764
No 168
>PLN02476 O-methyltransferase
Probab=56.61 E-value=38 Score=24.34 Aligned_cols=52 Identities=10% Similarity=0.110 Sum_probs=37.2
Q ss_pred CChhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHh---hcCCcEEEEEecCC
Q 032042 80 PDPETLDIVNTVARQKQIVVVMKIFWGDPREKICEAID---KIPLSCLVIGNRGL 131 (148)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~---~~~~dliV~g~~~~ 131 (148)
...+..+.+++.+++.|+.-.+.+..|+..+.+-+... ...+|+|++.....
T Consensus 151 ~d~e~~~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K~ 205 (278)
T PLN02476 151 RDSNSLEVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADKR 205 (278)
T ss_pred CCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCHH
Confidence 34566677777788888875667777888887766542 24799999976643
No 169
>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=56.28 E-value=77 Score=23.18 Aligned_cols=36 Identities=28% Similarity=0.116 Sum_probs=27.5
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
++++|++.+.-+|.-++..+... .+.+++.+|+...
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~---~G~~v~av~vd~G 52 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRA---IGDRLTCVFVDHG 52 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHH---hCCCEEEEEEeCC
Confidence 68999999988887777666553 3568999998754
No 170
>PRK13055 putative lipid kinase; Reviewed
Probab=56.24 E-value=34 Score=25.09 Aligned_cols=55 Identities=5% Similarity=0.028 Sum_probs=34.4
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeC--ChhHHHHHHHhhcCCcEEEEEecCCCccceee
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWG--DPREKICEAIDKIPLSCLVIGNRGLGKLKRLD 138 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~ 138 (148)
+....+...+.+.+++++...... ..+..+.+.+...++|+||+. .|.+.+.+++
T Consensus 20 ~~~~~i~~~l~~~g~~~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~-GGDGTl~evv 76 (334)
T PRK13055 20 KNVADILDILEQAGYETSAFQTTPEPNSAKNEAKRAAEAGFDLIIAA-GGDGTINEVV 76 (334)
T ss_pred HHHHHHHHHHHHcCCeEEEEEeecCCccHHHHHHHHhhcCCCEEEEE-CCCCHHHHHH
Confidence 445566777778888877655442 335566666666678877763 5555555443
No 171
>PRK03673 hypothetical protein; Provisional
Probab=56.24 E-value=67 Score=24.44 Aligned_cols=51 Identities=14% Similarity=0.208 Sum_probs=34.3
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEEEecCCCc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVIGNRGLGK 133 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~g~~~~~~ 133 (148)
......+.+.+.+.|+++......+|-.+.|.+..++ ..+|+||+ +.|-++
T Consensus 20 dtN~~~la~~L~~~G~~v~~~~~v~D~~~~i~~~l~~a~~~~DlVI~-tGGlGp 72 (396)
T PRK03673 20 DTNAAWLADFFFHQGLPLSRRNTVGDNLDALVAILRERSQHADVLIV-NGGLGP 72 (396)
T ss_pred EhHHHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhccCCEEEE-cCCCCC
Confidence 3455667777888999988877777776666665432 25898777 344444
No 172
>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=56.22 E-value=15 Score=23.13 Aligned_cols=25 Identities=16% Similarity=0.232 Sum_probs=21.8
Q ss_pred CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 106 GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 106 g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+...+.|.+.+++++++.||+|-+-
T Consensus 37 ~~~~~~l~~li~~~~i~~iVvGlP~ 61 (135)
T PF03652_consen 37 EKDIEELKKLIEEYQIDGIVVGLPL 61 (135)
T ss_dssp CCCHHHHHHHHHHCCECEEEEEEEB
T ss_pred chHHHHHHHHHHHhCCCEEEEeCCc
Confidence 3668999999999999999999874
No 173
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=56.21 E-value=31 Score=20.79 Aligned_cols=42 Identities=12% Similarity=-0.048 Sum_probs=27.7
Q ss_pred HHhhhcCceEEEEEeeCC-hhHHHHHHHhh-cCCcEEEEEecCC
Q 032042 90 TVARQKQIVVVMKIFWGD-PREKICEAIDK-IPLSCLVIGNRGL 131 (148)
Q Consensus 90 ~~~~~~~~~~~~~~~~g~-~~~~I~~~a~~-~~~dliV~g~~~~ 131 (148)
+++++.|++++....... -...|.+.+++ .++|+||--..+.
T Consensus 36 ~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~~~ 79 (112)
T cd00532 36 RVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRDPR 79 (112)
T ss_pred HHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCCCC
Confidence 344557888776543212 23568888899 9999999855433
No 174
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=56.12 E-value=48 Score=20.80 Aligned_cols=49 Identities=6% Similarity=0.067 Sum_probs=32.8
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeC-----------------ChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWG-----------------DPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g-----------------~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
....+.+.+.+.+.|++++..-... +..+.+.+...+ +|.||+++.-..
T Consensus 17 ~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~--aD~iI~~sP~y~ 82 (152)
T PF03358_consen 17 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKE--ADGIIFASPVYN 82 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHH--SSEEEEEEEEBT
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceec--CCeEEEeecEEc
Confidence 4667777777777777766653321 223556666666 999999988754
No 175
>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=56.03 E-value=68 Score=24.83 Aligned_cols=47 Identities=11% Similarity=0.094 Sum_probs=34.6
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+.+..+.+.+++.|....+.. .|++.+.|.+.+++.+++-|..-..
T Consensus 50 ~~sL~~L~~~L~~~G~~L~v~~-~g~~~~~l~~l~~~~~i~~v~~~~~ 96 (475)
T TIGR02766 50 KQSLAHLDQSLRSLGTCLVTIR-STDTVAALLDCVRSTGATRLFFNHL 96 (475)
T ss_pred HHHHHHHHHHHHHcCCceEEEe-CCCHHHHHHHHHHHcCCCEEEEecc
Confidence 4566777777777777655432 3789999999999999998877543
No 176
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=55.94 E-value=29 Score=21.04 Aligned_cols=41 Identities=22% Similarity=0.277 Sum_probs=32.4
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
-..+++.+..+.++...++.+.. ++..++++.++.-.+..+
T Consensus 47 ~~d~vi~iS~sG~t~~~~~~~~~-a~~~g~~vi~iT~~~~s~ 87 (128)
T cd05014 47 PGDVVIAISNSGETDELLNLLPH-LKRRGAPIIAITGNPNST 87 (128)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHH-HHHCCCeEEEEeCCCCCc
Confidence 45688999988888888877766 777899999988876554
No 177
>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=55.85 E-value=27 Score=21.10 Aligned_cols=42 Identities=14% Similarity=0.093 Sum_probs=31.5
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
+.+.+++.+..+.++...++.+-. ++..|+++..+.-.+..+
T Consensus 45 ~~~d~~I~iS~sG~t~e~~~~~~~-a~~~g~~vi~iT~~~~s~ 86 (126)
T cd05008 45 DEDTLVIAISQSGETADTLAALRL-AKEKGAKTVAITNVVGST 86 (126)
T ss_pred CCCcEEEEEeCCcCCHHHHHHHHH-HHHcCCeEEEEECCCCCh
Confidence 346789999998888886665544 777889988888766543
No 178
>PRK14974 cell division protein FtsY; Provisional
Probab=55.81 E-value=82 Score=23.35 Aligned_cols=48 Identities=15% Similarity=0.210 Sum_probs=28.2
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhH---HHHHHHhhcCCcEEEEEecCCCc
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPRE---KICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~---~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
+.+..++...|+++......++|.. ..++.++..+.|+|++-+.|+..
T Consensus 185 eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~ 235 (336)
T PRK14974 185 EQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGRMH 235 (336)
T ss_pred HHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHhCCCCEEEEECCCccC
Confidence 3345555556666544333345543 23345566678888888888765
No 179
>PRK08392 hypothetical protein; Provisional
Probab=55.69 E-value=50 Score=22.48 Aligned_cols=50 Identities=12% Similarity=0.030 Sum_probs=37.4
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
+..+++.+.+.+.|..+++-....-|...+++.+++.+. .+++|+-.+.+
T Consensus 137 ~~~~~i~~~~~~~g~~lEiNt~~~~p~~~~l~~~~~~G~-~~~igSDAH~~ 186 (215)
T PRK08392 137 EELKEILDLAEAYGKAFEISSRYRVPDLEFIRECIKRGI-KLTFASDAHRP 186 (215)
T ss_pred HHHHHHHHHHHHhCCEEEEeCCCCCCCHHHHHHHHHcCC-EEEEeCCCCCh
Confidence 344566666777888877766556777889999999886 58899887764
No 180
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=55.36 E-value=48 Score=20.59 Aligned_cols=44 Identities=9% Similarity=-0.002 Sum_probs=25.5
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEE
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVI 126 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~ 126 (148)
.....+.+.+++.|.++.......|-.+.|.+..++ .++|+||.
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvit 64 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVLT 64 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEEE
Confidence 344456666777888776654444444444444322 13898887
No 181
>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=55.27 E-value=94 Score=23.88 Aligned_cols=25 Identities=12% Similarity=0.234 Sum_probs=18.6
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
.....+++.+++.+.+...+|+.+-
T Consensus 243 ~~~~~ll~~a~~~g~~~~wigs~~~ 267 (458)
T cd06375 243 EDARELLAAAKRLNASFTWVASDGW 267 (458)
T ss_pred HHHHHHHHHHHHcCCcEEEEEeccc
Confidence 4467788888888888778877663
No 182
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=54.74 E-value=20 Score=20.61 Aligned_cols=41 Identities=10% Similarity=-0.095 Sum_probs=26.8
Q ss_pred HHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEec
Q 032042 89 NTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+++++.|++++..+.. ++-...+.+..+..++|+||--..
T Consensus 23 a~~L~~~Gi~~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~ 64 (90)
T smart00851 23 AKFLREAGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTLY 64 (90)
T ss_pred HHHHHHCCCcceeccCCCCCCCHHHHHHhcCCCeEEEEECCC
Confidence 34455678887543321 222346889999999999998554
No 183
>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=54.55 E-value=42 Score=19.66 Aligned_cols=44 Identities=11% Similarity=0.083 Sum_probs=27.7
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
..+.+++.++++|+++++.... ...+.... .++|+|+++.+-+.
T Consensus 15 ~~~ki~~~~~~~~~~~~v~~~~---~~~~~~~~--~~~Diil~~Pqv~~ 58 (96)
T cd05564 15 LVKKMKKAAEKRGIDAEIEAVP---ESELEEYI--DDADVVLLGPQVRY 58 (96)
T ss_pred HHHHHHHHHHHCCCceEEEEec---HHHHHHhc--CCCCEEEEChhHHH
Confidence 3456788888889887665432 22233344 34899999876544
No 184
>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=54.37 E-value=58 Score=21.21 Aligned_cols=35 Identities=9% Similarity=-0.142 Sum_probs=28.2
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
+++|++.+.-+|.-++.++.+. +.+++.+|+....
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~~----g~~v~av~~d~g~ 35 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMKR----GIEVDALHFNSGP 35 (177)
T ss_pred CEEEEecCChhHHHHHHHHHHc----CCeEEEEEEeCCC
Confidence 4789999998998888888763 7789999997643
No 185
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=54.13 E-value=29 Score=22.72 Aligned_cols=42 Identities=17% Similarity=0.143 Sum_probs=33.2
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
+.+.++|.+..+..+...++.+.. |+..|+++.++.-.+..+
T Consensus 71 ~~~Dv~I~iS~sG~t~~~i~~~~~-ak~~g~~ii~IT~~~~s~ 112 (179)
T TIGR03127 71 KKGDLLIAISGSGETESLVTVAKK-AKEIGATVAAITTNPEST 112 (179)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHH-HHHCCCeEEEEECCCCCc
Confidence 346789999999888887777666 788899999988776554
No 186
>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=53.91 E-value=30 Score=19.15 Aligned_cols=36 Identities=22% Similarity=0.248 Sum_probs=25.7
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEE
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVT 39 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~ 39 (148)
+-+.+++.+..+.++...++ +++.++..++++..+.
T Consensus 46 ~~~d~~i~iS~sg~t~~~~~-~~~~a~~~g~~ii~it 81 (87)
T cd04795 46 RKGDVVIALSYSGRTEELLA-ALEIAKELGIPVIAIT 81 (87)
T ss_pred CCCCEEEEEECCCCCHHHHH-HHHHHHHcCCeEEEEe
Confidence 34678888988888777655 4455777788877665
No 187
>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=53.80 E-value=42 Score=23.91 Aligned_cols=53 Identities=15% Similarity=0.345 Sum_probs=30.5
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCC-hhHHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGD-PREKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~-~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
+..+++...+.+.++++........ ....+.+.+.+.++|+||+ ..|.+.+.+
T Consensus 19 ~~~~~i~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~ivv-~GGDGTl~~ 72 (293)
T TIGR00147 19 KPLREVIMLLREEGMEIHVRVTWEKGDAARYVEEARKFGVDTVIA-GGGDGTINE 72 (293)
T ss_pred HHHHHHHHHHHHCCCEEEEEEecCcccHHHHHHHHHhcCCCEEEE-ECCCChHHH
Confidence 4455566777778888776554321 2334444444556887776 345555444
No 188
>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=53.70 E-value=43 Score=19.52 Aligned_cols=45 Identities=9% Similarity=0.052 Sum_probs=26.3
Q ss_pred hhHHHHHHHhhhcCceEEEEEee-CChh--HHHHHHHhhcCCcEEEEEec
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFW-GDPR--EKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~-g~~~--~~I~~~a~~~~~dliV~g~~ 129 (148)
.....+.+.+.+.|.+...+-.. +... ..|-...++ +|+||+-+.
T Consensus 10 ~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~--aD~VIv~t~ 57 (97)
T PF10087_consen 10 DRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKK--ADLVIVFTD 57 (97)
T ss_pred ccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCC--CCEEEEEeC
Confidence 34455777777788876666111 2222 235555555 888888544
No 189
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=53.67 E-value=48 Score=22.72 Aligned_cols=44 Identities=18% Similarity=0.107 Sum_probs=31.7
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.-+...++..|.++.. +-...|.+.+++.+++.++|+|.+....
T Consensus 106 ~iv~~~l~~~G~~Vi~-LG~~vp~e~~v~~~~~~~~~~V~lS~~~ 149 (213)
T cd02069 106 NLVGVILSNNGYEVID-LGVMVPIEKILEAAKEHKADIIGLSGLL 149 (213)
T ss_pred HHHHHHHHhCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEccch
Confidence 3355556677877543 2234779999999999999999996553
No 190
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=53.51 E-value=90 Score=23.15 Aligned_cols=34 Identities=24% Similarity=0.127 Sum_probs=25.9
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
++|+|++.+.-+|.-++..+.. .+.++..+|+..
T Consensus 1 ~kVlValSGGvDSsvla~lL~~----~G~~V~~v~~~~ 34 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE----QGYEVIGVFMKL 34 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEeC
Confidence 4899999998888877766554 356788888864
No 191
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=53.07 E-value=45 Score=24.72 Aligned_cols=53 Identities=13% Similarity=0.119 Sum_probs=37.0
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHH---HHHHhhcCCcEEEEEecCCCccc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKI---CEAIDKIPLSCLVIGNRGLGKLK 135 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~~ 135 (148)
...+.+..+.++.|+++-..-..+||+..+ +++|+..++|++++-+-||-..+
T Consensus 181 aAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk 236 (340)
T COG0552 181 AAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNK 236 (340)
T ss_pred HHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCc
Confidence 455667777777788865543334876332 36789999999999988876543
No 192
>PRK14057 epimerase; Provisional
Probab=53.04 E-value=59 Score=23.08 Aligned_cols=58 Identities=9% Similarity=0.082 Sum_probs=39.0
Q ss_pred HHHHHHHhhhcCc---------eEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeecccccc
Q 032042 85 LDIVNTVARQKQI---------VVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIEL 144 (148)
Q Consensus 85 ~~~~~~~~~~~~~---------~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a~ 144 (148)
..++.+.+++.|. .+-..+-.+.|.+.+..+... +|+|.+=+-.++.-++-|+.++-+
T Consensus 112 ~~~~l~~Ir~~G~k~~~~~~~~kaGlAlnP~Tp~e~i~~~l~~--vD~VLvMtV~PGfgGQ~Fi~~~l~ 178 (254)
T PRK14057 112 LHHTLSWLGQQTVPVIGGEMPVIRGISLCPATPLDVIIPILSD--VEVIQLLAVNPGYGSKMRSSDLHE 178 (254)
T ss_pred HHHHHHHHHHcCCCcccccccceeEEEECCCCCHHHHHHHHHh--CCEEEEEEECCCCCchhccHHHHH
Confidence 4445555666665 354545557889999999987 998887777777666666554443
No 193
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=52.47 E-value=14 Score=28.18 Aligned_cols=24 Identities=13% Similarity=0.241 Sum_probs=20.6
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+..+.|+++|++.++||+|+|.-.
T Consensus 50 ~~~~~lv~fA~~~~idl~vVGPE~ 73 (428)
T COG0151 50 TDHEALVAFAKEKNVDLVVVGPEA 73 (428)
T ss_pred cCHHHHHHHHHHcCCCEEEECCcH
Confidence 347899999999999999999654
No 194
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=52.39 E-value=41 Score=19.68 Aligned_cols=43 Identities=9% Similarity=0.010 Sum_probs=27.5
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
...+++.+.+.|+++++.- .+.. .+..++ .++|+|+.++.-..
T Consensus 20 ~~ki~~~l~~~gi~~~v~~--~~~~-e~~~~~--~~~D~iv~t~~~~~ 62 (94)
T PRK10310 20 AEEIKELCQSHNIPVELIQ--CRVN-EIETYM--DGVHLICTTARVDR 62 (94)
T ss_pred HHHHHHHHHHCCCeEEEEE--ecHH-HHhhhc--CCCCEEEECCcccc
Confidence 4667788888899876543 2333 344444 44899998876443
No 195
>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=52.35 E-value=21 Score=24.22 Aligned_cols=57 Identities=9% Similarity=-0.008 Sum_probs=36.4
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccc
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIE 143 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a 143 (148)
..++.+..++.|..+-..+-.+.+.+.+..+... .|+|.+=+-..+.-++.|...+-
T Consensus 94 ~~~~i~~ik~~g~k~GialnP~T~~~~~~~~l~~--vD~VlvMsV~PG~~Gq~f~~~~~ 150 (201)
T PF00834_consen 94 PKETIKYIKEAGIKAGIALNPETPVEELEPYLDQ--VDMVLVMSVEPGFGGQKFIPEVL 150 (201)
T ss_dssp HHHHHHHHHHTTSEEEEEE-TTS-GGGGTTTGCC--SSEEEEESS-TTTSSB--HGGHH
T ss_pred HHHHHHHHHHhCCCEEEEEECCCCchHHHHHhhh--cCEEEEEEecCCCCcccccHHHH
Confidence 3445566777888887777667888888888886 99877766666655555554443
No 196
>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=52.20 E-value=36 Score=19.76 Aligned_cols=43 Identities=12% Similarity=0.139 Sum_probs=25.8
Q ss_pred HHHHhhhcCceEEEEEe-eCCh-h-H---HHHHHHhhcCCcEEEEEecC
Q 032042 88 VNTVARQKQIVVVMKIF-WGDP-R-E---KICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~-~g~~-~-~---~I~~~a~~~~~dliV~g~~~ 130 (148)
..+.++++|+++...+. .+.+ . + .+.+..++.++|+||.-..+
T Consensus 22 Ta~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~ 70 (95)
T PF02142_consen 22 TAKFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYP 70 (95)
T ss_dssp HHHHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--T
T ss_pred HHHHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCC
Confidence 44566778998444332 2333 2 2 49999999999999886554
No 197
>PRK13054 lipid kinase; Reviewed
Probab=52.05 E-value=45 Score=23.95 Aligned_cols=52 Identities=10% Similarity=0.245 Sum_probs=30.3
Q ss_pred HHHHHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEecCCCccceee
Q 032042 86 DIVNTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNRGLGKLKRLD 138 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~ 138 (148)
..+.+.+.+.+++++..... ..-+..+.+.+...++|.||+ ..|.+.+..++
T Consensus 21 ~~~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vvv-~GGDGTl~evv 73 (300)
T PRK13054 21 REAVGLLREEGHTLHVRVTWEKGDAARYVEEALALGVATVIA-GGGDGTINEVA 73 (300)
T ss_pred HHHHHHHHHcCCEEEEEEecCCCcHHHHHHHHHHcCCCEEEE-ECCccHHHHHH
Confidence 33455567778877665443 233555666555567887776 35566555544
No 198
>PRK05568 flavodoxin; Provisional
Probab=51.88 E-value=56 Score=20.28 Aligned_cols=44 Identities=7% Similarity=0.125 Sum_probs=26.8
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
++..+.+.+.+...|++++..-........+ .++|.||+|++..
T Consensus 16 ~~~a~~i~~~~~~~g~~v~~~~~~~~~~~~~------~~~d~iilgsp~y 59 (142)
T PRK05568 16 EAMANLIAEGAKENGAEVKLLNVSEASVDDV------KGADVVALGSPAM 59 (142)
T ss_pred HHHHHHHHHHHHHCCCeEEEEECCCCCHHHH------HhCCEEEEECCcc
Confidence 4666667776767777766543332222222 3489999998864
No 199
>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=51.55 E-value=46 Score=23.80 Aligned_cols=51 Identities=14% Similarity=0.262 Sum_probs=29.3
Q ss_pred HHHHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEecCCCccceee
Q 032042 87 IVNTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNRGLGKLKRLD 138 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~ 138 (148)
.+.+.+++.+++++..... ..-+..+.+.+...++|.||. ..|.+.+.+++
T Consensus 18 ~~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vv~-~GGDGTi~ev~ 69 (293)
T TIGR03702 18 EAVGDLRDEGIQLHVRVTWEKGDAQRYVAEALALGVSTVIA-GGGDGTLREVA 69 (293)
T ss_pred HHHHHHHHCCCeEEEEEecCCCCHHHHHHHHHHcCCCEEEE-EcCChHHHHHH
Confidence 3444566778877665443 233556666555566787665 35555554443
No 200
>PRK14561 hypothetical protein; Provisional
Probab=51.30 E-value=72 Score=21.39 Aligned_cols=32 Identities=25% Similarity=0.045 Sum_probs=21.7
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
++|+|++.+.-+|.-.+.++..+ ..+.++|+.
T Consensus 1 mkV~ValSGG~DSslll~~l~~~-----~~v~a~t~~ 32 (194)
T PRK14561 1 MKAGVLFSGGKDSSLAAILLERF-----YDVELVTVN 32 (194)
T ss_pred CEEEEEEechHHHHHHHHHHHhc-----CCeEEEEEe
Confidence 36999999988888777666443 335555554
No 201
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=51.19 E-value=24 Score=25.16 Aligned_cols=42 Identities=19% Similarity=0.264 Sum_probs=34.0
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
....++|++.++.+....++.+-. |+..|++++.++-...++
T Consensus 176 ~~~Dv~i~iS~sG~t~e~i~~a~~-ak~~ga~vIaiT~~~~sp 217 (281)
T COG1737 176 TPGDVVIAISFSGYTREIVEAAEL-AKERGAKVIAITDSADSP 217 (281)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHH-HHHCCCcEEEEcCCCCCc
Confidence 457799999999999888877665 888899999988875544
No 202
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=50.98 E-value=64 Score=20.74 Aligned_cols=44 Identities=7% Similarity=0.089 Sum_probs=26.4
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+.+.+.++..|+++..--.. ++.+++++.|-+.++|.|++.+..
T Consensus 30 kvia~~l~d~GfeVi~~g~~-~tp~e~v~aA~~~dv~vIgvSsl~ 73 (143)
T COG2185 30 KVIARALADAGFEVINLGLF-QTPEEAVRAAVEEDVDVIGVSSLD 73 (143)
T ss_pred HHHHHHHHhCCceEEecCCc-CCHHHHHHHHHhcCCCEEEEEecc
Confidence 34555566677765442222 344677777777778877775543
No 203
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=50.93 E-value=1.1e+02 Score=23.44 Aligned_cols=25 Identities=16% Similarity=0.179 Sum_probs=14.7
Q ss_pred hHHHHHHHHHhhc-ccCCCEEEEEEE
Q 032042 16 CSKKALQWAADNV-VRNGDHLILVTV 40 (148)
Q Consensus 16 ~s~~al~~a~~la-~~~~~~v~ll~v 40 (148)
-+..+...|..++ ...+.+|.++..
T Consensus 234 KTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 234 KTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred HHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 4445666666665 344567777654
No 204
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=50.77 E-value=21 Score=22.66 Aligned_cols=23 Identities=17% Similarity=0.170 Sum_probs=19.6
Q ss_pred hhHHHHHHHhhcCCcEEEEEecC
Q 032042 108 PREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 108 ~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
..+.|.+.+++++++.||+|-+-
T Consensus 42 ~~~~l~~~i~~~~i~~iVvGlP~ 64 (138)
T PRK00109 42 DWDRLEKLIKEWQPDGLVVGLPL 64 (138)
T ss_pred HHHHHHHHHHHhCCCEEEEeccC
Confidence 37889999999999999999553
No 205
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=50.69 E-value=33 Score=22.42 Aligned_cols=42 Identities=19% Similarity=0.109 Sum_probs=33.2
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
..+.++|.+..|.++...++.+.. |+..|++++.+...+..+
T Consensus 100 ~~~Dv~I~iS~SG~t~~~i~~~~~-ak~~Ga~vI~IT~~~~s~ 141 (177)
T cd05006 100 QPGDVLIGISTSGNSPNVLKALEA-AKERGMKTIALTGRDGGK 141 (177)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHH-HHHCCCEEEEEeCCCCCc
Confidence 346799999999888888877766 778899999988766544
No 206
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=50.59 E-value=1.1e+02 Score=23.38 Aligned_cols=44 Identities=11% Similarity=0.110 Sum_probs=23.5
Q ss_pred HHHHHhhhcCceEEEEEeeCCh---hHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 87 IVNTVARQKQIVVVMKIFWGDP---REKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~---~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
.+..+....++++... .+| .++|.......++|+|++-+.|+++
T Consensus 252 QLk~yae~lgvpv~~~---~dp~dL~~al~~l~~~~~~D~VLIDTAGr~~ 298 (407)
T PRK12726 252 QFQGYADKLDVELIVA---TSPAELEEAVQYMTYVNCVDHILIDTVGRNY 298 (407)
T ss_pred HHHHHhhcCCCCEEec---CCHHHHHHHHHHHHhcCCCCEEEEECCCCCc
Confidence 3455555556654431 233 2333222223458888888888865
No 207
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=50.48 E-value=62 Score=22.42 Aligned_cols=50 Identities=6% Similarity=0.104 Sum_probs=34.1
Q ss_pred CChhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh---cCCcEEEEEec
Q 032042 80 PDPETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK---IPLSCLVIGNR 129 (148)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~---~~~dliV~g~~ 129 (148)
...+..+.+++.+.+.|+.-...+..|+..+.+-+...+ ..+|+|++...
T Consensus 101 ~d~~~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~ 153 (234)
T PLN02781 101 IDKEAYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDFAFVDAD 153 (234)
T ss_pred CCHHHHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCC
Confidence 344666667777777787655666778887776655432 57999999753
No 208
>PRK10481 hypothetical protein; Provisional
Probab=50.36 E-value=84 Score=21.86 Aligned_cols=39 Identities=15% Similarity=0.078 Sum_probs=26.5
Q ss_pred hcCceEEEEEee--CChhHHHHHHHh---hcCCcEEEEEecCCC
Q 032042 94 QKQIVVVMKIFW--GDPREKICEAID---KIPLSCLVIGNRGLG 132 (148)
Q Consensus 94 ~~~~~~~~~~~~--g~~~~~I~~~a~---~~~~dliV~g~~~~~ 132 (148)
..|+++...... ....+.+.+.++ ..++|+||+++-|.+
T Consensus 151 ~~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~ 194 (224)
T PRK10481 151 VLQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYH 194 (224)
T ss_pred hcCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcC
Confidence 347776654432 133456666666 678999999999877
No 209
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=49.76 E-value=42 Score=20.40 Aligned_cols=41 Identities=17% Similarity=0.118 Sum_probs=30.4
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
.+.+++.+..|.++...++.+.. |+..++++..+...+..+
T Consensus 47 ~~dl~I~iS~SG~t~~~~~~~~~-a~~~g~~vi~iT~~~~s~ 87 (120)
T cd05710 47 EKSVVILASHSGNTKETVAAAKF-AKEKGATVIGLTDDEDSP 87 (120)
T ss_pred CCcEEEEEeCCCCChHHHHHHHH-HHHcCCeEEEEECCCCCc
Confidence 46788999988877777665554 777789888887766543
No 210
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=49.54 E-value=36 Score=25.42 Aligned_cols=41 Identities=22% Similarity=0.122 Sum_probs=34.4
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCC-EEEEEEEecC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGD-HLILVTVVPE 43 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~-~v~ll~v~~~ 43 (148)
.+-+|.|...+..+|.-.|+.++++++..+. +|.++|.--.
T Consensus 26 ~f~~VcVSFSGGKDS~lmLhL~~~~ar~~~~~~i~VlfiD~E 67 (407)
T COG3969 26 TFPRVCVSFSGGKDSGLMLHLVAEVARENGRDKISVLFIDWE 67 (407)
T ss_pred cCCeEEEEecCCCchhHHHHHHHHHHHHhCCCceEEEEEcch
Confidence 4678899999999999999999999999775 8888887443
No 211
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=49.44 E-value=79 Score=21.31 Aligned_cols=31 Identities=6% Similarity=0.137 Sum_probs=25.4
Q ss_pred CHhHHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 14 SACSKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 14 s~~s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
..+....++.+++-++..++++.++++.+..
T Consensus 13 ~G~t~~l~~~~~~g~~~~G~E~~~i~v~~~~ 43 (207)
T COG0655 13 NGNTAKLAEAVLEGAEEAGAEVEIIRLPEKN 43 (207)
T ss_pred CCcHHHHHHHHHHHHHHcCCEEEEEEecCCC
Confidence 4567788888888888889999999987653
No 212
>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=49.31 E-value=41 Score=20.33 Aligned_cols=41 Identities=15% Similarity=0.268 Sum_probs=32.2
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
+...+++.+..+......++.+. .++..+++++++...+..
T Consensus 52 ~~~d~vi~is~sg~~~~~~~~~~-~ak~~g~~vi~iT~~~~~ 92 (131)
T PF01380_consen 52 DPDDLVIIISYSGETRELIELLR-FAKERGAPVILITSNSES 92 (131)
T ss_dssp STTEEEEEEESSSTTHHHHHHHH-HHHHTTSEEEEEESSTTS
T ss_pred cccceeEeeeccccchhhhhhhH-HHHhcCCeEEEEeCCCCC
Confidence 35678999998888888888777 688899999777765543
No 213
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=49.31 E-value=62 Score=22.12 Aligned_cols=53 Identities=13% Similarity=0.061 Sum_probs=40.0
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeec
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDF 139 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~ 139 (148)
..++.++.++.|..+-..+..|.+.+.|..++.. .|++.+-+-.++.-++-|+
T Consensus 101 ~~~lv~~ir~~Gmk~G~alkPgT~Ve~~~~~~~~--~D~vLvMtVePGFGGQkFm 153 (224)
T KOG3111|consen 101 PAELVEKIREKGMKVGLALKPGTPVEDLEPLAEH--VDMVLVMTVEPGFGGQKFM 153 (224)
T ss_pred HHHHHHHHHHcCCeeeEEeCCCCcHHHHHHhhcc--ccEEEEEEecCCCchhhhH
Confidence 5566777888899888888889999999999886 8887776666664444443
No 214
>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=49.15 E-value=63 Score=23.83 Aligned_cols=28 Identities=11% Similarity=0.089 Sum_probs=21.5
Q ss_pred CHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 14 SACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 14 s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
.+.+++.+++|.++|++.+.+|+++|-.
T Consensus 140 r~~~eRi~r~AF~~A~~r~~~Vt~v~Ka 167 (322)
T TIGR02088 140 REGSERIARFAFNLAKERNRKVTCVHKA 167 (322)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEeCC
Confidence 3577899999999998877776666544
No 215
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=49.05 E-value=1.2e+02 Score=23.39 Aligned_cols=28 Identities=21% Similarity=0.069 Sum_probs=15.0
Q ss_pred cCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 12 DFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 12 d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
-++.-+..+...|..+. ..+.++.++..
T Consensus 104 ~GsGKTTtaakLA~~L~-~~g~kV~lV~~ 131 (437)
T PRK00771 104 QGSGKTTTAAKLARYFK-KKGLKVGLVAA 131 (437)
T ss_pred CCCcHHHHHHHHHHHHH-HcCCeEEEecC
Confidence 34444455556665544 44666666544
No 216
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=48.92 E-value=64 Score=22.74 Aligned_cols=50 Identities=8% Similarity=0.069 Sum_probs=35.2
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh----cCCcEEEEEecCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK----IPLSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~----~~~dliV~g~~~~ 131 (148)
.+..+.+++.++..|+.-.+.+..|+..+.+-+.... ..+|+|.+-.-..
T Consensus 114 ~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDadK~ 167 (247)
T PLN02589 114 RENYELGLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDADKD 167 (247)
T ss_pred HHHHHHHHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcccEEEecCCHH
Confidence 3555667777777888766677778888877776542 5799999965543
No 217
>TIGR00200 cinA_nterm competence/damage-inducible protein CinA N-terminal domain. cinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species
Probab=48.34 E-value=62 Score=24.75 Aligned_cols=51 Identities=16% Similarity=0.212 Sum_probs=32.5
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEEEecCCCcc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVIGNRGLGKL 134 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~g~~~~~~~ 134 (148)
.....+.+.+.+.|+++......+|-.+.|.+..++ .++|+||+. .|-++-
T Consensus 20 tN~~~l~~~L~~~G~~v~~~~~v~Dd~~~i~~~l~~a~~~~DlVItt-GGlgpt 72 (413)
T TIGR00200 20 TNAQWLADFLAHQGLPLSRRTTVGDNPERLKTIIRIASERADVLIFN-GGLGPT 72 (413)
T ss_pred chHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHhcCCCEEEEc-CCCCCC
Confidence 444557777888999987776666555555444332 358999883 555543
No 218
>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=48.12 E-value=1.2e+02 Score=22.82 Aligned_cols=35 Identities=14% Similarity=0.003 Sum_probs=27.5
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
-.++|+++.+.-+|.-++-++.. .|.++..+|...
T Consensus 172 ~~kvlvllSGGiDS~vaa~ll~k----rG~~V~av~~~~ 206 (371)
T TIGR00342 172 QGKVLALLSGGIDSPVAAFMMMK----RGCRVVAVHFFN 206 (371)
T ss_pred CCeEEEEecCCchHHHHHHHHHH----cCCeEEEEEEeC
Confidence 36899999998888877766644 378899999974
No 219
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=47.72 E-value=41 Score=21.52 Aligned_cols=42 Identities=19% Similarity=0.116 Sum_probs=31.8
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
+...+++.+..|..+...++.+.. |+..|+++..+...+..+
T Consensus 78 ~~~D~~i~iS~sG~t~~~~~~~~~-a~~~g~~ii~iT~~~~s~ 119 (154)
T TIGR00441 78 QKGDVLLGISTSGNSKNVLKAIEA-AKDKGMKTITLAGKDGGK 119 (154)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHH-HHHCCCEEEEEeCCCCCc
Confidence 345789999998887777765554 788899999988866544
No 220
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=47.61 E-value=57 Score=19.85 Aligned_cols=38 Identities=8% Similarity=0.001 Sum_probs=26.0
Q ss_pred Hhhh-cCceEEEEEee--CChhHHHHHHHhhcCCcEEEEEec
Q 032042 91 VARQ-KQIVVVMKIFW--GDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 91 ~~~~-~~~~~~~~~~~--g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
++++ .|++++.. .. ..-...|.+.+++.++|+||--..
T Consensus 39 ~L~~~~Gi~v~~v-k~~~~~g~~~i~~~i~~g~i~~VInt~~ 79 (115)
T cd01422 39 LIQEATGLTVNRM-KSGPLGGDQQIGALIAEGEIDAVIFFRD 79 (115)
T ss_pred HHHHhhCCcEEEE-ecCCCCchhHHHHHHHcCceeEEEEcCC
Confidence 3444 68887765 32 122366999999999999987644
No 221
>COG1831 Predicted metal-dependent hydrolase (urease superfamily) [General function prediction only]
Probab=47.39 E-value=71 Score=22.97 Aligned_cols=46 Identities=20% Similarity=0.154 Sum_probs=37.4
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEeeCCh--hHHHHHHHhhcCC--cEEEE
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFWGDP--REKICEAIDKIPL--SCLVI 126 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~I~~~a~~~~~--dliV~ 126 (148)
.++.+..+.+.+++.+..++.+....++ .+.|-+++++.+. ..+|.
T Consensus 143 ~n~vl~~a~elA~dvdc~vqLHtes~~~~~~~~i~~~ak~~G~~~~~VVk 192 (285)
T COG1831 143 SNEVLEYAMELAKDVDCAVQLHTESLDEETYEEIAEMAKEAGIKPYRVVK 192 (285)
T ss_pred HHHHHHHHHHHhhcCCCcEEEecCCCChHHHHHHHHHHHHhCCCcceeEe
Confidence 3678888888898899999999877655 7899999999884 56665
No 222
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=47.28 E-value=26 Score=23.56 Aligned_cols=51 Identities=18% Similarity=0.273 Sum_probs=35.9
Q ss_pred hhcCCCChhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 75 KYGAKPDPETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
-+..+...+..+..++-++..|++ ...+..|+..+.+.+.. .+|.|+||..
T Consensus 61 v~AIe~~~~a~~~~~~N~~~fg~~-n~~vv~g~Ap~~L~~~~---~~daiFIGGg 111 (187)
T COG2242 61 VIAIERDEEALELIERNAARFGVD-NLEVVEGDAPEALPDLP---SPDAIFIGGG 111 (187)
T ss_pred EEEEecCHHHHHHHHHHHHHhCCC-cEEEEeccchHhhcCCC---CCCEEEECCC
Confidence 344455667777777778788855 44566788888877543 5999999866
No 223
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=46.93 E-value=78 Score=22.17 Aligned_cols=52 Identities=21% Similarity=0.144 Sum_probs=37.1
Q ss_pred hhHHHHHHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
+.+..+.+.++..|+.++...-+ -+..+.|..++....+|++-+=+..-+.+
T Consensus 123 ~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da~A~dmVQIKtPDLGgi 175 (248)
T PF07476_consen 123 EALAELREELDRRGINVEIVADEWCNTLEDIREFADAKAADMVQIKTPDLGGI 175 (248)
T ss_dssp HHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHTT-SSEEEE-GGGGSST
T ss_pred HHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhcCCcCEEEecCCCccch
Confidence 55677888888889999887754 68899999999999999999977765554
No 224
>PF13155 Toprim_2: Toprim-like
Probab=46.53 E-value=56 Score=18.71 Aligned_cols=29 Identities=17% Similarity=0.276 Sum_probs=24.3
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNG 32 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~ 32 (148)
.++|.+++|.+.....+.+.........+
T Consensus 47 ~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 47 YKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred CCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 47899999999999999998887776554
No 225
>TIGR02151 IPP_isom_2 isopentenyl-diphosphate delta-isomerase, type 2. Isopentenyl-diphosphate delta-isomerase (IPP isomerase) interconverts isopentenyl diphosphate and dimethylallyl diphosphate. This model represents the type 2 enzyme. FMN, NADPH, and Mg2+ are required by this form, which lacks homology to the type 1 enzyme (TIGR02150). IPP is precursor to many compounds, including enzyme cofactors, sterols, and isoprenoids.
Probab=46.04 E-value=99 Score=22.79 Aligned_cols=48 Identities=13% Similarity=0.185 Sum_probs=32.6
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++.++...+..++++-++...........+.+.+.++|.|+++.++
T Consensus 166 ~~le~i~~i~~~~~vPVivK~~g~g~~~~~a~~L~~aGvd~I~Vsg~g 213 (333)
T TIGR02151 166 GWLEKIAEICSQLSVPVIVKEVGFGISKEVAKLLADAGVSAIDVAGAG 213 (333)
T ss_pred HHHHHHHHHHHhcCCCEEEEecCCCCCHHHHHHHHHcCCCEEEECCCC
Confidence 345666665555577877765432235567778888999999997665
No 226
>PRK05437 isopentenyl pyrophosphate isomerase; Provisional
Probab=45.88 E-value=78 Score=23.56 Aligned_cols=48 Identities=10% Similarity=0.132 Sum_probs=32.1
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++.++......++++-++...........+.+.+.++|.|+++.+|
T Consensus 173 ~~le~i~~i~~~~~vPVivK~~g~g~s~~~a~~l~~~Gvd~I~Vsg~G 220 (352)
T PRK05437 173 GWLDNIAEIVSALPVPVIVKEVGFGISKETAKRLADAGVKAIDVAGAG 220 (352)
T ss_pred HHHHHHHHHHHhhCCCEEEEeCCCCCcHHHHHHHHHcCCCEEEECCCC
Confidence 345566665555578877776532233566677777899999997665
No 227
>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=45.78 E-value=1.1e+02 Score=23.03 Aligned_cols=32 Identities=22% Similarity=0.171 Sum_probs=25.7
Q ss_pred CceEEEEEeeCChhHHHHHHHhhcCCcEEEEE
Q 032042 96 QIVVVMKIFWGDPREKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 96 ~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g 127 (148)
+.++.+++..++..+.+...+.+.++|+|++-
T Consensus 203 ~~pVgvKl~~~~~~~~~~~~~~~ag~D~ItID 234 (368)
T PF01645_consen 203 GKPVGVKLVAGRGVEDIAAGAAKAGADFITID 234 (368)
T ss_dssp TSEEEEEEE-STTHHHHHHHHHHTT-SEEEEE
T ss_pred CCcEEEEECCCCcHHHHHHhhhhccCCEEEEe
Confidence 68899999888888888777888899999993
No 228
>PRK09271 flavodoxin; Provisional
Probab=45.71 E-value=32 Score=22.17 Aligned_cols=46 Identities=11% Similarity=-0.074 Sum_probs=23.8
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeC-ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWG-DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
++.-+.+.+.+...|++++..-... +..+.. ....++|.|++|+..
T Consensus 15 e~~A~~ia~~l~~~g~~v~~~~~~~~~~~~~~---~~~~~~d~vilgt~T 61 (160)
T PRK09271 15 REVAREIEERCEEAGHEVDWVETDVQTLAEYP---LDPEDYDLYLLGTWT 61 (160)
T ss_pred HHHHHHHHHHHHhCCCeeEEEecccccccccc---cCcccCCEEEEECcc
Confidence 4556666677777777655332211 111111 122347888888754
No 229
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=45.67 E-value=70 Score=19.59 Aligned_cols=44 Identities=11% Similarity=0.152 Sum_probs=25.2
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
++..+.+.+.+...|++++..-........+ .++|.||+|+...
T Consensus 13 ~~~A~~i~~~~~~~g~~v~~~~~~~~~~~~l------~~~d~iilgspty 56 (140)
T TIGR01753 13 EEMANIIAEGLKEAGAEVDLLEVADADAEDL------LSYDAVLLGCSTW 56 (140)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEcccCCHHHH------hcCCEEEEEcCCC
Confidence 4555666666666677765543322112222 2379999988764
No 230
>PF08915 tRNA-Thr_ED: Archaea-specific editing domain of threonyl-tRNA synthetase; InterPro: IPR015011 Archaea-specific editing domain of threonyl-tRNA synthetase, with marked structural similarity to D-amino acids deacylases found in eubacteria and eukaryotes. This domain can bind D-amino acids, and ensures high fidelity during translation. It is especially responsible for removing incorrectly attached serine from tRNA-Thr. The domain forms a fold that can be defined as two layers of beta-sheets (a three-stranded sheet and a five-stranded sheet), with two alpha-helices located adjacent to the five-stranded sheet []. ; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0005737 cytoplasm; PDB: 3PD4_B 3PD3_A 2HL0_A 2HL1_A 2HKZ_A 3PD5_B 2HL2_A 3PD2_B 1Y2Q_A.
Probab=45.64 E-value=68 Score=20.49 Aligned_cols=58 Identities=12% Similarity=0.001 Sum_probs=37.3
Q ss_pred HHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHHhhhcC
Q 032042 17 SKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTVARQKQ 96 (148)
Q Consensus 17 s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (148)
-.++++-..+.+++.+++-+++|.+.--.. ...+ + +.+.+.++.+.+.++..|
T Consensus 56 v~~av~eI~~~a~kv~~~~ivlyPyAHLSs-------------~La~-P-------------~~A~~iL~~le~~L~~~g 108 (138)
T PF08915_consen 56 VEKAVEEIKWVAKKVKAKRIVLYPYAHLSS-------------SLAS-P-------------DVAVEILKKLEERLKSRG 108 (138)
T ss_dssp HHHHHHHHHHHHHHTT-SEEEEEE-GGGSS-------------SB---H-------------HHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHhcCCCEEEEeCcccccC-------------CcCC-h-------------HHHHHHHHHHHHHHHhCC
Confidence 457888889999999999999998875321 1101 0 023577888888887777
Q ss_pred ceEEE
Q 032042 97 IVVVM 101 (148)
Q Consensus 97 ~~~~~ 101 (148)
+++..
T Consensus 109 ~eV~r 113 (138)
T PF08915_consen 109 FEVYR 113 (138)
T ss_dssp -EEEE
T ss_pred CeEEE
Confidence 76543
No 231
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=45.60 E-value=1.3e+02 Score=22.66 Aligned_cols=49 Identities=10% Similarity=0.172 Sum_probs=29.3
Q ss_pred hhhHHHHHHHhh--hcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 82 PETLDIVNTVAR--QKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 82 ~~~~~~~~~~~~--~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
+++.+.+.+.++ ..|++++..-........+...+.+ +|.||+|+...+
T Consensus 262 e~mA~~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~~--~d~ii~GspT~~ 312 (394)
T PRK11921 262 RRMAEAIAEGIKKANKDVTVKLYNSAKSDKNDIITEVFK--SKAILVGSSTIN 312 (394)
T ss_pred HHHHHHHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHHh--CCEEEEECCCcC
Confidence 455555666665 4567665543333334455444444 999999998754
No 232
>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=45.39 E-value=59 Score=18.69 Aligned_cols=46 Identities=15% Similarity=0.154 Sum_probs=26.8
Q ss_pred hhHHHHHHHhhhcCc-eEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 83 ETLDIVNTVARQKQI-VVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~-~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
...+.+...+...|+ .+. . ..+ ..+..+..++..+|++++...-.+
T Consensus 9 ~~~~~l~~~l~~~~~~~v~--~-~~~-~~~~~~~~~~~~~d~iiid~~~~~ 55 (112)
T PF00072_consen 9 EIRELLEKLLERAGYEEVT--T-ASS-GEEALELLKKHPPDLIIIDLELPD 55 (112)
T ss_dssp HHHHHHHHHHHHTTEEEEE--E-ESS-HHHHHHHHHHSTESEEEEESSSSS
T ss_pred HHHHHHHHHHHhCCCCEEE--E-ECC-HHHHHHHhcccCceEEEEEeeecc
Confidence 344455566665666 322 1 233 445556677788999998755433
No 233
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=45.28 E-value=25 Score=22.69 Aligned_cols=22 Identities=18% Similarity=0.342 Sum_probs=11.9
Q ss_pred hHHHHHHHhhcCCcEEEEEecC
Q 032042 109 REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.|.++++++++|+|++|..+
T Consensus 52 ~~~l~~~i~~~kP~vI~v~g~~ 73 (150)
T PF14639_consen 52 MERLKKFIEKHKPDVIAVGGNS 73 (150)
T ss_dssp HHHHHHHHHHH--SEEEE--SS
T ss_pred HHHHHHHHHHcCCeEEEEcCCC
Confidence 3556667777778888775443
No 234
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=45.21 E-value=20 Score=28.39 Aligned_cols=22 Identities=18% Similarity=0.309 Sum_probs=19.4
Q ss_pred hhHHHHHHHhhcCCcEEEEEec
Q 032042 108 PREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 108 ~~~~I~~~a~~~~~dliV~g~~ 129 (148)
..++|++.|++.++|||++|.-
T Consensus 40 tFeEIl~iA~e~~VDmiLlGGD 61 (646)
T KOG2310|consen 40 TFEEILEIAQENDVDMILLGGD 61 (646)
T ss_pred HHHHHHHHHHhcCCcEEEecCc
Confidence 3689999999999999999853
No 235
>PRK10799 metal-binding protein; Provisional
Probab=44.79 E-value=36 Score=23.86 Aligned_cols=27 Identities=0% Similarity=0.044 Sum_probs=21.1
Q ss_pred EEEEeeCChhHHHHHHHhhcCCcEEEE
Q 032042 100 VMKIFWGDPREKICEAIDKIPLSCLVI 126 (148)
Q Consensus 100 ~~~~~~g~~~~~I~~~a~~~~~dliV~ 126 (148)
+.....-++...+++.|.+.++|+||.
T Consensus 36 ~~I~~alD~t~~vi~~A~~~~~dlIit 62 (247)
T PRK10799 36 QKIVTGVTASQALLDEAVRLQADAVIV 62 (247)
T ss_pred cEEEEEeCCCHHHHHHHHHCCCCEEEE
Confidence 333444588899999999999999995
No 236
>PRK01215 competence damage-inducible protein A; Provisional
Probab=44.43 E-value=1.1e+02 Score=21.71 Aligned_cols=50 Identities=18% Similarity=0.069 Sum_probs=30.2
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEEEecCCCc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVIGNRGLGK 133 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~g~~~~~~ 133 (148)
.....+.+.+.+.|+++......+|-.+.|.+..++ ..+|+||+. .|-++
T Consensus 23 tn~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~a~~~~DlVItt-GG~g~ 74 (264)
T PRK01215 23 TNASWIARRLTYLGYTVRRITVVMDDIEEIVSAFREAIDRADVVVST-GGLGP 74 (264)
T ss_pred hhHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHhcCCCEEEEe-CCCcC
Confidence 444567777888899987766656554444443222 146988884 44443
No 237
>PRK05569 flavodoxin; Provisional
Probab=44.33 E-value=76 Score=19.66 Aligned_cols=44 Identities=14% Similarity=0.160 Sum_probs=25.4
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
+++.+.+.+.+.+.|++++..-....... .-.++|.|++|+...
T Consensus 16 ~~iA~~i~~~~~~~g~~v~~~~~~~~~~~------~~~~~d~iilgsPty 59 (141)
T PRK05569 16 EVLANTIADGAKEAGAEVTIKHVADAKVE------DVLEADAVAFGSPSM 59 (141)
T ss_pred HHHHHHHHHHHHhCCCeEEEEECCcCCHH------HHhhCCEEEEECCCc
Confidence 45556666666666776544332221122 123589999999764
No 238
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=44.04 E-value=60 Score=18.35 Aligned_cols=43 Identities=12% Similarity=0.101 Sum_probs=27.4
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCc-EEEEEec
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLS-CLVIGNR 129 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~d-liV~g~~ 129 (148)
..+.+.++..|+.++...... ....-+++|...++. +|++|..
T Consensus 21 ~~la~~Lr~~g~~v~~d~~~~-~l~k~i~~a~~~g~~~~iiiG~~ 64 (94)
T cd00861 21 EKLYAELQAAGVDVLLDDRNE-RPGVKFADADLIGIPYRIVVGKK 64 (94)
T ss_pred HHHHHHHHHCCCEEEEECCCC-CcccchhHHHhcCCCEEEEECCc
Confidence 344555666788888766543 444455778888888 5555644
No 239
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=43.81 E-value=29 Score=22.98 Aligned_cols=103 Identities=12% Similarity=0.107 Sum_probs=56.2
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccc-cCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLW-EDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
+..+-|||+|..+.+..+.+|...+. ..+..+.++.-....... .+ ...|-+ +.....
T Consensus 34 DlDNTLv~wd~~~~tpe~~~W~~e~k-~~gi~v~vvSNn~e~RV~-----~~~~~l~v~---------------fi~~A~ 92 (175)
T COG2179 34 DLDNTLVPWDNPDATPELRAWLAELK-EAGIKVVVVSNNKESRVA-----RAAEKLGVP---------------FIYRAK 92 (175)
T ss_pred eccCceecccCCCCCHHHHHHHHHHH-hcCCEEEEEeCCCHHHHH-----hhhhhcCCc---------------eeeccc
Confidence 35677999999999999999999954 456776665442221110 00 000111 111122
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEE
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVI 126 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~ 126 (148)
+..-..+.+.+++.+++.+-.+..||---.=+-.++..++-.|.+
T Consensus 93 KP~~~~fr~Al~~m~l~~~~vvmVGDqL~TDVlggnr~G~~tIlV 137 (175)
T COG2179 93 KPFGRAFRRALKEMNLPPEEVVMVGDQLFTDVLGGNRAGMRTILV 137 (175)
T ss_pred CccHHHHHHHHHHcCCChhHEEEEcchhhhhhhcccccCcEEEEE
Confidence 334445666667777776666666654222223445555555554
No 240
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=43.66 E-value=97 Score=23.71 Aligned_cols=28 Identities=21% Similarity=0.337 Sum_probs=18.1
Q ss_pred eC-ChhHHHHHHHhhcC---CcEEEEEecCCC
Q 032042 105 WG-DPREKICEAIDKIP---LSCLVIGNRGLG 132 (148)
Q Consensus 105 ~g-~~~~~I~~~a~~~~---~dliV~g~~~~~ 132 (148)
.| .....|++..+..+ +|+||+++.|-|
T Consensus 173 QG~~A~~~i~~al~~~~~~~~Dviii~RGGGS 204 (438)
T PRK00286 173 QGEGAAASIVAAIERANARGEDVLIVARGGGS 204 (438)
T ss_pred cCccHHHHHHHHHHHhcCCCCCEEEEecCCCC
Confidence 46 45666666554333 599999876654
No 241
>PRK06096 molybdenum transport protein ModD; Provisional
Probab=43.40 E-value=1.2e+02 Score=21.89 Aligned_cols=37 Identities=5% Similarity=-0.047 Sum_probs=26.2
Q ss_pred eEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccc
Q 032042 98 VVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLK 135 (148)
Q Consensus 98 ~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 135 (148)
.+...+..|-..+.|.+||+. ++|.|++|+-.+++.-
T Consensus 236 ~~~leaSGGI~~~ni~~yA~t-GvD~Is~gal~~a~~~ 272 (284)
T PRK06096 236 HCTLSLAGGINLNTLKNYADC-GIRLFITSAPYYAAPA 272 (284)
T ss_pred CeEEEEECCCCHHHHHHHHhc-CCCEEEECccccCCCc
Confidence 444444445557888888885 8999999998666443
No 242
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=43.32 E-value=1.3e+02 Score=23.57 Aligned_cols=46 Identities=13% Similarity=0.203 Sum_probs=33.9
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
...++.+.+.+.+.|++ ..+..|++...+.+++++.+++-|+-...
T Consensus 54 ~~sL~~L~~~L~~~gi~--L~v~~~~~~~~l~~~~~~~~~~~v~~n~~ 99 (461)
T COG0415 54 LQSLQALQQSLAELGIP--LLVREGDPEQVLPELAKQLAATTVFWNRD 99 (461)
T ss_pred HHHHHHHHHHHHHcCCc--eEEEeCCHHHHHHHHHHHhCcceEEeeee
Confidence 45567777777776765 34556899999999999988777776443
No 243
>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=43.31 E-value=81 Score=23.55 Aligned_cols=23 Identities=22% Similarity=0.278 Sum_probs=19.5
Q ss_pred hhHHHHHHHhhcCCcEEEEEecC
Q 032042 108 PREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 108 ~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
..+.|++++++.++|++|.|.--
T Consensus 68 a~~~i~~mv~~~~pD~viaGPaF 90 (349)
T PF07355_consen 68 ALKKILEMVKKLKPDVVIAGPAF 90 (349)
T ss_pred HHHHHHHHHHhcCCCEEEEcCCc
Confidence 35788999999999999998653
No 244
>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....
Probab=43.23 E-value=57 Score=21.50 Aligned_cols=44 Identities=18% Similarity=0.126 Sum_probs=27.9
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
++++.+.++..+..+...+..|=..+.|.+|++. ++|.|.+|+-
T Consensus 114 ~~~~v~~l~~~~~~v~ie~SGGI~~~ni~~ya~~-gvD~isvg~~ 157 (169)
T PF01729_consen 114 LKEAVEELRELNPRVKIEASGGITLENIAEYAKT-GVDVISVGSL 157 (169)
T ss_dssp HHHHHHHHHHHTTTSEEEEESSSSTTTHHHHHHT-T-SEEEECHH
T ss_pred HHHHHHHHhhcCCcEEEEEECCCCHHHHHHHHhc-CCCEEEcChh
Confidence 3334443444445566666656557888888865 6899999874
No 245
>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=43.20 E-value=1.2e+02 Score=21.62 Aligned_cols=48 Identities=13% Similarity=0.097 Sum_probs=27.3
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHH---HHHHhhcCCcEEEEEecCCCcc
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKI---CEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~ 134 (148)
.+..++...++++...-...+|...+ ++.+...++|+|++-+.|+...
T Consensus 118 ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~~~~D~ViIDT~G~~~~ 168 (272)
T TIGR00064 118 QLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQN 168 (272)
T ss_pred HHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHHCCCCEEEEeCCCCCcc
Confidence 34455555565533222223554432 3445567799999988888753
No 246
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=43.09 E-value=1e+02 Score=20.70 Aligned_cols=51 Identities=18% Similarity=0.063 Sum_probs=27.1
Q ss_pred hhhHHHHHHHhhhc-CceEEEEEeeC-ChhHHHH-------------HHHhhcCCcEEEEEecCCC
Q 032042 82 PETLDIVNTVARQK-QIVVVMKIFWG-DPREKIC-------------EAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 82 ~~~~~~~~~~~~~~-~~~~~~~~~~g-~~~~~I~-------------~~a~~~~~dliV~g~~~~~ 132 (148)
+++.+.+.+.+++. |++++..-... .+.+.+. ....-.++|.||+|+....
T Consensus 15 ~~lA~~ia~g~~~~~g~ev~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aD~ii~GSPty~ 80 (197)
T TIGR01755 15 ETMARAVAEGAREVDGAEVVVKRVPETVPEEVAEKSHGKTDQTAPVATPQELADYDAIIFGTPTRF 80 (197)
T ss_pred HHHHHHHHHHHHhcCCCEEEEEeccccCcHHHHHhccCCcccCCccCCHHHHHHCCEEEEEecccc
Confidence 45556666666553 77765543322 2222110 0112235999999998754
No 247
>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=43.08 E-value=62 Score=18.24 Aligned_cols=41 Identities=7% Similarity=-0.055 Sum_probs=24.9
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
..+++.+++.|++++..... ........ .++|+|+++..-.
T Consensus 18 ~~i~~~~~~~gi~~~~~~~~---~~~~~~~~--~~~D~il~~~~i~ 58 (90)
T PF02302_consen 18 NKIKKALKELGIEVEVSAGS---ILEVEEIA--DDADLILLTPQIA 58 (90)
T ss_dssp HHHHHHHHHTTECEEEEEEE---TTTHHHHH--TT-SEEEEEESSG
T ss_pred HHHHHHHHhccCceEEEEec---cccccccc--CCCcEEEEcCccc
Confidence 56777788888776654433 22222333 3499999987654
No 248
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=42.84 E-value=53 Score=22.21 Aligned_cols=42 Identities=17% Similarity=0.146 Sum_probs=32.3
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
....+++.+..|..+...+ .++..|+..|++++.+...+..+
T Consensus 108 ~~gDvli~iS~SG~s~~v~-~a~~~Ak~~G~~vI~IT~~~~s~ 149 (196)
T PRK10886 108 HAGDVLLAISTRGNSRDIV-KAVEAAVTRDMTIVALTGYDGGE 149 (196)
T ss_pred CCCCEEEEEeCCCCCHHHH-HHHHHHHHCCCEEEEEeCCCCCh
Confidence 3467899999887777654 45566999999999998877654
No 249
>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=42.75 E-value=61 Score=24.56 Aligned_cols=36 Identities=14% Similarity=0.275 Sum_probs=28.8
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
-++|++++.++..+-++++.+..+. +.+.+|.++-.
T Consensus 3 ~k~IllgiTGSiaa~~~~~ll~~L~-~~g~~V~vv~T 38 (390)
T TIGR00521 3 NKKILLGVTGGIAAYKTVELVRELV-RQGAEVKVIMT 38 (390)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHHH-hCCCEEEEEEC
Confidence 4799999999999999988888874 45777776554
No 250
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=42.67 E-value=1.5e+02 Score=22.67 Aligned_cols=25 Identities=16% Similarity=0.169 Sum_probs=17.0
Q ss_pred CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 106 GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 106 g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+.-...+.+.++..++|+++=++++
T Consensus 363 ~~d~~e~~~~i~~~~pDliiG~s~~ 387 (435)
T cd01974 363 GKDLWHLRSLLFTEPVDLLIGNTYG 387 (435)
T ss_pred CCCHHHHHHHHhhcCCCEEEECccH
Confidence 3346677777788889987665544
No 251
>COG5012 Predicted cobalamin binding protein [General function prediction only]
Probab=42.53 E-value=70 Score=22.27 Aligned_cols=40 Identities=15% Similarity=0.184 Sum_probs=28.0
Q ss_pred HHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEe
Q 032042 88 VNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~ 128 (148)
+...+...|+++. .+-...|.+..++.|+++++|+|-+.+
T Consensus 124 V~~ml~~aGfevi-dLG~dvP~e~fve~a~e~k~d~v~~Sa 163 (227)
T COG5012 124 VATMLEAAGFEVI-DLGRDVPVEEFVEKAKELKPDLVSMSA 163 (227)
T ss_pred HHHHHHhCCcEEE-ecCCCCCHHHHHHHHHHcCCcEEechH
Confidence 4444445566632 233458899999999999999998753
No 252
>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=41.86 E-value=41 Score=23.44 Aligned_cols=29 Identities=10% Similarity=-0.012 Sum_probs=21.3
Q ss_pred eEEEEEeeCChhHHHHHHHhhcCCcEEEE
Q 032042 98 VVVMKIFWGDPREKICEAIDKIPLSCLVI 126 (148)
Q Consensus 98 ~~~~~~~~g~~~~~I~~~a~~~~~dliV~ 126 (148)
+++.....-++...+++.|.+.++||||.
T Consensus 31 ~v~~V~~~ld~t~~vi~~A~~~~~dlIIt 59 (241)
T PF01784_consen 31 EVKKVLVALDATPEVIEEAIEKGADLIIT 59 (241)
T ss_dssp BESEEEEESS-SHHHHHHHHHTT-SEEEE
T ss_pred ccCEEEEEEeCCHHHHHHHHHcCCCEEEE
Confidence 45555555689999999999999999986
No 253
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=41.74 E-value=98 Score=21.47 Aligned_cols=49 Identities=12% Similarity=0.187 Sum_probs=35.0
Q ss_pred CChhhHHHHHHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEec
Q 032042 80 PDPETLDIVNTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
...+..+.+++.+++.|+.-++.+.. |+..+.+.+ -....+|+|.+-.-
T Consensus 92 ~~~e~~~~A~~n~~~ag~~~~i~~~~~gdal~~l~~-~~~~~fDliFIDad 141 (219)
T COG4122 92 RDEERAEIARENLAEAGVDDRIELLLGGDALDVLSR-LLDGSFDLVFIDAD 141 (219)
T ss_pred CCHHHHHHHHHHHHHcCCcceEEEEecCcHHHHHHh-ccCCCccEEEEeCC
Confidence 34566777788888888886666666 587787776 33467999999544
No 254
>PRK13936 phosphoheptose isomerase; Provisional
Probab=41.71 E-value=54 Score=22.02 Aligned_cols=41 Identities=20% Similarity=0.127 Sum_probs=31.7
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
....+++.+..|.++...++.+. .|+..|++++.+.-.+..
T Consensus 110 ~~~Dv~i~iS~sG~t~~~~~~~~-~ak~~g~~iI~IT~~~~s 150 (197)
T PRK13936 110 QPGDVLLAISTSGNSANVIQAIQ-AAHEREMHVVALTGRDGG 150 (197)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHH-HHHHCCCeEEEEECCCCC
Confidence 45788999999988887766554 488889999998876544
No 255
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=41.53 E-value=57 Score=21.55 Aligned_cols=46 Identities=15% Similarity=0.068 Sum_probs=30.8
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+++.+.+...+++.|+.++..= ..++.+ ..-.++|-+|+|+.-+.
T Consensus 14 T~kIA~~iA~~L~e~g~qvdi~d-----l~~~~~-~~l~~ydavVIgAsI~~ 59 (175)
T COG4635 14 TRKIAEYIASHLRESGIQVDIQD-----LHAVEE-PALEDYDAVVIGASIRY 59 (175)
T ss_pred HHHHHHHHHHHhhhcCCeeeeee-----hhhhhc-cChhhCceEEEecchhh
Confidence 46777778888888888877632 223322 33456899999987654
No 256
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=41.33 E-value=72 Score=22.81 Aligned_cols=49 Identities=6% Similarity=-0.010 Sum_probs=25.4
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
+.+..++...++++.......+..+.+....+..++|+|++-+.|++..
T Consensus 120 ~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~ 168 (270)
T PRK06731 120 QQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYR 168 (270)
T ss_pred HHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCcC
Confidence 3444445445555433211112233343333445689999988888753
No 257
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=41.25 E-value=91 Score=23.29 Aligned_cols=42 Identities=12% Similarity=0.133 Sum_probs=25.2
Q ss_pred HHHHHHHhhhcCceEEEEEeeCCh----hHHHHHHHhhcCCcEEEE
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDP----REKICEAIDKIPLSCLVI 126 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~----~~~I~~~a~~~~~dliV~ 126 (148)
.+.+...+++.|+++......++| .+.+.+.+++.++|+||=
T Consensus 36 ~~~v~~~L~~~g~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIa 81 (374)
T cd08183 36 AAWLIEALRAAGIEVTHVVVAGEPSVELVDAAVAEARNAGCDVVIA 81 (374)
T ss_pred HHHHHHHHHHcCCeEEEecCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 444555566677765543233444 345666778888998654
No 258
>TIGR01391 dnaG DNA primase, catalytic core. This protein contains a CHC2 zinc finger (Pfam:PF01807) and a Toprim domain (Pfam:PF01751).
Probab=41.15 E-value=74 Score=24.27 Aligned_cols=34 Identities=15% Similarity=0.150 Sum_probs=28.0
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILV 38 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll 38 (148)
++|+++.|+++....+...++..+...+..+.++
T Consensus 301 ~~vvl~~D~D~aG~~aa~r~~~~l~~~g~~v~v~ 334 (415)
T TIGR01391 301 DEIILCFDGDKAGRKAALRAIELLLPLGINVKVI 334 (415)
T ss_pred CeEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEE
Confidence 5899999999999999988888887777665544
No 259
>PRK08417 dihydroorotase; Provisional
Probab=41.11 E-value=74 Score=23.85 Aligned_cols=28 Identities=7% Similarity=0.020 Sum_probs=23.9
Q ss_pred hHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 16 CSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 16 ~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
....++..++.+|+..+++++++|+...
T Consensus 179 aE~~~v~~~~~la~~~~~~lhi~hvS~~ 206 (386)
T PRK08417 179 AETKEVAKMKELAKFYKNKVLFDTLALP 206 (386)
T ss_pred HHHHHHHHHHHHHHHhCCCEEEEeCCCH
Confidence 3456899999999999999999999764
No 260
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=41.01 E-value=58 Score=25.09 Aligned_cols=57 Identities=18% Similarity=0.008 Sum_probs=37.7
Q ss_pred HHhhcCCCChhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 73 MKKYGAKPDPETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+.+..+.....++.+.+-+.+.|..+-+.-...+..+-|-+.+.+++.+.||++-.
T Consensus 55 ik~~~lenLd~~l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKS 111 (459)
T COG1139 55 IKLHVLENLDEYLEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKS 111 (459)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecc
Confidence 344444455556666666666667776554433466677778889999999999744
No 261
>PRK13059 putative lipid kinase; Reviewed
Probab=40.95 E-value=71 Score=22.93 Aligned_cols=51 Identities=18% Similarity=0.109 Sum_probs=25.9
Q ss_pred HHHHHHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEecCCCcccee
Q 032042 85 LDIVNTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNRGLGKLKRL 137 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~ 137 (148)
.+.+.+.+.+.|.++...... +...+. ...+...++|.||+ ..|.+.+..+
T Consensus 21 ~~~i~~~l~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~d~vi~-~GGDGTv~ev 72 (295)
T PRK13059 21 LDKVIRIHQEKGYLVVPYRISLEYDLKN-AFKDIDESYKYILI-AGGDGTVDNV 72 (295)
T ss_pred HHHHHHHHHHCCcEEEEEEccCcchHHH-HHHHhhcCCCEEEE-ECCccHHHHH
Confidence 445666677777775543332 222222 33333456786665 3555554443
No 262
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=40.87 E-value=77 Score=20.47 Aligned_cols=47 Identities=15% Similarity=0.143 Sum_probs=26.0
Q ss_pred hhhHHHHHHHhhhcCceEEEEEee--CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFW--GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+...+.+.+.+.+.|+++++.-.. |...+.|-+... ++|-||+-.-+
T Consensus 29 ~~i~~~~~~~a~~~g~~v~~~QSN~EGelId~I~~a~~--~~dgiiINpga 77 (146)
T PRK05395 29 ADIEALLEEEAAELGVELEFFQSNHEGELIDRIHEARD--GADGIIINPGA 77 (146)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccc--CCcEEEECchH
Confidence 344555666666667766655432 333444433322 58999995443
No 263
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=40.81 E-value=1.3e+02 Score=21.44 Aligned_cols=21 Identities=29% Similarity=0.259 Sum_probs=17.9
Q ss_pred HHHHHHHhhcCCcEEEEEecC
Q 032042 110 EKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 110 ~~I~~~a~~~~~dliV~g~~~ 130 (148)
++|++.+...++|+|.+|-..
T Consensus 151 ~~i~~~I~~s~pdil~VgmG~ 171 (253)
T COG1922 151 EAIVERIAASGPDILLVGMGV 171 (253)
T ss_pred HHHHHHHHhcCCCEEEEeCCC
Confidence 589999999999999997544
No 264
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=40.80 E-value=88 Score=23.80 Aligned_cols=54 Identities=9% Similarity=0.094 Sum_probs=41.0
Q ss_pred CChhhHHHHHHHhhhcCce-EEEEEeeCChhHHHHHHHhhc-CCcEEEEEecCCCc
Q 032042 80 PDPETLDIVNTVARQKQIV-VVMKIFWGDPREKICEAIDKI-PLSCLVIGNRGLGK 133 (148)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~-~~~~~~~g~~~~~I~~~a~~~-~~dliV~g~~~~~~ 133 (148)
..+..++..++-+.-.|++ -....+.+|+.+-+-+..++. .+|+||+-.+..+.
T Consensus 248 ~S~~al~~a~~N~~LNg~~~~~~~~i~~Dvf~~l~~~~~~g~~fDlIilDPPsF~r 303 (393)
T COG1092 248 LSKRALEWARENAELNGLDGDRHRFIVGDVFKWLRKAERRGEKFDLIILDPPSFAR 303 (393)
T ss_pred ccHHHHHHHHHHHHhcCCCccceeeehhhHHHHHHHHHhcCCcccEEEECCccccc
Confidence 4567788888888777886 445677789999998877643 79999997776543
No 265
>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=40.60 E-value=61 Score=21.59 Aligned_cols=35 Identities=17% Similarity=0.016 Sum_probs=27.5
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
||++++.++..+-++.+.+-.+.+ .+.+|.++-..
T Consensus 1 ~illgvtGsiaa~ka~~lir~L~~-~g~~V~vv~T~ 35 (181)
T TIGR00421 1 RIVVAMTGASGVIYGIRLLEVLKE-AGVEVHLVISD 35 (181)
T ss_pred CEEEEEECHHHHHHHHHHHHHHHH-CCCEEEEEECc
Confidence 589999999999999998888754 47777665543
No 266
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=40.50 E-value=94 Score=19.61 Aligned_cols=41 Identities=15% Similarity=0.111 Sum_probs=30.1
Q ss_pred CCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 2 DGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 2 ~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
|...+||+++-+++...-.+.....+++..|-+++-+-..-
T Consensus 1 ~~~~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~v 41 (137)
T PRK02261 1 MKKKTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMT 41 (137)
T ss_pred CCCCEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCC
Confidence 34677888888887777777777777888888777665533
No 267
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=40.42 E-value=78 Score=23.92 Aligned_cols=42 Identities=10% Similarity=0.029 Sum_probs=26.6
Q ss_pred HHHHHHHhhhcCceEEEE-EeeCCh----hHHHHHHHhhcCCcEEEE
Q 032042 85 LDIVNTVARQKQIVVVMK-IFWGDP----REKICEAIDKIPLSCLVI 126 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~-~~~g~~----~~~I~~~a~~~~~dliV~ 126 (148)
.+.+.+.+++.|+.+... -..++| .+...+.+++.++|.||=
T Consensus 66 ~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~Iia 112 (395)
T PRK15454 66 TAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIA 112 (395)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEE
Confidence 455666676777775443 123344 456667788899998764
No 268
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=40.21 E-value=68 Score=20.95 Aligned_cols=42 Identities=19% Similarity=0.328 Sum_probs=32.6
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
..+.+++.+..+..+...++.+ +.|+..|++++.+.-.+..+
T Consensus 74 ~~~D~vI~iS~sG~t~~~i~~~-~~ak~~g~~iI~IT~~~~s~ 115 (179)
T cd05005 74 GPGDLLIAISGSGETSSVVNAA-EKAKKAGAKVVLITSNPDSP 115 (179)
T ss_pred CCCCEEEEEcCCCCcHHHHHHH-HHHHHCCCeEEEEECCCCCc
Confidence 3467899999998888887655 55888899999888766554
No 269
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=40.02 E-value=1.6e+02 Score=22.14 Aligned_cols=34 Identities=21% Similarity=0.130 Sum_probs=24.9
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
-++|+|++.+.-+|.-++..+. ..+.++..+|..
T Consensus 5 ~~kVlVa~SGGvDSsv~a~lL~----~~G~eV~av~~~ 38 (362)
T PRK14664 5 KKRVLVGMSGGIDSTATCLMLQ----EQGYEIVGVTMR 38 (362)
T ss_pred CCEEEEEEeCCHHHHHHHHHHH----HcCCcEEEEEec
Confidence 3689999999887777665443 346778888884
No 270
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=39.93 E-value=83 Score=23.59 Aligned_cols=44 Identities=16% Similarity=0.144 Sum_probs=26.2
Q ss_pred hHHHHHHHhhhcCceEEEEE-eeCCh----hHHHHHHHhhcCCcEEE-EE
Q 032042 84 TLDIVNTVARQKQIVVVMKI-FWGDP----REKICEAIDKIPLSCLV-IG 127 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~-~~g~~----~~~I~~~a~~~~~dliV-~g 127 (148)
..+.+.+.+++.|+++...- ...+| .+.+++.+++.++|+|| +|
T Consensus 46 ~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 46 VVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred chHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34556666666677654321 12233 35566778888999877 54
No 271
>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=39.74 E-value=1.6e+02 Score=21.99 Aligned_cols=34 Identities=15% Similarity=0.057 Sum_probs=26.3
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
++|+|++.+.-+|.-++..+.. .+.+|..+|+..
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~G~~V~~v~~~~ 34 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----QGYEVVGVFMKN 34 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----cCCeEEEEEEEc
Confidence 4799999998888877776666 356888888853
No 272
>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=39.72 E-value=1.4e+02 Score=21.48 Aligned_cols=49 Identities=16% Similarity=0.068 Sum_probs=30.8
Q ss_pred hhhHHHHHHHhhhcCceEEEEEee---CCh---------hHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFW---GDP---------REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~---g~~---------~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.++.+++.|.+.|+++...... ++. .+.|-+++++++-|.-+-|+..
T Consensus 149 ~~Rr~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~ 209 (275)
T PF12683_consen 149 ARRRDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTND 209 (275)
T ss_dssp HHHHHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSH
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCc
Confidence 456777888899999997776542 121 2667778889999988887653
No 273
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=39.61 E-value=1.8e+02 Score=22.69 Aligned_cols=50 Identities=8% Similarity=0.083 Sum_probs=29.4
Q ss_pred ChhhHHHHHHHhhhc--CceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 81 DPETLDIVNTVARQK--QIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~--~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+++.+.+.+.+++. |++++..-......+.|+..+. ++|.|++|+...+
T Consensus 265 Te~mA~~ia~gl~~~g~gv~v~~~~v~~~~~~~i~~~~~--~ad~vilGspT~~ 316 (479)
T PRK05452 265 TRMMADAIAQGIAEVDPRVAVKIFNVARSDKNEILTNVF--RSKGVLVGSSTMN 316 (479)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEEECCCCCHHHHHhHHh--hCCEEEEECCccC
Confidence 455566666666655 4555543333333445544433 4899999988754
No 274
>KOG2697 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=39.60 E-value=1.1e+02 Score=22.48 Aligned_cols=40 Identities=20% Similarity=0.043 Sum_probs=25.9
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhccc-CCCEEEEEEEecC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVR-NGDHLILVTVVPE 43 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~-~~~~v~ll~v~~~ 43 (148)
...+||--|-..+-.....-.++-|.. .+.+|+++.|...
T Consensus 244 PSEVLVIADE~a~p~~vA~DLLSQAEHG~DSQviLv~V~lS 284 (446)
T KOG2697|consen 244 PSEVLVIADEHASPVYVAADLLSQAEHGPDSQVILVVVGLS 284 (446)
T ss_pred CceEEEEecCCCChHHHHHHHHhHhhcCCCceEEEEEecCC
Confidence 456777777655555555555555555 6788999888653
No 275
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=39.55 E-value=1.7e+02 Score=22.26 Aligned_cols=42 Identities=12% Similarity=0.080 Sum_probs=23.1
Q ss_pred HHHHhhhcCceEEEEEeeCChhHHHHHH-HhhcCCcEEEEEecCCCc
Q 032042 88 VNTVARQKQIVVVMKIFWGDPREKICEA-IDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~~I~~~-a~~~~~dliV~g~~~~~~ 133 (148)
+..++...|+++...- ..+.+.+. .+..++|+|++-+.|+++
T Consensus 225 L~~~a~~lgvpv~~~~----~~~~l~~~L~~~~~~DlVLIDTaGr~~ 267 (388)
T PRK12723 225 IQTYGDIMGIPVKAIE----SFKDLKEEITQSKDFDLVLVDTIGKSP 267 (388)
T ss_pred HHHHhhcCCcceEeeC----cHHHHHHHHHHhCCCCEEEEcCCCCCc
Confidence 5555555677653321 12223221 233568899988888775
No 276
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=39.38 E-value=33 Score=20.19 Aligned_cols=47 Identities=13% Similarity=-0.060 Sum_probs=28.4
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
.....+++.+++.|+++......-+...+ ...++|++|.+++-...+
T Consensus 17 ~ik~kve~~l~~~gi~~~~~~~~v~~~~~-----~~~~aDiiv~s~~l~~~~ 63 (93)
T COG3414 17 MIKMKVEEVLKELGIDVDVEQCAVDEIKA-----LTDGADIIVTSTKLADEF 63 (93)
T ss_pred HHHHHHHHHHHHcCCCceeeeEEeccccc-----CCCcccEEEEehHhhhhc
Confidence 34456888888999976665543222222 223479999887754443
No 277
>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=39.31 E-value=1.1e+02 Score=19.87 Aligned_cols=24 Identities=17% Similarity=0.241 Sum_probs=19.6
Q ss_pred hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 109 REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+.|.+.+++.++|+|++|....+
T Consensus 72 a~al~~~i~~~~p~~Vl~~~t~~g 95 (168)
T cd01715 72 APALVALAKKEKPSHILAGATSFG 95 (168)
T ss_pred HHHHHHHHHhcCCCEEEECCCccc
Confidence 577888888889999999877654
No 278
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=39.10 E-value=93 Score=22.07 Aligned_cols=35 Identities=23% Similarity=0.140 Sum_probs=29.4
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCC-CEEEEE
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNG-DHLILV 38 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~-~~v~ll 38 (148)
...+++.+|+|..|....+....++...+ .++.++
T Consensus 156 vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V 191 (255)
T COG3640 156 VDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVV 191 (255)
T ss_pred CCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEE
Confidence 45689999999999999999999999988 555544
No 279
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=39.08 E-value=71 Score=17.79 Aligned_cols=42 Identities=17% Similarity=0.142 Sum_probs=27.4
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCc-EEEEEec
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLS-CLVIGNR 129 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~d-liV~g~~ 129 (148)
.+.+.++..|+.++..... .....-.++|+..++. +|++|..
T Consensus 19 ~~~~~Lr~~g~~v~~d~~~-~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 19 EVAKKLSDAGIRVEVDLRN-EKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred HHHHHHHHCCCEEEEECCC-CCHHHHHHHHHHcCCCEEEEECcc
Confidence 3455566678888876654 4455556778888888 4555644
No 280
>TIGR00829 FRU PTS system, fructose-specific, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several PTS components of unknown specificities. The fructose components of this family phosphorylate fructose on the 1-position. The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This family is specific for the IIB domain of the fructose PTS transporters.
Probab=39.00 E-value=66 Score=18.47 Aligned_cols=43 Identities=9% Similarity=0.137 Sum_probs=23.0
Q ss_pred HHHHHHhhhcCceEEEEEeeCCh-hHHHH-HHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDP-REKIC-EAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~-~~~I~-~~a~~~~~dliV~g~~~ 130 (148)
+.+.+.+++.|+++.+......- ...+- +.+.. +|++|+....
T Consensus 18 e~L~~aA~~~G~~i~VE~qg~~g~~~~lt~~~i~~--Ad~viia~d~ 62 (85)
T TIGR00829 18 EALEKAAKKRGWEVKVETQGSVGAQNALTAEDIAA--ADGVILAADR 62 (85)
T ss_pred HHHHHHHHHCCCeEEEEecCCcCccCCCCHHHHHh--CCEEEEeccC
Confidence 44555566778877766643211 11111 12223 8999986554
No 281
>PRK07178 pyruvate carboxylase subunit A; Validated
Probab=38.95 E-value=1.7e+02 Score=22.64 Aligned_cols=36 Identities=8% Similarity=0.143 Sum_probs=25.3
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
++||||+ ..++.+.+.++.+.+ .|.++.+++..+..
T Consensus 2 ~~kvLi~-~~geia~~ii~a~~~----~Gi~~v~v~~~~d~ 37 (472)
T PRK07178 2 IKKILIA-NRGEIAVRIVRACAE----MGIRSVAIYSEADR 37 (472)
T ss_pred CcEEEEE-CCcHHHHHHHHHHHH----cCCeEEEEeCCCcc
Confidence 5899997 556666666666665 47778777776543
No 282
>KOG4518 consensus Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]
Probab=38.88 E-value=53 Score=22.55 Aligned_cols=50 Identities=22% Similarity=0.143 Sum_probs=34.7
Q ss_pred hhcCce-EEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccceeeccccc
Q 032042 93 RQKQIV-VVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKRLDFINIE 143 (148)
Q Consensus 93 ~~~~~~-~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~a 143 (148)
...|+. +++-+-.+.+++.+.+.+.+...--.++-+. .+.+.+.++|++|
T Consensus 26 ~~~gf~~vev~~p~~e~a~~~~~~~~~~~~~~~~~~a~-~~~~d~~~~G~~s 76 (264)
T KOG4518|consen 26 ASAGFKLVEVSIPYTEPAEKLREAADEYHLKHTLINAP-PGNWDDGFRGLAS 76 (264)
T ss_pred HhCCceEEEecCCCCChHHHHHHhhhcchhhhhhccCC-CCChhhhccCccc
Confidence 345766 5555556899999988888876665555444 3347888889765
No 283
>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=38.88 E-value=42 Score=21.02 Aligned_cols=23 Identities=17% Similarity=0.198 Sum_probs=19.6
Q ss_pred ChhHHHHHHHhhcCCcEEEEEec
Q 032042 107 DPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
...+.|.+.+++++++.||+|-+
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP 57 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLP 57 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEecc
Confidence 34788999999999999999944
No 284
>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein. Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.
Probab=38.65 E-value=1.1e+02 Score=19.68 Aligned_cols=44 Identities=18% Similarity=0.221 Sum_probs=26.2
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
+.+..+.+.+++.|+++.... .+...+...+.+.. .|.+++|..
T Consensus 75 ~~l~~ll~~lk~~Gl~i~l~T-g~~~~~~~~~il~~--iD~l~~g~y 118 (147)
T TIGR02826 75 EALLSLLKIFKEKGLKTCLYT-GLEPKDIPLELVQH--LDYLKTGRW 118 (147)
T ss_pred HHHHHHHHHHHHCCCCEEEEC-CCCCHHHHHHHHHh--CCEEEEChH
Confidence 445556666777787654433 23333333344554 999999984
No 285
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=38.61 E-value=1.4e+02 Score=22.12 Aligned_cols=43 Identities=19% Similarity=0.219 Sum_probs=29.3
Q ss_pred hHHHHHHHhhhcCceEEEEE-eeCCh----hHHHHHHHhhcCCcEEEE
Q 032042 84 TLDIVNTVARQKQIVVVMKI-FWGDP----REKICEAIDKIPLSCLVI 126 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~-~~g~~----~~~I~~~a~~~~~dliV~ 126 (148)
..+.+...+++.++++...- ..++| .+.+.+.+++.++|.||-
T Consensus 37 ~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIa 84 (366)
T PF00465_consen 37 LVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIA 84 (366)
T ss_dssp HHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEE
T ss_pred cHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEE
Confidence 56667777777788865543 33444 477778889999997664
No 286
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=38.57 E-value=1.4e+02 Score=21.18 Aligned_cols=17 Identities=18% Similarity=-0.058 Sum_probs=7.7
Q ss_pred HHHHHHhhcCCcEEEEE
Q 032042 111 KICEAIDKIPLSCLVIG 127 (148)
Q Consensus 111 ~I~~~a~~~~~dliV~g 127 (148)
.++..++..++|.|++.
T Consensus 183 ~~v~~l~~~~pd~v~~~ 199 (312)
T cd06346 183 SEVAAAAAGGPDALVVI 199 (312)
T ss_pred HHHHHHHhcCCCEEEEe
Confidence 33344444455555444
No 287
>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=38.36 E-value=76 Score=23.65 Aligned_cols=26 Identities=12% Similarity=0.060 Sum_probs=18.8
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCCh
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDP 108 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~ 108 (148)
+.++.+.+.++..|+.+..+-..|..
T Consensus 305 e~i~~f~~~L~~~gi~v~vR~~~G~d 330 (348)
T PRK14467 305 ERVYKFQKILWDNGISTFVRWSKGVD 330 (348)
T ss_pred HHHHHHHHHHHHCCCcEEEeCCCCcc
Confidence 45666778888889998887666643
No 288
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=38.25 E-value=1.1e+02 Score=19.68 Aligned_cols=47 Identities=17% Similarity=0.133 Sum_probs=26.3
Q ss_pred hhhHHHHHHHhhhcCceEEEEEee--CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFW--GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+...+.+.+.+.+.|+++++.-.. |...+.|-+... ++|-||+-.-+
T Consensus 27 ~~i~~~l~~~a~~~g~~v~~~QSN~Egelid~I~~a~~--~~dgiIINpga 75 (140)
T cd00466 27 ADIEALLRELAAELGVEVEFFQSNHEGELIDWIHEARD--GADGIIINPGA 75 (140)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhc--cCcEEEEcchH
Confidence 345555666666667766665432 343444444322 58999995443
No 289
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=38.24 E-value=1.3e+02 Score=20.95 Aligned_cols=44 Identities=14% Similarity=0.114 Sum_probs=27.5
Q ss_pred HHHhhhcCceEEEEEee--CCh---hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 89 NTVARQKQIVVVMKIFW--GDP---REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~~--g~~---~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+++...++++.+.-.. =+| ..+..+..++.++|+||+++.+..
T Consensus 24 DErAdRedi~vrVvgsgaKM~Pe~veaav~~~~e~~~pDfvi~isPNpa 72 (277)
T COG1927 24 DERADREDIEVRVVGSGAKMDPECVEAAVTEMLEEFNPDFVIYISPNPA 72 (277)
T ss_pred HhhcccCCceEEEeccccccChHHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 34444456665543321 134 355667889999999999877643
No 290
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=38.21 E-value=88 Score=23.19 Aligned_cols=47 Identities=15% Similarity=0.154 Sum_probs=30.5
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
...+...+++.|.++.+-.+.. +.+.+.++.++.+.+++|.++.+..
T Consensus 16 Fk~~I~eL~~~GheV~it~R~~---~~~~~LL~~yg~~y~~iG~~g~~~~ 62 (335)
T PF04007_consen 16 FKNIIRELEKRGHEVLITARDK---DETEELLDLYGIDYIVIGKHGDSLY 62 (335)
T ss_pred HHHHHHHHHhCCCEEEEEEecc---chHHHHHHHcCCCeEEEcCCCCCHH
Confidence 3444445566677766655543 4555566678899999998885543
No 291
>PF02568 ThiI: Thiamine biosynthesis protein (ThiI); InterPro: IPR020536 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell. ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway []. Almost all proteins containing this entry have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0003723 RNA binding, 0009228 thiamine biosynthetic process, 0005737 cytoplasm; PDB: 1VBK_B 2C5S_A.
Probab=38.06 E-value=1.3e+02 Score=20.47 Aligned_cols=36 Identities=14% Similarity=-0.017 Sum_probs=21.9
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
.++|+.+.+.=+|.-| .++..+.|.+|..+|...++
T Consensus 4 gk~l~LlSGGiDSpVA----a~lm~krG~~V~~l~f~~~~ 39 (197)
T PF02568_consen 4 GKALALLSGGIDSPVA----AWLMMKRGCEVIALHFDSPP 39 (197)
T ss_dssp -EEEEE-SSCCHHHHH----HHHHHCBT-EEEEEEEE-TT
T ss_pred ceEEEEecCCccHHHH----HHHHHHCCCEEEEEEEECCC
Confidence 4677777776565544 34444569999999998543
No 292
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=37.80 E-value=74 Score=19.50 Aligned_cols=34 Identities=12% Similarity=0.067 Sum_probs=28.6
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEE
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLI 36 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ 36 (148)
+++-|.+|++++-+++....+...+.+..+.+++
T Consensus 56 ~i~EVIlA~~pt~EGe~Ta~yi~~~l~~~~~kvs 89 (112)
T cd01025 56 QVKEVILATNPTVEGEATALYIAKLLKDFGVKVT 89 (112)
T ss_pred CCcEEEEecCCCchHHHHHHHHHHHHhHcCCCeE
Confidence 3577999999999999999999998887776654
No 293
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=37.77 E-value=1.8e+02 Score=22.09 Aligned_cols=36 Identities=14% Similarity=0.068 Sum_probs=25.2
Q ss_pred EEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 101 MKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 101 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
..+..+.....+.+.+++.++||+|=|+.-..++-+
T Consensus 324 ~~v~~~~d~~~l~~~i~~~~pDllig~~~~~~pl~r 359 (407)
T TIGR01279 324 VRIVEQPDFHRQLQRIRATRPDLVVTGLGTANPLEA 359 (407)
T ss_pred CeEEeCCCHHHHHHHHHhcCCCEEecCccCCCcHhh
Confidence 345556556777788899999999988755444433
No 294
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=37.64 E-value=78 Score=19.10 Aligned_cols=37 Identities=16% Similarity=0.341 Sum_probs=27.5
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
+.+.+++.+..|.++...++.+.. |+..++++..+..
T Consensus 42 ~~~dl~I~iS~SG~t~e~i~~~~~-a~~~g~~iI~IT~ 78 (119)
T cd05017 42 DRKTLVIAVSYSGNTEETLSAVEQ-AKERGAKIVAITS 78 (119)
T ss_pred CCCCEEEEEECCCCCHHHHHHHHH-HHHCCCEEEEEeC
Confidence 346788999988888877776554 6777888887774
No 295
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=37.60 E-value=92 Score=18.73 Aligned_cols=39 Identities=8% Similarity=-0.009 Sum_probs=24.7
Q ss_pred HHhhhcCceEEEEEee---CC-hhHHHHHHHhhcCCcEEEEEe
Q 032042 90 TVARQKQIVVVMKIFW---GD-PREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 90 ~~~~~~~~~~~~~~~~---g~-~~~~I~~~a~~~~~dliV~g~ 128 (148)
+.+++.|++++..... +. ....|.+..++.++|+||--.
T Consensus 37 ~~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~ 79 (116)
T cd01423 37 DFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLP 79 (116)
T ss_pred HHHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECC
Confidence 3345567765554221 11 136788999999999998843
No 296
>PRK00549 competence damage-inducible protein A; Provisional
Probab=37.58 E-value=1.8e+02 Score=22.31 Aligned_cols=50 Identities=18% Similarity=0.238 Sum_probs=32.5
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEEEecCCCc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVIGNRGLGK 133 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~g~~~~~~ 133 (148)
.....+.+.+.+.|+++......+|-.+.|.+..++ .++|+||+. .|-++
T Consensus 20 tN~~~L~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~a~~~~DlVItT-GGlGp 71 (414)
T PRK00549 20 TNAQFLSEKLAELGIDVYHQTVVGDNPERLLSALEIAEERSDLIITT-GGLGP 71 (414)
T ss_pred hhHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHhccCCCEEEEC-CCCCC
Confidence 445567777888999887766666655556555432 368888873 44444
No 297
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=37.55 E-value=1.5e+02 Score=22.02 Aligned_cols=28 Identities=11% Similarity=0.158 Sum_probs=21.2
Q ss_pred HhHHHHHHHHHhhcccC----C-CEEEEEEEec
Q 032042 15 ACSKKALQWAADNVVRN----G-DHLILVTVVP 42 (148)
Q Consensus 15 ~~s~~al~~a~~la~~~----~-~~v~ll~v~~ 42 (148)
..+++.+++|.++|++. + .+|+++|-..
T Consensus 140 ~~~~Ri~r~Af~~A~~r~~~~~~k~Vt~v~KaN 172 (330)
T PRK14025 140 KASERIFRFAFEMAKRRKKMGKEGKVTCAHKAN 172 (330)
T ss_pred HHHHHHHHHHHHHHHhccccCCCCeEEEEECCC
Confidence 46788999999999876 3 4688877544
No 298
>TIGR00486 YbgI_SA1388 dinuclear metal center protein, YbgI/SA1388 family. The characterization of this family of uncharacterized proteins as orthologous is tentative. Members are found in all three domains of life. Several members (from Bacillus subtilis, Listeria monocytogenes, and Mycobacterium tuberculosis - all classified as Firmicutes within the Eubacteria) share a long insert relative to other members.
Probab=37.42 E-value=52 Score=23.09 Aligned_cols=28 Identities=11% Similarity=0.157 Sum_probs=21.5
Q ss_pred EEEEEeeCChhHHHHHHHhhcCCcEEEE
Q 032042 99 VVMKIFWGDPREKICEAIDKIPLSCLVI 126 (148)
Q Consensus 99 ~~~~~~~g~~~~~I~~~a~~~~~dliV~ 126 (148)
++.....-++...+++.|.+.++|+||.
T Consensus 36 v~~I~~alD~t~~vi~~Ai~~~~dlIit 63 (249)
T TIGR00486 36 VKKVVVAVDASESVADEAVRLGADLIIT 63 (249)
T ss_pred cCEEEEEecCCHHHHHHHHHCCCCEEEE
Confidence 4444444588888889999889999987
No 299
>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=37.37 E-value=1.6e+02 Score=21.29 Aligned_cols=48 Identities=15% Similarity=0.104 Sum_probs=30.1
Q ss_pred hHHHHHHHhhhcC--ceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 84 TLDIVNTVARQKQ--IVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 84 ~~~~~~~~~~~~~--~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.++++.+.++..+ -++...+..|=..+.|.+||+. ++|.|++|+--++
T Consensus 215 ~l~~~v~~l~~~~~~~~~~leaSGGI~~~ni~~yA~t-GvD~Is~galt~s 264 (278)
T PRK08385 215 EIREVIEALKREGLRERVKIEVSGGITPENIEEYAKL-DVDVISLGALTHS 264 (278)
T ss_pred HHHHHHHHHHhcCcCCCEEEEEECCCCHHHHHHHHHc-CCCEEEeChhhcC
Confidence 3444444444433 2344444434446888888885 8999999988764
No 300
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=37.21 E-value=1.4e+02 Score=20.56 Aligned_cols=45 Identities=4% Similarity=0.045 Sum_probs=25.6
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEE
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g 127 (148)
...+.+.+.+++.|+.+.+.....+....+.+.....++|-||+-
T Consensus 27 ~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~ 71 (275)
T cd06295 27 SLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILI 71 (275)
T ss_pred HHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEe
Confidence 445556666666677665544333334455566666677866553
No 301
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=37.13 E-value=19 Score=24.98 Aligned_cols=27 Identities=19% Similarity=0.363 Sum_probs=22.0
Q ss_pred HHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 110 EKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 110 ~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
..+.+..++.++|.||+|.-|.+.+.+
T Consensus 164 ~~~~~a~~edgAeaIiLGCAGms~la~ 190 (230)
T COG4126 164 IEAAEALKEDGAEAIILGCAGMSDLAD 190 (230)
T ss_pred HHHHHHhhhcCCCEEEEcCccHHHHHH
Confidence 556667899999999999999886544
No 302
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=37.03 E-value=31 Score=22.08 Aligned_cols=30 Identities=20% Similarity=0.390 Sum_probs=22.2
Q ss_pred EEeeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 102 KIFWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 102 ~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
.+..|.|.+.=.+..+++++|.|++|.--.
T Consensus 68 ~vi~~~p~~~~~~~i~~~k~Div~lG~D~~ 97 (140)
T COG0615 68 EVILGAPWDIKFEDIEEYKPDIVVLGDDQK 97 (140)
T ss_pred eeeeCCccccChHHHHHhCCCEEEECCCCc
Confidence 455577776656888889999999986543
No 303
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=36.83 E-value=1.7e+02 Score=21.59 Aligned_cols=50 Identities=12% Similarity=0.148 Sum_probs=32.2
Q ss_pred hhHHHHHHHhhhcCceEEE-EEe-e-CChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 83 ETLDIVNTVARQKQIVVVM-KIF-W-GDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~-~~~-~-g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
...+.++..++..|.++.. ... . +.....++..++..++|.|+++..+..
T Consensus 163 ~~~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~ 215 (366)
T COG0683 163 GLADAFKAALKALGGEVVVEEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPD 215 (366)
T ss_pred hHHHHHHHHHHhCCCeEEEEEeeCCCCCChHHHHHHHHhcCCCEEEECCCCcc
Confidence 5556677777778876222 111 1 223778888888888998888766644
No 304
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=36.82 E-value=1.6e+02 Score=21.08 Aligned_cols=94 Identities=15% Similarity=0.150 Sum_probs=58.1
Q ss_pred EEEEEecCC--HhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChh
Q 032042 6 RVGVAVDFS--ACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPE 83 (148)
Q Consensus 6 ~ILv~~d~s--~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (148)
++++-..+. ++...++++|..+.. .+.++...+.+++...+. .|.+ ..++
T Consensus 27 ~~~~iaGPCsie~~~~~~~~A~~lk~-~g~~~~r~~~~kpRTs~~----s~~G-----------------------~g~~ 78 (266)
T PRK13398 27 EKIIIAGPCAVESEEQMVKVAEKLKE-LGVHMLRGGAFKPRTSPY----SFQG-----------------------LGEE 78 (266)
T ss_pred CEEEEEeCCcCCCHHHHHHHHHHHHH-cCCCEEEEeeecCCCCCC----ccCC-----------------------cHHH
Confidence 344444442 355677888887665 677888888877433211 1100 1246
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.++.+.+.+++.|+.+-+.+......+.+.+ . +|++-+|++.-.
T Consensus 79 gl~~l~~~~~~~Gl~~~te~~d~~~~~~l~~----~-vd~~kIga~~~~ 122 (266)
T PRK13398 79 GLKILKEVGDKYNLPVVTEVMDTRDVEEVAD----Y-ADMLQIGSRNMQ 122 (266)
T ss_pred HHHHHHHHHHHcCCCEEEeeCChhhHHHHHH----h-CCEEEECccccc
Confidence 6777888888899998887765444444433 3 788888887643
No 305
>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=36.71 E-value=82 Score=20.94 Aligned_cols=35 Identities=17% Similarity=0.122 Sum_probs=25.9
Q ss_pred EEEEEecCCH-hHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 6 RVGVAVDFSA-CSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 6 ~ILv~~d~s~-~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
||++++.+|. .....++....+.++.|.+|.++-.
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~~~g~eV~vv~S 36 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKNRYGDEIDVFLS 36 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHHhcCCEEEEEEC
Confidence 5889999984 4455888888887777887776544
No 306
>PF00551 Formyl_trans_N: Formyl transferase; InterPro: IPR002376 A number of formyl transferases belong to this group. Methionyl-tRNA formyltransferase transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA. The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and by impairing its binding to EFTU-GTP. Formyltetrahydrofolate dehydrogenase produces formate from formyl- tetrahydrofolate. This is the N-terminal domain of these enzymes and is found upstream of the C-terminal domain (IPR005793 from INTERPRO). The trifunctional glycinamide ribonucleotide synthetase-aminoimidazole ribonucleotide synthetase-glycinamide ribonucleotide transformylase catalyses the second, third and fifth steps in de novo purine biosynthesis. The glycinamide ribonucleotide transformylase belongs to this group.; GO: 0016742 hydroxymethyl-, formyl- and related transferase activity, 0009058 biosynthetic process; PDB: 3P9X_B 3OBI_A 3R8X_A 3KCQ_C 3RFO_D 3AV3_A 3N0V_D 3LOU_A 3O1L_A 4DS3_A ....
Probab=36.57 E-value=1.3e+02 Score=19.89 Aligned_cols=21 Identities=14% Similarity=0.332 Sum_probs=11.6
Q ss_pred hHHHHHHHhhcCCcEEEEEec
Q 032042 109 REKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+++.+..++.++|++|+...
T Consensus 68 ~~~~~~~l~~~~~Dl~v~~~~ 88 (181)
T PF00551_consen 68 DEELLELLESLNPDLIVVAGY 88 (181)
T ss_dssp HHHHHHHHHHTT-SEEEESS-
T ss_pred hhHHHHHHHhhccceeehhhh
Confidence 345666666667777666443
No 307
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=36.53 E-value=47 Score=21.27 Aligned_cols=23 Identities=9% Similarity=0.150 Sum_probs=20.4
Q ss_pred hhHHHHHHHhhcCCcEEEEEecC
Q 032042 108 PREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 108 ~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
....|.+.+++++++.||+|-+-
T Consensus 41 ~~~~l~~li~~~~~~~vVVGlP~ 63 (141)
T COG0816 41 DFNALLKLVKEYQVDTVVVGLPL 63 (141)
T ss_pred hHHHHHHHHHHhCCCEEEEecCc
Confidence 57889999999999999999775
No 308
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=36.43 E-value=1.9e+02 Score=22.03 Aligned_cols=48 Identities=15% Similarity=0.118 Sum_probs=37.7
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
+...+.+.+-+.+.|+.++..-........|++.+.. ++-+|+|++..
T Consensus 261 ~~ma~aiaegl~~~gv~v~~~~~~~~~~~eI~~~i~~--a~~~vvGsPT~ 308 (388)
T COG0426 261 EKMAQAIAEGLMKEGVDVEVINLEDADPSEIVEEILD--AKGLVVGSPTI 308 (388)
T ss_pred HHHHHHHHHHhhhcCCceEEEEcccCCHHHHHHHHhh--cceEEEecCcc
Confidence 4666777888888899988887766567777777776 89999999864
No 309
>cd02811 IDI-2_FMN Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal, FMN and NADPH. IDI-2 catalyzes the interconversion of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP) in the mevalonate pathway.
Probab=36.28 E-value=1.7e+02 Score=21.49 Aligned_cols=48 Identities=8% Similarity=0.138 Sum_probs=31.1
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++.++......++++-.+...........+.+.+.++|.|+++.+|
T Consensus 165 ~~~~~i~~l~~~~~vPVivK~~g~g~s~~~a~~l~~~Gvd~I~vsG~G 212 (326)
T cd02811 165 GWLERIEELVKALSVPVIVKEVGFGISRETAKRLADAGVKAIDVAGAG 212 (326)
T ss_pred HHHHHHHHHHHhcCCCEEEEecCCCCCHHHHHHHHHcCCCEEEECCCC
Confidence 345666666655577777765422223455567778899999997653
No 310
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=36.10 E-value=2.1e+02 Score=22.36 Aligned_cols=49 Identities=10% Similarity=0.106 Sum_probs=29.9
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
.+.+.+.+.+.+....+..+| ...+.+.+++.++||+|-|-.-..|+.+
T Consensus 359 ~l~~~~~~~~~~~~vive~~D-~~el~~~i~~~~pDLlIgG~~~~~Pl~~ 407 (457)
T CHL00073 359 LLEDTCRKMNVPMPRIVEKPD-NYNQIQRIRELQPDLAITGMAHANPLEA 407 (457)
T ss_pred HHHHHhhhcCCCCcEEEeCCC-HHHHHHHHhhCCCCEEEccccccCchhh
Confidence 345555555554333333345 5566688899999999998644444433
No 311
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=36.04 E-value=1.9e+02 Score=21.84 Aligned_cols=50 Identities=16% Similarity=0.113 Sum_probs=30.0
Q ss_pred hhHHHHHHHhhhcCceEEEEEe--eC-ChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIF--WG-DPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~--~g-~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
+....+++.+...|.++-.... -| ...+.|++.++..++|+|+-.--|.+
T Consensus 149 e~Nri~r~~l~~~GgevvgE~Y~plg~td~~~ii~~I~~~~Pd~V~stlvG~s 201 (363)
T PF13433_consen 149 ESNRIIRDLLEARGGEVVGERYLPLGATDFDPIIAEIKAAKPDFVFSTLVGDS 201 (363)
T ss_dssp HHHHHHHHHHHHTT-EEEEEEEE-S-HHHHHHHHHHHHHHT-SEEEEE--TTC
T ss_pred HHHHHHHHHHHHcCCEEEEEEEecCCchhHHHHHHHHHhhCCCEEEEeCcCCc
Confidence 4455566666667766444433 24 55788889999999998876555544
No 312
>cd02173 ECT CTP:phosphoethanolamine cytidylyltransferase (ECT). CTP:phosphoethanolamine cytidylyltransferase (ECT) catalyzes the conversion of phosphoethanolamine to CDP-ethanolamine as part of the CDP-ethanolamine biosynthesis pathway. ECT expression in hepatocytes is localized predominantly to areas of the cytoplasm that are rich in rough endoplasmic reticulum. Several ECTs, including yeast and human ECT, have large repetitive sequences located within their N- and C-termini.
Probab=35.83 E-value=47 Score=21.43 Aligned_cols=26 Identities=23% Similarity=0.331 Sum_probs=20.6
Q ss_pred eCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 105 WGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 105 ~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.+.....+++++.++|.+|.|...
T Consensus 73 v~~~~~~~~~~~~~~~~d~vv~G~d~ 98 (152)
T cd02173 73 IGAPYVITKELIEHFKIDVVVHGKTE 98 (152)
T ss_pred ECCCCcchHHHHHHhCCCEEEECCCC
Confidence 35566667788999999999999664
No 313
>cd01999 Argininosuccinate_Synthase Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterized by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity
Probab=35.78 E-value=2e+02 Score=21.91 Aligned_cols=34 Identities=24% Similarity=0.246 Sum_probs=26.0
Q ss_pred EEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 7 VGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 7 ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
|+|++.+.-+|.-++.++.+. .+.+|+.+|+...
T Consensus 1 Vvva~SGGlDSsvll~~l~e~---~~~eV~av~~d~G 34 (385)
T cd01999 1 VVLAYSGGLDTSVILKWLKEK---GGYEVIAVTADVG 34 (385)
T ss_pred CEEEecCCHHHHHHHHHHHHh---CCCeEEEEEEECC
Confidence 578888888888888888663 3458999998654
No 314
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=35.70 E-value=24 Score=25.46 Aligned_cols=54 Identities=11% Similarity=0.231 Sum_probs=29.9
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEee-C-ChhHHHHHHHhhcCCcE-EEEEecCCCccce
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFW-G-DPREKICEAIDKIPLSC-LVIGNRGLGKLKR 136 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~-g-~~~~~I~~~a~~~~~dl-iV~g~~~~~~~~~ 136 (148)
..+..+.+++.+.+...+..-.++. . +-=+++.+.+.+ +|+ ||+|++..|...+
T Consensus 173 t~~Iv~~l~~r~p~~~~~~~~~ICyAT~nRQ~Avk~la~~--~Dl~iVVG~~nSSNs~r 229 (294)
T COG0761 173 TAEIVAALKERFPKIEVPPFNDICYATQNRQDAVKELAPE--VDLVIVVGSKNSSNSNR 229 (294)
T ss_pred HHHHHHHHHHhCccccCCcccccchhhhhHHHHHHHHhhc--CCEEEEECCCCCccHHH
Confidence 3455556666665433333333333 2 334777777877 885 5567776664433
No 315
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=35.66 E-value=95 Score=24.02 Aligned_cols=28 Identities=25% Similarity=0.386 Sum_probs=17.8
Q ss_pred eC-ChhHHHHHH---HhhcC-CcEEEEEecCCC
Q 032042 105 WG-DPREKICEA---IDKIP-LSCLVIGNRGLG 132 (148)
Q Consensus 105 ~g-~~~~~I~~~---a~~~~-~dliV~g~~~~~ 132 (148)
.| +....|++. +++.+ +|+||+|+.|-|
T Consensus 173 QG~~A~~eIv~aI~~an~~~~~DvlIVaRGGGS 205 (440)
T COG1570 173 QGEGAAEEIVEAIERANQRGDVDVLIVARGGGS 205 (440)
T ss_pred cCCCcHHHHHHHHHHhhccCCCCEEEEecCcch
Confidence 35 445566554 44444 999999866654
No 316
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes. In bacteria and archaea, YjeF N-terminal domains are often fused to a YjeF C-terminal domain with high structural homology to the members of a ribokinase-like superfamily (see PDOC00806 from PROSITEDOC)and/or belong to operons that encode enzymes of diverse functions: pyridoxal phosphate biosynthetic protein PdxJ; phosphopanteine-protein transferase; ATP/GTP hydrolase; and pyruvate-formate lyase 1-activating enzyme. In plants, the YjeF N-terminal domain is fused to a C-terminal putative pyridoxamine 5'-phosphate oxidase. In eukaryotes, proteins that consist of (Sm)-FDF-YjeF N-terminal domains may be involved in RNA processing [, ]. The YjeF N-terminal domains represent a novel version of the Rossmann fold, one of the most common protein folds in nature observed in numerous enzyme families, that has acquired a set of catalytic residues and structural features that distinguish them from the conventional dehydrogenases. The YjeF N-terminal domain is comprised of a three-layer alpha-beta-alpha sandwich with a central beta-sheet surrounded by helices. The conservation of the acidic residues in the predicted active site of the YjeF N-terminal domains is reminiscent of the presence of such residues in the active sites of diverse hydrolases [, ].; PDB: 3K5W_A 2O8N_A 2DG2_F 3RNO_A 1JZT_B 3D3K_A 3D3J_A 3RSG_A 3RT9_A 3RRF_A ....
Probab=35.63 E-value=1.3e+02 Score=19.67 Aligned_cols=40 Identities=18% Similarity=0.077 Sum_probs=29.8
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
..++|+|-+....+.-.++-.|..++ ..+.+|.++.+.+.
T Consensus 24 ~~~~v~il~G~GnNGgDgl~~AR~L~-~~G~~V~v~~~~~~ 63 (169)
T PF03853_consen 24 KGPRVLILCGPGNNGGDGLVAARHLA-NRGYNVTVYLVGPP 63 (169)
T ss_dssp TT-EEEEEE-SSHHHHHHHHHHHHHH-HTTCEEEEEEEESS
T ss_pred CCCeEEEEECCCCChHHHHHHHHHHH-HCCCeEEEEEEecc
Confidence 45789999999999999999998875 45778888666553
No 317
>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=35.56 E-value=71 Score=23.09 Aligned_cols=52 Identities=8% Similarity=0.072 Sum_probs=31.6
Q ss_pred CChhhHHHHHHHhhhcCceE-EEEEeeCChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 80 PDPETLDIVNTVARQKQIVV-VMKIFWGDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~-~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
..+..++..++-+.-.|++. ......+|+.+.+.+.-+...+|+||+-.+..
T Consensus 154 ~S~~al~~a~~N~~lNg~~~~~~~~~~~Dvf~~l~~~~~~~~fD~IIlDPPsF 206 (286)
T PF10672_consen 154 SSKRALEWAKENAALNGLDLDRHRFIQGDVFKFLKRLKKGGRFDLIILDPPSF 206 (286)
T ss_dssp S-HHHHHHHHHHHHHTT-CCTCEEEEES-HHHHHHHHHHTT-EEEEEE--SSE
T ss_pred CCHHHHHHHHHHHHHcCCCccceEEEecCHHHHHHHHhcCCCCCEEEECCCCC
Confidence 34566776777666667653 33445678888887766677899999976653
No 318
>PLN02204 diacylglycerol kinase
Probab=35.48 E-value=96 Score=25.08 Aligned_cols=58 Identities=9% Similarity=0.058 Sum_probs=34.3
Q ss_pred hhhHHHHHHHhhhcCceEEEEEee--CChhHHHHHHHh--hcCCcEEEEEecCCCccceeecc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFW--GDPREKICEAID--KIPLSCLVIGNRGLGKLKRLDFI 140 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~I~~~a~--~~~~dliV~g~~~~~~~~~~~~G 140 (148)
.+..+.+...+...++++++.+.. |+..+.+.+.++ ..++|.||. ..|.+.+.+++-|
T Consensus 176 ~~~~~~V~p~f~~a~i~~~v~~T~~aghA~d~~~~~~~~~l~~~D~VVa-VGGDGt~nEVlNG 237 (601)
T PLN02204 176 SRTWETVSPIFIRAKVKTKVIVTERAGHAFDVMASISNKELKSYDGVIA-VGGDGFFNEILNG 237 (601)
T ss_pred HHHHHHHHHHHHHcCCeEEEEEecCcchHHHHHHHHhhhhccCCCEEEE-EcCccHHHHHHHH
Confidence 344556777788888887776654 444443333332 456787765 3556666655543
No 319
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=35.37 E-value=73 Score=20.42 Aligned_cols=49 Identities=8% Similarity=0.072 Sum_probs=26.7
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhc--CCcEEEEEecCC
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKI--PLSCLVIGNRGL 131 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~--~~dliV~g~~~~ 131 (148)
.....+.+++.+.+.|+++++.- .+-..+|++...+. ++|-||+-.-+.
T Consensus 27 l~~i~~~~~~~a~~~g~~v~~~Q--SN~EGelid~I~~a~~~~dgiIINpga~ 77 (140)
T PF01220_consen 27 LEDIEQKCKETAAELGVEVEFFQ--SNHEGELIDWIHEARDDVDGIIINPGAY 77 (140)
T ss_dssp HHHHHHHHHHHHHHTTEEEEEEE---SSHHHHHHHHHHHTCTTSEEEEE-GGG
T ss_pred HHHHHHHHHHHHHHCCCeEEEEe--cCCHHHHHHHHHHHHhhCCEEEEccchh
Confidence 34555566666666676665544 34444444443322 389999965443
No 320
>PRK13938 phosphoheptose isomerase; Provisional
Probab=35.37 E-value=86 Score=21.18 Aligned_cols=42 Identities=19% Similarity=0.091 Sum_probs=31.8
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
....+++.+..|.++...++.+ ..|+..|++++.+...+..+
T Consensus 112 ~~~DllI~iS~SG~t~~vi~a~-~~Ak~~G~~vI~iT~~~~s~ 153 (196)
T PRK13938 112 RPGDTLFAISTSGNSMSVLRAA-KTARELGVTVVAMTGESGGQ 153 (196)
T ss_pred CCCCEEEEEcCCCCCHHHHHHH-HHHHHCCCEEEEEeCCCCCh
Confidence 3467899999988888766554 44888899999988876544
No 321
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=35.16 E-value=1.8e+02 Score=21.33 Aligned_cols=48 Identities=17% Similarity=0.152 Sum_probs=28.5
Q ss_pred HHHHhhhcCceEEEEEeeCChhHHH---HHHHhhcCCcEEEEEecCCCccc
Q 032042 88 VNTVARQKQIVVVMKIFWGDPREKI---CEAIDKIPLSCLVIGNRGLGKLK 135 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~~ 135 (148)
+..+....++++...-...+|...+ +..+...++|+|++-+.|+.+..
T Consensus 161 l~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~~~~~D~ViIDTaGr~~~~ 211 (318)
T PRK10416 161 LQVWGERVGVPVIAQKEGADPASVAFDAIQAAKARGIDVLIIDTAGRLHNK 211 (318)
T ss_pred HHHHHHHcCceEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCCcCC
Confidence 3344545566654432233554322 34556678999999999987643
No 322
>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=35.15 E-value=82 Score=24.37 Aligned_cols=46 Identities=17% Similarity=0.103 Sum_probs=26.7
Q ss_pred EEEEEeeCChhHHHHH--HHhhcCCcEE-EEEecCCCccceeecccccc
Q 032042 99 VVMKIFWGDPREKICE--AIDKIPLSCL-VIGNRGLGKLKRLDFINIEL 144 (148)
Q Consensus 99 ~~~~~~~g~~~~~I~~--~a~~~~~dli-V~g~~~~~~~~~~~~Gs~a~ 144 (148)
+-+.+..|+..+.|.+ .|..+++|.| |+-+.|.|.+..+.-|.|.+
T Consensus 149 iy~iVAtG~iyeDi~qaraAA~~GAD~IaVIRttgQSllDyvp~GaT~e 197 (509)
T PF09043_consen 149 IYVIVATGNIYEDIRQARAAARQGADIIAVIRTTGQSLLDYVPEGATTE 197 (509)
T ss_dssp EEEEE-SS-HHHHHHHHHHHHHTT-SEEEE-BSTTGGG-SS-B-S--S-
T ss_pred EEEEEecCchHHHHHHHHHHHHcCCCEEEEecccchhhhccccCCCCCC
Confidence 4555667899888877 4788999976 45666777787787776654
No 323
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=35.12 E-value=69 Score=23.12 Aligned_cols=43 Identities=19% Similarity=0.166 Sum_probs=33.9
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGL 46 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~ 46 (148)
+.+.+++.+..|.++...++.+-. |+..|++++.+...+..+.
T Consensus 88 ~~~d~~i~iS~sG~t~~~~~~~~~-ak~~g~~vI~iT~~~~s~l 130 (321)
T PRK11543 88 ESRDVMLFISYSGGAKELDLIIPR-LEDKSIALLAMTGKPTSPL 130 (321)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHH-HHHcCCeEEEEECCCCChh
Confidence 356789999999888887776655 7888999999988776553
No 324
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=34.96 E-value=1.6e+02 Score=20.70 Aligned_cols=49 Identities=20% Similarity=0.237 Sum_probs=28.9
Q ss_pred ChhhHHHHHHHhhh-cCceEEEEEeeC--Ch--hHHHHHHHhhcCCcEEEEEecC
Q 032042 81 DPETLDIVNTVARQ-KQIVVVMKIFWG--DP--REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 81 ~~~~~~~~~~~~~~-~~~~~~~~~~~g--~~--~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.....+.+.+.++. .++.+-. ...| ++ .+.|++.++..++|+|++|-..
T Consensus 114 ~~~v~~~a~~~l~~~y~l~i~g-~~~Gyf~~~e~~~i~~~I~~s~~dil~VglG~ 167 (243)
T PRK03692 114 KPEVLAQTEAKLRTQWNVNIVG-SQDGYFTPEQRQALFERIHASGAKIVTVAMGS 167 (243)
T ss_pred CHHHHHHHHHHHHHHhCCEEEE-EeCCCCCHHHHHHHHHHHHhcCCCEEEEECCC
Confidence 44555555555533 2444321 1122 22 4668899999999999997554
No 325
>PRK07627 dihydroorotase; Provisional
Probab=34.62 E-value=1.1e+02 Score=23.46 Aligned_cols=27 Identities=15% Similarity=0.108 Sum_probs=23.7
Q ss_pred HHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 17 SKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 17 s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
...++..++.+|+..+++++++|+...
T Consensus 211 E~~av~r~~~la~~~~~~~hi~HvSs~ 237 (425)
T PRK07627 211 ETIALHTIFELMRVTGARVHLARLSSA 237 (425)
T ss_pred HHHHHHHHHHHHHHHCCcEEEEeCCCH
Confidence 456899999999999999999999764
No 326
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=34.51 E-value=1.3e+02 Score=22.81 Aligned_cols=52 Identities=13% Similarity=0.135 Sum_probs=35.3
Q ss_pred CCChhhHHHHHHHhhhcCceE-EEEEeeCChhHHHHHHHh-hcCCcEEEEEecC
Q 032042 79 KPDPETLDIVNTVARQKQIVV-VMKIFWGDPREKICEAID-KIPLSCLVIGNRG 130 (148)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~g~~~~~I~~~a~-~~~~dliV~g~~~ 130 (148)
+.....++.+++-+...|++. .+.+..+|..+.+.++.+ ...+|+||+-...
T Consensus 250 D~s~~al~~a~~N~~~Ngl~~~~v~~i~~D~~~~l~~~~~~~~~fDlVilDPP~ 303 (396)
T PRK15128 250 DTSQEALDIARQNVELNKLDLSKAEFVRDDVFKLLRTYRDRGEKFDVIVMDPPK 303 (396)
T ss_pred ECCHHHHHHHHHHHHHcCCCCCcEEEEEccHHHHHHHHHhcCCCCCEEEECCCC
Confidence 345566676777676667753 456667888877766653 3469999997664
No 327
>KOG3180 consensus Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=34.40 E-value=1.6e+02 Score=20.35 Aligned_cols=25 Identities=8% Similarity=0.246 Sum_probs=21.0
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
+++..+...++..+.||+++|-..-
T Consensus 101 ~vAKiLk~~vekek~~lVllGKQAI 125 (254)
T KOG3180|consen 101 HVAKILKKLVEKEKSDLVLLGKQAI 125 (254)
T ss_pred HHHHHHHHHHHhhcCCEEEEccccc
Confidence 5578888889999999999997653
No 328
>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases []. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) [, ]. It is also found in NodP nodulation protein P from Rhizobium meliloti (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.
Probab=34.37 E-value=1.2e+02 Score=19.22 Aligned_cols=33 Identities=15% Similarity=0.016 Sum_probs=23.5
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
+|+|.+.+..+|..++..+....... .++|+..
T Consensus 1 ~i~vs~SGGKDS~v~l~l~~~~~~~~----~vv~~dt 33 (174)
T PF01507_consen 1 NIVVSFSGGKDSTVMLHLAREAGRKV----PVVFIDT 33 (174)
T ss_dssp SEEEE--SSHHHHHHHHHHHHHHTTC----EEEEEE-
T ss_pred CeEEEecCCHHHHHHHHHHHHhcCCC----cEEEEec
Confidence 57889999999999999998877663 4566643
No 329
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=34.27 E-value=92 Score=17.65 Aligned_cols=47 Identities=19% Similarity=0.177 Sum_probs=30.8
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCc-EEEEEecC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLS-CLVIGNRG 130 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~d-liV~g~~~ 130 (148)
.....+.+.+++.|+.+........+...+-+ |...++- +||+|...
T Consensus 16 ~~a~~l~~~L~~~gi~v~~d~~~~~~~k~~~~-a~~~g~p~~iiiG~~e 63 (94)
T PF03129_consen 16 EYAQELANKLRKAGIRVELDDSDKSLGKQIKY-ADKLGIPFIIIIGEKE 63 (94)
T ss_dssp HHHHHHHHHHHHTTSEEEEESSSSTHHHHHHH-HHHTTESEEEEEEHHH
T ss_pred HHHHHHHHHHHHCCCEEEEECCCCchhHHHHH-HhhcCCeEEEEECchh
Confidence 44556777788889888887755577777755 4445555 55667443
No 330
>cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). 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.
Probab=34.08 E-value=93 Score=17.64 Aligned_cols=27 Identities=15% Similarity=0.020 Sum_probs=22.5
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhccc
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVR 30 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~ 30 (148)
.+.|.+.+|++...+++-....+....
T Consensus 45 ~~~VIiltD~D~aG~~i~~~~~~~l~~ 71 (81)
T cd01027 45 YRGVIILTDPDRKGEKIRKKLSEYLSG 71 (81)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence 467899999999999998888887754
No 331
>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=34.00 E-value=1e+02 Score=18.07 Aligned_cols=38 Identities=3% Similarity=-0.070 Sum_probs=28.7
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
-++||++....-.+.-.+....+.+...|.++.+-+..
T Consensus 3 ~~~ILl~C~~G~sSS~l~~k~~~~~~~~gi~~~v~a~~ 40 (95)
T TIGR00853 3 ETNILLLCAAGMSTSLLVNKMNKAAEEYGVPVKIAAGS 40 (95)
T ss_pred ccEEEEECCCchhHHHHHHHHHHHHHHCCCcEEEEEec
Confidence 47888888876666667788888888888877665553
No 332
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=33.82 E-value=1.1e+02 Score=21.72 Aligned_cols=43 Identities=9% Similarity=0.029 Sum_probs=24.6
Q ss_pred HHHhhhcCceEEEEEee-----CChhHHHHHHHhhcCCcEEEEEecCC
Q 032042 89 NTVARQKQIVVVMKIFW-----GDPREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 89 ~~~~~~~~~~~~~~~~~-----g~~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
.+++...++.+.+.-.. .+..+......+++++|++|+.+.+.
T Consensus 24 DErAdRedI~vrv~gsGaKm~pe~~~~~~~~~~~~~~pDf~i~isPN~ 71 (277)
T PRK00994 24 DERADREDIDVRVVGSGAKMGPEEVEEVVKKMLEEWKPDFVIVISPNP 71 (277)
T ss_pred HhhhcccCceEEEeccCCCCCHHHHHHHHHHHHHhhCCCEEEEECCCC
Confidence 34444446655543321 12234455566889999999977663
No 333
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=33.66 E-value=2.1e+02 Score=21.53 Aligned_cols=106 Identities=20% Similarity=0.121 Sum_probs=54.5
Q ss_pred cEEEEEecCCH--hHHHHHHHHHhhcccCC---CE-EEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcC
Q 032042 5 RRVGVAVDFSA--CSKKALQWAADNVVRNG---DH-LILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGA 78 (148)
Q Consensus 5 ~~ILv~~d~s~--~s~~al~~a~~la~~~~---~~-v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (148)
.+.||-+.+.. +.+.++++|.++..... .+ +.++-+.-..+... ..|-+.+. .|..+..- .+
T Consensus 52 ~rllvI~GPCSIed~e~a~eyA~~Lk~l~~~~~d~l~ivmR~y~~KPRTs---~g~kGl~~--DP~ldgs~--~i----- 119 (349)
T PRK09261 52 DRLLVVVGPCSIHDPKAALEYARRLAKLREELKDKLEIVMRVYFEKPRTT---VGWKGLIN--DPDLDGSF--DI----- 119 (349)
T ss_pred CCeEEEEcCCcCCCHHHHHHHHHHHHHHHhhhhcceEEEEEeccccCCCC---CCCcCCCc--CcCccccc--cH-----
Confidence 45666666643 55677888877654421 22 33554443332221 23433221 12111110 11
Q ss_pred CCChhhHHHHHHH---hhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 79 KPDPETLDIVNTV---ARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 79 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
++-+..+++. ..+.|+++-+.+..-...+.+.++ +|.+-+|+|.
T Consensus 120 ---~~GL~~~R~ll~~~~e~GlpvatE~ld~~~~~y~~dl-----vs~~~IGARt 166 (349)
T PRK09261 120 ---NDGLRIARKLLLDINELGLPAATEFLDPITPQYIADL-----ISWGAIGART 166 (349)
T ss_pred ---HHHHHHHHHHHHHHHHhCCCeEEEecccccHHHHHhh-----cceeeeccch
Confidence 2223333333 567799998888765445544444 7888999887
No 334
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=33.65 E-value=97 Score=17.77 Aligned_cols=34 Identities=12% Similarity=-0.040 Sum_probs=23.8
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILV 38 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll 38 (148)
...++-+.+++-+....+.+++++++.+.++..+
T Consensus 26 ~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGv 59 (81)
T PF10609_consen 26 DGAIVVTTPQELALADVRRAIDMFRKLNVPILGV 59 (81)
T ss_dssp SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEE
T ss_pred CeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEE
Confidence 3466778889999999999999999877766543
No 335
>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=33.48 E-value=79 Score=17.81 Aligned_cols=30 Identities=3% Similarity=-0.052 Sum_probs=21.2
Q ss_pred hHHHHHHHhhcCCcEEEEEecCCCccceee
Q 032042 109 REKICEAIDKIPLSCLVIGNRGLGKLKRLD 138 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~ 138 (148)
.+.-++.|++.+-|||.+.....-++-+++
T Consensus 30 ~~eAl~~A~~~~lDLV~v~~~~~PPVcKi~ 59 (76)
T PF05198_consen 30 LREALRLAKEKGLDLVEVSPNADPPVCKIM 59 (76)
T ss_dssp HHHHHHHHHHTT-EEEEEETTSSS-EEEEE
T ss_pred HHHHHHHHHHcCCcEEEEcCCCCCCeEEEe
Confidence 466778999999999999866665555443
No 336
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=33.45 E-value=1.2e+02 Score=19.47 Aligned_cols=47 Identities=15% Similarity=0.273 Sum_probs=25.7
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhc--CCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKI--PLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~--~~dliV~g~~~ 130 (148)
....+.+.+.+.+.|+++++.- .+-.-+|++..++- ++|-||+-.-+
T Consensus 27 ~di~~~~~~~a~~~g~~v~~~Q--SN~EGelId~i~~a~~~~dgiIINpga 75 (141)
T TIGR01088 27 EEIVEIIETFAAQLNVELEFFQ--SNSEGQLIDKIHEAEGQYDGIIINPGA 75 (141)
T ss_pred HHHHHHHHHHHHHcCCEEEEEe--eCcHHHHHHHHHhccccCCEEEEcChH
Confidence 3445556666666676655544 34444444444332 37889985444
No 337
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=33.40 E-value=2.4e+02 Score=22.14 Aligned_cols=52 Identities=15% Similarity=0.155 Sum_probs=32.3
Q ss_pred HHHHHHhhhcCceEEEEEeeC-ChhHHHHHHHhhcCCcEEEEEecCCCccceee
Q 032042 86 DIVNTVARQKQIVVVMKIFWG-DPREKICEAIDKIPLSCLVIGNRGLGKLKRLD 138 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~ 138 (148)
+.+...++..+++++...... .-+..+++.+...++|.||+ ..|.+.+.+++
T Consensus 133 ~~v~~~L~~~gi~~~v~~T~~~ghA~~la~~~~~~~~D~VV~-vGGDGTlnEVv 185 (481)
T PLN02958 133 DVVKPLLEDADIQLTIQETKYQLHAKEVVRTMDLSKYDGIVC-VSGDGILVEVV 185 (481)
T ss_pred HHHHHHHHHcCCeEEEEeccCccHHHHHHHHhhhcCCCEEEE-EcCCCHHHHHH
Confidence 456667777888877765542 33556666665667887766 34555555443
No 338
>PRK13937 phosphoheptose isomerase; Provisional
Probab=33.23 E-value=90 Score=20.74 Aligned_cols=41 Identities=20% Similarity=0.057 Sum_probs=30.9
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
.+.+++.+..|..+...++.+.. ++..|++++.+...+..+
T Consensus 106 ~~Dl~i~iS~sG~t~~~~~~~~~-ak~~g~~~I~iT~~~~s~ 146 (188)
T PRK13937 106 PGDVLIGISTSGNSPNVLAALEK-ARELGMKTIGLTGRDGGK 146 (188)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHH-HHHCCCeEEEEeCCCCCh
Confidence 45789999988877777765554 777899999988766543
No 339
>cd05009 SIS_GlmS_GlmD_2 SIS (Sugar ISomerase) domain repeat 2 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=33.14 E-value=94 Score=19.31 Aligned_cols=40 Identities=13% Similarity=0.071 Sum_probs=26.4
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
.+..++.+..+.........++..+++.+++++++.....
T Consensus 61 ~~~~vi~is~~g~t~~~~~~~~~~~~~~~~~vi~it~~~~ 100 (153)
T cd05009 61 EGTPVIFLAPEDRLEEKLESLIKEVKARGAKVIVITDDGD 100 (153)
T ss_pred CCCcEEEEecCChhHHHHHHHHHHHHHcCCEEEEEecCCc
Confidence 4556677776655555455556667778898888876543
No 340
>TIGR00336 pyrE orotate phosphoribosyltransferase. The conserved Lys (K) residue at position 101 of the seed alignment has been proposed as the active site for the enzyme.
Probab=33.07 E-value=1.1e+02 Score=20.12 Aligned_cols=38 Identities=16% Similarity=0.162 Sum_probs=28.4
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
+++|+ +|+--.+-..+..++++.+..++.+..+-++-.
T Consensus 109 ~~VlI-VDDvi~TG~Tl~~a~~~l~~~Ga~v~~~~vlvd 146 (173)
T TIGR00336 109 DKVVV-VEDVITTGTSILEAVEIIQAAGGQVAGVIIAVD 146 (173)
T ss_pred CEEEE-EeccccChHHHHHHHHHHHHcCCeEEEEEEEEe
Confidence 55555 777777888888888888888888766666543
No 341
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=32.83 E-value=2e+02 Score=21.10 Aligned_cols=22 Identities=18% Similarity=0.191 Sum_probs=10.2
Q ss_pred CChhHHHHHHHhhcCCcEEEEE
Q 032042 106 GDPREKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 106 g~~~~~I~~~a~~~~~dliV~g 127 (148)
+.....+++.+++.+.+..+++
T Consensus 205 ~~~~~~~~~~~~~~G~~~~~~~ 226 (351)
T cd06334 205 GVMNPVAIKEAKRVGLDDKFIG 226 (351)
T ss_pred cchHHHHHHHHHHcCCCceEEE
Confidence 3334444555555555544443
No 342
>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=32.71 E-value=55 Score=24.90 Aligned_cols=24 Identities=4% Similarity=0.086 Sum_probs=18.8
Q ss_pred hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 109 REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+.+.+.+++++++|||+|.....
T Consensus 158 ~d~l~~~a~~~kPklIi~G~S~y~ 181 (399)
T PF00464_consen 158 YDELEKLAKEHKPKLIICGASSYP 181 (399)
T ss_dssp HHHHHHHHHHH--SEEEEE-SSTS
T ss_pred HHHHHHHHhhcCCCEEEECchhcc
Confidence 699999999999999999988755
No 343
>PRK02628 nadE NAD synthetase; Reviewed
Probab=32.56 E-value=2.8e+02 Score=22.81 Aligned_cols=38 Identities=26% Similarity=0.309 Sum_probs=26.9
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCC---CEEEEEEE
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNG---DHLILVTV 40 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~---~~v~ll~v 40 (148)
+.++++|++.+.-+|.-++..+.......+ .+|..++.
T Consensus 360 ~~~~vvvglSGGiDSal~l~l~~~a~~~lg~~~~~v~~v~m 400 (679)
T PRK02628 360 GLKKVVIGISGGLDSTHALLVAAKAMDRLGLPRKNILAYTM 400 (679)
T ss_pred CCCeEEEECCCCHHHHHHHHHHHHHHHhhCCCcceEEEEEC
Confidence 468999999998888776666666543334 56666666
No 344
>PLN02496 probable phosphopantothenoylcysteine decarboxylase
Probab=32.54 E-value=1.4e+02 Score=20.64 Aligned_cols=37 Identities=14% Similarity=-0.091 Sum_probs=28.2
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
-++||+++.+|-.+-++.+.+..+. + +++|.++-...
T Consensus 19 ~k~IllgVtGSIAAyk~~~lvr~L~-~-g~~V~VvmT~~ 55 (209)
T PLN02496 19 KPRILLAASGSVAAIKFGNLCHCFS-E-WAEVRAVVTKA 55 (209)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHhc-C-CCeEEEEEChh
Confidence 4789999999999988888776664 3 67777665543
No 345
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=32.47 E-value=1.1e+02 Score=18.19 Aligned_cols=41 Identities=20% Similarity=0.123 Sum_probs=21.6
Q ss_pred HHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 88 VNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
+...+++.|.++...- ...+.+.+.+.+.+.++|+|.+...
T Consensus 19 ~~~~l~~~G~~v~~l~-~~~~~~~~~~~i~~~~pdiV~iS~~ 59 (125)
T cd02065 19 VAIALRDNGFEVIDLG-VDVPPEEIVEAAKEEDADVVGLSAL 59 (125)
T ss_pred HHHHHHHCCCEEEEcC-CCCCHHHHHHHHHHcCCCEEEEecc
Confidence 4444555555544321 1244566666666666666666544
No 346
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=32.34 E-value=1.5e+02 Score=20.52 Aligned_cols=53 Identities=13% Similarity=0.043 Sum_probs=31.1
Q ss_pred hhhHHHHHHHhhhcCceEEEEEee-----CChhHHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFW-----GDPREKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
-..+..+++.+++.|.+|...-.. ++..+.|.+..++++++-|++-..+.-.+
T Consensus 48 ~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l 105 (224)
T PF04244_consen 48 FSAMRHFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRL 105 (224)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHH
T ss_pred HHHHHHHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHH
Confidence 345566777788889998887664 24478999999999999888876665443
No 347
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=32.26 E-value=97 Score=20.62 Aligned_cols=40 Identities=23% Similarity=0.191 Sum_probs=31.2
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
...||+++..|.+|...++..- -|+..+..++.+.-.+-.
T Consensus 109 ~GDvLigISTSGNS~nVl~Ai~-~Ak~~gm~vI~ltG~~GG 148 (176)
T COG0279 109 PGDVLIGISTSGNSKNVLKAIE-AAKEKGMTVIALTGKDGG 148 (176)
T ss_pred CCCEEEEEeCCCCCHHHHHHHH-HHHHcCCEEEEEecCCCc
Confidence 4578999999988888876544 488889999888876643
No 348
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=32.24 E-value=1.3e+02 Score=18.84 Aligned_cols=38 Identities=18% Similarity=0.219 Sum_probs=26.4
Q ss_pred CccEEEEEecCC--H----hHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 3 GTRRVGVAVDFS--A----CSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 3 ~~~~ILv~~d~s--~----~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
.-++|.+++|-+ + +-.+++.....+....++++.++.-
T Consensus 67 ~gr~v~iaFD~D~~~~Tn~~V~~a~~~l~~~L~~~G~~v~~~~w 110 (130)
T PF12965_consen 67 PGREVYIAFDADTKPKTNKNVRRAIKRLGKLLKEAGCKVKIITW 110 (130)
T ss_pred CCceEEEEecCCCccchhHHHHHHHHHHHHHHHHCCCEEEEEEe
Confidence 358899999987 2 2235666666666777888777553
No 349
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=32.21 E-value=2.1e+02 Score=21.08 Aligned_cols=45 Identities=11% Similarity=0.104 Sum_probs=27.7
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHh---hcCCcEEEEE
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAID---KIPLSCLVIG 127 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~---~~~~dliV~g 127 (148)
.....+.+.+++.|.++.......|-.+.|.+..+ +.++|+||+.
T Consensus 179 ~~~~~l~~~L~~~G~~v~~~~iv~Dd~~~I~~ai~~~~~~g~DlIItT 226 (312)
T cd03522 179 KFGPVLRARLAALGVELVEQVIVPHDEAAIAAAIAEALEAGAELLILT 226 (312)
T ss_pred hHHHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhcCCCCEEEEe
Confidence 44456777788888886665554544444444432 2358988884
No 350
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=32.12 E-value=93 Score=17.08 Aligned_cols=26 Identities=12% Similarity=0.018 Sum_probs=17.3
Q ss_pred HHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 18 KKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 18 ~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
.-+++.|..++. .+.++++++-.+..
T Consensus 9 ~ig~E~A~~l~~-~g~~vtli~~~~~~ 34 (80)
T PF00070_consen 9 FIGIELAEALAE-LGKEVTLIERSDRL 34 (80)
T ss_dssp HHHHHHHHHHHH-TTSEEEEEESSSSS
T ss_pred HHHHHHHHHHHH-hCcEEEEEeccchh
Confidence 345666666554 67899887776643
No 351
>PRK07322 adenine phosphoribosyltransferase; Provisional
Probab=32.07 E-value=1.1e+02 Score=20.27 Aligned_cols=38 Identities=24% Similarity=0.295 Sum_probs=25.6
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEE-EEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHL-ILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v-~ll~v~~~ 43 (148)
++||+ +|+.=.+-..+..++++.++.|+++ .++.+...
T Consensus 121 k~VLI-VDDiitTG~Tl~aa~~~L~~~GA~~V~~~~v~~~ 159 (178)
T PRK07322 121 KRVAI-VDDVVSTGGTLTALERLVERAGGQVVAKAAIFAE 159 (178)
T ss_pred CEEEE-EeccccccHHHHHHHHHHHHcCCEEEEEEEEEEc
Confidence 45555 7776677777788888888888874 44444443
No 352
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=31.99 E-value=1e+02 Score=20.66 Aligned_cols=37 Identities=11% Similarity=0.123 Sum_probs=26.6
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
-++||| +|+-=.+-..+..++++.+..++.+..+.++
T Consensus 105 G~~VLI-VDDIi~TG~Tl~~a~~~l~~~Ga~vv~~~vl 141 (187)
T TIGR01367 105 GEKFVA-VEDVVTTGGSLLEAIRAIEGQGGQVVGLACI 141 (187)
T ss_pred CCEEEE-EEeeecchHHHHHHHHHHHHcCCeEEEEEEE
Confidence 366666 6766677778888888888888886544443
No 353
>PF00496 SBP_bac_5: Bacterial extracellular solute-binding proteins, family 5 Middle; InterPro: IPR000914 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into Gram-positive bacteria which are surrounded by a single membrane and therefore have no periplasmic region the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families of clusters, which generally correlate with the nature of the solute bound. Family 5 currently includes periplasmic oligopeptide-binding proteins (oppA) of Gram-negative bacteria and homologous lipoproteins in Gram-positive bacteria (oppA, amiA or appA); periplasmic dipeptide-binding proteins of Escherichia coli (dppA) and Bacillus subtilis (dppE); periplasmic murein peptide-binding protein of E. coli (mppA); periplasmic peptide-binding proteins sapA of E. coli, Salmonella typhimurium and Haemophilus influenzae; periplasmic nickel-binding protein (nikA) of E. coli; haem-binding lipoprotein (hbpA or dppA) from H. influenzae; lipoprotein xP55 from Streptomyces lividans; and hypothetical proteins from H. influenzae (HI0213) and Rhizobium sp. (strain NGR234) symbiotic plasmid (y4tO and y4wM).; GO: 0005215 transporter activity, 0006810 transport; PDB: 1B51_A 1B0H_A 1QKA_A 1B9J_A 1B6H_A 1OLA_A 1B3L_C 1JEV_A 1B5H_A 1JET_A ....
Probab=31.98 E-value=1.5e+02 Score=21.55 Aligned_cols=49 Identities=10% Similarity=-0.019 Sum_probs=35.4
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+..+.+++.+++.|++++..... ............+.|+.++|..+..
T Consensus 308 ~~~a~~l~~~l~~~Gi~v~i~~~~--~~~~~~~~~~~~~~d~~~~~~~~~~ 356 (374)
T PF00496_consen 308 KAIAEALQEQLKKIGIKVEIKPVD--FNDTYDKRLRAGDFDMALSGWSGDY 356 (374)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEEES--HHHHHHHHHHCTSESEEEEEEESSS
T ss_pred HHHHHHHHHHHhhcceeEEEEEeC--hHHHHHHHhhCCCcCEEEEecCCCC
Confidence 355667777788889888887763 2256666778889999999877543
No 354
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=31.78 E-value=1.8e+02 Score=20.55 Aligned_cols=46 Identities=17% Similarity=0.149 Sum_probs=34.8
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
...++.+.+.+++.|+.++.=+ +|...=++.|++.++|.|=+-+..
T Consensus 112 ~~~l~~~i~~L~~~gIrVSLFi---dP~~~qi~~A~~~GAd~VELhTG~ 157 (239)
T PRK05265 112 FDKLKPAIARLKDAGIRVSLFI---DPDPEQIEAAAEVGADRIELHTGP 157 (239)
T ss_pred HHHHHHHHHHHHHCCCEEEEEe---CCCHHHHHHHHHhCcCEEEEechh
Confidence 4566777777888898776644 677777799999999998875443
No 355
>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=31.78 E-value=2e+02 Score=20.97 Aligned_cols=35 Identities=11% Similarity=0.095 Sum_probs=24.6
Q ss_pred ceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 97 IVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 97 ~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
-++...+..|=..+.|.+||+. ++|.|++|+--++
T Consensus 245 ~~v~ieaSGGI~~~ni~~yA~t-GvD~Is~galt~s 279 (289)
T PRK07896 245 PTVLLESSGGLTLDTAAAYAET-GVDYLAVGALTHS 279 (289)
T ss_pred CCEEEEEECCCCHHHHHHHHhc-CCCEEEeChhhcC
Confidence 3444444444446888888884 8999999988764
No 356
>PRK14557 pyrH uridylate kinase; Provisional
Probab=31.65 E-value=81 Score=22.18 Aligned_cols=41 Identities=22% Similarity=0.202 Sum_probs=26.0
Q ss_pred CCCccEEEEEecCCHh-H-------HHHHHHHHhhcc---cCCCEEEEEEEe
Q 032042 1 MDGTRRVGVAVDFSAC-S-------KKALQWAADNVV---RNGDHLILVTVV 41 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~-s-------~~al~~a~~la~---~~~~~v~ll~v~ 41 (148)
|-.|++|++.+.++.- . ...++.+++... ..+.++.++|.-
T Consensus 1 ~~~~~riViKlGG~al~~~~~~~~~~~~i~~~a~~i~~~~~~g~~vvVVvGg 52 (247)
T PRK14557 1 MRPYKRVLIKLSGGALADQTGNSFNSKRLEHIANEILSIVDLGIEVSIVIGG 52 (247)
T ss_pred CCcccEEEEEeCceeECCCCCCCcCHHHHHHHHHHHHHHHHcCCeEEEEECC
Confidence 6789999999987531 1 234444444444 345678888776
No 357
>PRK06849 hypothetical protein; Provisional
Probab=31.59 E-value=2.2e+02 Score=21.25 Aligned_cols=38 Identities=21% Similarity=0.171 Sum_probs=23.3
Q ss_pred CCCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 1 MDGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
|...++|||.-.... .++..+..+.+ .|.+|+++...+
T Consensus 1 ~~~~~~VLI~G~~~~---~~l~iar~l~~-~G~~Vi~~d~~~ 38 (389)
T PRK06849 1 MNTKKTVLITGARAP---AALELARLFHN-AGHTVILADSLK 38 (389)
T ss_pred CCCCCEEEEeCCCcH---HHHHHHHHHHH-CCCEEEEEeCCc
Confidence 677899998633322 45555555444 378888775543
No 358
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=31.57 E-value=2.8e+02 Score=24.55 Aligned_cols=49 Identities=8% Similarity=0.120 Sum_probs=36.0
Q ss_pred ChhhHHHHHHHhhhcCceEEEEEee--CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 81 DPETLDIVNTVARQKQIVVVMKIFW--GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+++..+.+.++++...++++..-+- ......+++-.++.++|+ |+|+|.
T Consensus 656 A~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDI-vIGTHr 706 (1139)
T COG1197 656 AQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDI-VIGTHR 706 (1139)
T ss_pred HHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccE-EEechH
Confidence 3577788889887777766665443 355788889999999996 467775
No 359
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=31.56 E-value=1.3e+02 Score=23.59 Aligned_cols=37 Identities=22% Similarity=0.218 Sum_probs=30.1
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
-++|++++.++-.+-++++.+-.+. +.+.+|.++-..
T Consensus 70 ~k~IllgVtGsIAayka~~lvr~L~-k~G~~V~VvmT~ 106 (475)
T PRK13982 70 SKRVTLIIGGGIAAYKALDLIRRLK-ERGAHVRCVLTK 106 (475)
T ss_pred CCEEEEEEccHHHHHHHHHHHHHHH-hCcCEEEEEECc
Confidence 4899999999999999999998875 457887776543
No 360
>PLN02716 nicotinate-nucleotide diphosphorylase (carboxylating)
Probab=31.47 E-value=2e+02 Score=21.20 Aligned_cols=31 Identities=3% Similarity=-0.084 Sum_probs=23.0
Q ss_pred EEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 101 MKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 101 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
..+..|-..+.|.+||+ .++|.|.+|+-.++
T Consensus 265 lEaSGGIt~~ni~~yA~-tGVD~Is~Galths 295 (308)
T PLN02716 265 TEASGNVTLDTVHKIGQ-TGVTYISSGALTHS 295 (308)
T ss_pred EEEECCCCHHHHHHHHH-cCCCEEEeCccccC
Confidence 33433455788888886 48999999998774
No 361
>PRK14072 6-phosphofructokinase; Provisional
Probab=31.42 E-value=1e+02 Score=23.57 Aligned_cols=123 Identities=11% Similarity=0.034 Sum_probs=62.1
Q ss_pred CCCccEEEEEecCCHhH--HHHHHHHHhhcccCC--CEEEEEEEecCCCCCcc----cc---cc---ccCCCCCCcCCCC
Q 032042 1 MDGTRRVGVAVDFSACS--KKALQWAADNVVRNG--DHLILVTVVPEGGLEKG----EQ---QL---WEDSGSPLIPLAE 66 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s--~~al~~a~~la~~~~--~~v~ll~v~~~~~~~~~----~~---~~---~~~~~~~~~~~~~ 66 (148)
|| .+||.|.+.+.+.. ..+++-++..|...+ .+|+.++==...-.... .. .. +...|........
T Consensus 1 ~~-~k~i~IltsGGdapGmNaaIr~vv~~a~~~g~~~~V~G~~~G~~GLl~~~~~~l~~~~~~~i~~i~~~gGt~LgssR 79 (416)
T PRK14072 1 MM-KGNALYAQSGGPTAVINASAAGVIEEARKHKKIGKVYGARNGIIGILDEDLIDLSKESDEALAALAHTPSGALGSCR 79 (416)
T ss_pred CC-CceEEEEccCCchHHHHHHHHHHHHHHHHhCCceEEEEEecChHHhcCCCeeeCChhhHhHHHHHhcCCCeEeccCC
Confidence 45 49999999886633 467777888777766 56655442100000000 00 00 0001111111000
Q ss_pred CchhHHHHhhcCCCChhhHHHHHHHhhhcCceEEEEEeeCC---hhHHHHHHHhhcCCcEEEEEecC
Q 032042 67 FSEPTIMKKYGAKPDPETLDIVNTVARQKQIVVVMKIFWGD---PREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~---~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.. ..+ .+...+..+++.+.+++.+++.-+.+-..+ .+..|.+++++.+.++=|+|-.+
T Consensus 80 ~~----~~~--~~~~~~~~~~~~~~l~~~~Id~LivIGGdgS~~~a~~L~e~~~~~g~~i~vIgIPk 140 (416)
T PRK14072 80 YK----LKS--LEEDRAEYERLLEVFKAHDIGYFFYNGGNDSMDTALKVSQLAKKMGYPIRCIGIPK 140 (416)
T ss_pred CC----Ccc--cccChHHHHHHHHHHHHcCCCEEEEECChHHHHHHHHHHHHHHHhCCCceEEEeee
Confidence 00 000 001234566777778888888666553212 24566667766787888888665
No 362
>PRK06455 riboflavin synthase; Provisional
Probab=31.41 E-value=1.2e+02 Score=19.75 Aligned_cols=54 Identities=11% Similarity=0.017 Sum_probs=31.8
Q ss_pred HHHHHHHhhhc--CceEEEEEeeC--ChhHHHHHHHhhcCCcEE-EEEecCCCccceee
Q 032042 85 LDIVNTVARQK--QIVVVMKIFWG--DPREKICEAIDKIPLSCL-VIGNRGLGKLKRLD 138 (148)
Q Consensus 85 ~~~~~~~~~~~--~~~~~~~~~~g--~~~~~I~~~a~~~~~dli-V~g~~~~~~~~~~~ 138 (148)
++-+.+.++++ +.++...-+.| +..-++.+.++..++|-| .+|.-|++...+..
T Consensus 17 ~~gAi~~L~~~g~~~~I~v~~VPGa~ELP~aakkL~~~~~yDaVIaLG~VG~t~h~d~V 75 (155)
T PRK06455 17 GSAAIDELRKLDPSAKIIRYTVPGIKDLPVAAKKLIEEEGCDIVMALGMPGPTEKDKYC 75 (155)
T ss_pred HHHHHHHHHhcCCCCceEEEECCCHHHHHHHHHHHHhcCCCCEEEEecceeccCcchhH
Confidence 34445555553 35555555556 555666677777788955 55887766544433
No 363
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=31.40 E-value=1.5e+02 Score=19.20 Aligned_cols=47 Identities=17% Similarity=0.120 Sum_probs=26.0
Q ss_pred hhhHHHHHHHhhhcCceEEEEEee--CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFW--GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+...+.+.+.+.+.|+++++.-.. |...+.|-+.. .++|-||+-.-+
T Consensus 29 ~~i~~~~~~~a~~~g~~~~~~QSN~EGelId~i~~a~--~~~dgiIINpga 77 (146)
T PRK13015 29 ADVEALCRAAAEALGLEVEFRQSNHEGELIDWIHEAR--GDVAGIVINPGA 77 (146)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhh--hcCCEEEEcchH
Confidence 345555666666667766654432 34444444432 247889985443
No 364
>COG0496 SurE Predicted acid phosphatase [General function prediction only]
Probab=31.25 E-value=2e+02 Score=20.54 Aligned_cols=35 Identities=23% Similarity=0.171 Sum_probs=21.9
Q ss_pred cEEEEEecCCH--hHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSA--CSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~--~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
+|||+.=|+.- ...++|..++. ..++|+++..-.+
T Consensus 1 mrILlTNDDGi~a~Gi~aL~~al~----~~~dV~VVAP~~~ 37 (252)
T COG0496 1 MRILLTNDDGIHAPGIRALARALR----EGADVTVVAPDRE 37 (252)
T ss_pred CeEEEecCCccCCHHHHHHHHHHh----hCCCEEEEccCCC
Confidence 47888777643 44566666665 5677777655443
No 365
>PRK07369 dihydroorotase; Provisional
Probab=31.08 E-value=1e+02 Score=23.43 Aligned_cols=28 Identities=18% Similarity=0.164 Sum_probs=23.8
Q ss_pred hHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 16 CSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 16 ~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
....++..++.+|+..+++++++|+...
T Consensus 211 aE~~av~r~~~la~~~~~~~hi~HvSs~ 238 (418)
T PRK07369 211 AETTALAALLELVAAIGTPVHLMRISTA 238 (418)
T ss_pred HHHHHHHHHHHHHHHHCCcEEEEeCCCH
Confidence 3456888999999999999999999764
No 366
>cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed,
Probab=30.92 E-value=1.9e+02 Score=20.36 Aligned_cols=46 Identities=20% Similarity=0.200 Sum_probs=34.4
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
...++.+.+.+++.|+.++.=+ +|...-++.|++.++|.|=+-+..
T Consensus 109 ~~~l~~~i~~l~~~gI~VSLFi---DPd~~qi~~A~~~GAd~VELhTG~ 154 (234)
T cd00003 109 AEKLKPIIERLKDAGIRVSLFI---DPDPEQIEAAKEVGADRVELHTGP 154 (234)
T ss_pred HHHHHHHHHHHHHCCCEEEEEe---CCCHHHHHHHHHhCcCEEEEechh
Confidence 4667777777888898866543 676777799999999998874443
No 367
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=30.90 E-value=67 Score=21.35 Aligned_cols=27 Identities=26% Similarity=0.282 Sum_probs=20.3
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEE
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHL 35 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v 35 (148)
++++-+|++..++++++.|.. +.+.+.
T Consensus 1 kVIlvTDGD~~A~ravE~aa~---~iGgRC 27 (180)
T PF14097_consen 1 KVILVTDGDEYAKRAVEIAAK---NIGGRC 27 (180)
T ss_pred CEEEEECChHHHHHHHHHHHH---HhCcEE
Confidence 456679999999999998876 345543
No 368
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=30.86 E-value=93 Score=20.83 Aligned_cols=41 Identities=17% Similarity=0.110 Sum_probs=31.1
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
...+++.+..|..+...++.+.. |+..|++++.+...+..+
T Consensus 111 ~~Dv~I~iS~SG~t~~~i~~~~~-ak~~g~~iI~iT~~~~s~ 151 (192)
T PRK00414 111 EGDVLLGISTSGNSGNIIKAIEA-ARAKGMKVITLTGKDGGK 151 (192)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHH-HHHCCCeEEEEeCCCCCh
Confidence 45688999988777777665544 788899999998876554
No 369
>COG4607 CeuA ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=30.79 E-value=37 Score=24.81 Aligned_cols=20 Identities=30% Similarity=0.401 Sum_probs=14.8
Q ss_pred HHHhhcCCcEEEEEecCCCc
Q 032042 114 EAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 114 ~~a~~~~~dliV~g~~~~~~ 133 (148)
+.+...++||||+|.|....
T Consensus 112 Eai~a~kPdLIIiggR~ak~ 131 (320)
T COG4607 112 EAIAAAKPDLIIIGGRAAKA 131 (320)
T ss_pred HHHHhcCCCEEEECcHHHHH
Confidence 34455779999999987653
No 370
>cd02174 CCT CTP:phosphocholine cytidylyltransferase. CTP:phosphocholine cytidylyltransferase (CCT) catalyzes the condensation of CTP and phosphocholine to form CDP-choline as the rate-limiting and regulatory step in the CDP-choline pathway. CCT is unique in that its enzymatic activity is regulated by the extent of its association with membrane structures. A current model posts that the elastic stress of the bilayer curvature is sensed by CCT and this governs the degree of membrane association, thus providing a mechanism for both positive and negative regulation of activity.
Probab=30.72 E-value=56 Score=21.01 Aligned_cols=25 Identities=24% Similarity=0.264 Sum_probs=18.6
Q ss_pred eCChhHHHHHHHhhcCCcEEEEEec
Q 032042 105 WGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 105 ~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+.+.....+++++.++|.+|.|..
T Consensus 73 ~~~~~~~~~~~i~~~~~d~vv~G~d 97 (150)
T cd02174 73 EGAPYVTTPEFLDKYKCDYVAHGDD 97 (150)
T ss_pred ECCCCCChHHHHHHhCCCEEEECCC
Confidence 3455555677788899999999843
No 371
>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=30.71 E-value=2.1e+02 Score=20.79 Aligned_cols=47 Identities=26% Similarity=0.398 Sum_probs=28.2
Q ss_pred HHHHHHHhhhcCceEEEEEeeC-C--h--hHHHHHHHhhcCCcEEEEEecCC
Q 032042 85 LDIVNTVARQKQIVVVMKIFWG-D--P--REKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g-~--~--~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
.+.+....+..+++++++++.| + . ...+++.+.+.+++.|.+-.|.+
T Consensus 111 ~~iv~~~~~~~~~pvsvKiR~g~~~~~~~~~~~~~~l~~~G~~~i~vH~Rt~ 162 (309)
T PF01207_consen 111 AEIVKAVRKAVPIPVSVKIRLGWDDSPEETIEFARILEDAGVSAITVHGRTR 162 (309)
T ss_dssp HHHHHHHHHH-SSEEEEEEESECT--CHHHHHHHHHHHHTT--EEEEECS-T
T ss_pred hHHHHhhhcccccceEEecccccccchhHHHHHHHHhhhcccceEEEecCch
Confidence 3334444444567777777654 2 2 46778888999999999966643
No 372
>PRK15482 transcriptional regulator MurR; Provisional
Probab=30.40 E-value=97 Score=22.02 Aligned_cols=41 Identities=20% Similarity=0.355 Sum_probs=32.4
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
...++|.+..+.++...++.+-. |+..|++++++.-.+..+
T Consensus 182 ~~Dv~i~iS~sg~t~~~~~~~~~-a~~~g~~iI~IT~~~~s~ 222 (285)
T PRK15482 182 KGDVQIAISYSGSKKEIVLCAEA-ARKQGATVIAITSLADSP 222 (285)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHH-HHHCCCEEEEEeCCCCCc
Confidence 45789999999888887765555 788899999988876654
No 373
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=30.22 E-value=81 Score=19.19 Aligned_cols=39 Identities=15% Similarity=0.048 Sum_probs=24.1
Q ss_pred ccEEEEEecCCHhHHH-HHHHHHhhcccCCCEEEEEEEec
Q 032042 4 TRRVGVAVDFSACSKK-ALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~-al~~a~~la~~~~~~v~ll~v~~ 42 (148)
.+.+++-+|+...... .+...+..++..+..+..+++-+
T Consensus 102 ~~~lvvitDg~~~~~~~~~~~~~~~~~~~~v~v~~v~~g~ 141 (161)
T cd00198 102 RRVIILLTDGEPNDGPELLAEAARELRKLGITVYTIGIGD 141 (161)
T ss_pred ceEEEEEeCCCCCCCcchhHHHHHHHHHcCCEEEEEEcCC
Confidence 3556666677654432 45555666666677777777765
No 374
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=30.15 E-value=1.6e+02 Score=19.64 Aligned_cols=37 Identities=14% Similarity=0.038 Sum_probs=28.2
Q ss_pred EEEEEecC-CHhHHHHHHHHHhhccc-CCCEEEEEEEec
Q 032042 6 RVGVAVDF-SACSKKALQWAADNVVR-NGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~-s~~s~~al~~a~~la~~-~~~~v~ll~v~~ 42 (148)
+|+|.+.. ..+...+++.+.+-+.. .+.++.++.+.+
T Consensus 3 kilIvy~S~~G~T~~lA~~ia~g~~~~~G~ev~~~~l~~ 41 (200)
T PRK03767 3 KVLVLYYSMYGHIETMAEAVAEGAREVAGAEVTIKRVPE 41 (200)
T ss_pred eEEEEEcCCCCHHHHHHHHHHHHHhhcCCcEEEEEeccc
Confidence 57776654 55778888888888877 888998888743
No 375
>PRK03604 moaC bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional
Probab=29.87 E-value=2.2e+02 Score=20.96 Aligned_cols=45 Identities=9% Similarity=0.051 Sum_probs=29.0
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh---cCCcEEEE
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK---IPLSCLVI 126 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~---~~~dliV~ 126 (148)
......+.+.+++.|.++.......|-.+.|.+..++ .++|+||.
T Consensus 174 Dsn~~~L~~~L~~~G~~v~~~~iVpDD~~~I~~al~~a~~~~~DlIIT 221 (312)
T PRK03604 174 DRSGKLIVEGLEEAGFEVSHYTIIPDEPAEIAAAVAAWIAEGYALIIT 221 (312)
T ss_pred EhHHHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHhhhCCCCEEEE
Confidence 4555567777888898866554444545555555443 36898887
No 376
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=29.80 E-value=1.3e+02 Score=22.81 Aligned_cols=42 Identities=17% Similarity=0.135 Sum_probs=31.8
Q ss_pred CCCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 1 MDGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
|..-++||+++.++-.+-++++.+..+- +.|+++.++-.-+.
T Consensus 1 ~l~~k~ill~v~gsiaayk~~~l~r~L~-~~ga~v~vvmt~~a 42 (392)
T COG0452 1 LLEGKRILLGVTGSIAAYKSVELVRLLR-RSGAEVRVVMTESA 42 (392)
T ss_pred CCCCceEEEEecCchhhhhHHHHHHHHh-hCCCeeEEEcchhh
Confidence 3445799999999998888888877754 55888877766543
No 377
>PRK02947 hypothetical protein; Provisional
Probab=29.79 E-value=1e+02 Score=21.62 Aligned_cols=39 Identities=21% Similarity=0.217 Sum_probs=31.3
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
....+++.+..+.++...++.+.. ++..|++++.+.-.+
T Consensus 105 ~~~Dv~i~iS~sG~t~~~i~~~~~-a~~~g~~vI~iT~~~ 143 (246)
T PRK02947 105 RPGDVLIVVSNSGRNPVPIEMALE-AKERGAKVIAVTSLA 143 (246)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHH-HHHCCCEEEEEcCCc
Confidence 346789999999888887776655 888899999988865
No 378
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=29.78 E-value=46 Score=19.28 Aligned_cols=10 Identities=10% Similarity=0.328 Sum_probs=7.2
Q ss_pred EEEEEecCCH
Q 032042 6 RVGVAVDFSA 15 (148)
Q Consensus 6 ~ILv~~d~s~ 15 (148)
+|.||++...
T Consensus 2 ~IAv~~~~~~ 11 (103)
T cd00851 2 KIAIPVSGNG 11 (103)
T ss_pred EEEEEecCCC
Confidence 6788887654
No 379
>PF03740 PdxJ: Pyridoxal phosphate biosynthesis protein PdxJ; InterPro: IPR004569 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised [, , ]. This entry represents PdxJ, which catalyses the condensation of 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one and 1-deoxy-D-xylulose-5-phosphate to form pyridoxine-5'-phosphate. The product of the PdxJ reaction is then oxidized by PdxH to pyridoxal 5'-phosphate.; GO: 0008615 pyridoxine biosynthetic process, 0005737 cytoplasm; PDB: 3F4N_B 3O6D_A 3O6C_A 1M5W_G 1IXQ_D 1IXP_B 1IXN_A 1HO4_C 1HO1_A 1IXO_D ....
Probab=29.71 E-value=2e+02 Score=20.27 Aligned_cols=44 Identities=20% Similarity=0.212 Sum_probs=29.5
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEe
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~ 128 (148)
...+..+.+.+++.|+.++.-+ +|...-++.|++.++|.|=+-+
T Consensus 110 ~~~l~~~i~~L~~~gIrvSLFi---DP~~~qi~~A~~~Gad~VELhT 153 (239)
T PF03740_consen 110 RDRLKPVIKRLKDAGIRVSLFI---DPDPEQIEAAKELGADRVELHT 153 (239)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEE----S-HHHHHHHHHTT-SEEEEET
T ss_pred HHHHHHHHHHHHhCCCEEEEEe---CCCHHHHHHHHHcCCCEEEEeh
Confidence 3556667777888888776644 5666777999999999887744
No 380
>PRK07328 histidinol-phosphatase; Provisional
Probab=29.67 E-value=2e+02 Score=20.25 Aligned_cols=50 Identities=12% Similarity=0.084 Sum_probs=35.1
Q ss_pred hhHHHHHHHhhhcCceEEEEEe-------eCChhHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 83 ETLDIVNTVARQKQIVVVMKIF-------WGDPREKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~-------~g~~~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
...+++.+.+.+.|+.++.-.. .--|...|++.+++.+.- |++|+-.+.+
T Consensus 177 ~~~~~il~~~~~~g~~lEiNt~~~r~~~~~~yp~~~il~~~~~~g~~-itigSDAH~~ 233 (269)
T PRK07328 177 ELYEEALDVIAAAGLALEVNTAGLRKPVGEIYPSPALLRACRERGIP-VVLGSDAHRP 233 (269)
T ss_pred HHHHHHHHHHHHcCCEEEEEchhhcCCCCCCCCCHHHHHHHHHcCCC-EEEeCCCCCH
Confidence 3345666667777877766542 124567899999999987 8899887764
No 381
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=29.46 E-value=1.7e+02 Score=20.90 Aligned_cols=39 Identities=23% Similarity=0.262 Sum_probs=26.3
Q ss_pred CCccEEEEEecCCHh-HHHHHHHHHhhcccCCCEEEEEEE
Q 032042 2 DGTRRVGVAVDFSAC-SKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 2 ~~~~~ILv~~d~s~~-s~~al~~a~~la~~~~~~v~ll~v 40 (148)
+..++|.+.+|.+.. +....+.+...+++.+-++..+.+
T Consensus 129 P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~v 168 (294)
T PF04392_consen 129 PDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIPV 168 (294)
T ss_dssp TT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEEE
T ss_pred CCCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEec
Confidence 357899888988764 567777888878888887766555
No 382
>COG0608 RecJ Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]
Probab=29.36 E-value=2.8e+02 Score=21.71 Aligned_cols=39 Identities=5% Similarity=0.111 Sum_probs=26.2
Q ss_pred HhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 91 VARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 91 ~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.....+.+.-+-+..|.....-+.++++.+.|+||+--|
T Consensus 84 ~~~~~~~~liItvD~G~~~~~~i~~~~~~g~~vIVtDHH 122 (491)
T COG0608 84 KLKEEGADLIITVDNGSGSLEEIARAKELGIDVIVTDHH 122 (491)
T ss_pred HHHhcCCCEEEEECCCcccHHHHHHHHhCCCcEEEECCC
Confidence 344556665555556766666667777888999998544
No 383
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=29.31 E-value=2.1e+02 Score=21.31 Aligned_cols=37 Identities=11% Similarity=0.149 Sum_probs=30.5
Q ss_pred EEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccc
Q 032042 99 VVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLK 135 (148)
Q Consensus 99 ~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 135 (148)
+..-+..++.+-.|++-|++.+...|+++.+++...-
T Consensus 19 i~Iat~gSHSaL~Il~GAK~EGF~Ti~v~~~gr~~~Y 55 (361)
T COG1759 19 ITIATIGSHSALQILDGAKEEGFRTIAVCQRGREKPY 55 (361)
T ss_pred eEEEEeecchHHHHhhhHHhcCCcEEEEEecCccchH
Confidence 5555555788999999999999999999999877543
No 384
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=29.28 E-value=1.8e+02 Score=19.46 Aligned_cols=50 Identities=14% Similarity=0.127 Sum_probs=29.0
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCCh--hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDP--REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
...+.+++.+++.|+++...-..+++ ....++.+...++|.||+.....+
T Consensus 16 ~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~ 67 (264)
T cd01537 16 QVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLT 67 (264)
T ss_pred HHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCc
Confidence 45556666666677776554443443 334444444557898888655433
No 385
>TIGR00559 pdxJ pyridoxine 5'-phosphate synthase. PdxJ is required in the biosynthesis of pyridoxine (vitamin B6), a precursor to the enzyme cofactor pyridoxal phosphate. ECOCYC describes the predicted reaction equation as 1-amino-propan-2-one-3-phosphate + deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The product of that reaction is oxidized by PdxH to pyridoxal 5'-phosphate.
Probab=29.28 E-value=2.1e+02 Score=20.21 Aligned_cols=46 Identities=15% Similarity=0.066 Sum_probs=33.9
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
...+..+.+.+++.|+.++.=+ +|...=++.|++.++|.|=+-+..
T Consensus 109 ~~~l~~~i~~l~~~gI~VSLFi---DP~~~qi~~A~~~GAd~VELhTG~ 154 (237)
T TIGR00559 109 KDKLCELVKRFHAAGIEVSLFI---DADKDQISAAAEVGADRIEIHTGP 154 (237)
T ss_pred HHHHHHHHHHHHHCCCEEEEEe---CCCHHHHHHHHHhCcCEEEEechh
Confidence 4556677777888888876643 666677799999999998874443
No 386
>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=29.16 E-value=1.3e+02 Score=23.07 Aligned_cols=28 Identities=29% Similarity=0.443 Sum_probs=17.3
Q ss_pred eC-ChhHHHHHHHh----hcCCcEEEEEecCCC
Q 032042 105 WG-DPREKICEAID----KIPLSCLVIGNRGLG 132 (148)
Q Consensus 105 ~g-~~~~~I~~~a~----~~~~dliV~g~~~~~ 132 (148)
.| .....|++..+ ..++|+||+++.|-|
T Consensus 167 QG~~a~~~i~~al~~~~~~~~~dviii~RGGGs 199 (432)
T TIGR00237 167 QGEGAVQSIVESIELANTKNECDVLIVGRGGGS 199 (432)
T ss_pred cCccHHHHHHHHHHHhhcCCCCCEEEEecCCCC
Confidence 45 44555555443 334799999866655
No 387
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=29.03 E-value=1.3e+02 Score=23.13 Aligned_cols=48 Identities=10% Similarity=0.065 Sum_probs=31.3
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccc
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLK 135 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 135 (148)
.+.+..+++-.|++++......+..++|..+ .++|+|.+-+-|+|...
T Consensus 249 ~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l---~~~d~ILVDTaGrs~~D 296 (407)
T COG1419 249 VEQLKTYADIMGVPLEVVYSPKELAEAIEAL---RDCDVILVDTAGRSQYD 296 (407)
T ss_pred HHHHHHHHHHhCCceEEecCHHHHHHHHHHh---hcCCEEEEeCCCCCccC
Confidence 3446666666788877754333444555444 34799999999999744
No 388
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=28.96 E-value=1.7e+02 Score=20.24 Aligned_cols=40 Identities=5% Similarity=0.256 Sum_probs=28.0
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEE
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g 127 (148)
.+-+++.++..|++++... .+...++..++..++|+++-+
T Consensus 53 vdi~~~ia~~lg~~i~~~~---~pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 53 IDLAKELCKRINTQCTFVE---NPLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred HHHHHHHHHHcCCceEEEe---CCHHHHHHHHHCCCCCEEEec
Confidence 3445555566677777654 368888899999999977643
No 389
>PRK10474 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=28.75 E-value=1.2e+02 Score=17.44 Aligned_cols=43 Identities=12% Similarity=0.003 Sum_probs=22.9
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHH--HHHhhcCCcEEEEEecCC
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKIC--EAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~--~~a~~~~~dliV~g~~~~ 131 (148)
.+.+.+++.|+++.+......-.+..+ +-+.. +|+||+.....
T Consensus 5 aL~~aA~~~G~~i~VEtqg~~g~~~~lt~~~i~~--Ad~VIia~d~~ 49 (88)
T PRK10474 5 ALESAAKAKGWEVKVETQGSIGLENELTAEDVAS--ADMVILTKDIG 49 (88)
T ss_pred HHHHHHHHCCCeEEEEecCCcCcCCCCCHHHHHh--CCEEEEEecCC
Confidence 355556677887776664322111111 12233 89998866543
No 390
>PRK00861 putative lipid kinase; Reviewed
Probab=28.70 E-value=2.2e+02 Score=20.36 Aligned_cols=50 Identities=6% Similarity=0.120 Sum_probs=27.0
Q ss_pred HHHHHHhhhcCceEEEEEeeC-ChhHHHHHHHhhcCCcEEEEEecCCCcccee
Q 032042 86 DIVNTVARQKQIVVVMKIFWG-DPREKICEAIDKIPLSCLVIGNRGLGKLKRL 137 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~ 137 (148)
+.+...+.+ +.+++...... ..+..+.+.+...++|+||+ ..|.+.+..+
T Consensus 23 ~~i~~~l~~-~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vv~-~GGDGTl~ev 73 (300)
T PRK00861 23 ALIRAILEP-EMDLDIYLTTPEIGADQLAQEAIERGAELIIA-SGGDGTLSAV 73 (300)
T ss_pred HHHHHHHHh-cCceEEEEccCCCCHHHHHHHHHhcCCCEEEE-ECChHHHHHH
Confidence 344444443 35555544432 34566666666677887766 3455554443
No 391
>PRK09016 quinolinate phosphoribosyltransferase; Validated
Probab=28.68 E-value=2.3e+02 Score=20.74 Aligned_cols=34 Identities=9% Similarity=0.072 Sum_probs=23.1
Q ss_pred EEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 99 VVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 99 ~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
+...+..|-..+.|.+||+ .++|.|++|+--++.
T Consensus 253 ~~ieaSGGI~~~ni~~yA~-tGVD~Is~galthsa 286 (296)
T PRK09016 253 ALLEVSGNVTLETLREFAE-TGVDFISVGALTKHV 286 (296)
T ss_pred eEEEEECCCCHHHHHHHHh-cCCCEEEeCccccCC
Confidence 3333333444688888877 489999999877663
No 392
>TIGR01090 apt adenine phosphoribosyltransferase. A phylogenetic analysis suggested omitting the bi-directional best hit homologs from the spirochetes from the seed for this model and making only tentative predictions of adenine phosphoribosyltransferase function for this lineage.
Probab=28.67 E-value=1.5e+02 Score=19.22 Aligned_cols=38 Identities=16% Similarity=0.173 Sum_probs=27.1
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
++||+ +|+-=.+-..+..+.+..++.|+++..+.++-.
T Consensus 110 k~VLI-VDDIitTG~Tl~~a~~~L~~~Ga~~v~~~~l~~ 147 (169)
T TIGR01090 110 QRVLI-VDDLLATGGTAEATDELIRKLGGEVVEAAFLIE 147 (169)
T ss_pred CEEEE-EeccccchHHHHHHHHHHHHcCCEEEEEEEEEE
Confidence 56666 576667777888888888888887666666543
No 393
>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=28.64 E-value=1.8e+02 Score=19.22 Aligned_cols=46 Identities=15% Similarity=0.218 Sum_probs=27.0
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhc--CCcEEEEEe
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKI--PLSCLVIGN 128 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~--~~dliV~g~ 128 (148)
+.++++.+......+-+-..+...+-.+.|....+.. ++|.+|+-.
T Consensus 46 ~~~~~~~~aia~ADii~~smlF~ed~v~~l~~~L~~~r~~~~a~i~~~ 93 (164)
T PF11965_consen 46 EALEECEAAIARADIIFGSMLFIEDHVRPLLPALEARRDHCPAMIIFE 93 (164)
T ss_pred HHHHHHHHHHHhCCEEEeehhhhHHHHHHHHHHHHHHHccCCEEEEEc
Confidence 4455566666665665555554456666676666544 677666543
No 394
>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=28.62 E-value=1.2e+02 Score=22.21 Aligned_cols=22 Identities=27% Similarity=0.528 Sum_probs=18.1
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+..+.++.+++ +|+||+|..+
T Consensus 172 ~~~p~vl~AI~~--AD~IVlGPgs 193 (303)
T cd07186 172 RPAPEVLEAIED--ADLVIIGPSN 193 (303)
T ss_pred CCCHHHHHHHHh--CCEEEECCCc
Confidence 567888888888 9999999665
No 395
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=28.53 E-value=1.6e+02 Score=18.65 Aligned_cols=39 Identities=10% Similarity=0.168 Sum_probs=26.8
Q ss_pred HHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 88 VNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
+....++.|++++.... +...+.+......+|+.+.+..
T Consensus 30 ~~~~~~~~g~~~~~~~~---~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 30 AKAIAKELGLKVEFVEV---SFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred HHHHHHHhCCeEEEEec---cHHHHHHHHHCCcccEEecccc
Confidence 34444455776666543 6677888888899999987643
No 396
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=28.51 E-value=2.7e+02 Score=21.30 Aligned_cols=34 Identities=21% Similarity=0.201 Sum_probs=24.3
Q ss_pred EEeeCChhHHHHHHHhhcCCcEEEEEecCCCccc
Q 032042 102 KIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLK 135 (148)
Q Consensus 102 ~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 135 (148)
.+..+.....+.+.+++.++||+|=|+....++-
T Consensus 342 ~v~~~~D~~~l~~~i~~~~pDllig~~~~~~pl~ 375 (427)
T PRK02842 342 RIVEGQDVERQLDRIRALRPDLVVCGLGLANPLE 375 (427)
T ss_pred EEEECCCHHHHHHHHHHcCCCEEEccCccCCchh
Confidence 4455555777788899999999998865444443
No 397
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=28.46 E-value=2.1e+02 Score=20.05 Aligned_cols=47 Identities=13% Similarity=-0.005 Sum_probs=25.7
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCCh--hHHHHHHHhhcCCcEEEEEec
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDP--REKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~I~~~a~~~~~dliV~g~~ 129 (148)
+..+.+.+.+++.|+.+.......++ ....++.....++|-||++..
T Consensus 43 ~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~ 91 (295)
T PRK10653 43 SLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPT 91 (295)
T ss_pred HHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCC
Confidence 55556666666777765543332333 233444455567776666543
No 398
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=28.44 E-value=1.4e+02 Score=18.06 Aligned_cols=41 Identities=15% Similarity=0.152 Sum_probs=28.0
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCc-EEEEEec
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLS-CLVIGNR 129 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~d-liV~g~~ 129 (148)
.+.+.++..|+.++.... . ....-+++|+..++. +|++|..
T Consensus 46 ~la~~LR~~gi~v~~d~~-~-sl~kqlk~A~k~g~~~~iiiG~~ 87 (121)
T cd00858 46 EISEELRELGFSVKYDDS-G-SIGRRYARQDEIGTPFCVTVDFD 87 (121)
T ss_pred HHHHHHHHCCCEEEEeCC-C-CHHHHHHHhHhcCCCEEEEECcC
Confidence 455556777998888776 4 455556788888888 5555644
No 399
>PRK05848 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=28.42 E-value=2.2e+02 Score=20.44 Aligned_cols=26 Identities=15% Similarity=0.072 Sum_probs=18.5
Q ss_pred CCh-hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 106 GDP-REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 106 g~~-~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
|.. .+.+.++++ .++|.|++|+--++
T Consensus 236 GgIt~~ni~~ya~-~GvD~IsvG~l~~s 262 (273)
T PRK05848 236 GNITLENINAYAK-SGVDAISSGSLIHQ 262 (273)
T ss_pred CCCCHHHHHHHHH-cCCCEEEeChhhcC
Confidence 443 567777766 58999999987653
No 400
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=28.36 E-value=91 Score=21.98 Aligned_cols=42 Identities=17% Similarity=0.238 Sum_probs=32.3
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
+.+.++|++..+......++.+ ..|+..|++++++.-.+..+
T Consensus 174 ~~~Dv~I~iS~sg~~~~~~~~~-~~ak~~ga~iI~IT~~~~s~ 215 (278)
T PRK11557 174 SPDDLLLAISYSGERRELNLAA-DEALRVGAKVLAITGFTPNA 215 (278)
T ss_pred CCCCEEEEEcCCCCCHHHHHHH-HHHHHcCCCEEEEcCCCCCc
Confidence 3567899999988877766655 56888999999988876554
No 401
>PRK08558 adenine phosphoribosyltransferase; Provisional
Probab=28.30 E-value=1.1e+02 Score=21.36 Aligned_cols=39 Identities=21% Similarity=0.085 Sum_probs=29.3
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
-+++|| +|+--.+-..+..+++++++.|+++..+.++-.
T Consensus 176 G~rVLI-VDDvi~TG~Tl~~~~~ll~~~ga~vvgv~vlv~ 214 (238)
T PRK08558 176 GDRVLI-VDDIIRSGETQRALLDLARQAGADVVGVFFLIA 214 (238)
T ss_pred cCEEEE-EecccccCHHHHHHHHHHHHcCCEEEEEEEEEe
Confidence 467777 565556667778888999999999888777653
No 402
>PRK05667 dnaG DNA primase; Validated
Probab=28.29 E-value=1.4e+02 Score=24.12 Aligned_cols=34 Identities=18% Similarity=0.237 Sum_probs=25.8
Q ss_pred cEEEEEecCCHhHHHHHHHHHhh---cccCCCEEEEE
Q 032042 5 RRVGVAVDFSACSKKALQWAADN---VVRNGDHLILV 38 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~l---a~~~~~~v~ll 38 (148)
.+|+++.|+++....|...++.. ....+..+.++
T Consensus 297 ~~vil~~D~D~AG~~aa~r~~~~~~~l~~~g~~v~vv 333 (580)
T PRK05667 297 DEVILCFDGDKAGRKAALRALELALPLLKDGRQVRVA 333 (580)
T ss_pred CeEEEEeCCCHHHHHHHHHHHHHHHHHHhCCceEEEE
Confidence 47999999999999988888887 44455555544
No 403
>PRK08349 hypothetical protein; Validated
Probab=27.96 E-value=1.8e+02 Score=19.40 Aligned_cols=34 Identities=12% Similarity=-0.024 Sum_probs=26.2
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
+++++++.|.-+|.-++-++.. .+.+|..+|+..
T Consensus 1 ~~~vvllSGG~DS~v~~~~l~~----~g~~v~av~~d~ 34 (198)
T PRK08349 1 MKAVALLSSGIDSPVAIYLMLR----RGVEVYPVHFRQ 34 (198)
T ss_pred CcEEEEccCChhHHHHHHHHHH----cCCeEEEEEEeC
Confidence 4688999998888877765544 467899999975
No 404
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=27.92 E-value=1.4e+02 Score=24.82 Aligned_cols=43 Identities=9% Similarity=-0.048 Sum_probs=28.1
Q ss_pred HHHHHHhhhcCceEEEEEeeC-ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFWG-DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
..+...+...|+++. ...+ .+.+.+++.+.+.++|+|++.+..
T Consensus 600 ~fv~~~l~~~GfeV~--~~~~~~s~e~~v~aa~~~~a~ivvlcs~d 643 (714)
T PRK09426 600 KVIATAFADLGFDVD--IGPLFQTPEEAARQAVENDVHVVGVSSLA 643 (714)
T ss_pred HHHHHHHHhCCeeEe--cCCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 344555555566662 2112 456788899999999999986544
No 405
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.83 E-value=56 Score=25.74 Aligned_cols=34 Identities=6% Similarity=0.051 Sum_probs=23.7
Q ss_pred hHHHHHHHhhcCCcEEEEEecCCCccceeecccc
Q 032042 109 REKICEAIDKIPLSCLVIGNRGLGKLKRLDFINI 142 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~Gs~ 142 (148)
+..-+++|+..+.|.|.|-+-||-.-..-+++|.
T Consensus 455 ak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l 488 (587)
T KOG0781|consen 455 AKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSL 488 (587)
T ss_pred HHHHHHHHHhcCCCEEEEeccccccCChhHHHHH
Confidence 5666788888888888887777665544444443
No 406
>cd00019 AP2Ec AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-hexulose 3-phosphate to D-fructose 6-phosphate, via cleaving the phosphoesterbond with the sugar.
Probab=27.73 E-value=1.8e+02 Score=20.44 Aligned_cols=24 Identities=17% Similarity=0.123 Sum_probs=18.2
Q ss_pred HHHHHHHHHhhcccCCCEEEEEEE
Q 032042 17 SKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 17 s~~al~~a~~la~~~~~~v~ll~v 40 (148)
+..-++.++.+|+..+++...+|.
T Consensus 83 ~~~~~~~~i~~A~~lG~~~v~~~~ 106 (279)
T cd00019 83 SIERLKDEIERCEELGIRLLVFHP 106 (279)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECC
Confidence 445678889999999998766554
No 407
>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=27.68 E-value=71 Score=20.32 Aligned_cols=25 Identities=12% Similarity=0.446 Sum_probs=16.7
Q ss_pred hHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 109 REKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
...+++.++..++|+|++-+.|.+.
T Consensus 80 ~~~~~~~~~~~~~D~iiIDtaG~~~ 104 (148)
T cd03114 80 TPEVIRVLDAAGFDVIIVETVGVGQ 104 (148)
T ss_pred HHHHHHHHHhcCCCEEEEECCccCh
Confidence 3445566666678888887766553
No 408
>PF02952 Fucose_iso_C: L-fucose isomerase, C-terminal domain; InterPro: IPR015888 L-fucose isomerase (5.3.1.25 from EC) converts the aldose L-fucose into the corresponding ketose L-fuculose during the first step in fucose metabolism using Mn2+ as a cofactor. The enzyme is a hexamer, forming the largest structurally known ketol isomerase, and has no sequence or structural similarity with other ketol isomerases. The structure was determined by X-ray crystallography at 2.5 A resolution []. This entry represents the C-terminal domain of L-fucose isomerase.; GO: 0008736 L-fucose isomerase activity, 0006004 fucose metabolic process, 0005737 cytoplasm; PDB: 1FUI_E 3A9R_A 3A9T_C 3A9S_C.
Probab=27.65 E-value=1e+02 Score=19.34 Aligned_cols=33 Identities=15% Similarity=0.292 Sum_probs=22.5
Q ss_pred hcCceEEEEEeeCChhHHHHHHHhhcCCcEEEE
Q 032042 94 QKQIVVVMKIFWGDPREKICEAIDKIPLSCLVI 126 (148)
Q Consensus 94 ~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~ 126 (148)
+.++.-++.+..|+..+.|.+.++-.+++.+.|
T Consensus 109 ~~g~~hH~~~~~G~~~~~l~~~~~~lgi~v~~~ 141 (142)
T PF02952_consen 109 ENGIAHHVALVYGDYAEELKELAKYLGIEVVEM 141 (142)
T ss_dssp HT-SSSEEEEEES--HHHHHHHHHHHT--EE-E
T ss_pred hCCCCCeEEEEcCcHHHHHHHHHHHcCCEEEEc
Confidence 456666777888999999999999999988765
No 409
>PRK04148 hypothetical protein; Provisional
Probab=27.47 E-value=94 Score=19.71 Aligned_cols=30 Identities=23% Similarity=0.218 Sum_probs=23.3
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
+.-..|++.|++.++|++|.--.+..+...
T Consensus 89 el~~~~~~la~~~~~~~~i~~l~~e~~~~~ 118 (134)
T PRK04148 89 DLQPFILELAKKINVPLIIKPLSGEEPIKE 118 (134)
T ss_pred HHHHHHHHHHHHcCCCEEEEcCCCCCCCcc
Confidence 445788999999999999997766655443
No 410
>TIGR03234 OH-pyruv-isom hydroxypyruvate isomerase. This enzyme interconverts tartronate semi-aldehyde (TSA, aka 2-hydroxy 3-oxopropionate) and hydroxypyruvate. The E. coli enzyme has been characterized and found to be specific for TSA, contain no cofactors, and have a rather high Km for hydroxypyruvate of 12.5 mM. The gene is ofter found in association with glyoxalate carboligase (which produces TSA), but has been shown to have no effect on growth on glyoxalate when knocked out. This is consistent with the fact that the gene for tartronate semialdehyde reductase (glxR) is also associated and may have primary responsibility for the catabolism of TSA.
Probab=27.43 E-value=2.1e+02 Score=19.72 Aligned_cols=80 Identities=10% Similarity=0.020 Sum_probs=43.0
Q ss_pred HHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHHhhhcCc
Q 032042 18 KKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTVARQKQI 97 (148)
Q Consensus 18 ~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (148)
...++.++.+|+..+++...++.-..+. ..... ... +...+.++.+.+.+.+.|+
T Consensus 83 ~~~~~~~i~~a~~lg~~~i~~~~g~~~~--------------------~~~~~-~~~----~~~~~~l~~l~~~A~~~gi 137 (254)
T TIGR03234 83 REGVALAIAYARALGCPQVNCLAGKRPA--------------------GVSPE-EAR----ATLVENLRYAADALDRIGL 137 (254)
T ss_pred HHHHHHHHHHHHHhCCCEEEECcCCCCC--------------------CCCHH-HHH----HHHHHHHHHHHHHHHhcCC
Confidence 4677889999999998765433211100 00000 111 1123556666777777888
Q ss_pred eEEEEEee--------CChhHHHHHHHhhcCCc
Q 032042 98 VVVMKIFW--------GDPREKICEAIDKIPLS 122 (148)
Q Consensus 98 ~~~~~~~~--------g~~~~~I~~~a~~~~~d 122 (148)
.+-.+... ....+.+.+.+++.+.+
T Consensus 138 ~l~lE~~~~~~~~~~~l~t~~~~~~li~~v~~~ 170 (254)
T TIGR03234 138 TLLIEPINSFDMPGFFLTTTEQALAVIDDVGRE 170 (254)
T ss_pred EEEEEECCcccCCCChhcCHHHHHHHHHHhCCC
Confidence 76665421 13356666777665433
No 411
>KOG1336 consensus Monodehydroascorbate/ferredoxin reductase [General function prediction only]
Probab=27.43 E-value=2.7e+02 Score=21.92 Aligned_cols=91 Identities=14% Similarity=-0.011 Sum_probs=54.3
Q ss_pred cEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhh
Q 032042 5 RRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPET 84 (148)
Q Consensus 5 ~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (148)
.+..|++-.+ .-.++.|..+... +..++++|-.+.... . . .....
T Consensus 213 ~~~vV~vG~G---~ig~Evaa~l~~~-~~~VT~V~~e~~~~~----------------~--l-------------f~~~i 257 (478)
T KOG1336|consen 213 GGKVVCVGGG---FIGMEVAAALVSK-AKSVTVVFPEPWLLP----------------R--L-------------FGPSI 257 (478)
T ss_pred CceEEEECch---HHHHHHHHHHHhc-CceEEEEccCccchh----------------h--h-------------hhHHH
Confidence 3445555543 3445555554433 778888876554320 0 0 12355
Q ss_pred HHHHHHHhhhcCceEEEEEe----e----CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 85 LDIVNTVARQKQIVVVMKIF----W----GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~----~----g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.+..++.+.|+++..-.. . |...+..+.-.+...+|++|+|..-
T Consensus 258 ~~~~~~y~e~kgVk~~~~t~~s~l~~~~~Gev~~V~l~dg~~l~adlvv~GiG~ 311 (478)
T KOG1336|consen 258 GQFYEDYYENKGVKFYLGTVVSSLEGNSDGEVSEVKLKDGKTLEADLVVVGIGI 311 (478)
T ss_pred HHHHHHHHHhcCeEEEEecceeecccCCCCcEEEEEeccCCEeccCeEEEeecc
Confidence 66778888888887554322 1 3445566667788889999998654
No 412
>TIGR01334 modD putative molybdenum utilization protein ModD. The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.
Probab=27.18 E-value=2.4e+02 Score=20.33 Aligned_cols=37 Identities=11% Similarity=0.082 Sum_probs=24.7
Q ss_pred ceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 97 IVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 97 ~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
..+...+..|=..+.|.+|++. ++|.|++|+-...+.
T Consensus 234 ~~~~leasGGI~~~ni~~ya~~-GvD~is~gal~~a~~ 270 (277)
T TIGR01334 234 HIPTLAAAGGINPENIADYIEA-GIDLFITSAPYYAAP 270 (277)
T ss_pred CCEEEEEECCCCHHHHHHHHhc-CCCEEEeCcceecCc
Confidence 3444444445557888888775 799999998755443
No 413
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=27.14 E-value=2.1e+02 Score=19.65 Aligned_cols=48 Identities=13% Similarity=0.032 Sum_probs=28.1
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChh--HHHHHHHhhcCCcEEEEEecC
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPR--EKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~I~~~a~~~~~dliV~g~~~ 130 (148)
.....+.+.+++.|+.+......+++. ...++.....++|-||+....
T Consensus 16 ~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~ 65 (282)
T cd06318 16 ALTEAAKAHAKALGYELISTDAQGDLTKQIADVEDLLTRGVNVLIINPVD 65 (282)
T ss_pred HHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCC
Confidence 455566666777777765433333442 234555666778877776543
No 414
>TIGR00169 leuB 3-isopropylmalate dehydrogenase. This model will not find all isopropylmalate dehydrogenases; the enzyme from Sulfolobus sp. strain 7 is more similar to mitochondrial NAD-dependent isocitrate dehydrogenases than to other known isopropylmalate dehydrogenases and was omitted to improve the specificity of the model. It scores below the cutoff and below some enzymes known not to be isopropylmalate dehydrogenase.
Probab=27.12 E-value=80 Score=23.61 Aligned_cols=28 Identities=7% Similarity=-0.020 Sum_probs=21.8
Q ss_pred HhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 15 ACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 15 ~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
..+++.+++|.++|++.+.+|+++|-..
T Consensus 163 ~~~eRI~r~AF~~A~~r~~~Vt~v~KaN 190 (349)
T TIGR00169 163 PEIERIARVAFEMARKRRKKVTSVDKAN 190 (349)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEECCc
Confidence 4678899999999988766777777544
No 415
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=26.79 E-value=2.3e+02 Score=19.94 Aligned_cols=13 Identities=8% Similarity=-0.166 Sum_probs=9.7
Q ss_pred CCccEEEEEecCC
Q 032042 2 DGTRRVGVAVDFS 14 (148)
Q Consensus 2 ~~~~~ILv~~d~s 14 (148)
|..++|..++|..
T Consensus 1 m~~~~iipaiD~~ 13 (258)
T PRK01033 1 MLRPRIIPCLLLK 13 (258)
T ss_pred CCCcEEEEEEEEE
Confidence 3478888888864
No 416
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=26.78 E-value=1.9e+02 Score=21.47 Aligned_cols=42 Identities=17% Similarity=0.056 Sum_probs=23.6
Q ss_pred HHHHHHHhhhcCceEEEEE-eeCCh----hHHHHHHHhhcCCcEEEE
Q 032042 85 LDIVNTVARQKQIVVVMKI-FWGDP----REKICEAIDKIPLSCLVI 126 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~-~~g~~----~~~I~~~a~~~~~dliV~ 126 (148)
.+.+.+.+.+.|+++...- ...+| .+.+.+.+++.++|+||=
T Consensus 43 ~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 89 (357)
T cd08181 43 LDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIG 89 (357)
T ss_pred HHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 3445555666666654321 12233 345666778888887764
No 417
>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=26.51 E-value=75 Score=20.55 Aligned_cols=19 Identities=0% Similarity=0.135 Sum_probs=16.3
Q ss_pred hHHHHHHHhhcCCcEEEEE
Q 032042 109 REKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g 127 (148)
.+.+.++.++.++|+||.-
T Consensus 78 ~~~l~~~l~~~~PD~IIsT 96 (169)
T PF06925_consen 78 ARRLIRLLREFQPDLIIST 96 (169)
T ss_pred HHHHHHHHhhcCCCEEEEC
Confidence 5688999999999998873
No 418
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=26.36 E-value=69 Score=23.66 Aligned_cols=22 Identities=27% Similarity=0.379 Sum_probs=17.8
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+..+.++.+++ +|+||+|..+
T Consensus 178 ~a~~eaveAI~~--AD~IviGPgS 199 (323)
T COG0391 178 SAAPEAVEAIKE--ADLIVIGPGS 199 (323)
T ss_pred CCCHHHHHHHHh--CCEEEEcCCc
Confidence 456778888888 9999999765
No 419
>PRK08194 tartrate dehydrogenase; Provisional
Probab=26.34 E-value=84 Score=23.53 Aligned_cols=28 Identities=14% Similarity=0.245 Sum_probs=22.4
Q ss_pred HhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 15 ACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 15 ~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
..+++.+++|.++|++.+.+|+++|-..
T Consensus 161 ~~~eRI~r~Af~~A~~r~~~Vt~v~KaN 188 (352)
T PRK08194 161 KGTERAMRYAFELAAKRRKHVTSATKSN 188 (352)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEeCcc
Confidence 4678999999999988766788877654
No 420
>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=26.34 E-value=2.8e+02 Score=20.66 Aligned_cols=33 Identities=24% Similarity=0.116 Sum_probs=24.0
Q ss_pred EEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 6 RVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
+|+|++.+.-+|..++..+.+ .+.++..+|+..
T Consensus 1 kVlValSGGvDSsvla~lL~~----~g~~v~~v~i~~ 33 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKE----QGYEVIGVFMKN 33 (349)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEec
Confidence 588999988888777665544 356788888754
No 421
>PF00195 Chal_sti_synt_N: Chalcone and stilbene synthases, N-terminal domain; InterPro: IPR001099 Synonym(s): Chalcone synthase, Flavonone synthase, 6'-deoxychalcone synthase Naringenin-chalcone synthases (2.3.1.74 from EC) and stilbene synthases (STS) (formerly known as resveratrol synthases) are related plant enzymes. CHS is an important enzyme in flavanoid biosynthesis and STS is a key enzyme in stilbene-type phyloalexin biosynthesis. Both enzymes catalyse the addition of three molecules of malonyl-CoA to a starter CoA ester (a typical example is 4-coumaroyl-CoA), producing either a chalcone (with CHS) or stilbene (with STS) []. These enzymes have a conserved cysteine residue, located in the central section of the protein sequence, which is essential for the catalytic activity of both enzymes and probably represents the binding site for the 4-coumaryl-CoA group [].; GO: 0016746 transferase activity, transferring acyl groups, 0009058 biosynthetic process; PDB: 3EUO_B 3EUT_C 3EUQ_D 3E1H_A 3AWK_A 3AWJ_A 2H84_A 3A5S_A 3A5Q_B 3A5R_A ....
Probab=26.26 E-value=1.6e+02 Score=20.54 Aligned_cols=41 Identities=20% Similarity=0.095 Sum_probs=30.4
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhccc-CCCEEEEEEEecC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVR-NGDHLILVTVVPE 43 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~-~~~~v~ll~v~~~ 43 (148)
..+|+.+--=+--..-.+++.|..+++. +++.|.++.+.--
T Consensus 151 ~v~R~~i~~~GC~gg~~~L~~A~~~~~~~p~a~VLvv~vElc 192 (226)
T PF00195_consen 151 DVQRTPIFGMGCAGGAAGLRRAKDIARANPGARVLVVCVELC 192 (226)
T ss_dssp TSEEEEEES-GGGHHHHHHHHHHHHHHHSTT-EEEEEEEEEG
T ss_pred CcEEEEEeccchhhHHHHHHHHHHHHhCCccceEEEEEEEee
Confidence 3567777666777888999999999987 6788888887543
No 422
>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=26.24 E-value=2.4e+02 Score=21.90 Aligned_cols=21 Identities=19% Similarity=0.297 Sum_probs=18.4
Q ss_pred hHHHHHHHhhcCCcEEEEEec
Q 032042 109 REKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+.|++++++.++|++|.|.-
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPa 85 (431)
T TIGR01917 65 KAKVLEMIKGANPDIFIAGPA 85 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCc
Confidence 377899999999999999865
No 423
>TIGR00460 fmt methionyl-tRNA formyltransferase. The top-scoring characterized proteins other than methionyl-tRNA formyltransferase (fmt) itself are formyltetrahydrofolate dehydrogenases. The mitochondrial methionyl-tRNA formyltransferases are so divergent that, in a multiple alignment of bacterial fmt, mitochondrial fmt, and formyltetrahydrofolate dehydrogenases, the mitochondrial fmt appears the most different. However, because both bacterial and mitochondrial fmt are included in the seed alignment, all credible fmt sequences score higher than any non-fmt sequence. This enzyme modifies Met on initiator tRNA to f-Met.
Probab=26.21 E-value=1.3e+02 Score=21.86 Aligned_cols=41 Identities=17% Similarity=0.136 Sum_probs=26.4
Q ss_pred HHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 88 VNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+.+.+.+.|+++..-... + .+.+++..++.++|++|+...+
T Consensus 48 v~~~A~~~~Ipv~~~~~~-~-~~~~~~~l~~~~~Dliv~~~~~ 88 (313)
T TIGR00460 48 VKVLAEEKGIPVFQPEKQ-R-QLEELPLVRELKPDVIVVVSFG 88 (313)
T ss_pred HHHHHHHcCCCEEecCCC-C-cHHHHHHHHhhCCCEEEEccch
Confidence 566677778886432111 1 2356677888899999986554
No 424
>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=26.20 E-value=2.9e+02 Score=20.86 Aligned_cols=28 Identities=14% Similarity=0.118 Sum_probs=20.7
Q ss_pred EEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 102 KIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 102 ~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+..+.....+.+.+++.++|++|-|..
T Consensus 327 ~v~~~~d~~~l~~~i~~~~pDlli~~~~ 354 (396)
T cd01979 327 RIVEKPDNYRQLDRIRELRPDLVVTGLG 354 (396)
T ss_pred eEEECCCHHHHHHHHHhcCCCEEEeccc
Confidence 3445545677778899999999998733
No 425
>PHA02091 hypothetical protein
Probab=26.13 E-value=1.1e+02 Score=16.51 Aligned_cols=26 Identities=8% Similarity=-0.130 Sum_probs=19.9
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
..+..|+++|+. -.|-|+|..+.-++
T Consensus 23 ~larsiv~fak~--r~l~ii~~d~~~w~ 48 (72)
T PHA02091 23 KLARSIVDFAKT--RELQIIQRDRGMWT 48 (72)
T ss_pred HHHHHHHHHHhh--heEEEEecCCceEE
Confidence 457899999998 67888887765543
No 426
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=26.01 E-value=2.3e+02 Score=19.73 Aligned_cols=45 Identities=13% Similarity=0.076 Sum_probs=34.7
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEec
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
...+++++.+.+.|+.+...-+...+.+.|.....+ .|.|.+|..
T Consensus 49 ~Yv~k~~~~l~~lg~~v~~L~l~~~~~~~Ie~~l~~--~d~IyVgGG 93 (224)
T COG3340 49 FYVEKVRNALAKLGLEVSELHLSKPPLAAIENKLMK--ADIIYVGGG 93 (224)
T ss_pred HHHHHHHHHHHHcCCeeeeeeccCCCHHHHHHhhhh--ccEEEECCc
Confidence 456677888888899876655556778889888887 999999743
No 427
>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=25.91 E-value=1.9e+02 Score=18.55 Aligned_cols=53 Identities=9% Similarity=0.048 Sum_probs=34.6
Q ss_pred hhhHHHHHHHhhhcCc---eEEEEEeeC--ChhHHHHHHHhhcCCcEEE-EEe--cCCCcc
Q 032042 82 PETLDIVNTVARQKQI---VVVMKIFWG--DPREKICEAIDKIPLSCLV-IGN--RGLGKL 134 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~---~~~~~~~~g--~~~~~I~~~a~~~~~dliV-~g~--~~~~~~ 134 (148)
.+.++.+.+.+...|+ +++..-+.| +..-++-+.++..++|-+| +|. +|.+.-
T Consensus 19 ~~ll~~a~~~l~~~g~~~~~i~~~~VPGa~ElP~a~~~l~~~~~~Davi~lG~VI~G~T~H 79 (144)
T PF00885_consen 19 DRLLEGALEELKRHGVAEENIEVIRVPGAFELPLAAKRLAESGRYDAVIALGCVIRGETDH 79 (144)
T ss_dssp HHHHHHHHHHHHHTTTTGGCEEEEEESSGGGHHHHHHHHHHCSTESEEEEEEEEE--SSTH
T ss_pred HHHHHHHHHHHHHcCCCccceEEEEcCCHHHHHHHHHHHhcccCccEEEEeccccCCCchH
Confidence 4666677777777887 566666666 5567777778888899655 463 555543
No 428
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=25.90 E-value=39 Score=21.00 Aligned_cols=12 Identities=8% Similarity=0.169 Sum_probs=6.1
Q ss_pred HHHHhhhcCceE
Q 032042 88 VNTVARQKQIVV 99 (148)
Q Consensus 88 ~~~~~~~~~~~~ 99 (148)
+.+.+.+.|+++
T Consensus 57 ~a~~l~~~gvdv 68 (121)
T COG1433 57 IAELLVDEGVDV 68 (121)
T ss_pred HHHHHHHcCCCE
Confidence 444455555553
No 429
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=25.83 E-value=1.7e+02 Score=19.29 Aligned_cols=42 Identities=10% Similarity=0.044 Sum_probs=20.8
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
++..+.+.+.+.. |+.++..-........+ .++|.||+|+.-
T Consensus 15 ~~iA~~Ia~~l~~-g~~v~~~~~~~~~~~~l------~~yD~vIlGspi 56 (177)
T PRK11104 15 RKIASYIASELKE-GIQCDVVNLHRIEEPDL------SDYDRVVIGASI 56 (177)
T ss_pred HHHHHHHHHHhCC-CCeEEEEEhhhcCccCH------HHCCEEEEECcc
Confidence 4555555665654 55544322221111111 237888888765
No 430
>PRK06031 phosphoribosyltransferase; Provisional
Probab=25.68 E-value=1.3e+02 Score=21.08 Aligned_cols=38 Identities=16% Similarity=0.056 Sum_probs=27.7
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
.+|||+ +|+-=.+-..+..++++.+..|+++..+-+.-
T Consensus 154 GkrVLI-VDDVitTG~Tl~aa~~lL~~~Ga~Vvgv~v~v 191 (233)
T PRK06031 154 GRRVAL-IDDVISSGASIVAGLRLLAACGIEPAGIGAAM 191 (233)
T ss_pred CCEEEE-EEeEccccHHHHHHHHHHHHcCCeEEEEEEEE
Confidence 467777 67666777777888888888898876666643
No 431
>PRK07308 flavodoxin; Validated
Probab=25.59 E-value=1.8e+02 Score=18.21 Aligned_cols=45 Identities=16% Similarity=0.039 Sum_probs=24.1
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
++.-+.+.+.+...|+.++..-........+ .++|.||+|+...+
T Consensus 16 e~iA~~ia~~l~~~g~~~~~~~~~~~~~~~l------~~~d~vi~g~~t~g 60 (146)
T PRK07308 16 EEIADIVADKLRELGHDVDVDECTTVDASDF------EDADIAIVATYTYG 60 (146)
T ss_pred HHHHHHHHHHHHhCCCceEEEecccCCHhHh------ccCCEEEEEeCccC
Confidence 4555556666666676655432222111111 34788888887654
No 432
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=25.59 E-value=2.2e+02 Score=21.26 Aligned_cols=43 Identities=23% Similarity=0.175 Sum_probs=24.6
Q ss_pred hHHHHHHHhhhcCceEEEEE-eeCCh----hHHHHHHHhhcCCcEEEE
Q 032042 84 TLDIVNTVARQKQIVVVMKI-FWGDP----REKICEAIDKIPLSCLVI 126 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~-~~g~~----~~~I~~~a~~~~~dliV~ 126 (148)
..+.+.+.+++.|+++...- ...+| .+.+.+.+++.++|.||=
T Consensus 40 ~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 87 (375)
T cd08179 40 FLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIA 87 (375)
T ss_pred hHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 34556666666677654321 12233 355667778888887763
No 433
>PF00148 Oxidored_nitro: Nitrogenase component 1 type Oxidoreductase; InterPro: IPR000510 Enzymes belonging to this family include cofactor-requiring nitrogenases and protochlorophyllide reductase. The key enzymatic reactions in nitrogen fixation are catalysed by the nitrogenase complex, which has two components, the iron protein (component 2), and a component (component 1) which is either a molybdenum-iron, vanadium-iron or iron-iron protein. The enzyme (1.18.6.1 from EC) forms a hexamer of two alpha, two beta and two delta chains. Protochlorophyllide reductase (1.3.1.33 from EC) is involved in the light-dependent accumulation of chlorophyll, probably at the step of reduction of protochlorophyllide to chlorophyllide.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QH1_C 1QH8_A 1H1L_C 1QGU_A 3AEK_C 3AET_C 3AER_C 3AEU_A 3AES_C 3AEQ_C ....
Probab=25.53 E-value=2.9e+02 Score=20.65 Aligned_cols=26 Identities=15% Similarity=0.175 Sum_probs=18.3
Q ss_pred eCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 105 WGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 105 ~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+.....+.+.+++.++|+++-+...
T Consensus 326 ~~~~~~~~~~~l~~~~pdl~ig~~~~ 351 (398)
T PF00148_consen 326 IDPDPEEIEELLEELKPDLLIGSSHE 351 (398)
T ss_dssp ESCBHHHHHHHHHHHT-SEEEESHHH
T ss_pred eCCCHHHHHHHHHhcCCCEEEechhh
Confidence 34445778888888899988876653
No 434
>PRK12361 hypothetical protein; Provisional
Probab=25.43 E-value=1.6e+02 Score=23.34 Aligned_cols=53 Identities=9% Similarity=0.074 Sum_probs=28.1
Q ss_pred hHHHHHHHhhhcCceEEEEEeeC-ChhHHHHHHHhhcCCcEEEEEecCCCccceee
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWG-DPREKICEAIDKIPLSCLVIGNRGLGKLKRLD 138 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~ 138 (148)
..+.+.+.+.+. ++++...... ..+..+.+.+.+.++|+||+ ..|.+.+.+++
T Consensus 261 ~~~~i~~~L~~~-~~~~v~~t~~~~~a~~la~~~~~~~~d~Viv-~GGDGTl~ev~ 314 (547)
T PRK12361 261 YGEQIQRELKAY-FDLTVKLTTPEISAEALAKQARKAGADIVIA-CGGDGTVTEVA 314 (547)
T ss_pred HHHHHHHHHhcC-CceEEEECCCCccHHHHHHHHHhcCCCEEEE-ECCCcHHHHHH
Confidence 344455545443 4444444332 33566766666667787766 34555554443
No 435
>PF01406 tRNA-synt_1e: tRNA synthetases class I (C) catalytic domain; InterPro: IPR015803 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3SP1_B 3TQO_A 3C8Z_B 1LI5_B 1LI7_B 1U0B_B.
Probab=25.43 E-value=2.2e+02 Score=20.88 Aligned_cols=39 Identities=15% Similarity=0.072 Sum_probs=28.9
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCc
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLS 122 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~d 122 (148)
..+.+.+.++..|.++....-..|+.+.|++.|++.+.+
T Consensus 32 ~~D~l~R~L~~~g~~V~~V~NiTDiDDKii~~A~~~g~~ 70 (300)
T PF01406_consen 32 FFDVLRRYLEYLGYDVTYVMNITDIDDKIIKRAREEGVS 70 (300)
T ss_dssp HHHHHHHHHHHTT-EEEEEEEEB-SSHHHHHHHHHTTS-
T ss_pred eHHHHHHHHHHcCCeEEEEEeccccchHHHHHHHhccCC
Confidence 345677777778999888776679999999999987765
No 436
>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=25.38 E-value=67 Score=24.49 Aligned_cols=21 Identities=10% Similarity=0.292 Sum_probs=18.0
Q ss_pred hhHHHHHHHhhcCCcEEEEEe
Q 032042 108 PREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 108 ~~~~I~~~a~~~~~dliV~g~ 128 (148)
..+.|++.|.+.++|+|+++.
T Consensus 30 ~f~eil~~a~~~~vD~VLiaG 50 (405)
T TIGR00583 30 TFEEVLQIAKEQDVDMILLGG 50 (405)
T ss_pred HHHHHHHHHHHcCCCEEEECC
Confidence 368899999999999999964
No 437
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=25.33 E-value=1.9e+02 Score=19.96 Aligned_cols=38 Identities=8% Similarity=0.201 Sum_probs=27.2
Q ss_pred HHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEE
Q 032042 86 DIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVI 126 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~ 126 (148)
+-++..++..|++++... .+...+++.++..++|+++-
T Consensus 54 dl~~~ia~~lg~~~~~~~---~~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 54 DLGNEMCKRMQVKCTWVA---SDFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred HHHHHHHHHhCCceEEEe---CCHHHHHHHHHCCCCCEEEe
Confidence 335555555688877653 46788889999999997764
No 438
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=25.21 E-value=2.6e+02 Score=19.89 Aligned_cols=36 Identities=14% Similarity=0.091 Sum_probs=22.6
Q ss_pred EEEEEecCCH-----hHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 6 RVGVAVDFSA-----CSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~-----~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
+|++=+|.+. .-.+.+..|-.+ +..+.+++++.-.+
T Consensus 1 ~i~ir~Da~~~iG~GHv~Rcl~LA~~l-~~~g~~v~f~~~~~ 41 (279)
T TIGR03590 1 KILFRADASSEIGLGHVMRCLTLARAL-HAQGAEVAFACKPL 41 (279)
T ss_pred CEEEEecCCccccccHHHHHHHHHHHH-HHCCCEEEEEeCCC
Confidence 4777888765 345666666665 34577777765543
No 439
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=25.15 E-value=1e+02 Score=21.79 Aligned_cols=36 Identities=22% Similarity=0.261 Sum_probs=29.3
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEE
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTV 40 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v 40 (148)
...+++.+..+..+...++ ++..|+..|+++.++..
T Consensus 175 ~~D~vI~iS~sG~t~~~~~-~~~~ak~~g~~vI~IT~ 210 (284)
T PRK11302 175 DGDVVVLISHTGRTKSLVE-LAQLARENGATVIAITS 210 (284)
T ss_pred CCCEEEEEeCCCCCHHHHH-HHHHHHHcCCeEEEECC
Confidence 4568899999988888777 55568889999999985
No 440
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=25.10 E-value=93 Score=23.35 Aligned_cols=28 Identities=7% Similarity=-0.033 Sum_probs=22.3
Q ss_pred HhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 15 ACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 15 ~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
..+++.+++|.++|++.+.+|+++|-..
T Consensus 166 ~~~~Ri~r~Af~~A~~r~~~Vt~v~KaN 193 (358)
T PRK00772 166 EEIERIARVAFELARKRRKKVTSVDKAN 193 (358)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEECcc
Confidence 4778899999999988767788877654
No 441
>PRK14690 molybdopterin biosynthesis protein MoeA; Provisional
Probab=25.06 E-value=3.1e+02 Score=21.10 Aligned_cols=46 Identities=15% Similarity=0.140 Sum_probs=28.9
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEEE
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVIG 127 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~g 127 (148)
......+...+++.|.++.......|-.+.|.+..++ .++|+||..
T Consensus 219 dsN~~~L~a~l~~~G~~v~~~~~v~Dd~~~i~~~l~~a~~~~DlIItT 266 (419)
T PRK14690 219 DANRPMLLALARRWGHAPVDLGRVGDDRAALAARLDRAAAEADVILTS 266 (419)
T ss_pred eCHHHHHHHHHHHCCCEEEEEeeeCCCHHHHHHHHHHhCccCCEEEEc
Confidence 3445567777888898876555445555555554433 358988873
No 442
>PF03464 eRF1_2: eRF1 domain 2; InterPro: IPR005141 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination ; PDB: 3AGK_A 2VGN_A 2VGM_A 3J16_A 3IZQ 3IR9_A 3OBW_A 3MCA_B 2QI2_A 3E1Y_D ....
Probab=25.04 E-value=1e+02 Score=19.16 Aligned_cols=20 Identities=20% Similarity=0.240 Sum_probs=8.6
Q ss_pred EEEEEeeCCh--hHHHHHHHhh
Q 032042 99 VVMKIFWGDP--REKICEAIDK 118 (148)
Q Consensus 99 ~~~~~~~g~~--~~~I~~~a~~ 118 (148)
+...+..|.- .+.+.++...
T Consensus 74 ~~~iIiaGPGf~k~~f~~~l~~ 95 (133)
T PF03464_consen 74 VKCIIIAGPGFTKEEFYKYLKA 95 (133)
T ss_dssp CSEEEEEESTTHHHHHHHHHHH
T ss_pred ccEEEEECCHHHHHHHHHHHHH
Confidence 4444444433 3444444433
No 443
>PRK13057 putative lipid kinase; Reviewed
Probab=24.99 E-value=2.6e+02 Score=19.89 Aligned_cols=52 Identities=17% Similarity=0.171 Sum_probs=28.3
Q ss_pred hHHHHHHHhhhcCceEEEEEee-CChhHHHHHHHhhcCCcEEEEEecCCCcccee
Q 032042 84 TLDIVNTVARQKQIVVVMKIFW-GDPREKICEAIDKIPLSCLVIGNRGLGKLKRL 137 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~ 137 (148)
..+.+.+.+++.|+++...... ..-+..+.+.+ ..++|+||+. .|.+.+.++
T Consensus 14 ~~~~i~~~l~~~g~~~~~~~t~~~~~a~~~~~~~-~~~~d~iiv~-GGDGTv~~v 66 (287)
T PRK13057 14 ALAAARAALEAAGLELVEPPAEDPDDLSEVIEAY-ADGVDLVIVG-GGDGTLNAA 66 (287)
T ss_pred hHHHHHHHHHHcCCeEEEEecCCHHHHHHHHHHH-HcCCCEEEEE-CchHHHHHH
Confidence 3456677777778876655543 22234444443 3457877663 455554443
No 444
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=24.98 E-value=2.6e+02 Score=19.88 Aligned_cols=21 Identities=10% Similarity=-0.137 Sum_probs=10.8
Q ss_pred hhHHHHHHHhhcCCcEEEEEe
Q 032042 108 PREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 108 ~~~~I~~~a~~~~~dliV~g~ 128 (148)
....+++.+++.+.+.-+++.
T Consensus 204 ~~~~~~~~~~~~G~~~~~~~~ 224 (312)
T cd06346 204 TGSGILRSAYEQGLFDKFLLT 224 (312)
T ss_pred hHHHHHHHHHHcCCCCceEee
Confidence 344555555555555444443
No 445
>PRK10680 molybdopterin biosynthesis protein MoeA; Provisional
Probab=24.97 E-value=2.7e+02 Score=21.38 Aligned_cols=43 Identities=12% Similarity=-0.036 Sum_probs=26.5
Q ss_pred hHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh--cCCcEEEE
Q 032042 84 TLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK--IPLSCLVI 126 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~--~~~dliV~ 126 (148)
....+...+++.|+++.......|-.+.|.+..++ .++|+||.
T Consensus 205 n~~~l~a~l~~~G~~~~~~~~v~Dd~~~i~~~l~~a~~~~DlvIt 249 (411)
T PRK10680 205 NRLAVHLMLEQLGCEVINLGIIRDDPHALRAAFIEADSQADVVIS 249 (411)
T ss_pred HHHHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHhccCCCEEEE
Confidence 33456777778888765544445555555555433 46898887
No 446
>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=24.95 E-value=2.6e+02 Score=20.99 Aligned_cols=45 Identities=13% Similarity=-0.052 Sum_probs=30.9
Q ss_pred HHHHHHhhhcCceEEEEEee----CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 86 DIVNTVARQKQIVVVMKIFW----GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~----g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+.+...+++.|++++...-. +-..+.+.++.++.++|++|+..-.
T Consensus 241 ~~i~~~~~~~g~~~~~i~g~ldey~~~g~~~~~~~~~~~~d~~~~~gvp 289 (352)
T TIGR03282 241 EVILSDFDATGLEYDYITGGLDEYPVTGEKAAEIIEDEDPDFAVITGVP 289 (352)
T ss_pred HHHHHHHHhcCCcceeeecccccccccHHHHHHHHHhcCCCEEEEeCCC
Confidence 34445566678888765531 3446888888899999999885443
No 447
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=24.95 E-value=1.3e+02 Score=21.42 Aligned_cols=42 Identities=19% Similarity=0.180 Sum_probs=32.0
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCC
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGG 45 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~ 45 (148)
+...+++.+..+......+ .++..|+..|++++++.-.+..+
T Consensus 186 ~~~Dl~I~iS~sG~t~~~~-~~~~~ak~~g~~ii~IT~~~~s~ 227 (292)
T PRK11337 186 QEGDVVLVVSHSGRTSDVI-EAVELAKKNGAKIICITNSYHSP 227 (292)
T ss_pred CCCCEEEEEeCCCCCHHHH-HHHHHHHHCCCeEEEEeCCCCCh
Confidence 3467888899888777655 46666888999999988876554
No 448
>PLN02152 indole-3-acetate beta-glucosyltransferase
Probab=24.93 E-value=1.7e+02 Score=22.75 Aligned_cols=42 Identities=14% Similarity=0.181 Sum_probs=34.4
Q ss_pred CCCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 1 MDGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
|.+..-++||+-....-...++.|..++...|..|++++...
T Consensus 1 ~~~~hvv~~P~p~qGHi~P~l~La~~La~~~G~~vT~v~t~~ 42 (455)
T PLN02152 1 MAPPHFLLVTFPAQGHVNPSLRFARRLIKTTGTRVTFATCLS 42 (455)
T ss_pred CCCcEEEEecCcccccHHHHHHHHHHHhhCCCcEEEEEeccc
Confidence 555567889998888889999999999865688899888753
No 449
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=24.78 E-value=2.3e+02 Score=19.26 Aligned_cols=47 Identities=13% Similarity=0.246 Sum_probs=28.3
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChh--HHHHHHHhhcCCcEEEEEec
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPR--EKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~I~~~a~~~~~dliV~g~~ 129 (148)
+..+.+.+.+++.|+.+......+++. ..+++.....++|-||+...
T Consensus 16 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~ 64 (264)
T cd06274 16 RIAKRLEALARERGYQLLIACSDDDPETERETVETLIARQVDALIVAGS 64 (264)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCC
Confidence 455556666667777766654444442 34566666677886666543
No 450
>TIGR02700 flavo_MJ0208 archaeoflavoprotein, MJ0208 family. This model describes one of two paralogous families of archaealflavoprotein. The other, described by TIGR02699 and typified by the partially characterized AF1518 of Archaeoglobus fulgidus, is a homodimeric FMN-containing flavoprotein that accepts electrons from ferredoxin and can transfer them to various oxidoreductases. The function of this protein family is unknown.
Probab=24.78 E-value=1.6e+02 Score=20.46 Aligned_cols=37 Identities=8% Similarity=-0.038 Sum_probs=27.4
Q ss_pred EEEEEecCCHhH-HHHHHHHHhhcccC-CCEEEEEEEec
Q 032042 6 RVGVAVDFSACS-KKALQWAADNVVRN-GDHLILVTVVP 42 (148)
Q Consensus 6 ~ILv~~d~s~~s-~~al~~a~~la~~~-~~~v~ll~v~~ 42 (148)
||++++.++..+ ..+++.+..+.+.+ |.+|.++-...
T Consensus 1 ~i~~~itGs~~~~~~~~~l~~~L~~~~~g~~V~vv~T~~ 39 (234)
T TIGR02700 1 RIGWGITGAGHLLVESFQVMKELKREIEELRVSTFVSRA 39 (234)
T ss_pred CeEEEEeCccHhHHHHHHHHHHHHhhcCCCeEEEEEChh
Confidence 689999996555 78888888877663 67877766543
No 451
>COG1810 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.73 E-value=2.5e+02 Score=19.61 Aligned_cols=31 Identities=13% Similarity=0.077 Sum_probs=22.8
Q ss_pred CChhHHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 106 GDPREKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 106 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
.|..-++.+.+.+.+...||+++....+++.
T Consensus 66 PDl~~~L~e~~~~~~~~alIvp~~~~~g~rk 96 (224)
T COG1810 66 PDLLLALPEKAAEGGVKALIVPAEPPEGLRK 96 (224)
T ss_pred ccHHHHHHHHHHhCCccEEEEecCCChhHHH
Confidence 4667788888888889988888776554443
No 452
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=24.67 E-value=2.3e+02 Score=19.21 Aligned_cols=51 Identities=10% Similarity=0.038 Sum_probs=32.4
Q ss_pred hhHHHHHHHhhhcCceEEEE-EeeCChh--HHHHHHHhhcCCcEEEEEecCCCc
Q 032042 83 ETLDIVNTVARQKQIVVVMK-IFWGDPR--EKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~-~~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
...+-+.+.+++.|..+.+. -..+++. ...++.+-..++|-||+.......
T Consensus 15 ~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~ 68 (257)
T PF13407_consen 15 QVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDS 68 (257)
T ss_dssp HHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSSTTT
T ss_pred HHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHH
Confidence 45566777777778887775 3334553 344455556679988887665543
No 453
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=24.66 E-value=1.1e+02 Score=24.69 Aligned_cols=37 Identities=16% Similarity=0.079 Sum_probs=24.7
Q ss_pred cEEEEEecCCHhH-HHHHHHHHhhcccCCCEEEEEEEec
Q 032042 5 RRVGVAVDFSACS-KKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 5 ~~ILv~~d~s~~s-~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
+.|+|.+|+.+.+ ..+++.+ ..++..+.+|++++|-.
T Consensus 151 KVVILLTDG~sns~~dvleaA-q~LR~~GVeI~vIGVG~ 188 (576)
T PTZ00441 151 QLVILMTDGIPNSKYRALEES-RKLKDRNVKLAVIGIGQ 188 (576)
T ss_pred eEEEEEecCCCCCcccHHHHH-HHHHHCCCEEEEEEeCC
Confidence 5677778887644 3444444 34566789999999954
No 454
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=24.61 E-value=3e+02 Score=20.44 Aligned_cols=38 Identities=16% Similarity=0.056 Sum_probs=28.9
Q ss_pred CccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 3 GTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
+.+++.+..| ++.+...++.....+...+.+|....+.
T Consensus 117 ~wk~vailYd-sd~gl~~lq~l~~~~~~~g~~V~~~~~~ 154 (370)
T cd06389 117 QWDKFAYLYD-SDRGLSTLQAVLDSAAEKKWQVTAINVG 154 (370)
T ss_pred CCcEEEEEec-CchHHHHHHHHHHhhccCCceEEEEEee
Confidence 4688888888 5688888888888888888777655543
No 455
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=24.58 E-value=1e+02 Score=22.17 Aligned_cols=46 Identities=22% Similarity=0.274 Sum_probs=33.2
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
.+.+..+.+...+.|..+.+.+..-.-.+.+.++ +|+|=+|+|...
T Consensus 95 e~gL~~l~~a~~~~Gl~vvtEvm~~~~~e~~~~y-----~DilqvGARNMQ 140 (286)
T COG2876 95 EEGLKLLKRAADETGLPVVTEVMDVRDVEAAAEY-----ADILQVGARNMQ 140 (286)
T ss_pred HHHHHHHHHHHHHcCCeeEEEecCHHHHHHHHhh-----hhHHHhcccchh
Confidence 4667777777788899999988754334444444 788888888755
No 456
>COG1162 Predicted GTPases [General function prediction only]
Probab=24.58 E-value=2.9e+02 Score=20.30 Aligned_cols=44 Identities=18% Similarity=0.209 Sum_probs=26.7
Q ss_pred HHHHHhhhcCceEEEEE-eeCChhHHHHHHHhhcCCcEEEEEecCCC
Q 032042 87 IVNTVARQKQIVVVMKI-FWGDPREKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~-~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
+......+.|+.+-..- ..++..+.+.++.+.. -.+++|..|=+
T Consensus 132 ~~~~~y~~~gy~v~~~s~~~~~~~~~l~~~l~~~--~svl~GqSGVG 176 (301)
T COG1162 132 ELLREYEDIGYPVLFVSAKNGDGLEELAELLAGK--ITVLLGQSGVG 176 (301)
T ss_pred HHHHHHHhCCeeEEEecCcCcccHHHHHHHhcCC--eEEEECCCCCc
Confidence 34444555677644433 3456677777776653 67777887744
No 457
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=24.54 E-value=2.3e+02 Score=21.25 Aligned_cols=43 Identities=16% Similarity=0.201 Sum_probs=25.8
Q ss_pred HHHHHHHhhhcCceEEEEE-eeCCh----hHHHHHHHhhcCCcEEE-EE
Q 032042 85 LDIVNTVARQKQIVVVMKI-FWGDP----REKICEAIDKIPLSCLV-IG 127 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~-~~g~~----~~~I~~~a~~~~~dliV-~g 127 (148)
.+.+.+.+++.|+++.... ...+| .+.+.+.+++.++|+|| +|
T Consensus 44 ~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 92 (383)
T cd08186 44 WDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIG 92 (383)
T ss_pred HHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 4455566666677654321 12233 46677778888999877 44
No 458
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=24.41 E-value=1.7e+02 Score=17.71 Aligned_cols=23 Identities=9% Similarity=0.209 Sum_probs=15.0
Q ss_pred hhHHHHHHHhhcCCcE-EEEEecC
Q 032042 108 PREKICEAIDKIPLSC-LVIGNRG 130 (148)
Q Consensus 108 ~~~~I~~~a~~~~~dl-iV~g~~~ 130 (148)
....+.+.+++..++. ||+|...
T Consensus 54 ~~~~~~~~ik~~~p~~~iv~GG~~ 77 (127)
T cd02068 54 EALELAKIAKEVLPNVIVVVGGPH 77 (127)
T ss_pred HHHHHHHHHHHHCCCCEEEECCcc
Confidence 4677888888888764 4445443
No 459
>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=24.27 E-value=3.1e+02 Score=20.55 Aligned_cols=26 Identities=4% Similarity=0.160 Sum_probs=20.0
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGD 107 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~ 107 (148)
.+..+.+.+.++..|+.+..+-..|.
T Consensus 300 ~~~~~~F~~~L~~~gi~~tvR~s~G~ 325 (345)
T PRK14466 300 MARMEAFRDYLTSHGVFTTIRASRGE 325 (345)
T ss_pred HHHHHHHHHHHHHCCCcEEEeCCCCC
Confidence 46677788888889998888766563
No 460
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=24.27 E-value=4.3e+02 Score=22.53 Aligned_cols=85 Identities=15% Similarity=0.112 Sum_probs=55.3
Q ss_pred EEEEecCCHhHHHHHHHHHhhcccC-----CCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCC
Q 032042 7 VGVAVDFSACSKKALQWAADNVVRN-----GDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPD 81 (148)
Q Consensus 7 ILv~~d~s~~s~~al~~a~~la~~~-----~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
.+++=.+|.-...|+-.++...... ...|.++|+.|-.. ..
T Consensus 41 LiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkA----------------------------------Ln 86 (814)
T COG1201 41 LIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKA----------------------------------LN 86 (814)
T ss_pred EEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHH----------------------------------HH
Confidence 3444456666666666666554443 34588888866321 12
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEE
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIG 127 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g 127 (148)
+..+..+.......|+++ .++.||..+.=-+.-....+|+++..
T Consensus 87 ~Di~~rL~~~~~~~G~~v--~vRhGDT~~~er~r~~~~PPdILiTT 130 (814)
T COG1201 87 NDIRRRLEEPLRELGIEV--AVRHGDTPQSEKQKMLKNPPHILITT 130 (814)
T ss_pred HHHHHHHHHHHHHcCCcc--ceecCCCChHHhhhccCCCCcEEEeC
Confidence 455666677777778888 56668877777777777788988874
No 461
>cd01297 D-aminoacylase D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics.
Probab=24.27 E-value=3.2e+02 Score=20.69 Aligned_cols=28 Identities=11% Similarity=-0.032 Sum_probs=22.1
Q ss_pred hHHHHHHHHHhhcccCCCEEEEEEEecC
Q 032042 16 CSKKALQWAADNVVRNGDHLILVTVVPE 43 (148)
Q Consensus 16 ~s~~al~~a~~la~~~~~~v~ll~v~~~ 43 (148)
....+++.++.+++..+.++++.|+...
T Consensus 225 ~e~~av~~~~~~a~~~g~r~~i~H~ss~ 252 (415)
T cd01297 225 SILEALDELLRLGRETGRPVHISHLKSA 252 (415)
T ss_pred cHHHHHHHHHHHHHHhCCCEEEEEEecC
Confidence 4567888888888888888888888754
No 462
>cd04725 OMP_decarboxylase_like Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two domains: the orotate phosphoribosyltransferase (OPRTase) domain that catalyzes the transfer of phosphoribosyl 5'-pyrophosphate (PRPP) to orotate to form OMP, and the orotidine-5'-phosphate decarboxylase (ODCase) domain that decarboxylates OMP to form UMP.
Probab=24.22 E-value=2.4e+02 Score=19.23 Aligned_cols=26 Identities=19% Similarity=0.078 Sum_probs=15.3
Q ss_pred EEEEecCCHhHHHHHHHHHhhcccCCCEEEE
Q 032042 7 VGVAVDFSACSKKALQWAADNVVRNGDHLIL 37 (148)
Q Consensus 7 ILv~~d~s~~s~~al~~a~~la~~~~~~v~l 37 (148)
+.|++|.++. +++.++++..+..+..
T Consensus 1 livALD~~~~-----~~a~~i~~~~~~~v~~ 26 (216)
T cd04725 1 LIVALDPPDE-----EFALALIDALGPYVCA 26 (216)
T ss_pred CEEEeCCCCH-----HHHHHHHHhcCCcccE
Confidence 4678887644 4555555555555443
No 463
>PF02126 PTE: Phosphotriesterase family; InterPro: IPR001559 Synonym(s): Paraoxonase, A-esterase, Aryltriphosphatase, Phosphotriesterase, Paraoxon hydrolase Bacteria such as Brevundimonas diminuta (Pseudomonas diminuta) harbour a plasmid that carries the gene for Aryldialkylphosphatase (3.1.8.1 from EC) (PTE) (also known as parathion hydrolase). This enzyme has attracted interest because of its potential use in the detoxification of chemical waste and warfare agents and its ability to degrade agricultural pesticides such as parathion. It acts specifically on synthetic organophosphate triesters and phosphorofluoridates. It does not seem to have a natural occuring substrate and may thus have optimally evolved for utilizing paraoxon. Aryldialkylphosphatase belongs to a family [, ] of enzymes that possess a binuclear zinc metal centre at their active site. The two zinc ions are coordinated by six different residues, six of which being histidines. This family so far includes, in addition to the parathion hydrolase, the following proteins: Escherichia coli protein Php, the substrate of which is not yet known. Mycobacterium tuberculosis phosphotriesterase homology protein Rv0230C. Mammalian phosphotriesterase related protein (PTER) (RPR-1). ; GO: 0008270 zinc ion binding, 0016788 hydrolase activity, acting on ester bonds, 0009056 catabolic process; PDB: 3MSR_A 3OVG_D 3K2G_C 1BF6_B 3OQE_A 3C86_A 3SO7_A 2D2G_A 2R1P_A 2D2H_A ....
Probab=24.18 E-value=1.4e+02 Score=21.82 Aligned_cols=49 Identities=10% Similarity=0.112 Sum_probs=31.8
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCC-hhHHHHHHHhhcCCc--EEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGD-PREKICEAIDKIPLS--CLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~-~~~~I~~~a~~~~~d--liV~g~~~ 130 (148)
++.++.+.....+.|+++.++...+. ...++++..++.++| -||+|--.
T Consensus 141 ~k~lrAaa~A~~~TG~pI~~H~~~g~~~~~e~~~il~e~Gv~~~rvvigH~D 192 (308)
T PF02126_consen 141 EKVLRAAARAHKETGAPISTHTGRGTRMGLEQLDILEEEGVDPSRVVIGHMD 192 (308)
T ss_dssp HHHHHHHHHHHHHHT-EEEEEESTTGTCHHHHHHHHHHTT--GGGEEETSGG
T ss_pred HHHHHHHHHHHHHhCCeEEEcCCCCCcCHHHHHHHHHHcCCChhHeEEeCCC
Confidence 45666666656667999999987765 677777777666655 57776433
No 464
>PRK13964 coaD phosphopantetheine adenylyltransferase; Provisional
Probab=24.15 E-value=89 Score=19.94 Aligned_cols=24 Identities=17% Similarity=0.109 Sum_probs=20.2
Q ss_pred HHHHHHHhhcCCcEEEEEecCCCc
Q 032042 110 EKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 110 ~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
.-+++++++.+++.+|-|-|..+.
T Consensus 72 ~l~v~~~~~~~a~~ivrGlR~~~D 95 (140)
T PRK13964 72 KLTAEIAKKLGANFLIRSARNNID 95 (140)
T ss_pred CcHHHHHHHCCCeEEEEecCCCcc
Confidence 456889999999999999988554
No 465
>cd00995 PBP2_NikA_DppA_OppA_like The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding domain of nickel/dipeptide/oligopeptide transport systems, which function in the import of nickel and peptides, and other closely related proteins. The oligopeptide-binding protein OppA is a periplasmic component of an ATP-binding cassette (ABC) transport system OppABCDEF consisting of five subunits: two homologous integral membrane proteins OppB and OppF that form the translocation pore; two homologous nucleotide-binding domains OppD and OppF that drive the transport process through binding and hydrolysis of ATP; and the substrate-binding protein or receptor OppA that determines the substrate specificity of the transport system. The dipeptide (DppA) and oligopeptide (OppA) binding proteins differ in several ways. The DppA binds dipeptides and some tripeptides and is inv
Probab=24.13 E-value=2.8e+02 Score=20.89 Aligned_cols=47 Identities=13% Similarity=0.138 Sum_probs=30.5
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcC-CcEEEEEecCC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIP-LSCLVIGNRGL 131 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~-~dliV~g~~~~ 131 (148)
.+..+.+++.+++.|++++..... .....+.....+ .|+.++|..+.
T Consensus 337 ~~~a~~i~~~l~~~Gi~v~~~~~~---~~~~~~~~~~~~~~d~~~~~~~~~ 384 (466)
T cd00995 337 KEIAEAIQAQLKEIGIKVEIEPLD---FATLLDALDAGDDFDLFLLGWGAD 384 (466)
T ss_pred HHHHHHHHHHHHHcCceEEEEEec---hHHHHHHhhcCcccceeeecccCC
Confidence 345566777777788888776552 333444455556 88888876554
No 466
>cd01310 TatD_DNAse TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.
Probab=24.10 E-value=2.4e+02 Score=19.15 Aligned_cols=43 Identities=16% Similarity=0.114 Sum_probs=30.7
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcC-CcEEEE
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIP-LSCLVI 126 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~-~dliV~ 126 (148)
++.++.+.+.+.+.++++.+++.. ..+.+.+.+++.+ ...+|+
T Consensus 107 ~~~~~~~~~~a~e~~~pv~iH~~~--~~~~~~~l~~~~~~~~~~i~ 150 (251)
T cd01310 107 KEVFRAQLELAKELNLPVVIHSRD--AHEDVLEILKEYGPPKRGVF 150 (251)
T ss_pred HHHHHHHHHHHHHhCCCeEEEeeC--chHHHHHHHHhcCCCCCEEE
Confidence 466777788888889998888753 3667888888876 334444
No 467
>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=24.09 E-value=2.6e+02 Score=21.67 Aligned_cols=21 Identities=10% Similarity=0.207 Sum_probs=18.4
Q ss_pred hHHHHHHHhhcCCcEEEEEec
Q 032042 109 REKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~ 129 (148)
.+.|++++++.++|++|.|.-
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPa 85 (431)
T TIGR01918 65 VARVLEMLKDKEPDIFIAGPA 85 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCc
Confidence 377899999999999999865
No 468
>COG2262 HflX GTPases [General function prediction only]
Probab=24.05 E-value=3.4e+02 Score=20.94 Aligned_cols=47 Identities=21% Similarity=0.298 Sum_probs=34.8
Q ss_pred hhhHHHHHHHhhhcCceEEEEEe-----------eC-ChhHHHHHHHhhcCCcEEEEEe
Q 032042 82 PETLDIVNTVARQKQIVVVMKIF-----------WG-DPREKICEAIDKIPLSCLVIGN 128 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~-----------~g-~~~~~I~~~a~~~~~dliV~g~ 128 (148)
+..++++...+...|+++-..+. .| ...++|.+.++..++|++|+..
T Consensus 19 ~~~leEl~~La~tag~~v~~~~~q~r~~pdp~~~iG~GK~eEi~~~v~~~~ad~VIf~~ 77 (411)
T COG2262 19 EESLEELAELAETAGYEVVEVVTQKRERPDPKTYIGSGKLEEIAEAVEETGADLVIFDH 77 (411)
T ss_pred hhhHHHHHHHHHHcCCeEeeeEEEeccCCCcceecCcchHHHHHHHHHhcCCCEEEECC
Confidence 46678888888888877444332 13 3468999999999999999953
No 469
>PRK13606 LPPG:FO 2-phospho-L-lactate transferase; Provisional
Probab=24.02 E-value=1.7e+02 Score=21.50 Aligned_cols=22 Identities=27% Similarity=0.546 Sum_probs=17.9
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+..+.++.+++ +|+||+|..+
T Consensus 174 ~a~p~vl~AI~~--AD~IiiGPgn 195 (303)
T PRK13606 174 KPAPGVLEAIEE--ADAVIIGPSN 195 (303)
T ss_pred CCCHHHHHHHHh--CCEEEECCCc
Confidence 467788888887 9999999765
No 470
>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=24.00 E-value=1.3e+02 Score=17.16 Aligned_cols=24 Identities=21% Similarity=0.146 Sum_probs=17.4
Q ss_pred hhHHHHHHHhhcCCcEEEEEecCC
Q 032042 108 PREKICEAIDKIPLSCLVIGNRGL 131 (148)
Q Consensus 108 ~~~~I~~~a~~~~~dliV~g~~~~ 131 (148)
..+.|.+..++++++.|.+|..+.
T Consensus 39 ~~~~l~~~i~~~~~~~i~Ig~pg~ 62 (99)
T smart00732 39 DAARLKKLIKKYQPDLIVIGLPLN 62 (99)
T ss_pred HHHHHHHHHHHhCCCEEEEeCCcC
Confidence 356666666667788999987774
No 471
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=23.95 E-value=1.9e+02 Score=17.89 Aligned_cols=36 Identities=19% Similarity=0.127 Sum_probs=24.3
Q ss_pred EEEEecCCH-----hHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 7 VGVAVDFSA-----CSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 7 ILv~~d~s~-----~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
|.|++|-|. .-.+.+.-...+++..+.++++++.-.
T Consensus 1 i~vaiDtSGSis~~~l~~fl~ev~~i~~~~~~~v~vi~~D~ 41 (126)
T PF09967_consen 1 IVVAIDTSGSISDEELRRFLSEVAGILRRFPAEVHVIQFDA 41 (126)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEEECC
Confidence 467888653 223456667777777888888887644
No 472
>PRK00005 fmt methionyl-tRNA formyltransferase; Reviewed
Probab=23.84 E-value=1.5e+02 Score=21.60 Aligned_cols=40 Identities=15% Similarity=0.169 Sum_probs=26.5
Q ss_pred HHHHhhhcCceEEEEEeeCCh-hHHHHHHHhhcCCcEEEEEecC
Q 032042 88 VNTVARQKQIVVVMKIFWGDP-REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~g~~-~~~I~~~a~~~~~dliV~g~~~ 130 (148)
+.+++.+.|+++.. ..+. ..++.+..++.++|++|+..-+
T Consensus 48 v~~~a~~~~Ip~~~---~~~~~~~~~~~~l~~~~~Dliv~~~~~ 88 (309)
T PRK00005 48 VKQLALEHGIPVLQ---PEKLRDPEFLAELAALNADVIVVVAYG 88 (309)
T ss_pred HHHHHHHcCCCEEC---cCCCCCHHHHHHHHhcCcCEEEEehhh
Confidence 55667778888632 1121 3456777888999999996553
No 473
>PRK13789 phosphoribosylamine--glycine ligase; Provisional
Probab=23.75 E-value=74 Score=24.33 Aligned_cols=24 Identities=13% Similarity=0.302 Sum_probs=18.2
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.-.++|+++++++++|++|.|...
T Consensus 55 ~d~~~l~~~a~~~~iD~Vv~g~E~ 78 (426)
T PRK13789 55 LDKSSVQSFLKSNPFDLIVVGPED 78 (426)
T ss_pred CCHHHHHHHHHHcCCCEEEECCch
Confidence 346778888888899999987543
No 474
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=23.67 E-value=2.9e+02 Score=19.95 Aligned_cols=16 Identities=6% Similarity=-0.018 Sum_probs=8.4
Q ss_pred hcccCC-CEEEEEEEec
Q 032042 27 NVVRNG-DHLILVTVVP 42 (148)
Q Consensus 27 la~~~~-~~v~ll~v~~ 42 (148)
++..++ .++.+++..+
T Consensus 129 ~~~~~~~~~v~ii~~~~ 145 (350)
T cd06366 129 LLKKFGWRRVATIYEDD 145 (350)
T ss_pred HHHHCCCcEEEEEEEcC
Confidence 333344 5666666544
No 475
>PTZ00170 D-ribulose-5-phosphate 3-epimerase; Provisional
Probab=23.62 E-value=2.6e+02 Score=19.35 Aligned_cols=42 Identities=19% Similarity=0.146 Sum_probs=25.5
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEE
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVI 126 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~ 126 (148)
...+.+.+++.|..+-..+....+.+.+..+.+....|+|.+
T Consensus 103 ~~~~l~~ik~~G~~~gval~p~t~~e~l~~~l~~~~vD~Vl~ 144 (228)
T PTZ00170 103 PKAVARKIREAGMKVGVAIKPKTPVEVLFPLIDTDLVDMVLV 144 (228)
T ss_pred HHHHHHHHHHCCCeEEEEECCCCCHHHHHHHHccchhhhHHh
Confidence 444555566667666555555567777777764445776543
No 476
>PRK10222 PTS system L-ascorbate-specific transporter subunit IIB; Provisional
Probab=23.59 E-value=1.5e+02 Score=16.91 Aligned_cols=39 Identities=10% Similarity=-0.022 Sum_probs=22.9
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+++.+++.|+++++.- .+..+. .....++|++|.++.-
T Consensus 6 kIk~~L~e~Gi~~~ve~--~diss~---~~~~~~aDiiVtt~~l 44 (85)
T PRK10222 6 KVDQFLTQSNIDHTVNS--CAVGEY---KSELSGADIIIASTHI 44 (85)
T ss_pred HHHHHHHHcCCCeEEEE--eehhhc---ccCCCCCCEEEECccc
Confidence 46777888899866432 233322 1111257999987663
No 477
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=23.44 E-value=3.3e+02 Score=20.63 Aligned_cols=47 Identities=15% Similarity=0.103 Sum_probs=26.2
Q ss_pred HHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecCCCccce
Q 032042 87 IVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRGLGKLKR 136 (148)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 136 (148)
.+..+++..|+++...-..++....+.++ .+.|+|++-+-|+++...
T Consensus 185 qL~~~a~~~gv~~~~~~~~~~l~~~l~~l---~~~DlVLIDTaG~~~~d~ 231 (374)
T PRK14722 185 QLRIFGKILGVPVHAVKDGGDLQLALAEL---RNKHMVLIDTIGMSQRDR 231 (374)
T ss_pred HHHHHHHHcCCceEecCCcccHHHHHHHh---cCCCEEEEcCCCCCcccH
Confidence 34444555566655433333444444333 457888888888776443
No 478
>PF02670 DXP_reductoisom: 1-deoxy-D-xylulose 5-phosphate reductoisomerase; InterPro: IPR013512 1-deoxy-D-xylulose 5-phosphate reductoisomerase synthesises 2-C-methyl-D-erythritol 4-phosphate from 1-deoxy-D-xylulose 5-phosphate in a single step by intramolecular rearrangement and reduction and is responsible for terpenoid biosynthesis in some organisms []. In Arabidopsis thaliana 1-deoxy-D-xylulose 5-phosphate reductoisomerase is the first committed enzyme of the non-mevalonate pathway for isoprenoid biosynthesis. The enzyme requires Mn2+, Co2+ or Mg2+ for activity, with the first being most effective. This domain is found at the N terminus of bacterial and plant 1-deoxy-D-xylulose 5-phosphate reductoisomerases.; GO: 0070402 NADPH binding, 0055114 oxidation-reduction process; PDB: 1R0K_D 1R0L_C 3A14_A 3A06_A 3AUA_A 3AU9_B 3AU8_B 3IIE_A 2Y1D_B 4AIC_A ....
Probab=23.29 E-value=75 Score=20.00 Aligned_cols=26 Identities=19% Similarity=0.196 Sum_probs=19.0
Q ss_pred hHHHHHHHhhcCCcEEEEEecCCCcc
Q 032042 109 REKICEAIDKIPLSCLVIGNRGLGKL 134 (148)
Q Consensus 109 ~~~I~~~a~~~~~dliV~g~~~~~~~ 134 (148)
.+++.+.+...++|++|.+..|...+
T Consensus 79 ~~~l~~~~~~~~~D~vv~Ai~G~aGL 104 (129)
T PF02670_consen 79 PEGLEELAEEPEVDIVVNAIVGFAGL 104 (129)
T ss_dssp HHHHHHHHTHTT-SEEEE--SSGGGH
T ss_pred hHHHHHHhcCCCCCEEEEeCcccchH
Confidence 57888999889999999988886654
No 479
>TIGR01856 hisJ_fam histidinol phosphate phosphatase HisJ family. This model represents the histidinol phosphate phosphatase HisJ of Bacillus subtilis, and related proteins from a number of species within a larger family of phosphatases in the PHP hydrolase family. HisJ catalyzes the penultimate step of histidine biosynthesis but shows no homology to the functionally equivalent sequence in E. coli, a domain of the bifunctional HisB protein. Note, however, that many species have two members and that Clostridium perfringens, predicted not to make histidine, has five members of this family; this family is designated subfamily rather than equivalog to indicate that members may not all act as HisJ.
Probab=23.27 E-value=2.7e+02 Score=19.46 Aligned_cols=48 Identities=13% Similarity=0.237 Sum_probs=34.0
Q ss_pred HHHHHHHhhhcCceEEEEEe---e----CChhHHHHHHHhhcCCcEEEEEecCCCc
Q 032042 85 LDIVNTVARQKQIVVVMKIF---W----GDPREKICEAIDKIPLSCLVIGNRGLGK 133 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~---~----g~~~~~I~~~a~~~~~dliV~g~~~~~~ 133 (148)
.+++.+.+.+.|..+++-.. . --|...|++.+++.+.- |++|+-.+++
T Consensus 187 ~~~il~~~~~~g~~lEiNt~g~r~~~~~~yP~~~il~~~~~~g~~-itlgSDAH~~ 241 (253)
T TIGR01856 187 LQRILKLVASQGKALEFNTSGLRKPLEEAYPSKELLNLAKELGIP-LVLGSDAHGP 241 (253)
T ss_pred HHHHHHHHHHcCCEEEEEcHhhcCCCCCCCCCHHHHHHHHHcCCC-EEecCCCCCH
Confidence 45566667777877776552 1 23678899999998876 8888877664
No 480
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=23.22 E-value=2.5e+02 Score=19.00 Aligned_cols=47 Identities=4% Similarity=-0.023 Sum_probs=26.8
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhH--HHHHHHhhcCCcEEEEEec
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPRE--KICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~I~~~a~~~~~dliV~g~~ 129 (148)
..++.+.+.+++.|+.+.......++.. ..++.....++|-||+...
T Consensus 16 ~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgii~~~~ 64 (259)
T cd01542 16 RTVKGILAALYENGYQMLLMNTNFSIEKEIEALELLARQKVDGIILLAT 64 (259)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5566666767777777655433334432 3344445567887777543
No 481
>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=23.10 E-value=89 Score=22.79 Aligned_cols=22 Identities=32% Similarity=0.379 Sum_probs=18.2
Q ss_pred ChhHHHHHHHhhcCCcEEEEEecC
Q 032042 107 DPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+..+.++.+++ +|+||+|..+
T Consensus 171 ~a~peal~AI~~--AD~IIlGPgs 192 (297)
T TIGR01819 171 SIAPKVLEAIRK--EDNILIGPSN 192 (297)
T ss_pred CCCHHHHHHHHh--CCEEEECCCc
Confidence 557888888888 9999999665
No 482
>PRK02304 adenine phosphoribosyltransferase; Provisional
Probab=23.06 E-value=1.9e+02 Score=18.90 Aligned_cols=37 Identities=24% Similarity=0.185 Sum_probs=23.7
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEe
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVV 41 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~ 41 (148)
-++||+ +|+-=.+-..+..+++..++.++++..+.++
T Consensus 114 g~~VLI-VDDivtTG~Tl~~~~~~l~~~Ga~~v~v~vl 150 (175)
T PRK02304 114 GDRVLI-VDDLLATGGTLEAAIKLLERLGAEVVGAAFV 150 (175)
T ss_pred CCEEEE-EeCCccccHHHHHHHHHHHHcCCEEEEEEEE
Confidence 467777 5554455566777777777778776544443
No 483
>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=23.04 E-value=2.8e+02 Score=19.50 Aligned_cols=78 Identities=9% Similarity=-0.016 Sum_probs=42.1
Q ss_pred HHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCCCChhhHHHHHHHhhhcCc
Q 032042 18 KKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAKPDPETLDIVNTVARQKQI 97 (148)
Q Consensus 18 ~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (148)
..-++.++.+|+..|++...++..... . . .... ...+ ...+.++.+.+.+++.|+
T Consensus 98 ~~~~~~~i~~a~~lG~~~i~~~~~~~~----------------~---~-~~~~-~~~~----~~~~~l~~l~~~A~~~GV 152 (283)
T PRK13209 98 LEIMRKAIQLAQDLGIRVIQLAGYDVY----------------Y---E-QANN-ETRR----RFIDGLKESVELASRASV 152 (283)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCcccc----------------c---c-ccHH-HHHH----HHHHHHHHHHHHHHHhCC
Confidence 445788889999999887665321110 0 0 0000 1111 123456667777777888
Q ss_pred eEEEEEeeC---ChhHHHHHHHhhcC
Q 032042 98 VVVMKIFWG---DPREKICEAIDKIP 120 (148)
Q Consensus 98 ~~~~~~~~g---~~~~~I~~~a~~~~ 120 (148)
.+-.+...+ ...+...+.++..+
T Consensus 153 ~i~iE~~~~~~~~~~~~~~~ll~~v~ 178 (283)
T PRK13209 153 TLAFEIMDTPFMNSISKALGYAHYLN 178 (283)
T ss_pred EEEEeecCCcccCCHHHHHHHHHHhC
Confidence 766654322 22445666666654
No 484
>COG2248 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=22.94 E-value=90 Score=22.41 Aligned_cols=25 Identities=24% Similarity=0.248 Sum_probs=20.9
Q ss_pred CChhHHHHHHHhhcCCcEEEEEecC
Q 032042 106 GDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 106 g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
|-+.+..+++..+.++|++++|...
T Consensus 187 Gp~~~~~l~~i~e~~P~v~ii~GPp 211 (304)
T COG2248 187 GPINDEALEFILEKRPDVLIIGGPP 211 (304)
T ss_pred CCCccHHHHHHHhcCCCEEEecCCc
Confidence 5557888999999999999998653
No 485
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=22.81 E-value=1.6e+02 Score=21.41 Aligned_cols=43 Identities=26% Similarity=0.215 Sum_probs=33.0
Q ss_pred ccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCC
Q 032042 4 TRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLE 47 (148)
Q Consensus 4 ~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~ 47 (148)
.+.++|.+..+.++...++.+.. |+..+++++.+...+..+..
T Consensus 94 ~~d~~I~iS~sG~t~~~~~~~~~-ak~~g~~vi~iT~~~~s~la 136 (326)
T PRK10892 94 PQDVVIAISNSGESSEILALIPV-LKRLHVPLICITGRPESSMA 136 (326)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHH-HHHCCCcEEEEECCCCCccc
Confidence 45689999988888777776655 77889999998887766543
No 486
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=22.77 E-value=3.5e+02 Score=20.65 Aligned_cols=21 Identities=24% Similarity=0.118 Sum_probs=15.7
Q ss_pred HHhhcccCCCEEEEEEEecCC
Q 032042 24 AADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 24 a~~la~~~~~~v~ll~v~~~~ 44 (148)
|.+++-+-|.++..+|...++
T Consensus 191 A~~l~mkRG~~v~~v~f~~~p 211 (383)
T COG0301 191 AAWLMMKRGVEVIPVHFGNPP 211 (383)
T ss_pred HHHHHHhcCCEEEEEEEcCCC
Confidence 455666789999999996643
No 487
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=22.72 E-value=2.9e+02 Score=19.66 Aligned_cols=44 Identities=7% Similarity=-0.056 Sum_probs=21.0
Q ss_pred HHHHHHhhhcCceEEEEEe-e-C-ChhHHHHHHHhhcCCcEEEEEec
Q 032042 86 DIVNTVARQKQIVVVMKIF-W-G-DPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~-~-g-~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
+.+.+.+++.|+++..... . + .....++..+++.++|.|+++..
T Consensus 152 ~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~v~~~~~~~pd~v~~~~~ 198 (336)
T cd06360 152 EGFKEAFTEAGGKIVKELWVPFGTSDFASYLAQIPDDVPDAVFVFFA 198 (336)
T ss_pred HHHHHHHHHcCCEEEEEEecCCCCcchHHHHHHHHhcCCCEEEEecc
Confidence 3344445555555433221 1 2 22345555555566666666543
No 488
>COG4034 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.71 E-value=2.6e+02 Score=20.38 Aligned_cols=43 Identities=14% Similarity=0.023 Sum_probs=28.4
Q ss_pred hHHHHHHHhhhcCceEEE-EEee--CChhHHHHHHHhhcCCcEEEE
Q 032042 84 TLDIVNTVARQKQIVVVM-KIFW--GDPREKICEAIDKIPLSCLVI 126 (148)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~-~~~~--g~~~~~I~~~a~~~~~dliV~ 126 (148)
....+.+.++..|.++-. .+.. ..+++.+..++++.+.|+||=
T Consensus 92 ~~pqi~raaralg~e~v~v~~~~gv~gl~e~lk~lv~~~~id~Ivg 137 (328)
T COG4034 92 VKPQIVRAARALGKEAVAVDLVDGVRGLAEGLKALVEKEGIDLIVG 137 (328)
T ss_pred ecHHHHHHHHHhCceeEEEeccCCcccHHHHHHHHHHhhCccEEEE
Confidence 334455555566664322 2332 366899999999999999985
No 489
>PLN02329 3-isopropylmalate dehydrogenase
Probab=22.62 E-value=1.2e+02 Score=23.34 Aligned_cols=28 Identities=11% Similarity=0.006 Sum_probs=21.8
Q ss_pred HhHHHHHHHHHhhcccCCCEEEEEEEec
Q 032042 15 ACSKKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 15 ~~s~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
..+++.+++|.++|++.+.+|+++|--.
T Consensus 211 ~~~eRI~r~AFe~A~~r~~kVT~v~KaN 238 (409)
T PLN02329 211 HEIDRIARVAFETARKRRGKLCSVDKAN 238 (409)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEEECCC
Confidence 4688999999999988766777766543
No 490
>PLN02699 Bifunctional molybdopterin adenylyltransferase/molybdopterin molybdenumtransferase
Probab=22.56 E-value=2.7e+02 Score=22.92 Aligned_cols=45 Identities=20% Similarity=0.140 Sum_probs=28.3
Q ss_pred hhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhh---cCCcEEEEE
Q 032042 83 ETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDK---IPLSCLVIG 127 (148)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~---~~~dliV~g 127 (148)
.....+...+++.|+++.......|-.+.|.+..++ .++|+||+.
T Consensus 209 sN~~~L~a~l~~~G~~v~~~~iv~Dd~~~i~~~l~~a~~~~~DlvItT 256 (659)
T PLN02699 209 SNRAMLLAAAIQQQCKVVDLGIARDDEEELERILDEAISSGVDILLTS 256 (659)
T ss_pred ChHHHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHhhcCCCCEEEEC
Confidence 334457777788888876655555555555554433 358988883
No 491
>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=22.51 E-value=2.9e+02 Score=20.37 Aligned_cols=35 Identities=23% Similarity=0.260 Sum_probs=26.2
Q ss_pred CceEEEEEeeCC-h----hHHHHHHHhhcCCcEEEEEecC
Q 032042 96 QIVVVMKIFWGD-P----REKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 96 ~~~~~~~~~~g~-~----~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.++++++++.|- . ...+.+.+.+.+++.+.+-.|.
T Consensus 136 ~iPVTVKiRlG~d~~~~~~~~ia~~~~~~g~~~ltVHgRt 175 (323)
T COG0042 136 DIPVTVKIRLGWDDDDILALEIARILEDAGADALTVHGRT 175 (323)
T ss_pred CCCeEEEEecccCcccccHHHHHHHHHhcCCCEEEEeccc
Confidence 378888887652 2 3468899999999999995444
No 492
>PF00202 Aminotran_3: Aminotransferase class-III; InterPro: IPR005814 Aminotransferases share certain mechanistic features with other pyridoxalphosphate-dependent enzymes, such as the covalent binding of the pyridoxalphosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into subfamilies. One of these, called class-III, includes acetylornithine aminotransferase (2.6.1.11 from EC), which catalyzes the transfer of an amino group from acetylornithine to alpha-ketoglutarate, yielding N-acetyl-glutamic-5-semi-aldehyde and glutamic acid; ornithine aminotransferase (2.6.1.13 from EC), which catalyzes the transfer of an amino group from ornithine to alpha-ketoglutarate, yielding glutamic-5-semi-aldehyde and glutamic acid; omega-amino acid--pyruvate aminotransferase (2.6.1.18 from EC), which catalyzes transamination between a variety of omega-amino acids, mono- and diamines, and pyruvate; 4-aminobutyrate aminotransferase (2.6.1.19 from EC) (GABA transaminase), which catalyzes the transfer of an amino group from GABA to alpha-ketoglutarate, yielding succinate semialdehyde and glutamic acid; DAPA aminotransferase (2.6.1.62 from EC), a bacterial enzyme (bioA), which catalyzes an intermediate step in the biosynthesis of biotin, the transamination of 7-keto-8-aminopelargonic acid to form 7,8-diaminopelargonic acid; 2,2-dialkylglycine decarboxylase (4.1.1.64 from EC), a Burkholderia cepacia (Pseudomonas cepacia) enzyme (dgdA) that catalyzes the decarboxylating amino transfer of 2,2-dialkylglycine and pyruvate to dialkyl ketone, alanine and carbon dioxide; glutamate-1-semialdehyde aminotransferase (5.4.3.8 from EC) (GSA); Bacillus subtilis aminotransferases yhxA and yodT; Haemophilus influenzae aminotransferase HI0949; and Caenorhabditis elegans aminotransferase T01B11.2.; GO: 0008483 transaminase activity, 0030170 pyridoxal phosphate binding; PDB: 2JJE_A 2CJH_A 2CIN_A 2JJH_A 2JJF_A 2JJG_A 2CJG_A 2CJD_A 3BS8_A 2YKX_C ....
Probab=22.50 E-value=1.6e+02 Score=21.57 Aligned_cols=23 Identities=35% Similarity=0.219 Sum_probs=15.7
Q ss_pred CccEEEEEecCCHhHHHHHHHHH
Q 032042 3 GTRRVGVAVDFSACSKKALQWAA 25 (148)
Q Consensus 3 ~~~~ILv~~d~s~~s~~al~~a~ 25 (148)
...++.++..+++.-+.|++.|.
T Consensus 75 ~~~~v~f~~sGseAve~Alkla~ 97 (339)
T PF00202_consen 75 GLDRVFFANSGSEAVEAALKLAR 97 (339)
T ss_dssp TEEEEEEESSHHHHHHHHHHHHH
T ss_pred ccceeeeccCchHHHHHHHHHhh
Confidence 35677777777776677777766
No 493
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=22.43 E-value=2.3e+02 Score=18.39 Aligned_cols=38 Identities=13% Similarity=0.302 Sum_probs=27.6
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEE
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLV 125 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV 125 (148)
.+-+...++..|++++... . +...+.+..++.++|+++
T Consensus 26 ~dl~~~i~~~~g~~~~~~~--~-~~~~~~~~l~~g~~D~~~ 63 (225)
T PF00497_consen 26 VDLLRAIAKRLGIKIEFVP--M-PWSRLLEMLENGKADIII 63 (225)
T ss_dssp HHHHHHHHHHHTCEEEEEE--E-EGGGHHHHHHTTSSSEEE
T ss_pred HHHHHHHHhhcccccceee--c-cccccccccccccccccc
Confidence 3445555666688777765 3 677788888899999987
No 494
>KOG2584 consensus Dihydroorotase and related enzymes [Nucleotide transport and metabolism]
Probab=22.41 E-value=81 Score=24.48 Aligned_cols=28 Identities=18% Similarity=0.128 Sum_probs=24.5
Q ss_pred HHHHHHHHHhhcccCCCEEEEEEEecCC
Q 032042 17 SKKALQWAADNVVRNGDHLILVTVVPEG 44 (148)
Q Consensus 17 s~~al~~a~~la~~~~~~v~ll~v~~~~ 44 (148)
.-.|...|+.+|++.+++++++||....
T Consensus 231 EaEA~~rai~ia~~~ncPlyvvhVmsks 258 (522)
T KOG2584|consen 231 EAEATNRAITIARQANCPLYVVHVMSKS 258 (522)
T ss_pred hHHHHHHHHHHHHhcCCCcceEEEeehh
Confidence 3478999999999999999999998754
No 495
>PLN02257 phosphoribosylamine--glycine ligase
Probab=22.37 E-value=82 Score=24.19 Aligned_cols=23 Identities=13% Similarity=0.185 Sum_probs=19.0
Q ss_pred ChhHHHHHHHhhcCCcEEEEEec
Q 032042 107 DPREKICEAIDKIPLSCLVIGNR 129 (148)
Q Consensus 107 ~~~~~I~~~a~~~~~dliV~g~~ 129 (148)
+..++|.+++++.++|++|+|.-
T Consensus 49 ~d~~~l~~~a~~~~id~vvvg~E 71 (434)
T PLN02257 49 SDSAAVISFCRKWGVGLVVVGPE 71 (434)
T ss_pred CCHHHHHHHHHHcCCCEEEECCc
Confidence 44678999999999999998854
No 496
>PF00258 Flavodoxin_1: Flavodoxin; InterPro: IPR008254 This domain is found in a number of proteins including flavodoxin and nitric-oxide synthase. Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group [] and are functionally interchangeable with ferredoxins. They have been isolated from prokaryotes, cyanobacteria, and some eukaryotic algae. Nitric oxide synthase (1.14.13.39 from EC) produces nitric oxide from L-arginie and NADPH. Nitric oxide acts as a messenger molecule in the body.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity; PDB: 2WC1_A 2FVX_A 2FOX_A 6NUL_A 1FVX_A 2FAX_A 1FLN_A 1FLA_A 4NLL_A 2FDX_A ....
Probab=22.36 E-value=2e+02 Score=17.67 Aligned_cols=45 Identities=9% Similarity=0.056 Sum_probs=27.3
Q ss_pred hhhHHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 82 PETLDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
++.-+.+.+.+.+.|++++..-....... ..... ..+++++|+..
T Consensus 11 e~~A~~ia~~l~~~g~~~~~~~~~~~~~~--~~~~~--~~~~~i~~~sT 55 (143)
T PF00258_consen 11 EKMAEAIAEGLRERGVEVRVVDLDDFDDS--PSDLS--EYDLLIFGVST 55 (143)
T ss_dssp HHHHHHHHHHHHHTTSEEEEEEGGGSCHH--HHHHC--TTSEEEEEEEE
T ss_pred HHHHHHHHHHHHHcCCceeeechhhhhhh--hhhhh--hhceeeEeecc
Confidence 45666777778778888777665432222 23333 36777777663
No 497
>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=22.27 E-value=3.7e+02 Score=20.66 Aligned_cols=108 Identities=16% Similarity=0.160 Sum_probs=61.7
Q ss_pred CCCccEEEEEecCCHhHHHHHHHHHhhcccCCCEEEEEEEecCCCCCccccccccCCCCCCcCCCCCchhHHHHhhcCC-
Q 032042 1 MDGTRRVGVAVDFSACSKKALQWAADNVVRNGDHLILVTVVPEGGLEKGEQQLWEDSGSPLIPLAEFSEPTIMKKYGAK- 79 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 79 (148)
||..++|++++.+.=+..-++.|..+ +.+..|+.+++.--.+ -+++.. +++...+
T Consensus 1 ~~~~kkvvLAYSGGLDTSv~i~wL~e---~~~~eVia~tadvGQ~------------------eed~~~---i~eKA~~~ 56 (403)
T COG0137 1 MMKVKKVVLAYSGGLDTSVAIKWLKE---KGGAEVIAVTADVGQP------------------EEDLDA---IREKALEL 56 (403)
T ss_pred CCCCcEEEEEecCCccHHHHHHHHHH---hcCceEEEEEEeCCCC------------------hHHhHH---HHHHHHHh
Confidence 67789999999988777788888766 3457777766643211 011111 1111100
Q ss_pred -----CChhhHHHHH-HHh---hhcCceEEEEEee----CCh--hHHHHHHHhhcCCcEEEEEecCCC
Q 032042 80 -----PDPETLDIVN-TVA---RQKQIVVVMKIFW----GDP--REKICEAIDKIPLSCLVIGNRGLG 132 (148)
Q Consensus 80 -----~~~~~~~~~~-~~~---~~~~~~~~~~~~~----g~~--~~~I~~~a~~~~~dliV~g~~~~~ 132 (148)
..-.+.++|. +.+ ...+..++..-.- +.| ++.+++.|++.+++.|.=|+.|.+
T Consensus 57 Ga~~~~viD~reeF~~~yi~~~i~ana~Yeg~YpL~TalaRPLIak~lVe~A~k~ga~avaHGcTGKG 124 (403)
T COG0137 57 GAEEAYVIDAREEFVEDYIFPAIKANALYEGVYPLGTALARPLIAKKLVEAAKKEGADAVAHGCTGKG 124 (403)
T ss_pred CCceEEEeecHHHHHHHHHHHHHHhhceeeccccccchhhHHHHHHHHHHHHHHcCCCEEEecCCCCC
Confidence 0111222222 222 2223344442211 233 789999999999999999999877
No 498
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=22.25 E-value=1.9e+02 Score=17.43 Aligned_cols=41 Identities=17% Similarity=0.276 Sum_probs=24.8
Q ss_pred HHHHHHHhhhcCceEEEEEeeCChhHHHHHHHhhcCCcEEEEEecC
Q 032042 85 LDIVNTVARQKQIVVVMKIFWGDPREKICEAIDKIPLSCLVIGNRG 130 (148)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 130 (148)
.+..++.+...|.+++..... ...+-+++. ++|++.+|.+-
T Consensus 18 V~Km~~aA~~kg~~~~I~A~s---~~e~~~~~~--~~DvvLlGPQv 58 (102)
T COG1440 18 VTKMKKAAESKGKDVTIEAYS---ETELSEYID--NADVVLLGPQV 58 (102)
T ss_pred HHHHHHHHHhCCCceEEEEec---hhHHHHhhh--cCCEEEEChHH
Confidence 344555555677777765543 333444444 49999998764
No 499
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=22.22 E-value=2.1e+02 Score=19.07 Aligned_cols=38 Identities=24% Similarity=0.069 Sum_probs=25.2
Q ss_pred cEEEEEecCCHhH--HHHHHHHHhhcccCCCEEEEEEEec
Q 032042 5 RRVGVAVDFSACS--KKALQWAADNVVRNGDHLILVTVVP 42 (148)
Q Consensus 5 ~~ILv~~d~s~~s--~~al~~a~~la~~~~~~v~ll~v~~ 42 (148)
|-+++-+|+.++. ...+..++..++..|.+++.+-+-.
T Consensus 110 kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~ 149 (192)
T cd01473 110 KVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGA 149 (192)
T ss_pred eEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEecc
Confidence 4466667775543 3456666666777888888887754
No 500
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=22.20 E-value=1.4e+02 Score=17.79 Aligned_cols=33 Identities=21% Similarity=0.153 Sum_probs=24.0
Q ss_pred CCCccEEEEEecCCHhHHHHHHHHHhhcccCCCE
Q 032042 1 MDGTRRVGVAVDFSACSKKALQWAADNVVRNGDH 34 (148)
Q Consensus 1 m~~~~~ILv~~d~s~~s~~al~~a~~la~~~~~~ 34 (148)
|.+++|+++=+.-. .....++.|..+++-.+..
T Consensus 1 M~~irRlVLDVlKP-~~p~i~e~A~~l~~~~gV~ 33 (95)
T PF02680_consen 1 MAGIRRLVLDVLKP-HEPSIVELAKALSELEGVD 33 (95)
T ss_dssp --SEEEEEEEEEEE-SSS-HHHHHHHHHTSTTEE
T ss_pred CCceeEEEEEeecC-CCCCHHHHHHHHHhCCCcc
Confidence 78889998877755 6677889999988887754
Done!