Query 033657
Match_columns 114
No_of_seqs 121 out of 1012
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 04:47:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033657.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033657hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00139 rpl18 ribosomal prote 100.0 5.9E-42 1.3E-46 238.7 13.2 102 11-113 8-109 (109)
2 PRK05593 rplR 50S ribosomal pr 100.0 8.1E-40 1.8E-44 230.4 12.9 101 11-113 17-117 (117)
3 TIGR00060 L18_bact ribosomal p 100.0 9.4E-40 2E-44 229.2 13.0 97 12-113 16-114 (114)
4 PTZ00032 60S ribosomal protein 100.0 1.5E-38 3.2E-43 240.6 12.4 100 13-113 100-211 (211)
5 COG0256 RplR Ribosomal protein 100.0 2.1E-37 4.5E-42 220.0 13.0 101 12-113 23-125 (125)
6 cd00432 Ribosomal_L18_L5e Ribo 100.0 8.3E-37 1.8E-41 209.5 13.0 100 11-111 4-103 (103)
7 PF00861 Ribosomal_L18p: Ribos 100.0 1.7E-36 3.7E-41 213.5 11.9 100 13-113 18-119 (119)
8 PRK08569 rpl18p 50S ribosomal 100.0 5E-34 1.1E-38 215.2 12.5 97 16-113 30-130 (193)
9 KOG3333 Mitochondrial/chloropl 99.9 1.6E-21 3.5E-26 143.4 8.4 94 19-113 61-154 (188)
10 PTZ00069 60S ribosomal protein 99.7 3.6E-16 7.9E-21 124.2 8.8 95 18-113 48-174 (300)
11 PTZ00090 40S ribosomal protein 98.3 1.4E-05 3.1E-10 61.9 11.9 100 8-113 108-208 (233)
12 PF00411 Ribosomal_S11: Riboso 98.2 3.3E-05 7.1E-10 53.6 9.7 87 21-113 3-89 (110)
13 CHL00041 rps11 ribosomal prote 98.0 9.9E-05 2.2E-09 51.9 10.3 88 20-113 15-102 (116)
14 TIGR03632 bact_S11 30S ribosom 98.0 0.00013 2.8E-09 50.7 10.3 87 21-113 3-89 (108)
15 PRK05309 30S ribosomal protein 98.0 0.00017 3.6E-09 51.6 10.6 89 19-113 18-106 (128)
16 KOG0875 60S ribosomal protein 97.7 3.7E-05 8E-10 60.6 3.4 97 16-113 46-173 (264)
17 PRK09607 rps11p 30S ribosomal 97.6 0.00096 2.1E-08 48.1 9.8 92 20-113 11-107 (132)
18 TIGR03628 arch_S11P archaeal r 97.6 0.0013 2.8E-08 46.3 10.1 91 21-113 5-100 (114)
19 PTZ00129 40S ribosomal protein 97.4 0.0024 5.2E-08 46.9 9.6 93 19-113 29-126 (149)
20 COG0100 RpsK Ribosomal protein 96.8 0.015 3.2E-07 41.9 8.8 87 21-113 21-107 (129)
21 KOG0408 Mitochondrial/chloropl 95.8 0.12 2.6E-06 38.9 9.0 94 14-113 75-168 (190)
22 KOG0407 40S ribosomal protein 93.4 1.3 2.7E-05 31.6 8.8 91 21-113 19-114 (139)
23 smart00481 POLIIIAc DNA polyme 82.1 4.6 9.9E-05 24.5 4.7 42 70-114 17-58 (67)
24 PF14419 SPOUT_MTase_2: AF2226 80.5 7.5 0.00016 29.2 6.1 49 60-109 10-58 (173)
25 TIGR01917 gly_red_sel_B glycin 79.5 7.7 0.00017 33.1 6.6 55 58-113 313-367 (431)
26 PF02776 TPP_enzyme_N: Thiamin 76.3 6.1 0.00013 28.4 4.6 40 69-114 3-43 (172)
27 TIGR01918 various_sel_PB selen 75.7 13 0.00028 31.8 6.9 55 58-113 313-367 (431)
28 cd07039 TPP_PYR_POX Pyrimidine 74.8 5.8 0.00013 28.7 4.1 40 69-114 2-42 (164)
29 PRK04302 triosephosphate isome 73.2 8.8 0.00019 29.0 4.9 47 68-114 72-118 (223)
30 PRK00366 ispG 4-hydroxy-3-meth 71.8 8 0.00017 32.3 4.7 53 60-113 63-133 (360)
31 cd06288 PBP1_sucrose_transcrip 71.6 14 0.00031 27.0 5.6 44 68-112 102-148 (269)
32 COG0041 PurE Phosphoribosylcar 71.5 14 0.00031 27.5 5.5 41 73-114 21-61 (162)
33 PLN00125 Succinyl-CoA ligase [ 70.1 10 0.00022 30.7 4.8 41 73-114 85-125 (300)
34 PRK07449 2-succinyl-5-enolpyru 70.1 9.8 0.00021 32.4 5.0 43 66-114 8-51 (568)
35 cd06296 PBP1_CatR_like Ligand- 69.9 19 0.00041 26.4 6.0 46 67-113 102-150 (270)
36 PF13380 CoA_binding_2: CoA bi 69.8 5.9 0.00013 27.1 3.1 38 71-114 69-106 (116)
37 PRK07710 acetolactate synthase 68.8 8.1 0.00018 33.1 4.3 41 68-114 17-57 (571)
38 COG1472 BglX Beta-glucosidase- 68.3 12 0.00027 31.2 5.2 55 57-111 89-161 (397)
39 cd06280 PBP1_LacI_like_4 Ligan 67.9 25 0.00053 25.8 6.3 48 66-113 99-147 (263)
40 cd06319 PBP1_ABC_sugar_binding 67.7 27 0.00058 25.7 6.4 51 61-112 102-157 (277)
41 COG1611 Predicted Rossmann fol 67.4 9.1 0.0002 29.2 3.9 41 63-113 33-73 (205)
42 cd06282 PBP1_GntR_like_2 Ligan 67.0 22 0.00047 25.8 5.8 45 67-112 101-149 (266)
43 cd01543 PBP1_XylR Ligand-bindi 66.9 25 0.00055 25.9 6.2 47 66-113 93-141 (265)
44 PRK09492 treR trehalose repres 66.7 24 0.00052 26.8 6.2 44 69-113 162-209 (315)
45 PF13727 CoA_binding_3: CoA-bi 66.5 9.6 0.00021 26.3 3.6 41 71-113 131-171 (175)
46 TIGR00612 ispG_gcpE 1-hydroxy- 66.2 12 0.00025 31.2 4.5 53 60-113 55-124 (346)
47 PF02065 Melibiase: Melibiase; 66.1 11 0.00023 31.6 4.3 41 72-113 62-120 (394)
48 cd06285 PBP1_LacI_like_7 Ligan 65.4 24 0.00053 25.8 5.8 46 67-113 99-147 (265)
49 COG1908 FrhD Coenzyme F420-red 65.3 18 0.00039 26.1 4.8 41 71-112 43-93 (132)
50 cd06276 PBP1_FucR_like Ligand- 65.1 25 0.00055 26.1 5.9 47 66-113 99-149 (247)
51 PRK10014 DNA-binding transcrip 64.9 27 0.00058 26.9 6.2 45 68-113 168-215 (342)
52 cd06275 PBP1_PurR Ligand-bindi 64.9 26 0.00057 25.6 5.9 48 66-113 101-150 (269)
53 PF07071 DUF1341: Protein of u 64.7 19 0.00041 28.1 5.2 39 75-113 142-180 (218)
54 PRK10423 transcriptional repre 64.3 25 0.00054 26.8 5.9 46 67-113 159-207 (327)
55 PF13377 Peripla_BP_3: Peripla 63.2 15 0.00032 24.9 4.0 40 74-113 1-42 (160)
56 PF03646 FlaG: FlaG protein; 62.3 19 0.00041 24.1 4.3 31 15-45 53-83 (107)
57 PF00532 Peripla_BP_1: Peripla 62.2 26 0.00057 27.0 5.7 47 66-113 102-152 (279)
58 cd06286 PBP1_CcpB_like Ligand- 62.1 33 0.00071 25.0 6.0 46 68-113 100-147 (260)
59 TIGR03457 sulphoacet_xsc sulfo 61.8 12 0.00026 32.1 4.0 41 68-114 3-43 (579)
60 PRK08617 acetolactate synthase 61.1 14 0.00031 31.4 4.3 41 68-114 6-46 (552)
61 cd06293 PBP1_LacI_like_11 Liga 61.0 36 0.00078 25.0 6.1 46 67-113 101-149 (269)
62 cd06277 PBP1_LacI_like_1 Ligan 60.8 33 0.00071 25.2 5.8 46 67-113 103-151 (268)
63 cd01545 PBP1_SalR Ligand-bindi 60.3 35 0.00075 24.9 5.8 47 66-113 102-151 (270)
64 PLN02591 tryptophan synthase 60.1 19 0.00041 28.3 4.6 40 71-114 96-135 (250)
65 PRK10703 DNA-binding transcrip 60.1 36 0.00078 26.2 6.1 46 67-113 163-211 (341)
66 cd06283 PBP1_RegR_EndR_KdgR_li 60.0 34 0.00075 24.8 5.8 45 67-112 101-149 (267)
67 PRK08978 acetolactate synthase 59.9 15 0.00032 31.3 4.2 40 69-114 3-42 (548)
68 PF02811 PHP: PHP domain; Int 59.8 20 0.00042 24.8 4.2 39 73-114 21-59 (175)
69 cd06281 PBP1_LacI_like_5 Ligan 59.8 37 0.0008 25.0 5.9 44 69-113 103-149 (269)
70 TIGR02418 acolac_catab acetola 59.7 13 0.00029 31.4 3.9 39 70-114 2-40 (539)
71 cd06273 PBP1_GntR_like_1 This 59.6 35 0.00076 24.9 5.8 45 67-112 101-149 (268)
72 TIGR01481 ccpA catabolite cont 59.6 36 0.00077 26.0 6.0 45 68-113 162-210 (329)
73 TIGR02717 AcCoA-syn-alpha acet 59.0 20 0.00043 30.1 4.7 42 72-114 79-125 (447)
74 smart00812 Alpha_L_fucos Alpha 58.9 20 0.00043 29.8 4.7 43 71-113 84-144 (384)
75 cd06295 PBP1_CelR Ligand bindi 58.7 45 0.00097 24.5 6.3 46 66-112 109-157 (275)
76 cd06271 PBP1_AglR_RafR_like Li 58.4 38 0.00082 24.6 5.8 45 67-112 105-152 (268)
77 PF00933 Glyco_hydro_3: Glycos 57.9 23 0.0005 27.9 4.8 54 59-112 80-150 (299)
78 COG0529 CysC Adenylylsulfate k 57.2 23 0.00049 27.3 4.4 45 68-114 38-99 (197)
79 cd06284 PBP1_LacI_like_6 Ligan 57.2 44 0.00096 24.2 5.9 45 67-112 100-147 (267)
80 cd06267 PBP1_LacI_sugar_bindin 57.1 50 0.0011 23.5 6.1 44 69-112 103-148 (264)
81 COG0821 gcpE 1-hydroxy-2-methy 57.1 24 0.00051 29.5 4.8 53 60-113 57-126 (361)
82 cd06274 PBP1_FruR Ligand bindi 57.1 43 0.00094 24.5 5.9 45 67-112 101-148 (264)
83 cd06270 PBP1_GalS_like Ligand 56.8 43 0.00093 24.6 5.8 46 67-113 101-149 (268)
84 cd01574 PBP1_LacI Ligand-bindi 56.4 51 0.0011 23.9 6.2 46 67-113 101-149 (264)
85 COG0645 Predicted kinase [Gene 56.2 42 0.00091 25.2 5.6 55 56-113 51-105 (170)
86 cd06294 PBP1_ycjW_transcriptio 56.0 47 0.001 24.2 5.9 45 67-112 107-154 (270)
87 cd01391 Periplasmic_Binding_Pr 55.5 49 0.0011 23.1 5.8 47 67-113 109-156 (269)
88 PRK08322 acetolactate synthase 55.3 19 0.0004 30.5 4.0 40 69-114 3-42 (547)
89 PRK06725 acetolactate synthase 55.2 19 0.00042 31.0 4.2 42 67-114 15-56 (570)
90 cd06310 PBP1_ABC_sugar_binding 54.7 41 0.0009 24.6 5.5 48 63-113 106-157 (273)
91 PRK06048 acetolactate synthase 54.6 19 0.00042 30.7 4.0 42 67-114 8-49 (561)
92 COG1609 PurR Transcriptional r 54.5 46 0.001 26.5 6.0 46 67-113 160-208 (333)
93 TIGR03581 EF_0839 conserved hy 54.3 39 0.00085 26.7 5.3 39 75-113 142-180 (236)
94 PRK09542 manB phosphomannomuta 54.1 69 0.0015 26.7 7.2 60 53-114 6-67 (445)
95 PRK06546 pyruvate dehydrogenas 53.8 14 0.0003 31.8 3.1 42 67-114 3-45 (578)
96 cd06278 PBP1_LacI_like_2 Ligan 53.8 53 0.0012 23.8 5.9 46 67-113 100-148 (266)
97 cd06298 PBP1_CcpA_like Ligand- 53.4 60 0.0013 23.6 6.1 46 67-113 101-150 (268)
98 CHL00200 trpA tryptophan synth 53.2 28 0.0006 27.4 4.5 40 71-114 109-148 (263)
99 PRK13111 trpA tryptophan synth 52.7 30 0.00064 27.2 4.6 39 72-114 108-146 (258)
100 PRK11041 DNA-binding transcrip 52.7 53 0.0011 24.7 5.9 46 67-113 137-185 (309)
101 cd06291 PBP1_Qymf_like Ligand 52.6 63 0.0014 23.5 6.1 46 67-113 97-146 (265)
102 PRK07524 hypothetical protein; 52.4 22 0.00047 30.1 4.0 41 68-114 3-43 (535)
103 TIGR03394 indol_phenyl_DC indo 52.3 28 0.0006 29.8 4.7 40 69-114 2-42 (535)
104 PRK10727 DNA-binding transcrip 52.3 52 0.0011 25.4 5.9 44 69-113 163-209 (343)
105 PRK06457 pyruvate dehydrogenas 52.3 22 0.00049 30.2 4.1 41 68-114 3-43 (549)
106 cd06287 PBP1_LacI_like_8 Ligan 52.3 56 0.0012 24.5 5.9 45 67-112 103-150 (269)
107 PRK09124 pyruvate dehydrogenas 51.9 21 0.00045 30.6 3.9 41 68-114 4-45 (574)
108 KOG1185 Thiamine pyrophosphate 51.9 27 0.00059 30.7 4.5 42 67-114 14-55 (571)
109 PF00875 DNA_photolyase: DNA p 51.9 26 0.00056 24.8 3.8 44 70-113 77-120 (165)
110 PRK08155 acetolactate synthase 51.9 14 0.00031 31.5 2.8 42 67-114 13-55 (564)
111 cd07038 TPP_PYR_PDC_IPDC_like 51.6 22 0.00048 25.5 3.5 37 72-114 2-39 (162)
112 COG0684 MenG Demethylmenaquino 51.5 45 0.00098 25.7 5.3 58 18-88 49-106 (210)
113 cd06290 PBP1_LacI_like_9 Ligan 51.0 59 0.0013 23.7 5.8 44 69-113 102-148 (265)
114 PRK06466 acetolactate synthase 50.8 21 0.00046 30.6 3.7 41 68-114 5-46 (574)
115 PRK06276 acetolactate synthase 50.4 27 0.00057 30.1 4.3 40 69-114 3-42 (586)
116 PRK05858 hypothetical protein; 50.3 26 0.00056 29.8 4.2 41 68-114 6-46 (542)
117 PRK11303 DNA-binding transcrip 50.2 60 0.0013 24.8 5.9 44 68-112 165-211 (328)
118 PF01346 FKBP_N: Domain amino 50.1 17 0.00036 24.7 2.5 24 61-84 21-44 (124)
119 COG3345 GalA Alpha-galactosida 50.1 22 0.00048 31.8 3.7 41 72-113 313-371 (687)
120 TIGR02417 fruct_sucro_rep D-fr 50.1 64 0.0014 24.6 6.0 42 70-112 166-210 (327)
121 cd01540 PBP1_arabinose_binding 50.0 65 0.0014 23.9 5.9 53 60-112 105-162 (289)
122 PRK08979 acetolactate synthase 49.5 27 0.00059 29.9 4.2 41 68-114 5-46 (572)
123 PRK08266 hypothetical protein; 49.5 27 0.00058 29.6 4.1 41 68-114 5-47 (542)
124 PF01120 Alpha_L_fucos: Alpha- 49.2 34 0.00074 27.7 4.5 44 70-113 93-154 (346)
125 PF04551 GcpE: GcpE protein; 49.1 36 0.00078 28.4 4.7 51 61-113 53-134 (359)
126 PRK14987 gluconate operon tran 49.1 70 0.0015 24.5 6.1 43 68-111 166-210 (331)
127 TIGR03393 indolpyr_decarb indo 48.9 29 0.00063 29.5 4.2 41 68-114 2-43 (539)
128 cd01537 PBP1_Repressors_Sugar_ 48.7 68 0.0015 22.7 5.7 44 67-110 103-148 (264)
129 TIGR01019 sucCoAalpha succinyl 48.5 45 0.00097 26.7 5.0 39 74-114 80-118 (286)
130 PRK07525 sulfoacetaldehyde ace 48.5 28 0.0006 30.0 4.1 42 67-114 6-47 (588)
131 COG0299 PurN Folate-dependent 47.7 38 0.00082 26.1 4.3 40 74-114 43-83 (200)
132 cd06272 PBP1_hexuronate_repres 47.5 64 0.0014 23.5 5.5 45 67-112 96-143 (261)
133 PRK06882 acetolactate synthase 47.4 31 0.00067 29.5 4.2 41 68-114 5-46 (574)
134 PLN02470 acetolactate synthase 47.3 25 0.00054 30.2 3.6 42 67-114 13-55 (585)
135 PF00289 CPSase_L_chain: Carba 47.0 48 0.001 22.6 4.4 48 63-114 56-103 (110)
136 cd06292 PBP1_LacI_like_10 Liga 47.0 86 0.0019 22.9 6.1 45 67-112 107-154 (273)
137 cd01575 PBP1_GntR Ligand-bindi 46.9 83 0.0018 22.8 6.0 45 67-112 101-148 (268)
138 cd06333 PBP1_ABC-type_HAAT_lik 46.7 72 0.0016 24.2 5.8 46 67-113 118-164 (312)
139 PRK07979 acetolactate synthase 46.7 33 0.00072 29.4 4.3 41 68-114 5-46 (574)
140 PF00070 Pyr_redox: Pyridine n 46.6 68 0.0015 19.7 5.0 46 68-114 9-58 (80)
141 cd07037 TPP_PYR_MenD Pyrimidin 46.1 29 0.00064 25.2 3.4 37 72-114 2-39 (162)
142 cd06326 PBP1_STKc_like Type I 46.1 74 0.0016 24.2 5.8 47 66-113 120-167 (336)
143 PRK10401 DNA-binding transcrip 46.0 86 0.0019 24.2 6.2 43 70-113 164-209 (346)
144 PRK08611 pyruvate oxidase; Pro 45.4 34 0.00074 29.4 4.2 41 68-114 5-47 (576)
145 PRK13125 trpA tryptophan synth 45.4 53 0.0012 25.1 4.9 40 73-113 93-132 (244)
146 PRK11269 glyoxylate carboligas 45.2 30 0.00064 29.8 3.8 41 68-114 5-46 (591)
147 PRK12474 hypothetical protein; 44.9 39 0.00085 28.5 4.4 41 68-114 6-47 (518)
148 PLN02573 pyruvate decarboxylas 44.5 38 0.00083 29.2 4.4 42 67-114 16-58 (578)
149 TIGR01504 glyox_carbo_lig glyo 44.4 41 0.00089 29.1 4.5 41 68-114 4-45 (588)
150 PRK07282 acetolactate synthase 44.3 42 0.00092 28.8 4.6 41 68-114 11-52 (566)
151 TIGR00118 acolac_lg acetolacta 44.2 33 0.00071 29.2 3.9 40 69-114 3-43 (558)
152 TIGR02405 trehalos_R_Ecol treh 44.1 82 0.0018 24.0 5.8 43 69-112 159-205 (311)
153 TIGR02571 ComEB ComE operon pr 44.1 43 0.00092 24.3 4.0 35 74-113 101-135 (151)
154 COG0028 IlvB Thiamine pyrophos 44.1 39 0.00085 29.3 4.4 40 69-114 4-43 (550)
155 PF02878 PGM_PMM_I: Phosphoglu 44.1 1E+02 0.0023 21.1 6.5 51 61-113 18-71 (137)
156 PF01583 APS_kinase: Adenylyls 44.1 34 0.00074 25.0 3.5 47 68-114 17-78 (156)
157 cd01541 PBP1_AraR Ligand-bindi 44.0 82 0.0018 23.1 5.6 44 69-112 108-152 (273)
158 PF14488 DUF4434: Domain of un 43.7 61 0.0013 23.7 4.8 40 74-114 26-82 (166)
159 cd06320 PBP1_allose_binding Pe 43.7 72 0.0016 23.4 5.3 49 62-113 104-156 (275)
160 TIGR00173 menD 2-succinyl-5-en 43.7 31 0.00067 28.5 3.6 40 69-114 2-42 (432)
161 PRK09526 lacI lac repressor; R 43.5 1E+02 0.0022 23.6 6.3 44 68-112 167-213 (342)
162 TIGR03254 oxalate_oxc oxalyl-C 43.5 40 0.00087 28.7 4.3 41 68-114 4-44 (554)
163 PRK05678 succinyl-CoA syntheta 43.5 57 0.0012 26.1 5.0 39 74-114 82-120 (291)
164 PRK07092 benzoylformate decarb 43.1 33 0.00072 29.0 3.7 42 66-114 11-52 (530)
165 PRK14324 glmM phosphoglucosami 42.1 1.3E+02 0.0029 25.0 7.2 60 53-114 9-71 (446)
166 PRK10887 glmM phosphoglucosami 41.7 1.3E+02 0.0029 24.9 7.1 52 61-114 18-71 (443)
167 PF02006 DUF137: Protein of un 41.6 62 0.0013 24.5 4.5 45 64-112 14-59 (178)
168 PRK13397 3-deoxy-7-phosphohept 41.6 59 0.0013 25.7 4.7 49 66-114 27-83 (250)
169 PF08032 SpoU_sub_bind: RNA 2' 41.5 32 0.0007 20.9 2.7 41 70-113 4-46 (76)
170 PF03719 Ribosomal_S5_C: Ribos 41.5 40 0.00086 21.6 3.1 37 72-108 26-62 (74)
171 PF01301 Glyco_hydro_35: Glyco 41.4 42 0.0009 27.0 3.9 43 72-114 28-80 (319)
172 PRK06965 acetolactate synthase 41.2 41 0.00088 29.0 4.0 45 64-114 18-63 (587)
173 PRK12744 short chain dehydroge 41.1 97 0.0021 22.8 5.7 40 68-108 19-58 (257)
174 COG2179 Predicted hydrolase of 41.1 61 0.0013 24.5 4.5 46 68-113 14-65 (175)
175 PRK07738 flagellar protein Fla 41.1 47 0.001 23.4 3.7 29 15-43 62-90 (117)
176 PF00106 adh_short: short chai 41.0 1.1E+02 0.0023 20.7 5.5 44 66-111 9-52 (167)
177 cd06339 PBP1_YraM_LppC_lipopro 41.0 72 0.0016 24.9 5.1 44 69-113 111-155 (336)
178 cd07035 TPP_PYR_POX_like Pyrim 40.9 31 0.00068 23.9 2.8 36 72-113 2-37 (155)
179 cd06299 PBP1_LacI_like_13 Liga 40.7 1.1E+02 0.0023 22.3 5.7 42 70-112 104-148 (265)
180 PRK12457 2-dehydro-3-deoxyphos 40.6 85 0.0018 25.4 5.5 53 62-114 28-91 (281)
181 PRK09532 DNA polymerase III su 40.5 55 0.0012 30.2 4.9 40 72-114 23-62 (874)
182 PF07355 GRDB: Glycine/sarcosi 40.4 46 0.001 27.7 4.0 31 58-88 317-347 (349)
183 PF01261 AP_endonuc_2: Xylose 40.0 25 0.00054 24.7 2.2 39 75-113 2-43 (213)
184 cd06297 PBP1_LacI_like_12 Liga 39.9 84 0.0018 23.2 5.1 49 60-113 96-152 (269)
185 cd06308 PBP1_sensor_kinase_lik 39.7 1.1E+02 0.0023 22.5 5.6 45 68-113 106-156 (270)
186 cd06300 PBP1_ABC_sugar_binding 39.4 1.1E+02 0.0023 22.4 5.7 45 68-113 109-159 (272)
187 TIGR01162 purE phosphoribosyla 39.3 1.2E+02 0.0026 22.4 5.7 42 72-114 16-57 (156)
188 PRK09228 guanine deaminase; Pr 39.0 1E+02 0.0022 25.5 5.9 49 62-113 109-157 (433)
189 PRK07064 hypothetical protein; 39.0 40 0.00086 28.5 3.6 41 68-114 4-45 (544)
190 cd04509 PBP1_ABC_transporter_G 38.7 1.2E+02 0.0027 21.8 5.8 48 66-113 120-167 (299)
191 PRK05898 dnaE DNA polymerase I 38.5 62 0.0013 30.4 4.9 41 71-114 21-61 (971)
192 cd06303 PBP1_LuxPQ_Quorum_Sens 38.2 1.3E+02 0.0028 22.4 6.0 44 68-112 115-163 (280)
193 PRK08273 thiamine pyrophosphat 38.0 57 0.0012 28.2 4.4 41 68-114 4-46 (597)
194 cd07034 TPP_PYR_PFOR_IOR-alpha 37.7 69 0.0015 22.3 4.2 39 70-114 2-45 (160)
195 PHA02588 cd deoxycytidylate de 37.5 58 0.0013 23.9 3.9 36 74-113 115-150 (168)
196 PRK07374 dnaE DNA polymerase I 37.2 63 0.0014 30.9 4.9 41 71-114 22-62 (1170)
197 PRK07586 hypothetical protein; 37.0 46 0.001 28.0 3.6 40 69-114 3-43 (514)
198 PRK08199 thiamine pyrophosphat 36.8 46 0.00099 28.4 3.6 42 67-114 8-50 (557)
199 COG0858 RbfA Ribosome-binding 36.6 1.5E+02 0.0032 20.7 8.1 92 6-109 25-116 (118)
200 PRK09107 acetolactate synthase 36.5 62 0.0013 28.0 4.4 43 66-114 10-53 (595)
201 PRK05673 dnaE DNA polymerase I 36.5 68 0.0015 30.6 5.0 41 71-114 21-61 (1135)
202 COG1109 {ManB} Phosphomannomut 36.4 1.8E+02 0.0039 24.4 7.1 59 53-113 15-75 (464)
203 cd03089 PMM_PGM The phosphoman 36.2 1.9E+02 0.0042 23.9 7.2 60 53-114 7-68 (443)
204 PF14871 GHL6: Hypothetical gl 35.8 80 0.0017 22.3 4.2 44 71-114 3-61 (132)
205 cd06289 PBP1_MalI_like Ligand- 35.6 1.5E+02 0.0032 21.4 5.8 45 67-112 102-149 (268)
206 cd01544 PBP1_GalR Ligand-bindi 35.5 1.5E+02 0.0032 21.8 5.9 43 68-111 98-148 (270)
207 TIGR00262 trpA tryptophan synt 35.5 81 0.0018 24.5 4.6 39 71-113 105-143 (256)
208 PRK10339 DNA-binding transcrip 35.4 1.5E+02 0.0032 22.7 6.0 44 67-111 159-205 (327)
209 TIGR00594 polc DNA-directed DN 35.1 74 0.0016 29.9 4.9 41 71-114 20-60 (1022)
210 PRK08527 acetolactate synthase 35.0 55 0.0012 28.0 3.8 40 69-114 5-45 (563)
211 PF11141 DUF2914: Protein of u 34.8 1.1E+02 0.0023 19.0 4.3 19 28-47 44-62 (66)
212 PRK09259 putative oxalyl-CoA d 34.8 73 0.0016 27.3 4.5 41 68-114 11-51 (569)
213 PRK06456 acetolactate synthase 34.6 64 0.0014 27.5 4.2 40 69-114 4-47 (572)
214 PRK07135 dnaE DNA polymerase I 34.5 75 0.0016 29.9 4.8 40 72-114 23-62 (973)
215 cd04726 KGPDC_HPS 3-Keto-L-gul 34.3 1E+02 0.0022 22.1 4.8 39 72-113 68-106 (202)
216 PRK15395 methyl-galactoside AB 34.3 1.7E+02 0.0036 22.9 6.2 53 60-112 132-194 (330)
217 PRK14318 glmM phosphoglucosami 34.2 2.1E+02 0.0046 23.8 7.1 60 53-114 10-76 (448)
218 cd06322 PBP1_ABC_sugar_binding 34.1 1.6E+02 0.0035 21.4 5.8 48 63-113 104-154 (267)
219 cd06311 PBP1_ABC_sugar_binding 33.6 1.4E+02 0.003 21.9 5.5 49 62-113 109-159 (274)
220 PF06792 UPF0261: Uncharacteri 33.5 1.5E+02 0.0032 25.3 6.0 49 61-109 312-370 (403)
221 cd06350 PBP1_GPCR_family_C_lik 33.2 1.4E+02 0.003 22.8 5.6 49 65-113 143-191 (348)
222 PRK06154 hypothetical protein; 33.2 61 0.0013 27.9 3.9 38 68-114 21-58 (565)
223 cd06317 PBP1_ABC_sugar_binding 33.2 1.7E+02 0.0036 21.3 5.8 43 68-111 109-156 (275)
224 PRK14316 glmM phosphoglucosami 32.9 2.1E+02 0.0046 23.7 6.9 60 53-114 9-72 (448)
225 cd00175 SNc Staphylococcal nuc 32.8 1.5E+02 0.0033 19.7 6.7 66 27-112 58-125 (129)
226 cd06306 PBP1_TorT-like TorT-li 32.8 1.2E+02 0.0027 22.3 5.1 51 62-113 104-158 (268)
227 PF02641 DUF190: Uncharacteriz 32.5 50 0.0011 22.0 2.6 30 69-99 21-52 (101)
228 PRK06920 dnaE DNA polymerase I 32.4 88 0.0019 29.8 5.0 41 71-114 22-62 (1107)
229 cd05802 GlmM GlmM is a bacteri 32.4 2.5E+02 0.0054 23.2 7.2 60 53-114 7-69 (434)
230 PF13880 Acetyltransf_13: ESCO 32.3 36 0.00079 21.8 1.8 28 80-109 6-33 (70)
231 PRK07418 acetolactate synthase 32.2 73 0.0016 27.6 4.2 42 67-114 19-64 (616)
232 PRK14719 bifunctional RNAse/5- 32.1 75 0.0016 26.2 4.1 39 73-113 58-98 (360)
233 PRK12827 short chain dehydroge 32.0 1.5E+02 0.0033 21.2 5.4 22 67-88 16-37 (249)
234 TIGR02801 tolR TolR protein. T 31.9 1.7E+02 0.0036 19.9 6.1 28 84-112 95-122 (129)
235 cd06279 PBP1_LacI_like_3 Ligan 31.8 1.8E+02 0.0039 21.6 5.9 45 67-112 101-165 (283)
236 PTZ00445 p36-lilke protein; Pr 31.7 1E+02 0.0022 24.1 4.5 48 66-113 27-94 (219)
237 TIGR02720 pyruv_oxi_spxB pyruv 31.6 71 0.0015 27.4 4.0 39 70-114 2-42 (575)
238 PF01408 GFO_IDH_MocA: Oxidore 31.4 1.5E+02 0.0032 19.2 5.2 42 70-113 75-116 (120)
239 PRK07279 dnaE DNA polymerase I 31.4 91 0.002 29.6 4.9 41 71-114 21-61 (1034)
240 cd06321 PBP1_ABC_sugar_binding 31.4 1.6E+02 0.0035 21.5 5.5 49 61-112 102-153 (271)
241 PF02789 Peptidase_M17_N: Cyto 31.4 1.5E+02 0.0034 19.4 6.7 51 61-111 66-117 (126)
242 PRK12738 kbaY tagatose-bisphos 31.2 1.1E+02 0.0025 24.5 4.9 41 71-112 87-130 (286)
243 PF02961 BAF: Barrier to autoi 30.9 24 0.00052 23.9 0.8 26 61-86 19-44 (89)
244 COG2131 ComEB Deoxycytidylate 30.8 98 0.0021 23.1 4.1 39 73-113 110-148 (164)
245 PRK13210 putative L-xylulose 5 30.6 1.6E+02 0.0035 22.1 5.5 42 72-113 20-68 (284)
246 PRK07789 acetolactate synthase 30.6 76 0.0016 27.5 4.0 41 68-114 32-73 (612)
247 PF11798 IMS_HHH: IMS family H 30.6 29 0.00062 18.6 1.0 16 67-82 17-32 (32)
248 PRK07523 gluconate 5-dehydroge 30.3 1.5E+02 0.0033 21.7 5.2 40 66-110 19-58 (255)
249 PRK06826 dnaE DNA polymerase I 30.1 95 0.002 29.7 4.8 41 71-114 24-64 (1151)
250 PF03900 Porphobil_deamC: Porp 30.1 15 0.00033 23.0 -0.2 40 29-79 35-74 (74)
251 PF06414 Zeta_toxin: Zeta toxi 30.1 1.7E+02 0.0037 21.2 5.4 47 64-113 76-122 (199)
252 cd07940 DRE_TIM_IPMS 2-isoprop 30.0 1.2E+02 0.0026 23.4 4.7 68 42-112 90-158 (268)
253 TIGR00369 unchar_dom_1 unchara 29.8 1.2E+02 0.0025 20.0 4.1 21 28-49 94-114 (117)
254 COG3894 Uncharacterized metal- 29.6 1.3E+02 0.0028 26.8 5.2 65 17-81 163-242 (614)
255 cd05800 PGM_like2 This PGM-lik 29.6 2.6E+02 0.0057 23.2 7.0 60 53-114 8-71 (461)
256 cd00946 FBP_aldolase_IIA Class 29.6 2.8E+02 0.0062 22.9 7.0 55 57-112 94-156 (345)
257 PRK01060 endonuclease IV; Prov 29.4 1.7E+02 0.0037 22.1 5.5 40 73-112 17-62 (281)
258 COG0159 TrpA Tryptophan syntha 29.1 99 0.0022 24.7 4.1 38 73-114 114-151 (265)
259 PRK13761 hypothetical protein; 29.0 1.4E+02 0.0029 23.8 4.8 47 62-112 75-122 (248)
260 cd06313 PBP1_ABC_sugar_binding 29.0 1.9E+02 0.0041 21.4 5.6 49 61-112 104-156 (272)
261 COG1985 RibD Pyrimidine reduct 28.9 1.5E+02 0.0032 22.7 5.0 44 6-49 62-107 (218)
262 TIGR01132 pgm phosphoglucomuta 28.9 2E+02 0.0043 24.8 6.2 52 61-114 55-109 (543)
263 PRK08327 acetolactate synthase 28.8 82 0.0018 27.0 3.9 36 67-108 7-42 (569)
264 TIGR00730 conserved hypothetic 28.8 1.9E+02 0.004 21.4 5.4 41 63-112 18-58 (178)
265 PF02254 TrkA_N: TrkA-N domain 28.6 1.2E+02 0.0026 19.6 4.0 37 68-113 8-44 (116)
266 TIGR02967 guan_deamin guanine 28.6 2.1E+02 0.0046 22.9 6.1 49 62-113 84-132 (401)
267 cd01303 GDEase Guanine deamina 28.6 1.9E+02 0.0042 23.7 5.9 49 62-113 105-153 (429)
268 PRK13398 3-deoxy-7-phosphohept 28.4 1.7E+02 0.0037 23.0 5.4 44 71-114 44-95 (266)
269 TIGR02867 spore_II_P stage II 28.1 1.5E+02 0.0033 22.4 4.9 24 65-89 31-54 (196)
270 cd06314 PBP1_tmGBP Periplasmic 28.0 2E+02 0.0043 21.1 5.5 44 68-113 104-153 (271)
271 PF02826 2-Hacid_dh_C: D-isome 28.0 83 0.0018 22.6 3.3 26 66-92 44-69 (178)
272 PF02662 FlpD: Methyl-viologen 28.0 1E+02 0.0023 21.4 3.7 47 66-112 37-92 (124)
273 cd07939 DRE_TIM_NifV Streptomy 28.0 2.8E+02 0.006 21.2 8.4 69 41-112 85-154 (259)
274 COG0587 DnaE DNA polymerase II 27.8 1.1E+02 0.0024 29.4 4.8 40 72-114 24-63 (1139)
275 TIGR02766 crypt_chrom_pln cryp 27.7 1.4E+02 0.0031 25.0 5.1 44 69-113 75-119 (475)
276 PF13840 ACT_7: ACT domain ; P 27.7 63 0.0014 19.6 2.3 34 81-114 5-39 (65)
277 PRK10936 TMAO reductase system 27.6 2.8E+02 0.006 21.7 6.5 52 61-113 150-205 (343)
278 cd01542 PBP1_TreR_like Ligand- 27.6 2.4E+02 0.0051 20.3 5.8 44 67-111 99-146 (259)
279 PF12683 DUF3798: Protein of u 27.5 1.5E+02 0.0032 24.0 4.9 49 66-114 115-167 (275)
280 cd04906 ACT_ThrD-I_1 First of 27.1 1.7E+02 0.0037 18.5 4.5 34 79-113 24-69 (85)
281 cd04729 NanE N-acetylmannosami 27.1 1.1E+02 0.0024 22.6 4.0 40 73-113 84-126 (219)
282 TIGR01858 tag_bisphos_ald clas 27.0 1.5E+02 0.0034 23.6 4.9 39 73-112 87-128 (282)
283 PRK05672 dnaE2 error-prone DNA 27.0 1.3E+02 0.0027 28.6 5.0 41 71-114 24-64 (1046)
284 cd05803 PGM_like4 This PGM-lik 27.0 3.1E+02 0.0067 22.7 6.9 59 54-114 8-69 (445)
285 cd01292 metallo-dependent_hydr 26.7 2E+02 0.0044 20.5 5.2 51 61-113 28-83 (275)
286 cd04724 Tryptophan_synthase_al 26.6 1.4E+02 0.0031 22.8 4.6 38 72-113 95-132 (242)
287 cd07939 DRE_TIM_NifV Streptomy 26.5 1.5E+02 0.0033 22.7 4.7 37 73-109 144-180 (259)
288 PF03928 DUF336: Domain of unk 26.1 1.4E+02 0.0031 20.4 4.1 31 62-93 4-36 (132)
289 PRK06114 short chain dehydroge 25.8 2E+02 0.0043 21.1 5.2 22 67-88 18-39 (254)
290 PRK12393 amidohydrolase; Provi 25.7 1.9E+02 0.0041 24.1 5.4 50 61-113 99-153 (457)
291 PRK10653 D-ribose transporter 25.7 2E+02 0.0044 21.5 5.3 47 66-113 130-181 (295)
292 KOG1197 Predicted quinone oxid 25.7 43 0.00092 27.5 1.5 69 32-102 164-235 (336)
293 PRK14315 glmM phosphoglucosami 25.4 3.6E+02 0.0078 22.4 7.0 60 53-114 11-74 (448)
294 PRK08452 flagellar protein Fla 25.4 1.1E+02 0.0024 21.7 3.4 27 17-43 71-97 (124)
295 PRK14320 glmM phosphoglucosami 25.3 3.1E+02 0.0067 22.8 6.6 52 61-114 19-73 (443)
296 PRK07564 phosphoglucomutase; V 25.2 3.2E+02 0.007 23.5 6.9 52 61-114 54-108 (543)
297 cd06366 PBP1_GABAb_receptor Li 25.2 2.5E+02 0.0054 21.6 5.8 48 66-113 119-166 (350)
298 TIGR02415 23BDH acetoin reduct 25.1 2.3E+02 0.005 20.5 5.3 40 66-110 9-48 (254)
299 cd06346 PBP1_ABC_ligand_bindin 25.1 2.8E+02 0.0061 21.1 6.0 44 69-113 124-168 (312)
300 PLN03231 putative alpha-galact 25.1 1.5E+02 0.0032 24.7 4.7 53 61-113 15-102 (357)
301 TIGR02765 crypto_DASH cryptoch 25.0 1.6E+02 0.0035 24.2 4.9 41 71-113 86-128 (429)
302 PLN02808 alpha-galactosidase 25.0 1.7E+02 0.0037 24.5 5.0 53 60-113 45-113 (386)
303 PF04028 DUF374: Domain of unk 24.7 1.7E+02 0.0036 18.7 3.9 32 70-106 22-53 (74)
304 PRK08610 fructose-bisphosphate 24.7 2E+02 0.0043 23.1 5.2 38 74-112 93-133 (286)
305 TIGR01455 glmM phosphoglucosam 24.7 2.8E+02 0.0062 22.9 6.3 52 61-114 15-70 (443)
306 PRK12737 gatY tagatose-bisphos 24.6 1.8E+02 0.0039 23.2 4.9 39 73-112 89-130 (284)
307 PF07756 DUF1612: Protein of u 24.6 52 0.0011 23.7 1.6 33 77-109 72-104 (128)
308 TIGR00119 acolac_sm acetolacta 24.5 1.2E+02 0.0027 22.1 3.7 51 59-112 93-143 (157)
309 PF01488 Shikimate_DH: Shikima 24.3 1.9E+02 0.0042 19.8 4.6 37 67-107 21-57 (135)
310 cd01305 archeal_chlorohydrolas 24.3 3.1E+02 0.0068 20.6 6.2 49 61-112 45-93 (263)
311 COG3185 4-hydroxyphenylpyruvat 24.2 88 0.0019 26.3 3.1 39 68-114 233-271 (363)
312 PRK15493 5-methylthioadenosine 24.2 2.1E+02 0.0046 23.6 5.5 49 62-113 98-146 (435)
313 PF02593 dTMP_synthase: Thymid 24.1 2.3E+02 0.0049 22.0 5.2 43 69-113 64-106 (217)
314 PRK09195 gatY tagatose-bisphos 24.1 1.9E+02 0.004 23.2 4.9 40 72-112 88-130 (284)
315 PRK07084 fructose-bisphosphate 23.9 2E+02 0.0044 23.6 5.2 39 73-112 100-141 (321)
316 PRK13209 L-xylulose 5-phosphat 23.8 2E+02 0.0044 21.7 5.0 40 74-113 27-73 (283)
317 TIGR03556 photolyase_8HDF deox 23.8 1.8E+02 0.0039 24.5 5.0 42 71-113 80-122 (471)
318 cd01538 PBP1_ABC_xylose_bindin 23.8 2.4E+02 0.0051 21.1 5.3 49 62-110 103-155 (288)
319 PRK08085 gluconate 5-dehydroge 23.7 2.2E+02 0.0049 20.7 5.1 37 67-108 19-55 (254)
320 PF12689 Acid_PPase: Acid Phos 23.4 1.3E+02 0.0027 22.3 3.6 18 96-113 107-124 (169)
321 PLN02746 hydroxymethylglutaryl 23.4 1.7E+02 0.0037 24.1 4.6 71 40-112 136-212 (347)
322 PRK11024 colicin uptake protei 23.2 2.7E+02 0.0058 19.4 6.1 39 73-112 94-132 (141)
323 PRK13813 orotidine 5'-phosphat 23.2 2.6E+02 0.0056 20.5 5.3 42 69-113 68-109 (215)
324 cd06360 PBP1_alkylbenzenes_lik 23.2 2.6E+02 0.0055 21.2 5.4 46 67-113 119-165 (336)
325 TIGR00212 hemC porphobilinogen 22.9 3E+02 0.0066 22.2 5.9 41 28-81 252-292 (292)
326 PF00857 Isochorismatase: Isoc 22.8 1.4E+02 0.0029 20.8 3.6 42 69-113 99-140 (174)
327 cd06309 PBP1_YtfQ_like Peripla 22.7 3E+02 0.0065 20.1 5.6 48 62-112 106-157 (273)
328 PF04298 Zn_peptidase_2: Putat 22.7 1.5E+02 0.0032 23.2 4.0 44 67-110 36-98 (222)
329 TIGR02955 TMAO_TorT TMAO reduc 22.6 2.3E+02 0.0051 21.3 5.1 52 61-113 103-158 (295)
330 TIGR03855 NAD_NadX aspartate d 22.6 2.3E+02 0.005 21.8 5.0 42 71-113 51-92 (229)
331 PF04273 DUF442: Putative phos 22.6 1.6E+02 0.0036 20.0 3.8 36 73-108 49-84 (110)
332 TIGR03025 EPS_sugtrans exopoly 22.5 2.2E+02 0.0048 23.4 5.2 40 72-113 179-218 (445)
333 PRK08217 fabG 3-ketoacyl-(acyl 22.4 2.7E+02 0.0058 20.0 5.2 23 66-88 14-36 (253)
334 cd05801 PGM_like3 This bacteri 22.4 2.9E+02 0.0064 23.6 6.1 51 61-113 37-90 (522)
335 PF03460 NIR_SIR_ferr: Nitrite 22.4 1.9E+02 0.004 17.3 3.9 38 71-108 27-68 (69)
336 cd00019 AP2Ec AP endonuclease 22.3 2.1E+02 0.0045 21.7 4.8 39 74-112 16-61 (279)
337 cd07945 DRE_TIM_CMS Leptospira 22.3 2E+02 0.0044 22.6 4.8 68 42-112 91-162 (280)
338 cd00958 DhnA Class I fructose- 22.3 2E+02 0.0044 21.3 4.6 11 74-84 115-125 (235)
339 PRK05835 fructose-bisphosphate 22.2 2.4E+02 0.0051 23.0 5.2 39 73-112 89-130 (307)
340 cd05799 PGM2 This CD includes 22.1 4.2E+02 0.0091 22.2 6.9 52 61-114 20-77 (487)
341 cd06312 PBP1_ABC_sugar_binding 22.1 3.2E+02 0.007 19.9 5.9 45 67-112 109-157 (271)
342 cd01536 PBP1_ABC_sugar_binding 22.1 3E+02 0.0065 19.6 5.6 46 67-112 104-154 (267)
343 PF03659 Glyco_hydro_71: Glyco 22.1 1.9E+02 0.0041 24.1 4.7 39 75-113 24-63 (386)
344 COG4566 TtrR Response regulato 22.0 97 0.0021 24.0 2.8 43 68-114 61-103 (202)
345 TIGR01668 YqeG_hyp_ppase HAD s 21.9 2.1E+02 0.0046 20.3 4.5 35 78-113 21-62 (170)
346 PRK00124 hypothetical protein; 21.9 1.5E+02 0.0033 21.7 3.7 36 73-111 78-120 (151)
347 PRK14319 glmM phosphoglucosami 21.9 2.9E+02 0.0062 22.8 5.8 56 53-114 9-66 (430)
348 cd06323 PBP1_ribose_binding Pe 21.8 3.1E+02 0.0067 19.7 5.6 45 69-113 106-155 (268)
349 COG1056 NadR Nicotinamide mono 21.8 2E+02 0.0043 21.5 4.4 39 73-112 22-69 (172)
350 cd07943 DRE_TIM_HOA 4-hydroxy- 21.8 2.1E+02 0.0046 21.9 4.7 16 97-112 141-156 (263)
351 PF03447 NAD_binding_3: Homose 21.8 79 0.0017 20.9 2.1 42 71-113 73-114 (117)
352 TIGR03845 sulfopyru_alph sulfo 21.8 1.8E+02 0.0039 20.9 4.1 37 71-114 2-38 (157)
353 PRK08868 flagellar protein Fla 21.7 1.4E+02 0.0031 21.8 3.5 28 16-43 88-115 (144)
354 cd07944 DRE_TIM_HOA_like 4-hyd 21.7 2.3E+02 0.005 22.0 4.9 36 73-108 143-178 (266)
355 COG1052 LdhA Lactate dehydroge 21.7 1.4E+02 0.0031 24.2 3.9 23 67-89 155-177 (324)
356 PRK13396 3-deoxy-7-phosphohept 21.7 1.6E+02 0.0035 24.4 4.2 44 71-114 118-169 (352)
357 PLN02419 methylmalonate-semial 21.6 63 0.0014 28.6 1.9 27 3-29 18-44 (604)
358 PF03446 NAD_binding_2: NAD bi 21.6 1.9E+02 0.0042 20.3 4.2 23 68-91 11-33 (163)
359 smart00822 PKS_KR This enzymat 21.6 2.5E+02 0.0054 18.4 5.1 24 68-91 11-34 (180)
360 PF07485 DUF1529: Domain of Un 21.5 70 0.0015 22.6 1.8 19 95-113 66-84 (123)
361 PRK05692 hydroxymethylglutaryl 21.5 2E+02 0.0043 22.8 4.6 70 42-113 96-171 (287)
362 COG2108 Uncharacterized conser 21.3 1.5E+02 0.0033 24.8 3.9 43 70-112 123-166 (353)
363 COG1893 ApbA Ketopantoate redu 21.3 1.6E+02 0.0036 23.4 4.1 38 66-113 8-45 (307)
364 PRK09701 D-allose transporter 21.2 3.4E+02 0.0074 20.7 5.8 48 62-113 137-190 (311)
365 PRK07709 fructose-bisphosphate 21.1 2.6E+02 0.0057 22.4 5.2 38 74-112 93-133 (285)
366 PRK14317 glmM phosphoglucosami 21.0 4.3E+02 0.0093 22.1 6.7 53 60-114 31-87 (465)
367 TIGR01949 AroFGH_arch predicte 20.9 1.5E+02 0.0032 22.7 3.7 19 68-86 123-141 (258)
368 PF13671 AAA_33: AAA domain; P 20.8 2.6E+02 0.0056 18.4 5.6 45 66-113 55-99 (143)
369 COG0068 HypF Hydrogenase matur 20.7 2.6E+02 0.0056 25.8 5.5 44 69-114 681-725 (750)
370 PF07488 Glyco_hydro_67M: Glyc 20.7 1.9E+02 0.004 24.0 4.3 48 62-113 55-108 (328)
371 TIGR01830 3oxo_ACP_reduc 3-oxo 20.5 3.1E+02 0.0068 19.4 5.2 40 67-110 8-47 (239)
372 PF01935 DUF87: Domain of unkn 20.5 1.5E+02 0.0032 21.8 3.5 23 71-93 41-64 (229)
373 PRK12595 bifunctional 3-deoxy- 20.5 1.3E+02 0.0029 24.7 3.5 43 72-114 136-186 (360)
374 TIGR00542 hxl6Piso_put hexulos 20.5 2.4E+02 0.0051 21.5 4.7 39 75-113 23-68 (279)
375 PRK07791 short chain dehydroge 20.5 2.7E+02 0.0059 21.1 5.1 22 67-88 16-37 (286)
376 cd06363 PBP1_Taste_receptor Li 20.4 3.1E+02 0.0068 22.0 5.6 45 68-113 162-207 (410)
377 cd00947 TBP_aldolase_IIB Tagat 20.4 2.4E+02 0.0052 22.5 4.8 39 73-112 84-125 (276)
378 PRK12743 oxidoreductase; Provi 20.3 3.3E+02 0.0071 20.0 5.4 23 66-88 11-33 (256)
379 PRK12548 shikimate 5-dehydroge 20.3 3.3E+02 0.0071 21.3 5.6 42 67-109 135-176 (289)
380 cd06341 PBP1_ABC_ligand_bindin 20.3 2.9E+02 0.0063 21.1 5.2 44 70-113 120-164 (341)
381 PRK06124 gluconate 5-dehydroge 20.3 2.9E+02 0.0063 20.1 5.1 23 66-88 20-42 (256)
382 PRK12857 fructose-1,6-bisphosp 20.2 2.7E+02 0.0059 22.2 5.1 39 73-112 89-130 (284)
383 TIGR03128 RuMP_HxlA 3-hexulose 20.2 2.9E+02 0.0063 19.9 5.0 40 71-113 66-105 (206)
384 PF00682 HMGL-like: HMGL-like 20.2 3.7E+02 0.008 19.9 7.3 71 41-113 83-153 (237)
385 PRK06801 hypothetical protein; 20.1 2.6E+02 0.0056 22.3 5.0 38 74-112 90-130 (286)
386 TIGR02286 PaaD phenylacetic ac 20.1 2.5E+02 0.0055 18.3 4.3 21 26-47 88-108 (114)
387 PRK08278 short chain dehydroge 20.1 3E+02 0.0064 20.6 5.2 43 67-110 16-61 (273)
388 PRK07792 fabG 3-ketoacyl-(acyl 20.1 2.7E+02 0.0059 21.4 5.0 40 67-110 22-61 (306)
389 PRK11858 aksA trans-homoaconit 20.1 2.4E+02 0.0051 23.2 4.9 68 42-112 92-160 (378)
No 1
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=100.00 E-value=5.9e-42 Score=238.71 Aligned_cols=102 Identities=26% Similarity=0.403 Sum_probs=98.7
Q ss_pred CccCCCCCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC
Q 033657 11 KLSNFLKPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLK 90 (114)
Q Consensus 11 ~~~~~~~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r 90 (114)
|+.++..+|||+|++||+|||||||||.+|+||+||||.||++++++++++|++||+.+|++||+||+++||++|+|| |
T Consensus 8 ki~g~~~rpRL~V~rSnkhiyaQvidd~~g~tlasaST~ek~~~~~~~~~~n~~aA~~vG~lla~ra~~~gi~~vvfD-r 86 (109)
T CHL00139 8 KIKGTAERPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKKGITKVVFD-R 86 (109)
T ss_pred eecCCCCCCEEEEEEeCCeEEEEEEECCCCCEEEEEecCchhhhccccCCCCHHHHHHHHHHHHHHHHHCCCCEEEEc-C
Confidence 456788999999999999999999999999999999999999999999999999999999999999999999999999 7
Q ss_pred CCcchhhHHHHHHHHHHHcCccc
Q 033657 91 REQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 91 ~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
|+|+|||||+||+|++||+||+|
T Consensus 87 gg~~yhGrV~a~a~~are~GL~f 109 (109)
T CHL00139 87 GGKLYHGRIKALAEAAREAGLQF 109 (109)
T ss_pred CCCccchHHHHHHHHHHHhCCCC
Confidence 99999999999999999999997
No 2
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=100.00 E-value=8.1e-40 Score=230.38 Aligned_cols=101 Identities=35% Similarity=0.472 Sum_probs=95.7
Q ss_pred CccCCCCCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC
Q 033657 11 KLSNFLKPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLK 90 (114)
Q Consensus 11 ~~~~~~~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r 90 (114)
++.++..+|||+|++||+||||||+||++++||+||||.||+++..+. ++|++||+.||++||+||+++||++|+|| |
T Consensus 17 ki~g~~~rpRL~V~~SnkhiyAQvidd~~~~tl~saST~e~~~k~~~~-~~n~~aa~~vG~~la~ra~~~gi~~vvfD-r 94 (117)
T PRK05593 17 KISGTAERPRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVRAGLK-GGNKEAAKKVGKLIAERAKAKGIKQVVFD-R 94 (117)
T ss_pred HhcCCCCCCEEEEEEeCCeEEEEEEECCCCEEEEEEecCcHhHhcccc-CCCHHHHHHHHHHHHHHHHHCCCCEEEEc-C
Confidence 356789999999999999999999999999999999999999976654 89999999999999999999999999999 7
Q ss_pred CCcchhhHHHHHHHHHHHcCccc
Q 033657 91 REQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 91 ~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
|+++|||||+||+|++||+||+|
T Consensus 95 g~~~yhGrV~a~a~~are~Gl~f 117 (117)
T PRK05593 95 GGYKYHGRVKALADAAREAGLKF 117 (117)
T ss_pred CCCcccHHHHHHHHHHHHhCCCC
Confidence 99999999999999999999997
No 3
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=100.00 E-value=9.4e-40 Score=229.15 Aligned_cols=97 Identities=35% Similarity=0.460 Sum_probs=91.9
Q ss_pred ccCCC--CCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEec
Q 033657 12 LSNFL--KPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFL 89 (114)
Q Consensus 12 ~~~~~--~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~ 89 (114)
+.++. .+|||+||+||+|||||||||.+++||+||||+|++++ +++|+++|+.||++||+||+++||++|+||
T Consensus 16 i~gt~~~~rpRL~V~rSnk~iyaQiIdd~~~~tlasaST~ek~~~----~~~n~~aA~~vG~~la~ra~~~gi~~vvfD- 90 (114)
T TIGR00060 16 LRETGEANRPRLVVFRSNRHIYAQVIDDSKSEVLASASTLEKKLK----YTGNKDAAKKVGKLVAERLKEKGIKDVVFD- 90 (114)
T ss_pred hcCCCCCCCcEEEEEEeCCeEEEEEEECCCCEEEEEEecchhhhc----CCCCHHHHHHHHHHHHHHHHHCCCCEEEEe-
Confidence 44566 78999999999999999999999999999999999876 678999999999999999999999999999
Q ss_pred CCCcchhhHHHHHHHHHHHcCccc
Q 033657 90 KREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 90 r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
||+|+|||||+||+|++||+||+|
T Consensus 91 rgg~~YhGrv~A~a~~aRe~Gl~F 114 (114)
T TIGR00060 91 RGGYKYHGRVAALAEAAREAGLNF 114 (114)
T ss_pred CCCCcchHHHHHHHHHHHHhCCCC
Confidence 799999999999999999999997
No 4
>PTZ00032 60S ribosomal protein L18; Provisional
Probab=100.00 E-value=1.5e-38 Score=240.63 Aligned_cols=100 Identities=25% Similarity=0.331 Sum_probs=94.9
Q ss_pred cCCCCCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccC------------CCCCHHHHHHHHHHHHHHHhhC
Q 033657 13 SNFLKPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIG------------CTRDVAAASKIGKILGERLLLK 80 (114)
Q Consensus 13 ~~~~~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~------------~~~n~~Aa~~vG~~la~R~~e~ 80 (114)
....++|||+||+||+|||||||||.+++|||||||+++++++.+. .++|++||+.||++||+||+++
T Consensus 100 ~~gkrrPRLsV~RSnkHIYAQIIDD~~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~IAerAl~k 179 (211)
T PTZ00032 100 IKGKRRPRLTLKNTNNQMYATIVDDYTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKLIGRKALSK 179 (211)
T ss_pred HcCCCcceEEEEecCCeEEEEEEECCCCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHHHHHHHHHC
Confidence 3567899999999999999999999999999999999999988665 5789999999999999999999
Q ss_pred CCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 81 DIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 81 gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
||++|+|| ||||+|||||+||||++||+||+|
T Consensus 180 GI~kVvFD-RgGy~YHGRVkALAdaARe~GLkF 211 (211)
T PTZ00032 180 GISKVRFD-RAHYKYAGKVEALAEGARAVGLQF 211 (211)
T ss_pred CCCEEEEe-CCCCeehhHHHHHHHHHHHcCCCC
Confidence 99999999 899999999999999999999987
No 5
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.1e-37 Score=220.00 Aligned_cols=101 Identities=32% Similarity=0.409 Sum_probs=95.4
Q ss_pred ccCCCCCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhc--ccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEec
Q 033657 12 LSNFLKPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRS--SIGCTRDVAAASKIGKILGERLLLKDIPAVTVFL 89 (114)
Q Consensus 12 ~~~~~~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~--~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~ 89 (114)
+.+..++|||+|++||+|||||||||..+.++++|||.++++++ +...++|+++|++||+++|+||+++||++++||
T Consensus 23 l~g~~~rpRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~~~g~~~~~~N~~aA~~vG~lia~ra~~kgi~~vVfd- 101 (125)
T COG0256 23 LLGTSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGKKGGGGNTEAAYLVGKLIAERALAKGIEEVVFD- 101 (125)
T ss_pred hccCCCCcEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhcccCCCCCHHHHHHHHHHHHHHHHHcCCcEEEEc-
Confidence 44788999999999999999999999999999999999999965 566778999999999999999999999999998
Q ss_pred CCCcchhhHHHHHHHHHHHcCccc
Q 033657 90 KREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 90 r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
|++|+|||||+|++|++||+||+|
T Consensus 102 r~g~~yhgRV~Ala~~AreaGL~f 125 (125)
T COG0256 102 RGGYKYHGRVAALADGAREAGLEF 125 (125)
T ss_pred CCCCCcchHHHHHHHHHHHcCcCC
Confidence 799999999999999999999997
No 6
>cd00432 Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.
Probab=100.00 E-value=8.3e-37 Score=209.47 Aligned_cols=100 Identities=32% Similarity=0.414 Sum_probs=95.9
Q ss_pred CccCCCCCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC
Q 033657 11 KLSNFLKPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLK 90 (114)
Q Consensus 11 ~~~~~~~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r 90 (114)
+..+...+|||+|++||+||||||+||.+++||++|||.||++++++++++|.+||+.+|++||+||+++|+++++|| |
T Consensus 4 ~~~~~~~~~RL~v~~Sn~~i~aqvi~~~~~~vl~sast~e~~~~~~~~~~~n~~aA~~vG~~la~r~~~~gi~~vv~D-~ 82 (103)
T cd00432 4 KRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVFD-R 82 (103)
T ss_pred EecCcCCCCEEEEEEeCCEEEEEEEEeCcCeEEEEEecCchhhcccccCCCcHHHHHHHHHHHHHHHHHCCCCEEEEe-C
Confidence 345677899999999999999999999999999999999999999999999999999999999999999999999999 7
Q ss_pred CCcchhhHHHHHHHHHHHcCc
Q 033657 91 REQRYHGKVKAVIDSLREAGV 111 (114)
Q Consensus 91 ~~~~yhGrV~a~~~~lre~Gl 111 (114)
++++|||||+||+|++||+||
T Consensus 83 ~~~~~~grv~a~~~~~r~~Gl 103 (103)
T cd00432 83 GGYRYHGRVKALAKGAREGGL 103 (103)
T ss_pred CCcccccHHHHHHHHHHHcCC
Confidence 999999999999999999997
No 7
>PF00861 Ribosomal_L18p: Ribosomal L18p/L5e family; InterPro: IPR005484 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes L18 from bacteria and L5 from eukaryotes. The ribosomal 5S RNA is the only known rRNA species to bind a ribosomal protein before its assembly into the ribosomal subunits []. In eukaryotes, the 5S rRNA molecule binds one protein species, a 34kDa protein which has been implicated in the intracellular transport of 5 S rRNA, while in bacteria it binds two or three different protein species []. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_M 4A1C_M 4A1A_M 4A17_M 3IZR_Q 3O58_E 1S1I_E 3IZS_Q 3O5H_E 1KQS_M ....
Probab=100.00 E-value=1.7e-36 Score=213.51 Aligned_cols=100 Identities=32% Similarity=0.445 Sum_probs=94.1
Q ss_pred cCCCCCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcc--cCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC
Q 033657 13 SNFLKPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSS--IGCTRDVAAASKIGKILGERLLLKDIPAVTVFLK 90 (114)
Q Consensus 13 ~~~~~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~--l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r 90 (114)
.+..++|||+|++||+||||||+||.++.++++|||.|+++++. ..+++|++||+.||++||+||+++||..++|| |
T Consensus 18 ~~~~~~~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~~~~~~~~~n~~aa~~vG~lla~ra~~~gi~~v~fd-r 96 (119)
T PF00861_consen 18 KGTAERPRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKKYGWKGSTKNVEAAYLVGELLAKRALEKGIAKVVFD-R 96 (119)
T ss_dssp HHTTSSEEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGGTT-SSTTSSHHHHHHHHHHHHHHHHHTTSSEEEEC-T
T ss_pred hcCCCCCEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhhhhhccCCCCEehHHHHHHHHHHHHHHcCCcEEEEc-C
Confidence 45678899999999999999999999999999999999999975 47788999999999999999999999999998 7
Q ss_pred CCcchhhHHHHHHHHHHHcCccc
Q 033657 91 REQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 91 ~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
++++|||||+||+|++||+||+|
T Consensus 97 ~~~~y~grv~a~~~~~re~Gl~f 119 (119)
T PF00861_consen 97 GGYKYHGRVKALADGAREGGLEF 119 (119)
T ss_dssp STSSSSSHHHHHHHHHHHTTCB-
T ss_pred CCCcccHHHHHHHHHHHHcCCCC
Confidence 99999999999999999999997
No 8
>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed
Probab=100.00 E-value=5e-34 Score=215.24 Aligned_cols=97 Identities=25% Similarity=0.202 Sum_probs=93.5
Q ss_pred CCCcEEEEEEeCCceEEEEE--eCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc
Q 033657 16 LKPYVLRMHFTNKYVSAQVI--HSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQ 93 (114)
Q Consensus 16 ~~~~RL~V~~Snkhi~Aqvi--d~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~ 93 (114)
..+|||+|++||+||||||| ||.+|+||+||||.|++.+++..+++|++||+.||.++|+||+++||++|+|| ||++
T Consensus 30 ~~kpRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g~~~~~~N~~AAy~vG~llA~ral~kGi~~vvfD-rGg~ 108 (193)
T PRK08569 30 SGKPRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYGWKGDTGNTPAAYLTGLLAGKKALKAGVEEAVLD-IGLH 108 (193)
T ss_pred cCCCEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhccccCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEe-cCCc
Confidence 45799999999999999999 89999999999999999999988999999999999999999999999999999 6999
Q ss_pred chh--hHHHHHHHHHHHcCccc
Q 033657 94 RYH--GKVKAVIDSLREAGVKL 113 (114)
Q Consensus 94 ~yh--GrV~a~~~~lre~Gl~~ 113 (114)
+|| |||+|++|++||+||+|
T Consensus 109 ~yh~gGRV~A~akgArd~GL~f 130 (193)
T PRK08569 109 RPTKGSRVFAALKGAIDAGLEI 130 (193)
T ss_pred cccCCccHHHHHHHHHHcCCcC
Confidence 999 99999999999999987
No 9
>KOG3333 consensus Mitochondrial/chloroplast ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=99.86 E-value=1.6e-21 Score=143.40 Aligned_cols=94 Identities=27% Similarity=0.322 Sum_probs=84.1
Q ss_pred cEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhH
Q 033657 19 YVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGK 98 (114)
Q Consensus 19 ~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGr 98 (114)
|+|.|.++..|+.+-|.|..+|.+| ||||.||+|+++||++.|++||.++|++||+||+++||.++++...-...-...
T Consensus 61 h~lev~~~~~hveg~v~H~~~gvvv-SAST~EwaIk~qLYst~dtsA~~niGRVLAqRCLqsGI~fm~~~~t~ea~~~s~ 139 (188)
T KOG3333|consen 61 HRLEVIRTQHHVEGLVEHQNGGVVV-SASTREWAIKKQLYSTRDTSACENIGRVLAQRCLQSGINFMVYQPTPEAAASSS 139 (188)
T ss_pred eEEEEeecccceeeeeeEecCCEEE-EecccchHHHHHHhhccchHHHHHHHHHHHHHHHHhCcceeccCCChhhccchH
Confidence 8999999999999999998777666 999999999999999999999999999999999999999998764223345667
Q ss_pred HHHHHHHHHHcCccc
Q 033657 99 VKAVIDSLREAGVKL 113 (114)
Q Consensus 99 V~a~~~~lre~Gl~~ 113 (114)
.+-|..++.|+|+.|
T Consensus 140 ~q~l~~a~~e~Gv~l 154 (188)
T KOG3333|consen 140 MQRLQSAMTEGGVVL 154 (188)
T ss_pred HHHHHHHHHhCCeee
Confidence 888999999999976
No 10
>PTZ00069 60S ribosomal protein L5; Provisional
Probab=99.66 E-value=3.6e-16 Score=124.23 Aligned_cols=95 Identities=22% Similarity=0.208 Sum_probs=85.8
Q ss_pred CcEEEEEEeCCceEEEEEe--CCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhC--------CCC----
Q 033657 18 PYVLRMHFTNKYVSAQVIH--SPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLK--------DIP---- 83 (114)
Q Consensus 18 ~~RL~V~~Snkhi~Aqvid--~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~--------gI~---- 83 (114)
+|||+|.+||++|.|||+. .+++.||++|+|.|+.-.+|..+.+|.+|||.+|.++|.|++++ |++
T Consensus 48 K~RlVVR~TN~~ii~Qiv~~~~~GD~vl~sA~S~eL~kyG~k~gl~N~~AAY~TGlL~arR~L~kl~ld~~y~G~~e~~g 127 (300)
T PTZ00069 48 KYRLVVRITNKDIICQIVYATIVGDKVLAAAYSHELPRFGIPVGLTNYAAAYATGLLLARRLLKKLGLDKQFEGVKEADG 127 (300)
T ss_pred CceEEEEEECCcEEEEEEEeecCCCEEEEEeehhhHhhcCcCCCCccHHHHHHHHHHHHHHHHHhhcccccccCcccccC
Confidence 6999999999999999998 56999999999999999999999999999999999999999998 773
Q ss_pred ----------------EEEEecCCC--cchhhHHHHHHHHHHHcCccc
Q 033657 84 ----------------AVTVFLKRE--QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 84 ----------------~v~~d~r~~--~~yhGrV~a~~~~lre~Gl~~ 113 (114)
++++|. |- ...++||+|+++|+.++||.+
T Consensus 128 ~~y~v~e~~~~~~rpf~a~LDi-GL~rtt~G~RVFaalKGa~DgGl~I 174 (300)
T PTZ00069 128 EYYHVDEEDDEERRPFKAILDV-GLARTTTGNRVFGALKGAVDGGLHI 174 (300)
T ss_pred cccccccccccCCCCceEEEee-ccccCCCCceeeeehhcccccCccc
Confidence 667886 63 346789999999999999975
No 11
>PTZ00090 40S ribosomal protein S11; Provisional
Probab=98.33 E-value=1.4e-05 Score=61.91 Aligned_cols=100 Identities=16% Similarity=0.247 Sum_probs=80.3
Q ss_pred CCCCccCCCCCcEEEEEEeCCceEEEEEeCCCCe-EEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEE
Q 033657 8 RPPKLSNFLKPYVLRMHFTNKYVSAQVIHSPTAT-VASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVT 86 (114)
Q Consensus 8 ~~~~~~~~~~~~RL~V~~Snkhi~Aqvid~~~~~-~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~ 86 (114)
|+-.+..-...+.++|.-|-+++.++|.|..++. ||+-+|+-...+++.. .+.--||+.+++.+|++|++.||.+|.
T Consensus 108 ~~~~i~~p~~~f~~vI~aSfNNTIVTlTD~~GNv~tl~WSSAG~~GFKGsK--KsTpfAAQ~aae~aakka~~~GIk~V~ 185 (233)
T PTZ00090 108 KNGLIIEPTDRFMLVITTSKNNVHAQVVNKSKNYKTVFGSFAGNVGFRKKL--QQSERCAYRIGENIAKKCRRLGIFAVD 185 (233)
T ss_pred cCCcEecCCCcEEEEEEeccCcEEEEEEeCCCCEEEEEEEcccccCcccCc--cCCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 3445555566799999999999999999966554 6877777777676643 345678999999999999999999998
Q ss_pred EecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 87 VFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 87 ~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..+|. |..++++.++..+||++
T Consensus 186 V~vKGp----GgREtALRaL~~~GLkI 208 (233)
T PTZ00090 186 IKFRRI----MRVETVLQAFYANGLQV 208 (233)
T ss_pred EEEeCC----ChHHHHHHHHHHCCCEE
Confidence 877554 34899999999999986
No 12
>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S11 [] plays an essential role in selecting the correct tRNA in protein biosynthesis. It is located on the large lobe of the small ribosomal subunit. On the basis of sequence similarities, S11 belongs to a family of bacterial, archaeal and eukaryotic ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_K 3U5C_O 3O2Z_H 3IZB_K 3U5G_O 3O30_H 1S1H_K 3BBN_K 2XZN_K 2XZM_K ....
Probab=98.16 E-value=3.3e-05 Score=53.63 Aligned_cols=87 Identities=14% Similarity=0.166 Sum_probs=70.7
Q ss_pred EEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHH
Q 033657 21 LRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVK 100 (114)
Q Consensus 21 L~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~ 100 (114)
+.|+-|.++...++.| .+|.++.+.|+-...+++.. .....||+.+++.++++|++.||+.+.+..+|. --||-
T Consensus 3 ihI~~s~NNt~vtlTd-~~G~~~~~~S~G~~gfK~~r--k~t~~Aa~~~a~~~~~~~~~~gi~~v~v~ikG~--g~gr~- 76 (110)
T PF00411_consen 3 IHIKSSFNNTIVTLTD-LKGNVLFWSSAGSLGFKGAR--KSTPYAAQQAAEKIAKKAKELGIKTVRVKIKGF--GPGRE- 76 (110)
T ss_dssp EEEEEESSEEEEEEEE-TTSEEEEEEETTTSSTTTTC--GSSHHHHHHHHHHHHHHHHCTTEEEEEEEEESS--STTHH-
T ss_pred EEEEecCCCEEEEEEC-CCCCEEEEEecccccccccc--ccCHHHHHHHHHHHHHHHHHcCCeEEEEEEcCC--CccHH-
Confidence 6788999999999999 55888889898887777643 567899999999999999999999988877551 13444
Q ss_pred HHHHHHHHcCccc
Q 033657 101 AVIDSLREAGVKL 113 (114)
Q Consensus 101 a~~~~lre~Gl~~ 113 (114)
+++.++...|+++
T Consensus 77 ~~lk~l~~~gl~I 89 (110)
T PF00411_consen 77 AALKALKKSGLKI 89 (110)
T ss_dssp HHHHHHHHTTSEE
T ss_pred HHHHHHHhcCCEE
Confidence 5568888899876
No 13
>CHL00041 rps11 ribosomal protein S11
Probab=98.04 E-value=9.9e-05 Score=51.86 Aligned_cols=88 Identities=15% Similarity=0.206 Sum_probs=72.3
Q ss_pred EEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHH
Q 033657 20 VLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKV 99 (114)
Q Consensus 20 RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV 99 (114)
.+.|+.|.++....+.|. .|.+++++|+-...+++.. ....-||..+++.++++|++.|++.+.+..+|. - .||
T Consensus 15 i~hI~~t~NNTiiTlTd~-~G~~l~~~S~G~~gfKg~r--K~T~~Aa~~~a~~~~~~~~~~gi~~v~I~ikG~-G-~Gr- 88 (116)
T CHL00041 15 VIHIQASFNNTIVTVTDV-RGRVISWSSAGACGFKGAR--KGTPFAAQTAAENAIRTVIDQGMKRAEVMIKGP-G-LGR- 88 (116)
T ss_pred EEEEEcccCCEEEEEEcC-CCCEEEEEecCceeeCCCc--cCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECC-C-CcH-
Confidence 478999999999999985 5788989988877777643 456789999999999999999999998887653 2 355
Q ss_pred HHHHHHHHHcCccc
Q 033657 100 KAVIDSLREAGVKL 113 (114)
Q Consensus 100 ~a~~~~lre~Gl~~ 113 (114)
++++.+++..||++
T Consensus 89 ~~~ir~l~~~glkI 102 (116)
T CHL00041 89 DTALRAIRRSGLKL 102 (116)
T ss_pred HHHHHHHHHCCCEE
Confidence 66779999999976
No 14
>TIGR03632 bact_S11 30S ribosomal protein S11. This model describes the bacterial 30S ribosomal protein S11. Cutoffs are set such that the model excludes archaeal and eukaryotic ribosomal proteins, but many chloroplast and mitochondrial equivalents of S11 are detected.
Probab=98.01 E-value=0.00013 Score=50.66 Aligned_cols=87 Identities=18% Similarity=0.221 Sum_probs=70.4
Q ss_pred EEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHH
Q 033657 21 LRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVK 100 (114)
Q Consensus 21 L~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~ 100 (114)
+.|+.|.++....+.|. +|.+++.+|+-...+++. ...+.-||..+++.++++|++.||..+.+..+|. - -|| +
T Consensus 3 ~hI~~s~NNT~itlTd~-~g~~~~~~S~G~~gfkg~--rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~~kG~-G-~gr-~ 76 (108)
T TIGR03632 3 AHIHATFNNTIVTITDP-QGNVLSWASAGAVGFKGS--KKSTPYAAQLAAEDAAKKAKEFGMKTVDVYVKGP-G-AGR-E 76 (108)
T ss_pred EEEEccCCCEEEEEEcC-CCCEEEEEecCceeeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECC-C-CcH-H
Confidence 67889999999999996 566888888877777764 3456889999999999999999999998887653 2 244 6
Q ss_pred HHHHHHHHcCccc
Q 033657 101 AVIDSLREAGVKL 113 (114)
Q Consensus 101 a~~~~lre~Gl~~ 113 (114)
+++.++...||++
T Consensus 77 ~~ir~l~~~glkI 89 (108)
T TIGR03632 77 SAIRALQAAGLEV 89 (108)
T ss_pred HHHHHHHHCCCEE
Confidence 7888888899876
No 15
>PRK05309 30S ribosomal protein S11; Validated
Probab=97.97 E-value=0.00017 Score=51.58 Aligned_cols=89 Identities=20% Similarity=0.235 Sum_probs=71.6
Q ss_pred cEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhH
Q 033657 19 YVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGK 98 (114)
Q Consensus 19 ~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGr 98 (114)
-.+.|+-|.++....+.|. .|.+++.+|.-...+++. ..+..-||..+++.+++.|++.||+.+.+..+|. - -||
T Consensus 18 gi~hI~~t~NNTiitlTd~-~G~~~~~~S~G~~gfKg~--rK~T~~Aa~~aa~~~~~~~~~~gi~~v~v~ikG~-G-~Gr 92 (128)
T PRK05309 18 GVAHIHATFNNTIVTITDR-QGNVISWASAGGLGFKGS--RKSTPYAAQVAAEDAAKKAKEHGMKTVEVFVKGP-G-SGR 92 (128)
T ss_pred eEEEEEccCCCEEEEEEcC-CCCEEEEEecCccEeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECC-C-CcH
Confidence 3688999999999999994 677888888776666664 3456789999999999999999999998887653 2 244
Q ss_pred HHHHHHHHHHcCccc
Q 033657 99 VKAVIDSLREAGVKL 113 (114)
Q Consensus 99 V~a~~~~lre~Gl~~ 113 (114)
++++.+|...||++
T Consensus 93 -~~air~L~~~glkI 106 (128)
T PRK05309 93 -ESAIRALQAAGLEV 106 (128)
T ss_pred -HHHHHHHHHCCCEE
Confidence 67778888899876
No 16
>KOG0875 consensus 60S ribosomal protein L5 [Translation, ribosomal structure and biogenesis]
Probab=97.68 E-value=3.7e-05 Score=60.56 Aligned_cols=97 Identities=18% Similarity=0.124 Sum_probs=77.0
Q ss_pred CCCcEEEEEEeCCceEEEEEe--CCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhh-CCCCEE-------
Q 033657 16 LKPYVLRMHFTNKYVSAQVIH--SPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLL-KDIPAV------- 85 (114)
Q Consensus 16 ~~~~RL~V~~Snkhi~Aqvid--~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e-~gI~~v------- 85 (114)
...|||.|..+|+.+.+|+.- -+.+.++++|.+.|+...+.+.+..|-.||+.+|.+||.|+++ .|+++.
T Consensus 46 t~kyR~ivr~~n~~iicqi~~~~i~gd~v~~~a~s~elpkyg~~~GLtNyaAay~TglLLarR~l~~~gmD~~yeg~~e~ 125 (264)
T KOG0875|consen 46 TPKYRMIVRVINKDIICQIAYATIEGDVIVRAAYAHELPKYGVKVGLTNYAAAYCTGLLLACRLLKRFGMDKIYEGQVEV 125 (264)
T ss_pred CCceEEEEEEechhhHHHHHhheecceEEEEeeccccccccccccccchhHHHHhhHHHHHHHHHHHhCcccccccceee
Confidence 456999999999999999987 3477889999999999888888889999999999999999997 675542
Q ss_pred -------------------EEecCCCc--chhhHHHHHHHHHHHcCccc
Q 033657 86 -------------------TVFLKREQ--RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 86 -------------------~~d~r~~~--~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+|. |-. ....||...++++.++||.+
T Consensus 126 ~gde~~~e~idgq~~aFt~~Ld~-GLaRtttg~kvFGAlkga~dGGL~I 173 (264)
T KOG0875|consen 126 TGDEYNVESIDGQPGAFTCYLDA-GLARTTTGNKVFGALKGAVDGGLSI 173 (264)
T ss_pred cCcccccccccCCCCCeEEEecc-cccccCCCceeeeeeehhcccceec
Confidence 1111 111 13448888999999999864
No 17
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=97.63 E-value=0.00096 Score=48.12 Aligned_cols=92 Identities=13% Similarity=0.098 Sum_probs=68.5
Q ss_pred EEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCC-C-c--c-
Q 033657 20 VLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKR-E-Q--R- 94 (114)
Q Consensus 20 RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~-~-~--~- 94 (114)
.+.|+-|-++....|.|..+..+++.+|.-...+++. ..+.--||...++.++++|++.||+.|.+..+| | . +
T Consensus 11 i~hI~as~NNTivtvTD~~G~~~~~~~S~G~~g~kg~--kK~TpyAAq~aae~~~~~~~~~Gi~~v~v~vkG~Ggn~~~~ 88 (132)
T PRK09607 11 IAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADR--DESSPYAAMQAAEKAAEDAKEKGITGVHIKVRAPGGNGQKS 88 (132)
T ss_pred EEEEEcccCCeEEEEEcCCCCEEEEEecCcceeeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCcC
Confidence 5788999999999999966556887777765555442 133556899999999999999999999888876 1 1 1
Q ss_pred hhhHHHHHHHHHHHcCccc
Q 033657 95 YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 95 yhGrV~a~~~~lre~Gl~~ 113 (114)
..--=++.+.+|...||++
T Consensus 89 ~G~Gr~~airal~~~glkI 107 (132)
T PRK09607 89 PGPGAQAAIRALARAGLRI 107 (132)
T ss_pred CCCcHHHHHHHHHHCCCEE
Confidence 1112456678888899886
No 18
>TIGR03628 arch_S11P archaeal ribosomal protein S11P. This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria.
Probab=97.61 E-value=0.0013 Score=46.32 Aligned_cols=91 Identities=11% Similarity=0.064 Sum_probs=68.3
Q ss_pred EEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCC--Ccc---h
Q 033657 21 LRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKR--EQR---Y 95 (114)
Q Consensus 21 L~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~--~~~---y 95 (114)
+.|+-|-++....|.|..+..+++-+|+-...+++.. .+.--||....+.++++|++.||+.+.+..|| +.+ .
T Consensus 5 ~hI~as~NNTiitvTD~~G~~~~~~~S~G~~g~kg~k--k~TpyAAq~aa~~~~~~~~~~Gi~~v~v~ikG~gg~~~~~~ 82 (114)
T TIGR03628 5 AHIYSSFNNTIITITDITGAETIARSSGGMVVKADRD--ESSPYAAMQAAGRAAEKAKERGITGLHIKVRAPGGNGQKSP 82 (114)
T ss_pred EEEEccCCCeEEEEEcCCCCEEEEEecCcceEeCCCc--cCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCCCC
Confidence 5678888999999999666578888777666555422 34556899999999999999999999888876 122 1
Q ss_pred hhHHHHHHHHHHHcCccc
Q 033657 96 HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 96 hGrV~a~~~~lre~Gl~~ 113 (114)
.---++.+.+|...||++
T Consensus 83 G~Gr~~air~l~~~glkI 100 (114)
T TIGR03628 83 GPGAQAAIRALARAGLRI 100 (114)
T ss_pred CCcHHHHHHHHHHCCCEE
Confidence 112356678889999986
No 19
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=97.40 E-value=0.0024 Score=46.93 Aligned_cols=93 Identities=15% Similarity=0.094 Sum_probs=68.4
Q ss_pred cEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCC--Ccchh
Q 033657 19 YVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKR--EQRYH 96 (114)
Q Consensus 19 ~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~--~~~yh 96 (114)
=.+.|+-|-++...+|.|.. |.+++.+|+-...+++... .+.--||....+.++++|++.||+.+.+..|+ |...+
T Consensus 29 Gi~hI~as~NNTiItiTD~~-G~~~~w~SsG~~gfKg~r~-KsTpyAAq~aa~~~a~k~~~~Gi~~v~V~vr~~gg~~~k 106 (149)
T PTZ00129 29 GVAHIFASFNDTFIHVTDLS-GRETLVRVTGGMKVKADRD-ESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRTK 106 (149)
T ss_pred EEEEEEcccCCeEEEEEccc-CCEEEEEecCcceeccccc-CCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEecCCCCCC
Confidence 35789999999999999854 6666677776666665321 23456899999999999999999999888753 22221
Q ss_pred h---HHHHHHHHHHHcCccc
Q 033657 97 G---KVKAVIDSLREAGVKL 113 (114)
Q Consensus 97 G---rV~a~~~~lre~Gl~~ 113 (114)
| -=++.+.+|..+||++
T Consensus 107 g~GpGr~~airaL~~~glkI 126 (149)
T PTZ00129 107 TPGPGAQAALRALARAGLKI 126 (149)
T ss_pred CCCCCHHHHHHHHHHCCCEE
Confidence 1 2467778999999986
No 20
>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=96.82 E-value=0.015 Score=41.89 Aligned_cols=87 Identities=22% Similarity=0.185 Sum_probs=64.4
Q ss_pred EEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHH
Q 033657 21 LRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVK 100 (114)
Q Consensus 21 L~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~ 100 (114)
.-|+.|-++....+.| .+|.+++.+||=-.-+++.- .+.--||...++.+++.++|.||..+.+..+|.- -| -+
T Consensus 21 ahI~asfNNTivtitD-~~Gn~i~wassG~~gfk~~r--k~tpyAA~~aa~~aa~~a~e~Gi~~v~v~vkgpG--~G-re 94 (129)
T COG0100 21 AHIHASFNNTIVTITD-LTGNVIIWASSGGMGFKGSR--KSTPYAAQLAAEDAAKKAKEHGIKSVEVKVKGPG--PG-RE 94 (129)
T ss_pred EEEEcccCCcEEEecC-CCCCEEEEEecCCceEcCCC--CCCHHHHHHHHHHHHHHHHHhCccEEEEEEECCC--Cc-HH
Confidence 4466676666667766 67888889999888887754 4566788888999999999999998887766611 23 35
Q ss_pred HHHHHHHHcCccc
Q 033657 101 AVIDSLREAGVKL 113 (114)
Q Consensus 101 a~~~~lre~Gl~~ 113 (114)
++..+|..+|+++
T Consensus 95 aAiraL~~ag~~i 107 (129)
T COG0100 95 AAIRALAAAGLKI 107 (129)
T ss_pred HHHHHHHHccceE
Confidence 6667777888764
No 21
>KOG0408 consensus Mitochondrial/chloroplast ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=95.81 E-value=0.12 Score=38.95 Aligned_cols=94 Identities=18% Similarity=0.187 Sum_probs=70.6
Q ss_pred CCCCCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc
Q 033657 14 NFLKPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQ 93 (114)
Q Consensus 14 ~~~~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~ 93 (114)
.|.+-|-..|.-|.++...+|.| ..|.++..+|----.+++.- .+.--||...|--.+.|+.+.|+..|.+-.+|.
T Consensus 75 ~f~eiPi~hIraS~NNTivtVtd-~kg~vi~~~ScgteGFrntr--kgT~iAaQtaavaa~~r~v~~G~~~vrV~VkGl- 150 (190)
T KOG0408|consen 75 NFREIPIIHIRASFNNTIVTVTD-VKGEVISWSSCGTEGFRNTR--KGTPIAAQTAAVAAIRRAVDQGMQTVRVRVKGL- 150 (190)
T ss_pred cccccceEEEEecCCCeEEEEEc-cCCcEEEEeecccccccccc--cCCchhHHHHHHHHHHHHHHhcceEEEEEEecC-
Confidence 45666788999999999999998 66788866665555566532 234567888888999999999999887766542
Q ss_pred chhhHHHHHHHHHHHcCccc
Q 033657 94 RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 94 ~yhGrV~a~~~~lre~Gl~~ 113 (114)
=-||..| +.+|+-+||.+
T Consensus 151 -GpGRmsa-~kgl~m~Gl~v 168 (190)
T KOG0408|consen 151 -GPGRMSA-LKGLRMGGLLV 168 (190)
T ss_pred -CccHHHH-HhhhhhcceEE
Confidence 2466655 68999999865
No 22
>KOG0407 consensus 40S ribosomal protein S14 [Translation, ribosomal structure and biogenesis]
Probab=93.40 E-value=1.3 Score=31.61 Aligned_cols=91 Identities=11% Similarity=0.085 Sum_probs=61.0
Q ss_pred EEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCC--Ccc---h
Q 033657 21 LRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKR--EQR---Y 95 (114)
Q Consensus 21 L~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~--~~~---y 95 (114)
..||-|-+.....|.|-.+..||+-.+---+ .|.+ ..-++--||-+-....|.+|++.||+.+.|-.|. |-+ .
T Consensus 19 ahi~asfndtfvhitdlsg~eti~rvtggmk-vkad-rdesspyaamlaaqdva~kck~~gi~alh~klratgg~ktktp 96 (139)
T KOG0407|consen 19 AHIFASFNDTFVHVTDLSGKETIVRVTGGMK-VKAD-RDESSPYAAMLAAQDVAAKCKELGITALHIKLRATGGTKTKTP 96 (139)
T ss_pred EEEEeecccceEEEeccCCceEEEEecCCeE-Eecc-cccCChHHHHHHHHHHHHHHHhcCeeEEEEEEEecCCcccCCC
Confidence 4567777777788888777788876554322 2322 1234566788888999999999999999887653 221 1
Q ss_pred hhHHHHHHHHHHHcCccc
Q 033657 96 HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 96 hGrV~a~~~~lre~Gl~~ 113 (114)
.---++.+.+|-.+|+.+
T Consensus 97 gpgaqsalralar~gmri 114 (139)
T KOG0407|consen 97 GPGAQSALRALARSGMRI 114 (139)
T ss_pred CccHHHHHHHHHHhccee
Confidence 223556667777777754
No 23
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=82.11 E-value=4.6 Score=24.53 Aligned_cols=42 Identities=17% Similarity=0.196 Sum_probs=30.3
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
-+.+.++|++.|++.+.+.+.+ .+.|- ..+.+..++.||++|
T Consensus 17 ~~~~~~~a~~~g~~~v~iTDh~--~~~~~-~~~~~~~~~~gi~~i 58 (67)
T smart00481 17 PEELVKRAKELGLKAIAITDHG--NLFGA-VEFYKAAKKAGIKPI 58 (67)
T ss_pred HHHHHHHHHHcCCCEEEEeeCC--cccCH-HHHHHHHHHcCCeEE
Confidence 3467899999999999888754 23343 355677778888764
No 24
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=80.51 E-value=7.5 Score=29.23 Aligned_cols=49 Identities=16% Similarity=0.259 Sum_probs=39.1
Q ss_pred CCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033657 60 TRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA 109 (114)
Q Consensus 60 ~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~ 109 (114)
.++.+||++.|+-+++-+....+.+.++-+ .++--.=-+..|+++++++
T Consensus 10 lGd~~a~r~mGerIGRaaQ~FEV~eLiiap-~~~vda~eL~~Fl~gV~~G 58 (173)
T PF14419_consen 10 LGDLKACRKMGERIGRAAQAFEVKELIIAP-KEKVDAYELMEFLRGVREG 58 (173)
T ss_pred cCCHHHHHHHHHHHhHHHhhcchheEEEec-cCccCHHHHHHHHHHHHHh
Confidence 478999999999999999999999998875 2322222478899998875
No 25
>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=79.52 E-value=7.7 Score=33.09 Aligned_cols=55 Identities=18% Similarity=0.239 Sum_probs=43.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 58 GCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 58 ~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.+++...+...|+.+|++|++.|++.|++.. .=-.-|--...+++.+.++||..
T Consensus 313 G~gt~~~~a~~~g~eIa~~Lk~dgVDAvILts-tCgtCtrcga~m~keiE~~GIPv 367 (431)
T TIGR01917 313 GNGTAVANSKQFAKEFSKELLAAGVDAVILTS-TUGTCTRCGATMVKEIERAGIPV 367 (431)
T ss_pred CCCccHHHHHHHHHHHHHHHHHcCCCEEEEcC-CCCcchhHHHHHHHHHHHcCCCE
Confidence 35667888999999999999999999998873 21234555778889999999864
No 26
>PF02776 TPP_enzyme_N: Thiamine pyrophosphate enzyme, N-terminal TPP binding domain; InterPro: IPR012001 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This represents the N-terminal TPP binding domain of TPP enzymes.; GO: 0030976 thiamine pyrophosphate binding; PDB: 3HWX_1 3FLM_B 3HWW_A 2JLC_A 2JLA_A 2VBG_A 2VBF_B 2Q29_A 2Q27_B 2Q28_B ....
Probab=76.28 E-value=6.1 Score=28.37 Aligned_cols=40 Identities=18% Similarity=0.298 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA-GVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~-Gl~~~ 114 (114)
+++.|++.+++.||+.+ |-.- .+-+..|.+++.+. |+.++
T Consensus 3 ~~~~l~~~L~~~Gv~~v-fgvp-----G~~~~~l~~al~~~~~i~~i 43 (172)
T PF02776_consen 3 GAEALAEALKANGVTHV-FGVP-----GSGNLPLLDALEKSPGIRFI 43 (172)
T ss_dssp HHHHHHHHHHHTT-SEE-EEE-------GGGHHHHHHHHHTTTSEEE
T ss_pred HHHHHHHHHHHCCCeEE-EEEe-----ChhHhHHHHHhhhhcceeee
Confidence 57899999999999998 4432 33466799999998 78764
No 27
>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=75.67 E-value=13 Score=31.77 Aligned_cols=55 Identities=16% Similarity=0.158 Sum_probs=43.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 58 GCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 58 ~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.+++...+...|..+|+++++.|++.|++.. .=-.-|--...+++.+.++||..
T Consensus 313 G~gt~~~~a~~~g~eIa~~Lk~dgVDAVILTs-tCgtC~r~~a~m~keiE~~GiPv 367 (431)
T TIGR01918 313 GNGTTVAESKQFAKEFVVELKQGGVDAVILTS-TUGTCTRCGATMVKEIERAGIPV 367 (431)
T ss_pred CCCchHHHHHHHHHHHHHHHHHcCCCEEEEcC-CCCcchhHHHHHHHHHHHcCCCE
Confidence 35667888999999999999999999998873 21234555778889999999864
No 28
>cd07039 TPP_PYR_POX Pyrimidine (PYR) binding domain of POX. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites. Lactobacillus plantarum POX is a homotetramer (dimer-of-homodimers), having two active sites per homodimer lying between PYR and PP domains of differ
Probab=74.79 E-value=5.8 Score=28.65 Aligned_cols=40 Identities=15% Similarity=0.310 Sum_probs=30.5
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
+++.|++.+++.||+.+ |-.- ++.+..|.+++.+ .||+++
T Consensus 2 ~~~~l~~~L~~~Gv~~v-Fgip-----G~~~~~l~~al~~~~~i~~v 42 (164)
T cd07039 2 VADVIVETLENWGVKRV-YGIP-----GDSINGLMDALRREGKIEFI 42 (164)
T ss_pred HHHHHHHHHHHCCCCEE-EEcC-----CCchHHHHHHHhhcCCCeEE
Confidence 57899999999999998 5432 3346778888876 688764
No 29
>PRK04302 triosephosphate isomerase; Provisional
Probab=73.18 E-value=8.8 Score=28.96 Aligned_cols=47 Identities=15% Similarity=0.219 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..|+..++.+++.|++-+.+...-...+.+.+..+.+.+.+.||..|
T Consensus 72 ~tg~~~~~~l~~~G~~~vii~~ser~~~~~e~~~~v~~a~~~Gl~~I 118 (223)
T PRK04302 72 HTGHILPEAVKDAGAVGTLINHSERRLTLADIEAVVERAKKLGLESV 118 (223)
T ss_pred chhhhHHHHHHHcCCCEEEEeccccccCHHHHHHHHHHHHHCCCeEE
Confidence 67889999999999999988741123566779999999999998653
No 30
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=71.79 E-value=8 Score=32.28 Aligned_cols=53 Identities=17% Similarity=0.257 Sum_probs=45.1
Q ss_pred CCCHHHHHHHHHH-----------------HHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 60 TRDVAAASKIGKI-----------------LGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 60 ~~n~~Aa~~vG~~-----------------la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
..|.++|..++++ +|..|.+.|++.+.+.+ |.... ..++..+++.+++.|+.+
T Consensus 63 v~~~~~a~al~~I~~~~~iPlvADIHFd~~lAl~a~~~G~~~iRINP-GNig~~~~~v~~vv~~ak~~~ipI 133 (360)
T PRK00366 63 VPDMEAAAALPEIKKQLPVPLVADIHFDYRLALAAAEAGADALRINP-GNIGKRDERVREVVEAAKDYGIPI 133 (360)
T ss_pred cCCHHHHHhHHHHHHcCCCCEEEecCCCHHHHHHHHHhCCCEEEECC-CCCCchHHHHHHHHHHHHHCCCCE
Confidence 4588999999875 78999999999999985 66655 789999999999999864
No 31
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=71.58 E-value=14 Score=26.99 Aligned_cols=44 Identities=20% Similarity=0.192 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~ 112 (114)
..|+.+++.+.+.|..++.|-. +. .....|.+.|.+++.+.|++
T Consensus 102 ~~~~~a~~~l~~~g~~~i~~l~-~~~~~~~~~~R~~gf~~~~~~~~~~ 148 (269)
T cd06288 102 QGGYDATRHLLAAGHRRIAFIN-GEPWMLAAKDRLKGYRQALAEAGIP 148 (269)
T ss_pred HHHHHHHHHHHHcCCceEEEEe-CCccchhHHHHHHHHHHHHHHcCCC
Confidence 3456666666677988887752 22 12356899999999999975
No 32
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=71.53 E-value=14 Score=27.51 Aligned_cols=41 Identities=22% Similarity=0.190 Sum_probs=32.1
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.++-+.+.||..-..= =+.++...++..+++.+++.|+++|
T Consensus 21 Aa~~L~~fgi~ye~~V-vSAHRTPe~m~~ya~~a~~~g~~vi 61 (162)
T COG0041 21 AAEILEEFGVPYEVRV-VSAHRTPEKMFEYAEEAEERGVKVI 61 (162)
T ss_pred HHHHHHHcCCCeEEEE-EeccCCHHHHHHHHHHHHHCCCeEE
Confidence 3556677899843322 2789999999999999999999764
No 33
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=70.08 E-value=10 Score=30.66 Aligned_cols=41 Identities=12% Similarity=0.103 Sum_probs=33.3
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..+.|.++||..+++. ..|+...|....+.+.+|+.|+.++
T Consensus 85 al~e~~~~Gvk~~vIi-saGf~e~g~~~~~~~~ar~~girvi 125 (300)
T PLN00125 85 AILEAMEAELDLVVCI-TEGIPQHDMVRVKAALNRQSKTRLI 125 (300)
T ss_pred HHHHHHHcCCCEEEEE-CCCCCcccHHHHHHHHHhhcCCEEE
Confidence 4566899999998887 5788888877777777999999764
No 34
>PRK07449 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase; Validated
Probab=70.07 E-value=9.8 Score=32.38 Aligned_cols=43 Identities=14% Similarity=0.125 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
..+++..|++++++.||+.+ |-.- ++.+..|.+++.+ .||+++
T Consensus 8 ~~~~a~~l~~~L~~~GV~~v-Fgvp-----G~~~~~l~~~l~~~~~i~~v 51 (568)
T PRK07449 8 NTLWAAVILEELTRLGVRHV-VIAP-----GSRSTPLTLAAAEHPRLRLH 51 (568)
T ss_pred HHHHHHHHHHHHHHcCCCEE-EECC-----CCccHHHHHHHHhCCCcEEE
Confidence 38899999999999999998 4432 3457788888854 478764
No 35
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=69.88 E-value=19 Score=26.38 Aligned_cols=46 Identities=17% Similarity=0.136 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.++|..++.|. .+.. ....|...|.+++.+.|+.+
T Consensus 102 ~~~~~~a~~~l~~~g~~~i~~i-~~~~~~~~~~~r~~gf~~~~~~~~~~~ 150 (270)
T cd06296 102 WAGGLAATEHLLELGHRRIGFI-TGPPDLLCSRARLDGYRAALAEAGIPV 150 (270)
T ss_pred HHHHHHHHHHHHHcCCCcEEEE-cCCCcchhHHHHHHHHHHHHHHcCCCC
Confidence 4456666777777899998876 2322 23578999999999988753
No 36
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=69.82 E-value=5.9 Score=27.12 Aligned_cols=38 Identities=18% Similarity=0.286 Sum_probs=25.9
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.-+.+.|.++|+..++|.. + ..-..+.+.++++||.++
T Consensus 69 ~~~v~~~~~~g~~~v~~~~-g-----~~~~~~~~~a~~~gi~vi 106 (116)
T PF13380_consen 69 PEIVDEAAALGVKAVWLQP-G-----AESEELIEAAREAGIRVI 106 (116)
T ss_dssp HHHHHHHHHHT-SEEEE-T-T-----S--HHHHHHHHHTT-EEE
T ss_pred HHHHHHHHHcCCCEEEEEc-c-----hHHHHHHHHHHHcCCEEE
Confidence 3446778888999998874 3 667889999999999874
No 37
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=68.79 E-value=8.1 Score=33.07 Aligned_cols=41 Identities=20% Similarity=0.260 Sum_probs=33.1
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.++..|++++++.||+.| |-.- ++.+..|++++.+.||+++
T Consensus 17 ~~~~~i~~~L~~~Gv~~v-Fg~p-----G~~~~~l~~al~~~~i~~i 57 (571)
T PRK07710 17 TGAQMLIEALEKEGVEVI-FGYP-----GGAVLPLYDALYDCGIPHI 57 (571)
T ss_pred hHHHHHHHHHHHcCCCEE-EeCC-----CcchHHHHHHHHhcCCcEE
Confidence 569999999999999998 4432 4568889999988888764
No 38
>COG1472 BglX Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]
Probab=68.29 E-value=12 Score=31.16 Aligned_cols=55 Identities=27% Similarity=0.363 Sum_probs=40.2
Q ss_pred cCCCCCHHHHHHHHHHHHHHHhhCCCCE-------EEEecCC---Ccc-hhh-------HHHHHHHHHHHcCc
Q 033657 57 IGCTRDVAAASKIGKILGERLLLKDIPA-------VTVFLKR---EQR-YHG-------KVKAVIDSLREAGV 111 (114)
Q Consensus 57 l~~~~n~~Aa~~vG~~la~R~~e~gI~~-------v~~d~r~---~~~-yhG-------rV~a~~~~lre~Gl 111 (114)
+.++.|.+.++.+|+++|+.+...||+- +..|+++ +.+ |+. -..|++++++.+|+
T Consensus 89 laa~~~~~la~~~g~~~A~Elra~Gin~~fAPvlDv~~~p~~~ri~ersfgeDP~lv~~l~~a~i~Glq~~gv 161 (397)
T COG1472 89 LAATWDPELARKVGRVIAKELRALGINLDFAPVLDVARDPRWGRIGERSFGEDPELVALLAAAFIKGLQGAGV 161 (397)
T ss_pred hhhcCCHHHHHHHHHHHHHHHHHcCCCccccceeecccCCCcCccccccCCCCHHHHHHHHHHHHHHHhhCCc
Confidence 5667889999999999999999999983 2222222 223 443 46788899988886
No 39
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=67.92 E-value=25 Score=25.85 Aligned_cols=48 Identities=13% Similarity=0.160 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEec-CCCcchhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFL-KREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~-r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
-+..|+.+++.+++.|..++.+-- ........|++.|.+++.+.|+.+
T Consensus 99 ~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~ 147 (263)
T cd06280 99 NRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRRHGLAP 147 (263)
T ss_pred cHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCC
Confidence 455667777777888988887642 112233568999999999999864
No 40
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=67.70 E-value=27 Score=25.68 Aligned_cols=51 Identities=18% Similarity=0.264 Sum_probs=37.6
Q ss_pred CCHHHHHHHHHHHHHHHhhC--CCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033657 61 RDVAAASKIGKILGERLLLK--DIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~--gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~ 112 (114)
.+..+++..++.|++++.+. |-.++.+- .+. ....-|.+.|.+++.+.|+.
T Consensus 102 d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i-~~~~~~~~~~~r~~gf~~~l~~~~~~ 157 (277)
T cd06319 102 DNYEGAYDLGKFLAAAMKAQGWADGKVGMV-AIPQKRKNGQKRTKGFKEAMKEAGCD 157 (277)
T ss_pred ccHHHHHHHHHHHHHHHHhhCCCCCcEEEE-eccCCCccHHHHHHHHHHHHHhcCCc
Confidence 46778889999999988875 55666554 221 22356899999999999975
No 41
>COG1611 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]
Probab=67.41 E-value=9.1 Score=29.15 Aligned_cols=41 Identities=24% Similarity=0.266 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 63 VAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 63 ~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+.|+.+|+.||+|. .+++. ||. .|-..|.++++.++|-..
T Consensus 33 ~~~a~~lg~~la~~g------~~V~t--GG~--~GiMea~~~gA~~~gg~~ 73 (205)
T COG1611 33 YELARELGRELAKRG------LLVIT--GGG--PGVMEAVARGALEAGGLV 73 (205)
T ss_pred HHHHHHHHHHHHhCC------cEEEe--CCc--hhhhhHHHHHHHHcCCeE
Confidence 356888888888776 55554 443 799999999999988653
No 42
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=66.99 E-value=22 Score=25.84 Aligned_cols=45 Identities=11% Similarity=0.165 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---c-chhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE---Q-RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~---~-~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.|-. +. . ..+.|.+.|.+.+.+.|+.
T Consensus 101 ~~~g~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~~r~~gf~~~l~~~~~~ 149 (266)
T cd06282 101 RAAARDVAQALAALGHRRIAMLA-GRLAASDRARQRYAGYRAAMRAAGLA 149 (266)
T ss_pred HHHHHHHHHHHHHcCcccEEEec-cccccCchHHHHHHHHHHHHHHcCCC
Confidence 56666677777777999887652 21 1 2356899999999999985
No 43
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR 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 which in turn changes the DNA binding affinity of the repressor.
Probab=66.87 E-value=25 Score=25.89 Aligned_cols=47 Identities=17% Similarity=0.259 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCC-c-chhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKRE-Q-RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~-~-~yhGrV~a~~~~lre~Gl~~ 113 (114)
-+..|+.+++.+.+.|..++.|- .+. . ....|...|.+++++.|+.+
T Consensus 93 ~~~~g~~~~~~l~~~g~~~i~~i-~~~~~~~~~~R~~gf~~~~~~~~~~~ 141 (265)
T cd01543 93 NAAIGRMAAEHFLERGFRHFAFY-GLPGARWSDEREEAFRQLVAEAGYEC 141 (265)
T ss_pred HHHHHHHHHHHHHHCCCcEEEEE-cCCCCHHHHHHHHHHHHHHHHcCCcc
Confidence 44566777788888899998765 222 2 12468999999999999864
No 44
>PRK09492 treR trehalose repressor; Provisional
Probab=66.69 E-value=24 Score=26.81 Aligned_cols=44 Identities=11% Similarity=0.082 Sum_probs=31.7
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCC--c--chhhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKRE--Q--RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~--~--~yhGrV~a~~~~lre~Gl~~ 113 (114)
-|+.+++.+.+.|..++.|- .+. . ....|...|.+++++.|+.+
T Consensus 162 ~~~~a~~~L~~~G~~~I~~i-~~~~~~~~~~~~R~~Gf~~al~~~g~~~ 209 (315)
T PRK09492 162 AIKLLMQRLYDQGHRHISYL-GVDHSDVTTGKRRHQAYLAFCKQHKLTP 209 (315)
T ss_pred HHHHHHHHHHHcCCCeEEEE-cCCcccchhHHHHHHHHHHHHHHcCCCc
Confidence 34556666677899998775 222 1 12579999999999999864
No 45
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=66.48 E-value=9.6 Score=26.30 Aligned_cols=41 Identities=27% Similarity=0.353 Sum_probs=28.0
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
..+.+.+.+.+|+++++.. ....++.++.+.+.+++.|+++
T Consensus 131 ~~l~~~~~~~~id~v~ial--~~~~~~~i~~ii~~~~~~~v~v 171 (175)
T PF13727_consen 131 DDLPELVREHDIDEVIIAL--PWSEEEQIKRIIEELENHGVRV 171 (175)
T ss_dssp GGHHHHHHHHT--EEEE----TTS-HHHHHHHHHHHHTTT-EE
T ss_pred HHHHHHHHhCCCCEEEEEc--CccCHHHHHHHHHHHHhCCCEE
Confidence 3456777778999998875 4455789999999999999875
No 46
>TIGR00612 ispG_gcpE 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase. Chlamydial members of the family have a long insert. The family is largely restricted to Bacteria, where it is widely but not universally distributed. No homology can be detected between the GcpE family and other proteins.
Probab=66.19 E-value=12 Score=31.18 Aligned_cols=53 Identities=19% Similarity=0.329 Sum_probs=45.6
Q ss_pred CCCHHHHHHHHHH-----------------HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 60 TRDVAAASKIGKI-----------------LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 60 ~~n~~Aa~~vG~~-----------------la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
-.|.++|..++++ +|..|.+.|++++.+.+ |..-...+++.+++.+++.|+.+
T Consensus 55 vp~~~~A~al~~I~~~~~iPlVADIHFd~~lAl~a~~~g~dkiRINP-GNig~~e~v~~vv~~ak~~~ipI 124 (346)
T TIGR00612 55 VPDRESAAAFEAIKEGTNVPLVADIHFDYRLAALAMAKGVAKVRINP-GNIGFRERVRDVVEKARDHGKAM 124 (346)
T ss_pred CCCHHHHHhHHHHHhCCCCCEEEeeCCCcHHHHHHHHhccCeEEECC-CCCCCHHHHHHHHHHHHHCCCCE
Confidence 4578889988864 88999999999999985 77767889999999999999864
No 47
>PF02065 Melibiase: Melibiase; InterPro: IPR000111 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycosyl hydrolase family 27, family 31 and family 36 alpha-galactosidases form the glycosyl hydrolase clan GH-D (acc_GH from CAZY), a superfamily of alpha-galactosidases, alpha-N-acetylgalactosaminidases, and isomaltodextranases which are likely to share a common catalytic mechanism and structural topology. Alpha-galactosidase (3.2.1.22 from EC) (melibiase) [] catalyzes the hydrolysis of melibiose into galactose and glucose. In man, the deficiency of this enzyme is the cause of Fabry's disease (X-linked sphingolipidosis). Alpha-galactosidase is present in a variety of organisms. There is a considerable degree of similarity in the sequence of alpha-galactosidase from various eukaryotic species. Escherichia coli alpha-galactosidase (gene melA), which requires NAD and magnesium as cofactors, is not structurally related to the eukaryotic enzymes; by contrast, an Escherichia coli plasmid encoded alpha-galactosidase (gene rafA P16551 from SWISSPROT) [] contains a region of about 50 amino acids which is similar to a domain of the eukaryotic alpha-galactosidases. Alpha-N-acetylgalactosaminidase (3.2.1.49 from EC) [] catalyzes the hydrolysis of terminal non-reducing N-acetyl-D-galactosamine residues in N-acetyl-alpha-D- galactosaminides. In man, the deficiency of this enzyme is the cause of Schindler and Kanzaki diseases. The sequence of this enzyme is highly related to that of the eukaryotic alpha-galactosidases.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1KTC_A 1KTB_A 1UAS_A 3H55_A 3H53_A 3IGU_B 3H54_A 3LRM_A 3LRL_A 3LRK_A ....
Probab=66.08 E-value=11 Score=31.60 Aligned_cols=41 Identities=12% Similarity=0.125 Sum_probs=29.8
Q ss_pred HHHHHHhhCCCCEEEEecCCC------------------cchhhHHHHHHHHHHHcCccc
Q 033657 72 ILGERLLLKDIPAVTVFLKRE------------------QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~------------------~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+|+.+++.|++-+++|+ |= .++-+-++++++.+++.|++|
T Consensus 62 ~~a~~~~~~G~e~fviDD-GW~~~r~~d~~~~GdW~~~~~kFP~Gl~~l~~~i~~~Gmk~ 120 (394)
T PF02065_consen 62 ELADAAAELGYEYFVIDD-GWFGGRDDDNAGLGDWEPDPKKFPNGLKPLADYIHSLGMKF 120 (394)
T ss_dssp HHHHHHHHHT-SEEEE-S-SSBCTESTTTSTTSBECBBTTTSTTHHHHHHHHHHHTT-EE
T ss_pred HHHHHHHHhCCEEEEEcC-ccccccCCCcccCCceeEChhhhCCcHHHHHHHHHHCCCeE
Confidence 347788999999999997 31 144445999999999999986
No 48
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=65.42 E-value=24 Score=25.83 Aligned_cols=46 Identities=17% Similarity=0.236 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|..+++.+.+.|-.++.|-- +.. ....|.+.|.+++++.|+.+
T Consensus 99 ~~ag~~a~~~L~~~g~~~i~~i~-~~~~~~~~~~R~~Gf~~~~~~~~~~~ 147 (265)
T cd06285 99 VLGGRLATRHLLDLGHRRIAVLA-GPDYASTARDRLAGFRAALAEAGIEV 147 (265)
T ss_pred HHHHHHHHHHHHHCCCccEEEEe-CCcccccHHHHHHHHHHHHHHcCCCC
Confidence 34455556666667888877652 322 23569999999999999864
No 49
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=65.29 E-value=18 Score=26.09 Aligned_cols=41 Identities=15% Similarity=0.199 Sum_probs=32.0
Q ss_pred HHHHHHHhhCCCCEE----------EEecCCCcchhhHHHHHHHHHHHcCcc
Q 033657 71 KILGERLLLKDIPAV----------TVFLKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 71 ~~la~R~~e~gI~~v----------~~d~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
-.+..+|+..|++-| +|+ +|.|+-.-|+..+.+.|.|-||.
T Consensus 43 ~~fvl~Al~~GaDGV~v~GC~~geCHy~-~GN~ka~rR~~~lke~l~elgie 93 (132)
T COG1908 43 PEFVLKALRKGADGVLVAGCKIGECHYI-SGNYKAKRRMELLKELLKELGIE 93 (132)
T ss_pred HHHHHHHHHcCCCeEEEecccccceeee-ccchHHHHHHHHHHHHHHHhCCC
Confidence 356778888888876 344 57777788999999999998874
No 50
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=65.06 E-value=25 Score=26.13 Aligned_cols=47 Identities=6% Similarity=-0.147 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHhh--CCCCEEEEecCCC--cchhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLL--KDIPAVTVFLKRE--QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e--~gI~~v~~d~r~~--~~yhGrV~a~~~~lre~Gl~~ 113 (114)
-+..|+.+++.+.+ .|.+++.|- -+. .....|...|.+++++.|+.+
T Consensus 99 ~~~~~~~a~~~L~~~~~G~~~Ia~i-~~~~~~~~~~R~~gf~~~l~~~g~~~ 149 (247)
T cd06276 99 FEKAIYNALQEGLEKLKKYKKLILV-FPNKTAIPKEIKRGFERFCKDYNIET 149 (247)
T ss_pred cHHHHHHHHHHHHHHhcCCCEEEEE-ecCccHhHHHHHHHHHHHHHHcCCCc
Confidence 35567777888888 899998654 122 233578999999999999864
No 51
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=64.92 E-value=27 Score=26.86 Aligned_cols=45 Identities=13% Similarity=0.220 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
..|+.+++.+.+.|-.++.|- .+.. ....|...|.+++.+.|+.+
T Consensus 168 ~~~~~a~~~L~~~G~~~I~~i-~g~~~~~~~~~R~~Gf~~al~~~g~~~ 215 (342)
T PRK10014 168 QAAQLLTEHLIRNGHQRIAWL-GGQSSSLTRAERVGGYCATLLKFGLPF 215 (342)
T ss_pred HHHHHHHHHHHHCCCCEEEEE-cCCcccccHHHHHHHHHHHHHHcCCCC
Confidence 445556666677898888765 2322 22569999999999999853
No 52
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=64.92 E-value=26 Score=25.57 Aligned_cols=48 Identities=10% Similarity=0.150 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEec--CCCcchhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFL--KREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~--r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
-+..|+.+++.+.+.|..++.|-. .+.....-|.+.|.+++.+.|+++
T Consensus 101 ~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~ 150 (269)
T cd06275 101 SEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMAEAGLPV 150 (269)
T ss_pred cHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHHHcCCCC
Confidence 355666777777888988887642 111223458999999999999864
No 53
>PF07071 DUF1341: Protein of unknown function (DUF1341); InterPro: IPR010763 Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. The function is unknown.; PDB: 3NZR_D 3LM7_A 3M0Z_B 3M6Y_A 3N73_A 3MUX_A.
Probab=64.68 E-value=19 Score=28.07 Aligned_cols=39 Identities=18% Similarity=0.126 Sum_probs=28.6
Q ss_pred HHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 75 ERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 75 ~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.-+++.|++.+.|++=+|.++-.-++++++++-++|+.+
T Consensus 142 aml~dmG~~SiKffPm~Gl~~leE~~avAkA~a~~g~~l 180 (218)
T PF07071_consen 142 AMLKDMGGSSIKFFPMGGLKHLEELKAVAKACARNGFTL 180 (218)
T ss_dssp HHHHHTT--EEEE---TTTTTHHHHHHHHHHHHHCT-EE
T ss_pred HHHHHcCCCeeeEeecCCcccHHHHHHHHHHHHHcCcee
Confidence 346789999999998788888889999999999999753
No 54
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=64.32 E-value=25 Score=26.81 Aligned_cols=46 Identities=11% Similarity=0.175 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.-|+.+++.+.+.|..++.|- .+. .....|...|.+++.+.|+.+
T Consensus 159 ~~~~~~a~~~L~~~G~~~I~~i-~~~~~~~~~~~R~~Gf~~al~~~~~~~ 207 (327)
T PRK10423 159 LLGGDLATQYLIDKGYTRIACI-TGPLDKTPARLRLEGYRAAMKRAGLNI 207 (327)
T ss_pred HHHHHHHHHHHHHcCCCeEEEE-eCCccccchHHHHHHHHHHHHHcCCCC
Confidence 3446777778888999998764 222 223568999999999999864
No 55
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=63.21 E-value=15 Score=24.93 Aligned_cols=40 Identities=10% Similarity=0.228 Sum_probs=29.7
Q ss_pred HHHHhhCCCCEEEEec--CCCcchhhHHHHHHHHHHHcCccc
Q 033657 74 GERLLLKDIPAVTVFL--KREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~--r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
++.+.++|..++.|-. .+....+.|++.|.+++++.|+.+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~ 42 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEF 42 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEE
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCC
Confidence 4678899999887653 123456789999999999999864
No 56
>PF03646 FlaG: FlaG protein; InterPro: IPR005186 Although these proteins are known to be important for flagellar their exact function is unknown.; PDB: 2HC5_A.
Probab=62.31 E-value=19 Score=24.09 Aligned_cols=31 Identities=16% Similarity=0.133 Sum_probs=24.4
Q ss_pred CCCCcEEEEEEeCCceEEEEEeCCCCeEEEE
Q 033657 15 FLKPYVLRMHFTNKYVSAQVIHSPTATVASS 45 (114)
Q Consensus 15 ~~~~~RL~V~~Snkhi~Aqvid~~~~~~las 45 (114)
.....+..|+.....++.+|+|..+|.+|=-
T Consensus 53 ~~~~l~F~vde~~~~~vVkViD~~T~eVIRq 83 (107)
T PF03646_consen 53 LNTSLRFSVDEESGRVVVKVIDKETGEVIRQ 83 (107)
T ss_dssp SS--EEEEEEEETTEEEEEEEETTT-SEEEE
T ss_pred cCCceEEEEecCCCcEEEEEEECCCCcEEEe
Confidence 4556788999999999999999999999943
No 57
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=62.20 E-value=26 Score=26.97 Aligned_cols=47 Identities=19% Similarity=0.244 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhhCCCCE-EEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPA-VTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~-v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
-+.-|+.+++.+++.|.++ +.|-. +.. ....|.+.|.+++.++|+.+
T Consensus 102 ~~~a~~~a~~~Li~~Gh~~~I~~i~-~~~~~~~~~~R~~Gy~~Al~~~Gl~~ 152 (279)
T PF00532_consen 102 NYEAGYEATEYLIKKGHRRPIAFIG-GPEDSSTSRERLQGYRDALKEAGLPI 152 (279)
T ss_dssp HHHHHHHHHHHHHHTTCCSTEEEEE-ESTTTHHHHHHHHHHHHHHHHTTSCE
T ss_pred chHHHHHHHHHHHhcccCCeEEEEe-cCcchHHHHHHHHHHHHHHHHcCCCC
Confidence 3455667788888999999 76542 322 23568999999999999853
No 58
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=62.13 E-value=33 Score=24.98 Aligned_cols=46 Identities=17% Similarity=0.123 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecC--CCcchhhHHHHHHHHHHHcCccc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLK--REQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r--~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
..|+.+++.+.+.|..++.|--. +......|...|.+++.+.|+.+
T Consensus 100 ~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~ 147 (260)
T cd06286 100 EAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTP 147 (260)
T ss_pred HHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHHHcCCCC
Confidence 44556666777789998866421 12234678999999999999753
No 59
>TIGR03457 sulphoacet_xsc sulfoacetaldehyde acetyltransferase. Members of this protein family are sulfoacetaldehyde acetyltransferase, an enzyme of taurine utilization. Taurine, or 2-aminoethanesulfonate, can be used by bacteria as a source of carbon, nitrogen, and sulfur.
Probab=61.78 E-value=12 Score=32.07 Aligned_cols=41 Identities=12% Similarity=0.211 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.+|..|++++++.||+.| |=.-| +.+..|.|++.+.||+++
T Consensus 3 ~~~~~l~~~L~~~GV~~v-FGipG-----~~~~~l~dal~~~~i~~i 43 (579)
T TIGR03457 3 TPSEAFVEVLVANGVTHA-FGIMG-----SAFMDAMDLFPPAGIRFI 43 (579)
T ss_pred cHHHHHHHHHHHCCCCEE-EEccC-----cchHHHHHHHhhcCCeEE
Confidence 468999999999999998 54433 335668888888888874
No 60
>PRK08617 acetolactate synthase; Reviewed
Probab=61.07 E-value=14 Score=31.36 Aligned_cols=41 Identities=20% Similarity=0.334 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..+.+|++.+++.||+.| |-.. ++.+..|.+++.+.||+++
T Consensus 6 ~~~~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~~al~~~~i~~i 46 (552)
T PRK08617 6 YGADLVVDSLINQGVKYV-FGIP-----GAKIDRVFDALEDSGPELI 46 (552)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCC-----CccHHHHHHHHhhCCCCEE
Confidence 458899999999999998 4432 4457888888888888764
No 61
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=61.05 E-value=36 Score=24.99 Aligned_cols=46 Identities=11% Similarity=0.095 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC-c--chhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE-Q--RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~-~--~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.-|+.+++++.++|..++.|- .+. . ....|.+.|.+++.+.|+.+
T Consensus 101 ~~~~~~~~~~L~~~G~~~i~~i-~~~~~~~~~~~R~~Gf~~a~~~~~~~~ 149 (269)
T cd06293 101 EQGGRLATRHLARAGHRRIAFV-GGPDALISARERYAGYREALAEAHIPE 149 (269)
T ss_pred HHHHHHHHHHHHHCCCceEEEE-ecCcccccHHHHHHHHHHHHHHcCCCC
Confidence 4455666666677899988765 222 1 22468999999999999753
No 62
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=60.76 E-value=33 Score=25.18 Aligned_cols=46 Identities=11% Similarity=0.094 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQR---YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~---yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|-.++.+- .+... ..-|.+.|.+++.+.|+++
T Consensus 103 ~~~~~~a~~~l~~~g~~~i~~i-~~~~~~~~~~~R~~gf~~~~~~~~~~~ 151 (268)
T cd06277 103 YSGAYAATEYLIEKGHRKIGFV-GDPLYSPSFEERYEGYKKALLDHGIPF 151 (268)
T ss_pred hHHHHHHHHHHHHCCCCcEEEE-CCCCCCcchHHHHHHHHHHHHHcCCCC
Confidence 3456666777777898888765 23222 2458899999999999864
No 63
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-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 bind
Probab=60.32 E-value=35 Score=24.90 Aligned_cols=47 Identities=17% Similarity=0.263 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCC--Ccc-hhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKR--EQR-YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~--~~~-yhGrV~a~~~~lre~Gl~~ 113 (114)
.+..|+.+++.+.+.|-+++.+- .+ ++. -..|...|.+++.+.|+.+
T Consensus 102 ~~~~g~~a~~~l~~~g~~~i~~i-~~~~~~~~~~~R~~Gf~~~~~~~~~~~ 151 (270)
T cd01545 102 DRAAAREMTRHLIDLGHRRIAFI-AGPPDHRASAERLEGYRDALAEAGLPL 151 (270)
T ss_pred cHHHHHHHHHHHHHCCCceEEEE-eCCCCchhHHHHHHHHHHHHHHcCCCC
Confidence 35566777777777898887764 23 222 2357899999999998864
No 64
>PLN02591 tryptophan synthase
Probab=60.11 E-value=19 Score=28.26 Aligned_cols=40 Identities=10% Similarity=0.053 Sum_probs=30.5
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+-+.++|+++|++-+.+-| .-..-...+.+.+++.||.+|
T Consensus 96 ~~F~~~~~~aGv~GviipD----LP~ee~~~~~~~~~~~gl~~I 135 (250)
T PLN02591 96 DKFMATIKEAGVHGLVVPD----LPLEETEALRAEAAKNGIELV 135 (250)
T ss_pred HHHHHHHHHcCCCEEEeCC----CCHHHHHHHHHHHHHcCCeEE
Confidence 3578899999999887643 224667888889999998764
No 65
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=60.11 E-value=36 Score=26.21 Aligned_cols=46 Identities=17% Similarity=0.304 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.-|+.+++.+.+.|-.++.|- .+. ...+.|...|.+++.+.|+.+
T Consensus 163 ~~~g~~a~~~L~~~G~~~i~~i-~~~~~~~~~~~R~~Gf~~~l~~~gi~~ 211 (341)
T PRK10703 163 FEGGYLAGRYLIERGHRDIGVI-PGPLERNTGAGRLAGFMKAMEEANIKV 211 (341)
T ss_pred HHHHHHHHHHHHHCCCCcEEEE-eCCccccchHHHHHHHHHHHHHcCCCC
Confidence 3457777777788898888765 231 234568999999999999865
No 66
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=60.02 E-value=34 Score=24.79 Aligned_cols=45 Identities=13% Similarity=0.140 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---c-hhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---R-YHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~-yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.+-. +.. . .+.|...|.+.+.+.|+.
T Consensus 101 ~~~g~~~~~~l~~~g~~~i~~l~-~~~~~~~~~~~r~~g~~~~~~~~~~~ 149 (267)
T cd06283 101 YEAAKEAVDHLIEKGYERILFVT-EPLDEISPRMERYEGFKEALAEHGIG 149 (267)
T ss_pred HHHHHHHHHHHHHcCCCcEEEEe-cCccccccHHHHHHHHHHHHHHcCCC
Confidence 45678888888888988877652 221 2 247999999999999864
No 67
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=59.93 E-value=15 Score=31.25 Aligned_cols=40 Identities=23% Similarity=0.259 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.++.|++.+++.||+.| |=.. ++.+..|.+++.+.||+++
T Consensus 3 ~~~~l~~~L~~~Gv~~v-Fg~p-----G~~~~~l~~al~~~~i~~v 42 (548)
T PRK08978 3 GAQWVVHALRAQGVDTV-FGYP-----GGAIMPVYDALYDGGVEHL 42 (548)
T ss_pred HHHHHHHHHHHcCCCEE-EeCC-----CcchHHHHHHHHhcCCeEE
Confidence 58899999999999998 4432 3457778888888888764
No 68
>PF02811 PHP: PHP domain; InterPro: IPR004013 The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain. This family is often associated with an N-terminal region IPR003141 from INTERPRO.; GO: 0003824 catalytic activity; PDB: 2WJE_A 3QY8_A 2WJD_A 2WJF_A 1PB0_B 1M68_A 1M65_A 3E38_B 2W9M_A 3E0F_A ....
Probab=59.79 E-value=20 Score=24.77 Aligned_cols=39 Identities=15% Similarity=0.298 Sum_probs=28.9
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.++|++.|++.+.+.+.+. +.| ...+.+.+++.||+++
T Consensus 21 ~v~~A~~~Gl~~i~iTDH~~--~~~-~~~~~~~~~~~~i~vi 59 (175)
T PF02811_consen 21 YVEQAKEKGLDAIAITDHNN--FAG-YPDFYKEAKKKGIKVI 59 (175)
T ss_dssp HHHHHHHTTESEEEEEEETT--TTT-HHHHHHHHHHTTSEEE
T ss_pred HHHHHHHcCCCEEEEcCCcc--ccc-chHHHHHHHhcCCceE
Confidence 45999999999999987522 233 6677777777888764
No 69
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=59.76 E-value=37 Score=24.99 Aligned_cols=44 Identities=9% Similarity=0.012 Sum_probs=30.8
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQR---YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~---yhGrV~a~~~~lre~Gl~~ 113 (114)
.|+.+++.+.+.|..++.|- .+... ..-|...|.+++.+.|+++
T Consensus 103 ~g~~a~~~l~~~G~~~i~~l-~~~~~~~~~~~R~~Gf~~~~~~~~~~~ 149 (269)
T cd06281 103 GMRQAVEYLISLGHRRIALV-GGGSNTRPGRERLEGYKAAFAAAGLPP 149 (269)
T ss_pred HHHHHHHHHHHCCCcEEEEe-cCccccccHHHHHHHHHHHHHHcCCCC
Confidence 35666667777899998765 33222 2358899999999999753
No 70
>TIGR02418 acolac_catab acetolactate synthase, catabolic. Acetolactate synthase (EC 2.2.1.6) combines two molecules of pyruvate to yield 2-acetolactate with the release of CO2. This reaction may be involved in either valine biosynthesis (biosynthetic) or conversion of pyruvate to acetoin and possibly to 2,3-butanediol (catabolic). The biosynthetic type, described by TIGR00118, is also capable of forming acetohydroxybutyrate from pyruvate and 2-oxobutyrate for isoleucine biosynthesis. The family described here, part of the same larger family of thiamine pyrophosphate-dependent enzymes (pfam00205, pfam02776) is the catabolic form, generally found associated with in species with acetolactate decarboxylase and usually found in the same operon. The model may not encompass all catabolic acetolactate synthases, but rather one particular clade in the larger TPP-dependent enzyme family.
Probab=59.65 E-value=13 Score=31.43 Aligned_cols=39 Identities=21% Similarity=0.404 Sum_probs=30.6
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+..|++++++.||+.| |-..| +.+..|.|++.+.||+++
T Consensus 2 ~~~l~~~L~~~Gv~~v-Fg~pG-----~~~~~l~dal~~~~i~~i 40 (539)
T TIGR02418 2 ADLVVDQLENQGVRYV-FGIPG-----AKIDRVFDALEDKGIELI 40 (539)
T ss_pred HHHHHHHHHHcCCCEE-EECCC-----CchHHHHHHHhhCCCCEE
Confidence 6789999999999998 54333 347788888888888764
No 71
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=59.61 E-value=35 Score=24.89 Aligned_cols=45 Identities=16% Similarity=0.307 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc----hhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQR----YHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~----yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.|-. +... -..|...|.+++.+.|+.
T Consensus 101 ~~~~~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~~r~~gf~~~l~~~~~~ 149 (268)
T cd06273 101 REAGRLAARHLIALGHRRIAMIF-GPTQGNDRARARRAGVRAALAEAGLE 149 (268)
T ss_pred HHHHHHHHHHHHHCCCCeEEEEe-ccccCCccHHHHHHHHHHHHHHcCCC
Confidence 56667777777778999887652 3221 125899999999999864
No 72
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=59.60 E-value=36 Score=26.01 Aligned_cols=45 Identities=13% Similarity=0.197 Sum_probs=32.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc--c--hhhHHHHHHHHHHHcCccc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQ--R--YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~--~--yhGrV~a~~~~lre~Gl~~ 113 (114)
.-|+.+++.+++.|..++.|- .+.. . ...|...|.+++.+.|+.+
T Consensus 162 ~~~~~a~~~L~~~G~~~I~~i-~g~~~~~~~~~~R~~Gf~~~l~~~g~~~ 210 (329)
T TIGR01481 162 QATKEAVGELIAKGHKSIAFV-GGPLSDSINGEDRLEGYKEALNKAGIQF 210 (329)
T ss_pred HHHHHHHHHHHHCCCCeEEEE-ecCcccccchHHHHHHHHHHHHHcCCCC
Confidence 346667777788899988765 2321 1 2568999999999999864
No 73
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=58.96 E-value=20 Score=30.13 Aligned_cols=42 Identities=19% Similarity=0.225 Sum_probs=31.9
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhh-----HHHHHHHHHHHcCcccC
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHG-----KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhG-----rV~a~~~~lre~Gl~~~ 114 (114)
-+.+.|.++|+..+++. .+|+...| .-..+.+.+|++|+.++
T Consensus 79 ~~l~e~~~~gv~~~vi~-s~gf~e~g~~g~~~~~~l~~~a~~~girvl 125 (447)
T TIGR02717 79 QVVEECGEKGVKGAVVI-TAGFKEVGEEGAELEQELVEIARKYGMRLL 125 (447)
T ss_pred HHHHHHHhcCCCEEEEE-CCCccccCcchHHHHHHHHHHHHHcCCEEE
Confidence 34567889999999876 46776544 23789999999999864
No 74
>smart00812 Alpha_L_fucos Alpha-L-fucosidase. O-Glycosyl hydrolases (EC 3.2.1.-) are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site PUBMED:. Because the fold of proteins is better conserved than their sequences, some of the families can be grouped in 'clans'. Family 29 encompasses alpha-L-fucosidases, which is a lysosomal enzyme responsible for hydrolyzing the alpha-1,6-linked fucose joined to the reducing-end N-acetylglucosamine of the carbohydrate moieties of glycoproteins. Deficiency of alpha-L-fucosidase results in the lysosomal storage disease fucosidosis.
Probab=58.86 E-value=20 Score=29.80 Aligned_cols=43 Identities=16% Similarity=0.180 Sum_probs=31.6
Q ss_pred HHHHHHHhhCCCCEEEEecC--CCc-----c-----------hhhHHHHHHHHHHHcCccc
Q 033657 71 KILGERLLLKDIPAVTVFLK--REQ-----R-----------YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r--~~~-----~-----------yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.++++|.+-+++.-+ .|+ + ..--|+.|++++|+.||+|
T Consensus 84 ~~Wa~~~k~AGakY~vlTaKHHDGF~lw~S~~t~~n~~~~~pkrDiv~el~~A~rk~Glk~ 144 (384)
T smart00812 84 EEWADLFKKAGAKYVVLTAKHHDGFCLWDSKYSNWNAVDTGPKRDLVGELADAVRKRGLKF 144 (384)
T ss_pred HHHHHHHHHcCCCeEEeeeeecCCccccCCCCCCCcccCCCCCcchHHHHHHHHHHcCCeE
Confidence 56789999999999877421 000 0 1225999999999999987
No 75
>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=58.74 E-value=45 Score=24.55 Aligned_cols=46 Identities=20% Similarity=0.247 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCc--c-hhhHHHHHHHHHHHcCcc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQ--R-YHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~--~-yhGrV~a~~~~lre~Gl~ 112 (114)
-+..|+.+|+.+.+.|..++.|.. +.. . -..|...|.+++++.|+.
T Consensus 109 ~~~~g~~~a~~l~~~g~~~i~~i~-~~~~~~~~~~r~~gf~~~~~~~~~~ 157 (275)
T cd06295 109 NVGGGRLATEHLLARGRRRIAFLG-GPQDMPEGEERLEGYREALAEAGLP 157 (275)
T ss_pred cHHHHHHHHHHHHHCCCCeEEEEc-CCCCcchhHHHHHHHHHHHHHcCCC
Confidence 355677777778888988887652 322 2 246899999999999854
No 76
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=58.43 E-value=38 Score=24.58 Aligned_cols=45 Identities=13% Similarity=0.080 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.|.. +.. ....|.+.|.+++.+.|+.
T Consensus 105 ~~~~~~a~~~l~~~g~~~i~~i~-~~~~~~~~~~R~~gf~~~~~~~~~~ 152 (268)
T cd06271 105 EAAAYQAVRRLIALGHRRIALLN-PPEDLTFAQHRRAGYRRALAEAGLP 152 (268)
T ss_pred HHHHHHHHHHHHHcCCCcEEEec-CccccchHHHHHHHHHHHHHHhCCC
Confidence 45566666667778999887752 221 2245899999999999875
No 77
>PF00933 Glyco_hydro_3: Glycosyl hydrolase family 3 N terminal domain; InterPro: IPR001764 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 3 GH3 from CAZY comprises enzymes with a number of known activities; beta-glucosidase (3.2.1.21 from EC); beta-xylosidase (3.2.1.37 from EC); N-acetyl beta-glucosaminidase (3.2.1.52 from EC); glucan beta-1,3-glucosidase (3.2.1.58 from EC); cellodextrinase (3.2.1.74 from EC); exo-1,3-1,4-glucanase (3.2.1 from EC). These enzymes are two-domain globular proteins that are N-glycosylated at three sites []. This domain is often N-terminal to the glycoside hydrolase family 3, C-terminal domain IPR002772 from INTERPRO.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1Y65_A 2OXN_A 3GS6_A 1TR9_A 3GSM_A 3UT0_B 3RRX_A 3USZ_A 2X42_A 2X40_A ....
Probab=57.87 E-value=23 Score=27.86 Aligned_cols=54 Identities=24% Similarity=0.319 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHHHhhCCCCEE-------EEecCCC--cc-hhh-------HHHHHHHHHHHcCcc
Q 033657 59 CTRDVAAASKIGKILGERLLLKDIPAV-------TVFLKRE--QR-YHG-------KVKAVIDSLREAGVK 112 (114)
Q Consensus 59 ~~~n~~Aa~~vG~~la~R~~e~gI~~v-------~~d~r~~--~~-yhG-------rV~a~~~~lre~Gl~ 112 (114)
.+.|.+.++..|..+|+-++..||.-. ..+++++ .+ |+. -..|+.++++++|+-
T Consensus 80 at~d~~~a~~~g~~~a~el~~~Gin~~~aPv~Dv~~~p~~~~~~rsfgeDp~~v~~~~~a~v~G~q~~gv~ 150 (299)
T PF00933_consen 80 ATWDPELAYEVGRIIARELRALGINVNFAPVVDVNRNPRWGRGERSFGEDPDLVAEMARAFVRGLQGAGVA 150 (299)
T ss_dssp HHTCHHHHHHHHHHHHHHHHHTT-SEEEEEB----SSTTSTTGGGSS-SSHHHHHHHHHHHHHHHHCTTSE
T ss_pred hhccchHHHHHHHHHHHHHHHhhhccccccceeeeeeccccccccccchhHHHHHHHHHHHhccccccccc
Confidence 457999999999999999999999962 1122222 11 111 467899999999873
No 78
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=57.22 E-value=23 Score=27.28 Aligned_cols=45 Identities=27% Similarity=0.392 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhh-----------------HHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHG-----------------KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhG-----------------rV~a~~~~lre~Gl~~~ 114 (114)
-++..|.+++.+.|+.--++| |....|| ||..++.-+-++|+..|
T Consensus 38 TiA~ale~~L~~~G~~~y~LD--GDnvR~gL~~dLgFs~edR~eniRRvaevAkll~daG~ivi 99 (197)
T COG0529 38 TIANALEEKLFAKGYHVYLLD--GDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLADAGLIVI 99 (197)
T ss_pred HHHHHHHHHHHHcCCeEEEec--ChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHHHCCeEEE
Confidence 466778999999999988887 4444444 78999999999998653
No 79
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=57.16 E-value=44 Score=24.20 Aligned_cols=45 Identities=11% Similarity=0.181 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC--c-chhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE--Q-RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~--~-~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.|-. +. . ....|...|.+++.+.|++
T Consensus 100 ~~~g~~~~~~l~~~g~~~i~~l~-~~~~~~~~~~r~~gf~~~~~~~~~~ 147 (267)
T cd06284 100 VAAARLAVDHLISLGHRRIALIT-GPRDNPLARDRLEGYRQALAEAGLP 147 (267)
T ss_pred cHHHHHHHHHHHHcCCceEEEEc-CCccchhHHHHHHHHHHHHHHcCCC
Confidence 44556666666777888887652 31 1 2356899999999999965
No 80
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=57.13 E-value=50 Score=23.52 Aligned_cols=44 Identities=14% Similarity=0.149 Sum_probs=29.7
Q ss_pred HHHHHHHHHhhCCCCEEEEecCC-C-cchhhHHHHHHHHHHHcCcc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKR-E-QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~-~-~~yhGrV~a~~~~lre~Gl~ 112 (114)
.|+.+++.+.+.|..++.+-... . .-...|.+.|.+.+.+.|++
T Consensus 103 ~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~ 148 (264)
T cd06267 103 GAYLAVEHLIELGHRRIAFIGGPPDLSTARERLEGYREALEEAGIP 148 (264)
T ss_pred HHHHHHHHHHHCCCceEEEecCCCccchHHHHHHHHHHHHHHcCCC
Confidence 45666666666788887764211 2 23456899999999999853
No 81
>COG0821 gcpE 1-hydroxy-2-methyl-2-(e)-butenyl 4-diphosphate synthase [Lipid metabolism]
Probab=57.10 E-value=24 Score=29.50 Aligned_cols=53 Identities=15% Similarity=0.286 Sum_probs=42.4
Q ss_pred CCCHHHHHHHHH-----------------HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 60 TRDVAAASKIGK-----------------ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 60 ~~n~~Aa~~vG~-----------------~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
..+.++|..+-+ .||..+.+.|++.+.+.+ |..-...+++.+.+++++.|+.+
T Consensus 57 v~~~e~A~A~~~Ik~~~~vPLVaDiHf~~rla~~~~~~g~~k~RINP-GNig~~~~v~~vVe~Ak~~g~pi 126 (361)
T COG0821 57 VPDMEAAEALKEIKQRLNVPLVADIHFDYRLALEAAECGVDKVRINP-GNIGFKDRVREVVEAAKDKGIPI 126 (361)
T ss_pred cCCHHHHHHHHHHHHhCCCCEEEEeeccHHHHHHhhhcCcceEEECC-cccCcHHHHHHHHHHHHHcCCCE
Confidence 346667766655 478889999999999985 77666779999999999999854
No 82
>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=57.06 E-value=43 Score=24.47 Aligned_cols=45 Identities=16% Similarity=0.125 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.+- .+. ...+.|.++|.+++.+.|+.
T Consensus 101 ~~~g~~~~~~l~~~g~~~i~~i-~~~~~~~~~~~R~~gf~~~~~~~~~~ 148 (264)
T cd06274 101 RDGAAELTRELLAAPPEEVLFL-GGLPELSPSRERLAGFRQALADAGLP 148 (264)
T ss_pred HHHHHHHHHHHHHCCCCcEEEE-eCCCcccchHHHHHHHHHHHHHcCCC
Confidence 3445555555666788887654 232 22356899999999999864
No 83
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=56.78 E-value=43 Score=24.55 Aligned_cols=46 Identities=20% Similarity=0.244 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC--c-chhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE--Q-RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~--~-~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|-.++.+-. +. . .-.-|.+.|.+++++.|+.+
T Consensus 101 ~~~~~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~R~~gf~~~~~~~~~~~ 149 (268)
T cd06270 101 EQGGYLATEHLIELGHRKIACIT-GPLTKEDARLRLQGYRDALAEAGIAL 149 (268)
T ss_pred HHHHHHHHHHHHHCCCceEEEEe-CCcccccHHHHHHHHHHHHHHcCCCC
Confidence 34466667777777888876642 22 1 23468999999999999764
No 84
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI 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 which in turn changes the DNA b
Probab=56.43 E-value=51 Score=23.94 Aligned_cols=46 Identities=13% Similarity=0.125 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|..++.|-. +.. ....|...|.+++++.|+.+
T Consensus 101 ~~~g~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~r~~gf~~~l~~~~~~~ 149 (264)
T cd01574 101 EGGARLATEHLLELGHRTIAHVA-GPEEWLSARARLAGWRAALEAAGIAP 149 (264)
T ss_pred HHHHHHHHHHHHHCCCCEEEEEe-cCCccchHHHHHHHHHHHHHHCCCCc
Confidence 34556666666677888887652 321 22468899999999998754
No 85
>COG0645 Predicted kinase [General function prediction only]
Probab=56.23 E-value=42 Score=25.20 Aligned_cols=55 Identities=16% Similarity=-0.019 Sum_probs=43.6
Q ss_pred ccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 56 SIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 56 ~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+|+....++.|..-.-.|++|++.|++-| +| +.+..+-.-.+...-+++.|+.|
T Consensus 51 g~ys~~~~~~vy~~l~~~A~l~l~~G~~VV-lD--a~~~r~~~R~~~~~~A~~~gv~~ 105 (170)
T COG0645 51 GLYSPAATAAVYDELLGRAELLLSSGHSVV-LD--ATFDRPQERALARALARDVGVAF 105 (170)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHhCCCcEE-Ee--cccCCHHHHHHHHHHHhccCCce
Confidence 367777888999999999999999998865 77 46666666677777778877765
No 86
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=56.04 E-value=47 Score=24.15 Aligned_cols=45 Identities=11% Similarity=0.160 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQR---YHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~---yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.+- .+... .+-|.+.|.+++++.|+.
T Consensus 107 ~~~g~~~~~~l~~~g~~~i~~i-~~~~~~~~~~~r~~gf~~~~~~~~~~ 154 (270)
T cd06294 107 IQAGYDATEYLIKLGHKKIAFV-GGDLDLEVTQDRLQGYKQALEDHGIP 154 (270)
T ss_pred HHHHHHHHHHHHHcCCccEEEe-cCCcccHHHHHHHHHHHHHHHHcCCC
Confidence 5667777777777788887654 23222 345899999999999863
No 87
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=55.52 E-value=49 Score=23.08 Aligned_cols=47 Identities=17% Similarity=0.280 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC-cchhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE-QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~-~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|..++.+-.... .....+..+|.+++.+.|+++
T Consensus 109 ~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 (269)
T cd01391 109 EQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALKKAGIEV 156 (269)
T ss_pred HHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHHhcCcEE
Confidence 34566777777777778776542122 345678999999999988653
No 88
>PRK08322 acetolactate synthase; Reviewed
Probab=55.28 E-value=19 Score=30.52 Aligned_cols=40 Identities=13% Similarity=0.248 Sum_probs=31.7
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.+..|++.+.+.||+.| |-.. ++.+..|.|++++.||+++
T Consensus 3 ~~~~l~~~L~~~Gv~~v-Fg~p-----G~~~~~l~dal~~~~i~~i 42 (547)
T PRK08322 3 AADLFVKCLENEGVEYI-FGIP-----GEENLDLLEALRDSSIKLI 42 (547)
T ss_pred HHHHHHHHHHHcCCCEE-EeCC-----CcchHHHHHHHHhcCCcEE
Confidence 57899999999999998 4332 4457789999988888764
No 89
>PRK06725 acetolactate synthase 3 catalytic subunit; Validated
Probab=55.17 E-value=19 Score=30.95 Aligned_cols=42 Identities=21% Similarity=0.179 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..++..|++++++.||+.| |-.-| +-+..|.|++.+.||+++
T Consensus 15 ~~~a~~l~~~L~~~GV~~v-FGipG-----~~~~~l~dal~~~~i~~i 56 (570)
T PRK06725 15 VTGAGHVIQCLKKLGVTTV-FGYPG-----GAILPVYDALYESGLKHI 56 (570)
T ss_pred ccHHHHHHHHHHHcCCCEE-EEcCC-----cchHHHHHHHHhcCCcEE
Confidence 4578999999999999998 54433 447778999888888764
No 90
>cd06310 PBP1_ABC_sugar_binding_like_2 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=54.74 E-value=41 Score=24.65 Aligned_cols=48 Identities=23% Similarity=0.293 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHc-Cccc
Q 033657 63 VAAASKIGKILGERLLLKDIPAVTVFLKREQR---YHGKVKAVIDSLREA-GVKL 113 (114)
Q Consensus 63 ~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~---yhGrV~a~~~~lre~-Gl~~ 113 (114)
..+++.+++.|.+++ .|..++.+- .+... -.-|.+.|.+++++. |+.+
T Consensus 106 ~~~~~~~~~~l~~~~--~g~~~i~~i-~~~~~~~~~~~r~~gf~~a~~~~~~~~~ 157 (273)
T cd06310 106 VAAGKLAAEALAELL--GKKGKVAVI-SFVPGSSTTDQREEGFLEGLKEYPGIEI 157 (273)
T ss_pred HHHHHHHHHHHHHHc--CCCceEEEE-eCCCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 344444444444442 277888765 33221 244889999999998 8754
No 91
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=54.55 E-value=19 Score=30.72 Aligned_cols=42 Identities=12% Similarity=0.161 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
...+..|++++++.||+.| |-..| +.+..|.+++.+.||+++
T Consensus 8 ~~~~~~l~~~L~~~Gv~~v-FgipG-----~~~~~l~~al~~~~i~~v 49 (561)
T PRK06048 8 MTGARAIIKCLEKEGVEVI-FGYPG-----GAIIPVYDELYDSDLRHI 49 (561)
T ss_pred ccHHHHHHHHHHHcCCCEE-EECCC-----cchHHHHHHHhhCCCeEE
Confidence 3568999999999999998 54333 457788888888888764
No 92
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=54.51 E-value=46 Score=26.49 Aligned_cols=46 Identities=15% Similarity=0.163 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.-|+.+++.+.++|..++.|- .++ .....|...|.+++++.|+.+
T Consensus 160 ~~~~~~a~~~L~~~G~~~i~~i-~~~~~~~~~~~R~~Gf~~al~~~~~~~ 208 (333)
T COG1609 160 FAGAYLATEHLIELGHRRIAFI-GGPLDSSASRERLEGYRAALREAGLPI 208 (333)
T ss_pred HHHHHHHHHHHHHCCCceEEEE-eCCCccccHhHHHHHHHHHHHHCCCCC
Confidence 3456677888889999988765 343 244779999999999999874
No 93
>TIGR03581 EF_0839 conserved hypothetical protein EF_0839/AHA_3917. Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. The function is unknown.
Probab=54.29 E-value=39 Score=26.66 Aligned_cols=39 Identities=18% Similarity=0.057 Sum_probs=33.6
Q ss_pred HHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 75 ERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 75 ~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.-+++.|.+.+.|++=+|.++-.-.+++++++-+.|+.+
T Consensus 142 aml~dmG~~SiKffPM~Gl~~leE~~avA~aca~~g~~l 180 (236)
T TIGR03581 142 AMLKDMGGSSVKFFPMGGLKHLEEYAAVAKACAKHGFYL 180 (236)
T ss_pred HHHHHcCCCeeeEeecCCcccHHHHHHHHHHHHHcCCcc
Confidence 446789999999998788888889999999999999753
No 94
>PRK09542 manB phosphomannomutase/phosphoglucomutase; Reviewed
Probab=54.12 E-value=69 Score=26.66 Aligned_cols=60 Identities=13% Similarity=0.231 Sum_probs=41.6
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
+++..+..-|-+-+..+|..+|.-..+.+-..|++=. ..+..+ --.|++.+|..+|++++
T Consensus 6 iRG~~~~~lt~~~v~~l~~a~~~~l~~~~~~~VvVg~--D~R~~s~~l~~a~~~gL~s~G~~V~ 67 (445)
T PRK09542 6 VRGVVGEQIDEDLVRDVGAAFARLMRAEGATTVVIGH--DMRDSSPELAAAFAEGVTAQGLDVV 67 (445)
T ss_pred cccccCCCcCHHHHHHHHHHHHHHHHHcCCCeEEEEe--CCCCCHHHHHHHHHHHHHHCCCEEE
Confidence 4444444468899999999999988765545565531 222333 36899999999998763
No 95
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=53.80 E-value=14 Score=31.80 Aligned_cols=42 Identities=14% Similarity=0.368 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA-GVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~-Gl~~~ 114 (114)
..+++.|++++.+.||+.+ |=.- ++....|+|++.+. ||+++
T Consensus 3 ~t~~~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~dal~~~~~i~~i 45 (578)
T PRK06546 3 KTVAEQLVEQLVAAGVKRI-YGIV-----GDSLNPIVDAVRRTGGIEWV 45 (578)
T ss_pred ccHHHHHHHHHHHcCCCEE-EECC-----CCchHHHHHHHhccCCCeEE
Confidence 4678999999999999998 4432 33467788888776 78764
No 96
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=53.78 E-value=53 Score=23.76 Aligned_cols=46 Identities=22% Similarity=0.313 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|..++.+- .+.. .-..|...|.+++.+.|+++
T Consensus 100 ~~~g~~~~~~l~~~g~~~i~~i-~~~~~~~~~~~R~~gf~~~~~~~~~~~ 148 (266)
T cd06278 100 YEAGRLAAELLLAKGCRRIAFI-GGPADTSTSRERERGFRDALAAAGVPV 148 (266)
T ss_pred HHHHHHHHHHHHHCCCceEEEE-cCCCcccchHHHHHHHHHHHHHcCCCh
Confidence 3345555555666788888765 2322 22448899999999998753
No 97
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=53.41 E-value=60 Score=23.57 Aligned_cols=46 Identities=13% Similarity=0.132 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc----chhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ----RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~----~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|-.++.+- .+.. --+.|.+.|.+++.+.|+++
T Consensus 101 ~~~~~~~~~~l~~~g~~~i~~l-~~~~~~~~~~~~r~~gf~~~~~~~~~~~ 150 (268)
T cd06298 101 KKAAFEATELLIKNGHKKIAFI-SGPLEDSINGDERLAGYKEALSEANIEF 150 (268)
T ss_pred HHHHHHHHHHHHHcCCceEEEE-eCCcccccchhHHHHHHHHHHHHcCCCC
Confidence 3455566666677788877665 2221 23568999999999999753
No 98
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=53.16 E-value=28 Score=27.44 Aligned_cols=40 Identities=5% Similarity=0.017 Sum_probs=29.9
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+-+.++|.++|++.+.+-| =. ..-..-+.+.+++.||.++
T Consensus 109 e~F~~~~~~aGvdgviipD-LP---~ee~~~~~~~~~~~gi~~I 148 (263)
T CHL00200 109 NKFIKKISQAGVKGLIIPD-LP---YEESDYLISVCNLYNIELI 148 (263)
T ss_pred HHHHHHHHHcCCeEEEecC-CC---HHHHHHHHHHHHHcCCCEE
Confidence 3478899999999987754 12 3457788889999998764
No 99
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=52.74 E-value=30 Score=27.19 Aligned_cols=39 Identities=5% Similarity=0.060 Sum_probs=27.8
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.+.++|+++|++-+.+-| .-..-...+.+.+++.||.+|
T Consensus 108 ~f~~~~~~aGvdGviipD----Lp~ee~~~~~~~~~~~gl~~I 146 (258)
T PRK13111 108 RFAADAAEAGVDGLIIPD----LPPEEAEELRAAAKKHGLDLI 146 (258)
T ss_pred HHHHHHHHcCCcEEEECC----CCHHHHHHHHHHHHHcCCcEE
Confidence 467888888888876642 223567788888888888753
No 100
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=52.69 E-value=53 Score=24.70 Aligned_cols=46 Identities=11% Similarity=0.100 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC--cc-hhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE--QR-YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~--~~-yhGrV~a~~~~lre~Gl~~ 113 (114)
+.-|+.+++.+.+.|..++.|-- +. .. -..|.+.|.+++++.|+.+
T Consensus 137 ~~~g~~a~~~l~~~G~~~I~~l~-~~~~~~~~~~R~~Gf~~~~~~~~~~~ 185 (309)
T PRK11041 137 LTAAFEAVNYLHELGHKRIACIA-GPEEMPLCHYRLQGYVQALRRCGITV 185 (309)
T ss_pred HHHHHHHHHHHHHcCCceEEEEe-CCccccchHHHHHHHHHHHHHcCCCC
Confidence 34455566666667888886642 22 22 2468999999999999863
No 101
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=52.55 E-value=63 Score=23.54 Aligned_cols=46 Identities=15% Similarity=0.272 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc----chhhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ----RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~----~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|..++.+-. +.. ....|.+.|.+++.+.|+++
T Consensus 97 ~~~g~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~~r~~gf~~~l~~~~~~~ 146 (265)
T cd06291 97 YEGGRLAAEELIERGCKHIAHIG-GPNNTVSPTNLRYEGFLDVLKENGLEV 146 (265)
T ss_pred HHHHHHHHHHHHHcCCcEEEEEc-cCcccccchHHHHHHHHHHHHHcCCCC
Confidence 34556666666677888886652 322 22468999999999999863
No 102
>PRK07524 hypothetical protein; Provisional
Probab=52.44 E-value=22 Score=30.10 Aligned_cols=41 Identities=15% Similarity=0.148 Sum_probs=32.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.++..|++++.+.||+.+ |-.- ++.+..|.|++.+.+|+++
T Consensus 3 ~~a~~l~~~L~~~Gv~~v-Fg~p-----G~~~~~~~dal~~~~i~~i 43 (535)
T PRK07524 3 TCGEALVRLLEAYGVETV-FGIP-----GVHTVELYRGLAGSGIRHV 43 (535)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCC-----CcchHHHHHHHhhcCCcEE
Confidence 468999999999999998 4432 4457788899987888764
No 103
>TIGR03394 indol_phenyl_DC indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. This model represents a clade that includes a Azospirillum brasilense member active as both phenylpyruvate decarboxylase and indolepyruvate decarboxylase.
Probab=52.34 E-value=28 Score=29.75 Aligned_cols=40 Identities=13% Similarity=0.111 Sum_probs=31.0
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcC-cccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAG-VKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~G-l~~~ 114 (114)
++..|++++++.|++.| |=.. ++.+..|.|++.+.| |.++
T Consensus 2 ~~~~l~~~L~~~Gv~~v-FGvp-----G~~~~~l~~al~~~~~i~~v 42 (535)
T TIGR03394 2 LAEALLRALKDRGAQEM-FGIP-----GDFALPFFKVIEETGILPLH 42 (535)
T ss_pred HHHHHHHHHHHcCCCEE-EECC-----CcccHHHHHHHhhCCCCeEE
Confidence 68899999999999998 5443 334777888887776 7764
No 104
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=52.32 E-value=52 Score=25.44 Aligned_cols=44 Identities=11% Similarity=0.188 Sum_probs=31.9
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
-|+.+++.+.+.|..++.|- .+.. ....|...|.+++.+.|+.+
T Consensus 163 ~~~~a~~~L~~~G~~~I~~i-~~~~~~~~~~~R~~Gf~~al~~~gi~~ 209 (343)
T PRK10727 163 GAWLATRHLIQQGHTRIGYL-CSNHSISDAEDRLQGYYDALAESGIPA 209 (343)
T ss_pred HHHHHHHHHHHCCCccEEEE-eCCccccchHHHHHHHHHHHHHCCCCC
Confidence 45666677777898888765 2322 23569999999999999853
No 105
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=52.31 E-value=22 Score=30.23 Aligned_cols=41 Identities=15% Similarity=0.290 Sum_probs=32.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.++..|++.+.+.||+.| |-.. ++.+..|.|++.+.||+++
T Consensus 3 ~~a~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~dal~~~~i~~v 43 (549)
T PRK06457 3 SVAEVIIRVLEDNGIQRI-YGIP-----GDSIDPLVDAIRKSKVKYV 43 (549)
T ss_pred cHHHHHHHHHHHcCCCEE-EEcC-----CcchHHHHHHHHhcCCeEE
Confidence 468899999999999998 4332 4558889999988888763
No 106
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=52.29 E-value=56 Score=24.54 Aligned_cols=45 Identities=16% Similarity=0.185 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~ 112 (114)
+.-|..+++.++++|..++.|-. +. .....|...|.+++++.|+.
T Consensus 103 ~~~~~~a~~~L~~~G~~~I~~i~-~~~~~~~~~~R~~gf~~a~~~~g~~ 150 (269)
T cd06287 103 AATARMLLEHLRAQGARQIALIV-GSARRNSYLEAEAAYRAFAAEHGMP 150 (269)
T ss_pred HHHHHHHHHHHHHcCCCcEEEEe-CCcccccHHHHHHHHHHHHHHcCCC
Confidence 56688888999999999886542 21 22355899999999999985
No 107
>PRK09124 pyruvate dehydrogenase; Provisional
Probab=51.94 E-value=21 Score=30.55 Aligned_cols=41 Identities=12% Similarity=0.235 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA-GVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~-Gl~~~ 114 (114)
.++..|++++.+.||+.+ |-.. ++.+..|.|++++. ||+++
T Consensus 4 ~~a~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~dal~~~~~i~~i 45 (574)
T PRK09124 4 TVADYIAKTLEQAGVKRI-WGVT-----GDSLNGLSDSLRRMGTIEWM 45 (574)
T ss_pred cHHHHHHHHHHHcCCCEE-EECC-----CCchHHHHHHHhccCCCcEE
Confidence 578999999999999998 4432 34577788888764 78764
No 108
>KOG1185 consensus Thiamine pyrophosphate-requiring enzyme [Amino acid transport and metabolism; Coenzyme transport and metabolism]
Probab=51.94 E-value=27 Score=30.67 Aligned_cols=42 Identities=12% Similarity=0.156 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..=|+++|+-++..|++.+ |-.= ++=|-.++.++...||+||
T Consensus 14 ~~g~~~vA~~Lk~~gVe~i-FgiV-----GipV~el~~aaqalGIk~I 55 (571)
T KOG1185|consen 14 RHGGELVAAVLKAQGVEYI-FGIV-----GIPVIELAVAAQALGIKFI 55 (571)
T ss_pred ccHHHHHHHHHHHcCceEE-EEEe-----ccchHHHHHHHHHcCCeEe
Confidence 3446777888899999997 6543 3448999999999999986
No 109
>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=51.89 E-value=26 Score=24.78 Aligned_cols=44 Identities=18% Similarity=0.120 Sum_probs=30.2
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
...|.+-|.+.|++.|+++..-+.-...+-+.+.+.+.+.|+.+
T Consensus 77 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~ 120 (165)
T PF00875_consen 77 EEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKV 120 (165)
T ss_dssp HHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEE
Confidence 34555667778999998874222223457888999999999876
No 110
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=51.87 E-value=14 Score=31.50 Aligned_cols=42 Identities=14% Similarity=0.189 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA-GVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~-Gl~~~ 114 (114)
...++.|++++++.||+.| |=.. ++.+..|.+++.+. ||+++
T Consensus 13 ~~~~~~l~~~L~~~GV~~v-Fgvp-----G~~~~~l~dal~~~~~i~~i 55 (564)
T PRK08155 13 FTGAELIVRLLERQGIRIV-TGIP-----GGAILPLYDALSQSTQIRHI 55 (564)
T ss_pred ccHHHHHHHHHHHcCCCEE-EeCC-----CcccHHHHHHHhccCCceEE
Confidence 3579999999999999998 4332 34577788888654 78764
No 111
>cd07038 TPP_PYR_PDC_IPDC_like Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites, for many
Probab=51.64 E-value=22 Score=25.51 Aligned_cols=37 Identities=22% Similarity=0.261 Sum_probs=26.2
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA-GVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~-Gl~~~ 114 (114)
.|++.+++.||+.+ |-.-| +....+.+++.+. |+.++
T Consensus 2 ~l~~~L~~~Gi~~v-Fg~pG-----~~~~~l~~al~~~~~i~~i 39 (162)
T cd07038 2 YLLERLKQLGVKHV-FGVPG-----DYNLPLLDAIEENPGLRWV 39 (162)
T ss_pred HHHHHHHHcCCCEE-EEeCC-----ccHHHHHHHHhhcCCceEE
Confidence 57889999999998 44323 3466688888655 78764
No 112
>COG0684 MenG Demethylmenaquinone methyltransferase [Coenzyme metabolism]
Probab=51.55 E-value=45 Score=25.75 Aligned_cols=58 Identities=9% Similarity=0.082 Sum_probs=42.2
Q ss_pred CcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEe
Q 033657 18 PYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVF 88 (114)
Q Consensus 18 ~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d 88 (114)
-..+..+-.|-.++..+-....|.+|+-...-+ . .+...|.+|+..|+..|+.-+++|
T Consensus 49 A~TV~~~~~d~~~~~al~~~~~GdVLVid~~g~------------~-~~A~~Gd~la~~a~~~G~~GvVid 106 (210)
T COG0684 49 AVTVRCFPDDWLLHVALEQAGPGDVLVIDGGGD------------L-RRALWGDLLATLAKVRGWAGVVID 106 (210)
T ss_pred EEEEEEeCCCchhhheeecCCCCCEEEEeCCCC------------c-ceeehHHHHHHHHHHcCccEEEEe
Confidence 355677777766776555566677776554322 1 467899999999999999999887
No 113
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=51.01 E-value=59 Score=23.68 Aligned_cols=44 Identities=14% Similarity=0.158 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.|+.+++.+.++|..++.|-. +. ..-..|.+.|.+.+.+.|+.+
T Consensus 102 a~~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~r~~gf~~~~~~~~~~~ 148 (265)
T cd06290 102 GGYLATQHLIDLGHRRIAHIT-GPRGHIDARDRLAGYRKALEEAGLEV 148 (265)
T ss_pred HHHHHHHHHHHCCCCeEEEEe-CccccchhhHHHHHHHHHHHHcCCCC
Confidence 344555556667888887652 32 122458999999999998764
No 114
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=50.77 E-value=21 Score=30.55 Aligned_cols=41 Identities=17% Similarity=0.129 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
..|+.|++++++.||+.| |-.- ++.+..|.|++.+ .||+++
T Consensus 5 ~~a~~l~~~L~~~Gv~~v-Fgip-----G~~~~~l~~al~~~~~i~~i 46 (574)
T PRK06466 5 SGAEMLVRALRDEGVEYI-YGYP-----GGAVLHIYDALFKQDKVEHI 46 (574)
T ss_pred cHHHHHHHHHHHcCCCEE-EECC-----CcchhHHHHHhhccCCceEE
Confidence 358999999999999998 5433 3457788998854 588764
No 115
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=50.45 E-value=27 Score=30.09 Aligned_cols=40 Identities=10% Similarity=0.105 Sum_probs=31.3
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.++.|++++++.||+.| |-.. ++.+..|.|++.+.||+++
T Consensus 3 ~~~~l~~~L~~~Gv~~v-Fg~p-----G~~~~~l~~al~~~~i~~i 42 (586)
T PRK06276 3 GAEAIIKALEAEGVKII-FGYP-----GGALLPFYDALYDSDLIHI 42 (586)
T ss_pred HHHHHHHHHHHcCCCEE-EECC-----CcchHHHHHHHHhCCCcEE
Confidence 57899999999999998 4432 3457778888887888764
No 116
>PRK05858 hypothetical protein; Provisional
Probab=50.33 E-value=26 Score=29.78 Aligned_cols=41 Identities=24% Similarity=0.500 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.|+.|++++.+.|++.+ |=.. ++....++|++.+.||+++
T Consensus 6 ~~~~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~dal~~~~i~~i 46 (542)
T PRK05858 6 HAGRLAARRLKAHGVDTM-FTLS-----GGHLFPLYDGAREEGIRLI 46 (542)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCC-----CcchHHHHHHHHhcCCCEE
Confidence 578999999999999998 4432 3357788888888888764
No 117
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=50.21 E-value=60 Score=24.75 Aligned_cols=44 Identities=11% Similarity=0.122 Sum_probs=32.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~ 112 (114)
.-|..+++.+.+.|..++.|- .+.. ....|.+.|.+++.+.|+.
T Consensus 165 ~~~~~a~~~L~~~G~r~I~~i-~~~~~~~~~~~R~~Gf~~al~~~g~~ 211 (328)
T PRK11303 165 DDAEMLAESLLKFPAESILLL-GALPELSVSFEREQGFRQALKDDPRE 211 (328)
T ss_pred HHHHHHHHHHHHCCCCeEEEE-eCccccccHHHHHHHHHHHHHHcCCC
Confidence 346667778888899988765 2321 2356899999999999975
No 118
>PF01346 FKBP_N: Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; InterPro: IPR000774 Peptidyl-prolyl cis-trans isomerase (PPIase) catalyses the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides [, ]. This alpha helical domain is found at the N terminus of proteins belonging to the FKBP-type peptidyl-prolyl cis-trans isomerase(IPR001179 from INTERPRO) family. Peptidyl-prolyl cis-trans isomerase has been shown to accelerate the refolding of several proteins in vitro [, , ]; the FKPB-type enzymes probably act in the folding of extracytoplasmic proteins.; GO: 0006457 protein folding; PDB: 1FD9_A 2VCD_A 3OE2_A 2UZ5_A 3B09_A 1Q6H_B 1Q6I_B 1Q6U_A.
Probab=50.14 E-value=17 Score=24.67 Aligned_cols=24 Identities=13% Similarity=0.242 Sum_probs=20.6
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCE
Q 033657 61 RDVAAASKIGKILGERLLLKDIPA 84 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~ 84 (114)
..-..+|.+|..+|......+...
T Consensus 21 ~~~k~SYalG~~iG~~l~~~~~~~ 44 (124)
T PF01346_consen 21 DEDKLSYALGVQIGQQLKQQGFEQ 44 (124)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCHCC
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhc
Confidence 356789999999999999987776
No 119
>COG3345 GalA Alpha-galactosidase [Carbohydrate transport and metabolism]
Probab=50.11 E-value=22 Score=31.76 Aligned_cols=41 Identities=7% Similarity=0.040 Sum_probs=33.3
Q ss_pred HHHHHHhhCCCCEEEEecCCCc------------------chhhHHHHHHHHHHHcCccc
Q 033657 72 ILGERLLLKDIPAVTVFLKREQ------------------RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~------------------~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+++-|++.|++-+++|| |-+ +|.+-|..++++.+|.|++|
T Consensus 313 e~vk~akk~gvE~FvlDD-Gwfg~rndd~~slGDWlv~seKfPsgiE~li~~I~e~Gl~f 371 (687)
T COG3345 313 ENVKEAKKFGVELFVLDD-GWFGGRNDDLKSLGDWLVNSEKFPSGIEELIEAIAENGLIF 371 (687)
T ss_pred HHHHHHhhcCeEEEEEcc-ccccccCcchhhhhceecchhhccccHHHHHHHHHHcCCcc
Confidence 456778889999999997 422 46677999999999999986
No 120
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=50.05 E-value=64 Score=24.63 Aligned_cols=42 Identities=17% Similarity=0.181 Sum_probs=32.2
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~ 112 (114)
|+.+++.+.+.|..++.|- .+.. ....|...|.+++.+.|+.
T Consensus 166 ~~~~~~~L~~~G~~~I~~i-~~~~~~~~~~~R~~Gf~~al~~~~~~ 210 (327)
T TIGR02417 166 AAELIERLLSQHADEFWYL-GAQPELSVSRDRLAGFRQALKQATLE 210 (327)
T ss_pred HHHHHHHHHHCCCCeEEEE-eCcccchhHHHHHHHHHHHHHHcCCC
Confidence 6677888888999888765 2322 2456999999999999975
No 121
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=50.04 E-value=65 Score=23.88 Aligned_cols=53 Identities=8% Similarity=0.264 Sum_probs=37.3
Q ss_pred CCCHHHHHHHHHHHHHHHhhCCC--CEEEEe-c--CCCcchhhHHHHHHHHHHHcCcc
Q 033657 60 TRDVAAASKIGKILGERLLLKDI--PAVTVF-L--KREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 60 ~~n~~Aa~~vG~~la~R~~e~gI--~~v~~d-~--r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
..+..+++..|+.|++.+.+.|. .++.+- . .....-..|...|.+++.+.|+.
T Consensus 105 ~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~ 162 (289)
T cd01540 105 MSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRTDGALEALKAPGFP 162 (289)
T ss_pred CCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHHHHHHHHHhcCCCC
Confidence 35778889999999998888886 444332 1 11123356899999999988875
No 122
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=49.52 E-value=27 Score=29.94 Aligned_cols=41 Identities=17% Similarity=0.307 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
..|..|++++++.||+.| |-.-| +-+..|.|++.+ .||+++
T Consensus 5 ~~~~~l~~~L~~~Gv~~v-FgvpG-----~~~~~l~~al~~~~~i~~v 46 (572)
T PRK08979 5 SGASMIVRSLIDEGVKHI-FGYPG-----GSVLDIYDALHEKSGIEHI 46 (572)
T ss_pred cHHHHHHHHHHHcCCCEE-EEcCC-----cchHHHHHHHhhcCCCeEE
Confidence 358999999999999998 55433 347778999876 478764
No 123
>PRK08266 hypothetical protein; Provisional
Probab=49.48 E-value=27 Score=29.58 Aligned_cols=41 Identities=17% Similarity=0.259 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc--CcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA--GVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~--Gl~~~ 114 (114)
.++..|++.+.+.||+.| |-.. ++.+..+.+++.+. +|+++
T Consensus 5 ~~~~~l~~~L~~~Gv~~v-Fg~p-----G~~~~~l~~al~~~~~~i~~v 47 (542)
T PRK08266 5 TGGEAIVAGLVAHGVDTV-FGLP-----GAQLYWLFDALYKAGDRIRVI 47 (542)
T ss_pred cHHHHHHHHHHHcCCCEE-EECC-----CcchHHHHHHHHhcCCCCeEE
Confidence 568999999999999998 4332 44578889998764 77653
No 124
>PF01120 Alpha_L_fucos: Alpha-L-fucosidase; InterPro: IPR000933 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Family 29 (GH29 from CAZY) encompasses alpha-L-fucosidases (3.2.1.51 from EC) [], which is a lysosomal enzyme responsible for hydrolyzing the alpha-1,6-linked fucose joined to the reducing-end N-acetylglucosamine of the carbohydrate moieties of glycoproteins. Alpha-L-fucosidase is responsible for hydrolysing the alpha-1,6-linked fucose joined to the reducing-end N-acetylglucosamine of the carbohydrate moieties of glycoproteins. Fucosylated glycoconjugates are involved in numerous biological events, making alpha-l-fucosidases, the enzymes responsible for their processing, critically important. Deficiency in alpha-l-fucosidase activity is associated with fucosidosis, a lysosomal storage disorder characterised by rapid neurodegeneration, resulting in severe mental and motor deterioration []. The enzyme is a hexamer and displays a two-domain fold, composed of a catalytic (beta/alpha)(8)-like domain and a C-terminal beta-sandwich domain []. Drosophila melanogaster spermatozoa contains an alpha-l-fucosidase that might be involved in fertilisation by interacting with alpha-l-fucose residues on the micropyle of the eggshell []. In human sperm, membrane-associated alpha-l-fucosidase is stable for extended periods of time, which is made possible by membrane domains and compartmentalisation. These help preserve protein integrity []. ; GO: 0004560 alpha-L-fucosidase activity, 0005975 carbohydrate metabolic process; PDB: 3EYP_B 2ZX6_A 2ZWY_B 2ZX8_B 2WSP_A 2ZXA_A 2ZWZ_B 1ODU_B 1HL9_A 2ZX5_B ....
Probab=49.18 E-value=34 Score=27.65 Aligned_cols=44 Identities=16% Similarity=0.077 Sum_probs=29.5
Q ss_pred HHHHHHHHhhCCCCEEEEecC--CCc-------------ch---hhHHHHHHHHHHHcCccc
Q 033657 70 GKILGERLLLKDIPAVTVFLK--REQ-------------RY---HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r--~~~-------------~y---hGrV~a~~~~lre~Gl~~ 113 (114)
....++.++++|.+-+++.-+ .|+ .. .--|+.|++++|+.||+|
T Consensus 93 ~dqW~~~ak~aGakY~VlTakHHDGF~LW~S~~t~~~v~~~~~krDiv~El~~A~rk~Glk~ 154 (346)
T PF01120_consen 93 ADQWAKLAKDAGAKYVVLTAKHHDGFCLWPSKYTDYNVVNSGPKRDIVGELADACRKYGLKF 154 (346)
T ss_dssp HHHHHHHHHHTT-SEEEEEEE-TT--BSS--TT-SSBGGGGGGTS-HHHHHHHHHHHTT-EE
T ss_pred HHHHHHHHHHcCCCEEEeehhhcCccccCCCCCCcccccCCCCCCCHHHHHHHHHHHcCCeE
Confidence 346788999999999987421 011 01 125999999999999987
No 125
>PF04551 GcpE: GcpE protein; InterPro: IPR004588 This protein previously of unknown biochemical function is essential in Escherichia coli. It has now been characterised as 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase, which converts 2C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-2,4CPP) into 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate in the sixth step of nonmevalonate terpenoid biosynthesis. The family is largely restricted to bacteria, where it is widely but not universally distributed. No homology can be detected between this family and other proteins.; GO: 0046429 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase activity, 0016114 terpenoid biosynthetic process, 0055114 oxidation-reduction process; PDB: 2Y0F_C 3NOY_A.
Probab=49.14 E-value=36 Score=28.44 Aligned_cols=51 Identities=20% Similarity=0.298 Sum_probs=36.7
Q ss_pred CCHHHHHHHHHHH----------------------HHHHhhCCCCEEEEecCCCc--------ch-hhHHHHHHHHHHHc
Q 033657 61 RDVAAASKIGKIL----------------------GERLLLKDIPAVTVFLKREQ--------RY-HGKVKAVIDSLREA 109 (114)
Q Consensus 61 ~n~~Aa~~vG~~l----------------------a~R~~e~gI~~v~~d~r~~~--------~y-hGrV~a~~~~lre~ 109 (114)
.|.++|..++++- |..|.+. ++++.+.+ |.. .. ..+++.+++.++|.
T Consensus 53 p~~~~a~al~~I~~~l~~~g~~iPlVADIHFd~~lAl~a~~~-v~kiRINP-GNi~~~~~~~~g~~~~~~~~vv~~ake~ 130 (359)
T PF04551_consen 53 PDMEAAEALKEIKKRLRALGSPIPLVADIHFDYRLALEAIEA-VDKIRINP-GNIVDEFQEELGSIREKVKEVVEAAKER 130 (359)
T ss_dssp -SHHHHHHHHHHHHHHHCTT-SS-EEEEESTTCHHHHHHHHC--SEEEE-T-TTSS----SS-SS-HHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHhhccCCCCCCeeeecCCCHHHHHHHHHH-hCeEEECC-CcccccccccccchHHHHHHHHHHHHHC
Confidence 4778888887764 4467778 99999885 665 33 78999999999999
Q ss_pred Cccc
Q 033657 110 GVKL 113 (114)
Q Consensus 110 Gl~~ 113 (114)
|+.+
T Consensus 131 ~ipI 134 (359)
T PF04551_consen 131 GIPI 134 (359)
T ss_dssp T-EE
T ss_pred CCCE
Confidence 9854
No 126
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=49.07 E-value=70 Score=24.51 Aligned_cols=43 Identities=12% Similarity=0.194 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCC--cchhhHHHHHHHHHHHcCc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKRE--QRYHGKVKAVIDSLREAGV 111 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~--~~yhGrV~a~~~~lre~Gl 111 (114)
.-|+.+++.+.+.|..++.|- .+. .....|...|.+++.+.|+
T Consensus 166 ~~~~~a~~~L~~~Gh~~I~~i-~~~~~~~~~~R~~Gf~~al~~~g~ 210 (331)
T PRK14987 166 EAARQMTTAIIARGHRHIAYL-GARLDERTIIKQKGYEQAMLDAGL 210 (331)
T ss_pred HHHHHHHHHHHHCCCceEEEE-cCCCcccHHHHHHHHHHHHHHcCC
Confidence 346666777778899988765 221 2234589999999999997
No 127
>TIGR03393 indolpyr_decarb indolepyruvate decarboxylase, Erwinia family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. Within the larger family, this model represents a clade of bacterial indolepyruvate decarboxylases, part of a pathway for biosynthesis of the plant hormone indole-3-acetic acid. Typically, these species interact with plants, as pathogens or as beneficial, root-associated bacteria.
Probab=48.88 E-value=29 Score=29.48 Aligned_cols=41 Identities=15% Similarity=0.144 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
.+|..|++++.+.||+.| |-.-| +-+..|.|++.+ .||+++
T Consensus 2 t~~~~l~~~L~~~Gv~~v-FG~pG-----~~~~~l~dal~~~~~i~~v 43 (539)
T TIGR03393 2 TVGDYLLDRLTDIGIDHL-FGVPG-----DYNLQFLDHVIDSPDICWV 43 (539)
T ss_pred cHHHHHHHHHHHcCCCEE-EECCC-----CchHHHHHHHhhCCCCcEe
Confidence 578999999999999998 55433 336678888854 488764
No 128
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=48.70 E-value=68 Score=22.75 Aligned_cols=44 Identities=25% Similarity=0.363 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCC-C-cchhhHHHHHHHHHHHcC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKR-E-QRYHGKVKAVIDSLREAG 110 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~-~-~~yhGrV~a~~~~lre~G 110 (114)
+..|..+++.+.+.|..++.+-... . .-...+...|.+++.+.|
T Consensus 103 ~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~ 148 (264)
T cd01537 103 EQAGYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALKEAG 148 (264)
T ss_pred HHHHHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHHHcC
Confidence 4677888888888888887664211 2 233567999999999887
No 129
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=48.53 E-value=45 Score=26.67 Aligned_cols=39 Identities=15% Similarity=0.175 Sum_probs=30.1
Q ss_pred HHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 74 GERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.+.|.++|+..+++. -.|+... .-+.+.+.+|+.|+.++
T Consensus 80 l~e~~~~Gvk~avIi-s~Gf~e~-~~~~l~~~a~~~giril 118 (286)
T TIGR01019 80 IFEAIDAGIELIVCI-TEGIPVH-DMLKVKRYMEESGTRLI 118 (286)
T ss_pred HHHHHHCCCCEEEEE-CCCCCHH-HHHHHHHHHHHcCCEEE
Confidence 456889999999887 4676433 34789999999999875
No 130
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=48.52 E-value=28 Score=30.00 Aligned_cols=42 Identities=14% Similarity=0.148 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..+|..|++.+.+.||+.| |-.-| +.+..|.|++.+.||++|
T Consensus 6 ~~~~~~l~~~L~~~GV~~v-FGvpG-----~~~~~l~dal~~~~i~~i 47 (588)
T PRK07525 6 MTPSEAFVETLQAHGITHA-FGIIG-----SAFMDASDLFPPAGIRFI 47 (588)
T ss_pred ccHHHHHHHHHHHcCCCEE-EEeCC-----CchHHHHHHHhccCCCEE
Confidence 4678999999999999998 44323 447778888877788764
No 131
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=47.65 E-value=38 Score=26.14 Aligned_cols=40 Identities=28% Similarity=0.338 Sum_probs=29.3
Q ss_pred HHHHhhCCCCEEEEecCCCcc-hhhHHHHHHHHHHHcCcccC
Q 033657 74 GERLLLKDIPAVTVFLKREQR-YHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~-yhGrV~a~~~~lre~Gl~~~ 114 (114)
.+||.+.||...+++ +..|. ..--=.++++.+++.+.+++
T Consensus 43 lerA~~~gIpt~~~~-~k~~~~r~~~d~~l~~~l~~~~~dlv 83 (200)
T COG0299 43 LERAAKAGIPTVVLD-RKEFPSREAFDRALVEALDEYGPDLV 83 (200)
T ss_pred HHHHHHcCCCEEEec-cccCCCHHHHHHHHHHHHHhcCCCEE
Confidence 579999999999888 45553 12234688888888887763
No 132
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, 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 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
Probab=47.52 E-value=64 Score=23.50 Aligned_cols=45 Identities=16% Similarity=0.144 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.+.. +. ....-|...|.+++++.|+.
T Consensus 96 ~~~~~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~R~~gf~~~~~~~~~~ 143 (261)
T cd06272 96 EKAMELAVLYLAEKGHKKIAYIG-DLSLDRRQRKRFKGFLETCDENGIS 143 (261)
T ss_pred HHHHHHHHHHHHHcCchhEEEee-cccccccHHHHHHHHHHHHHHcCCC
Confidence 44566677777778988887652 22 23355889999999999863
No 133
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=47.44 E-value=31 Score=29.45 Aligned_cols=41 Identities=15% Similarity=0.214 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
..+..|++++++.||+.+ |-.. ++.+..|.+++.+ .||+++
T Consensus 5 ~~a~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~~al~~~~~i~~v 46 (574)
T PRK06882 5 SGAEMVVQSLRDEGVEYV-FGYP-----GGSVLDIYDAIHTLGGIEHV 46 (574)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCC-----CcchHHHHHHHhhcCCCeEE
Confidence 458899999999999998 4433 3557788888877 488764
No 134
>PLN02470 acetolactate synthase
Probab=47.35 E-value=25 Score=30.25 Aligned_cols=42 Identities=19% Similarity=0.195 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA-GVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~-Gl~~~ 114 (114)
...+..|++++++.||+.| |-.- ++.+..|.|++.+. ||+++
T Consensus 13 ~~~a~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~dal~~~~~i~~i 55 (585)
T PLN02470 13 RKGADILVEALEREGVDTV-FAYP-----GGASMEIHQALTRSNCIRNV 55 (585)
T ss_pred ccHHHHHHHHHHHcCCCEE-EEcC-----CcccHHHHHHHhccCCceEE
Confidence 4568999999999999998 4432 34477888888654 78764
No 135
>PF00289 CPSase_L_chain: Carbamoyl-phosphate synthase L chain, N-terminal domain; InterPro: IPR005481 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the large subunit of carbamoyl phosphate synthase. This domain can also be found in certain other related proteins. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VA7_A 3OUU_A 3OUZ_B 1W96_B 1W93_A 1ULZ_A 3HB9_C 3HO8_A 3BG5_C 3HBL_A ....
Probab=46.98 E-value=48 Score=22.62 Aligned_cols=48 Identities=6% Similarity=0.038 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 63 VAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 63 ~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
-..+|.--+.+.+-|++.|+.-+ . +||-+-.-=..|++.+.++||.||
T Consensus 56 ~~~~yl~~e~I~~ia~~~g~~~i--~--pGyg~lse~~~fa~~~~~~gi~fi 103 (110)
T PF00289_consen 56 SPESYLNIEAIIDIARKEGADAI--H--PGYGFLSENAEFAEACEDAGIIFI 103 (110)
T ss_dssp GGGTTTSHHHHHHHHHHTTESEE--E--STSSTTTTHHHHHHHHHHTT-EES
T ss_pred hhhhhccHHHHhhHhhhhcCccc--c--cccchhHHHHHHHHHHHHCCCEEE
Confidence 34556666777788888898886 3 466666667889999999999986
No 136
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=46.97 E-value=86 Score=22.93 Aligned_cols=45 Identities=13% Similarity=0.112 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|-.++.|- .+.. .-..|...|.+++.+.|+.
T Consensus 107 ~~~~~~~~~~l~~~g~~~i~~i-~~~~~~~~~~~R~~gf~~~~~~~~~~ 154 (273)
T cd06292 107 ALAMRLAVRHLVALGHRRIGFA-SGPGRTVPRRRKIAGFRAALEEAGLE 154 (273)
T ss_pred HHHHHHHHHHHHHCCCceEEEE-eCCcccccHHHHHHHHHHHHHHcCCC
Confidence 4455566666667798888765 2321 1246899999999999874
No 137
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR 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,
Probab=46.89 E-value=83 Score=22.76 Aligned_cols=45 Identities=18% Similarity=0.361 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|..++.+-- +. ..-..|...|.+++++.|+.
T Consensus 101 ~~~~~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~r~~gf~~~l~~~~~~ 148 (268)
T cd01575 101 AEAGRAMARHLLARGYRRIGFLG-ARMDDTRAQQRLEGFRAALRAAGLD 148 (268)
T ss_pred HHHHHHHHHHHHHCCCCcEEEec-CCCCcccHHHHHHHHHHHHHHcCCC
Confidence 56677777777788888776532 22 23356889999999999874
No 138
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=46.71 E-value=72 Score=24.17 Aligned_cols=46 Identities=9% Similarity=0.155 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
...+..+++.+.+.|.+++.+-. ....+ ..+...|.+++++.|+++
T Consensus 118 ~~~~~~~~~~l~~~g~~~vail~-~~~~~~~~~~~~~~~~~~~~G~~v 164 (312)
T cd06333 118 RLMAEAILADMKKRGVKTVAFIG-FSDAYGESGLKELKALAPKYGIEV 164 (312)
T ss_pred HHHHHHHHHHHHHcCCCEEEEEe-cCcHHHHHHHHHHHHHHHHcCCEE
Confidence 34455566667778999987753 33333 457889999999999875
No 139
>PRK07979 acetolactate synthase 3 catalytic subunit; Validated
Probab=46.67 E-value=33 Score=29.38 Aligned_cols=41 Identities=17% Similarity=0.265 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
..++.|++++++.||+.| |-..| +-+..|.|++.+ .||+++
T Consensus 5 ~~a~~l~~~L~~~Gv~~v-FgvpG-----~~~~~l~d~l~~~~~i~~i 46 (574)
T PRK07979 5 SGAEMVVRSLIDQGVKQV-FGYPG-----GAVLDIYDALHTVGGIDHV 46 (574)
T ss_pred cHHHHHHHHHHHcCCCEE-EEccC-----cchHHHHHHHHhcCCceEE
Confidence 468999999999999998 54433 347778888876 588764
No 140
>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=46.59 E-value=68 Score=19.71 Aligned_cols=46 Identities=22% Similarity=0.214 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcch----hhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRY----HGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~y----hGrV~a~~~~lre~Gl~~~ 114 (114)
.+|--+|.-+.+.|.+-..++ ++.... ..--+.+.+.+++.|++|+
T Consensus 9 ~ig~E~A~~l~~~g~~vtli~-~~~~~~~~~~~~~~~~~~~~l~~~gV~v~ 58 (80)
T PF00070_consen 9 FIGIELAEALAELGKEVTLIE-RSDRLLPGFDPDAAKILEEYLRKRGVEVH 58 (80)
T ss_dssp HHHHHHHHHHHHTTSEEEEEE-SSSSSSTTSSHHHHHHHHHHHHHTTEEEE
T ss_pred HHHHHHHHHHHHhCcEEEEEe-ccchhhhhcCHHHHHHHHHHHHHCCCEEE
Confidence 356667777788887655556 554433 2235667789999999873
No 141
>cd07037 TPP_PYR_MenD Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-carboxylate synthase (MenD) and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-carboxylate (SEPHCHC) synthase (MenD) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dim
Probab=46.11 E-value=29 Score=25.19 Aligned_cols=37 Identities=19% Similarity=0.124 Sum_probs=27.4
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
.|++.+++.||+.+ |-.. ++.+..|.|++.+ .|++++
T Consensus 2 ~l~~~L~~~Gv~~v-Fg~p-----G~~~~~l~~al~~~~~i~~v 39 (162)
T cd07037 2 ALVEELKRLGVRDV-VISP-----GSRSAPLALAAAEHPEFRLH 39 (162)
T ss_pred hHHHHHHHCCCCEE-EECC-----CcchHHHHHHHHhCCCceEE
Confidence 57899999999998 5432 3347788888854 588764
No 142
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=46.07 E-value=74 Score=24.20 Aligned_cols=47 Identities=15% Similarity=0.251 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
....+..+++.+++.|.+++.+-. ..+.| ..+.++|.+++.+.|+++
T Consensus 120 ~~~~~~~~~~~l~~~g~~~v~~l~-~~~~~~~~~~~~~~~~~~~~G~~~ 167 (336)
T cd06326 120 YADEIAAIVRHLVTLGLKRIAVFY-QDDAFGKDGLAGVEKALAARGLKP 167 (336)
T ss_pred hHHHHHHHHHHHHHhCCceEEEEE-ecCcchHHHHHHHHHHHHHcCCCe
Confidence 444567778888888998876542 23323 568999999999999864
No 143
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=46.00 E-value=86 Score=24.24 Aligned_cols=43 Identities=12% Similarity=0.153 Sum_probs=29.8
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
|+.+++.+.+.|-.++.|- .+.. ....|.+.|.+++.+.|+.+
T Consensus 164 ~~~a~~~L~~~G~~~I~~i-~~~~~~~~~~~R~~Gf~~al~~~gi~~ 209 (346)
T PRK10401 164 ARMATRMLLNNGHQRIGYL-SSSHGIEDDAMRRAGWMSALKEQGIIP 209 (346)
T ss_pred HHHHHHHHHHCCCCeEEEE-eCCCcCcchHHHHHHHHHHHHHcCCCC
Confidence 4455555566798888665 2322 23569999999999999853
No 144
>PRK08611 pyruvate oxidase; Provisional
Probab=45.36 E-value=34 Score=29.40 Aligned_cols=41 Identities=29% Similarity=0.348 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH--cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE--AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre--~Gl~~~ 114 (114)
..|+.|++.+.+.||+.+ |-.- ++.+..|+|++++ .||+++
T Consensus 5 ~~~~~l~~~L~~~GV~~v-Fgip-----G~~~~~l~dal~~~~~~i~~i 47 (576)
T PRK08611 5 KAGEALVKLLQDWGIDHV-YGIP-----GDSIDAVVDALRKEQDKIKFI 47 (576)
T ss_pred cHHHHHHHHHHHcCCCEE-EecC-----CcchHHHHHHHHhcCCCCeEE
Confidence 468999999999999998 4432 3457788999865 578764
No 145
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=45.35 E-value=53 Score=25.11 Aligned_cols=40 Identities=10% Similarity=0.020 Sum_probs=29.6
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+++.+.++|++.+.+-+ -.+........+.+.+++.|++.
T Consensus 93 ~i~~~~~~Gadgvii~d-lp~e~~~~~~~~~~~~~~~Gl~~ 132 (244)
T PRK13125 93 FLNMARDVGADGVLFPD-LLIDYPDDLEKYVEIIKNKGLKP 132 (244)
T ss_pred HHHHHHHcCCCEEEECC-CCCCcHHHHHHHHHHHHHcCCCE
Confidence 47888899999987753 22332456788999999999875
No 146
>PRK11269 glyoxylate carboligase; Provisional
Probab=45.20 E-value=30 Score=29.82 Aligned_cols=41 Identities=7% Similarity=0.120 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA-GVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~-Gl~~~ 114 (114)
.++..|++++++.||+.| |=.- ++.+..|+|++.+. ||+++
T Consensus 5 ~~~~~l~~~L~~~Gv~~v-Fg~p-----G~~~~~l~dal~~~~~i~~v 46 (591)
T PRK11269 5 RAVDAAVLVLEKEGVTTA-FGVP-----GAAINPFYSAMRKHGGIRHI 46 (591)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCC-----CcccHHHHHHHhhcCCCcEE
Confidence 568999999999999998 4432 34577788888654 78764
No 147
>PRK12474 hypothetical protein; Provisional
Probab=44.88 E-value=39 Score=28.52 Aligned_cols=41 Identities=7% Similarity=0.009 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
.+|..|++++.+.||+.+ |-..| +-+-.|.|++.+ .||+++
T Consensus 6 ~~~~~l~~~L~~~GV~~v-FGvpG-----~~~~~l~dal~~~~~i~~i 47 (518)
T PRK12474 6 NGADSVVDTLLNCGVEVC-FANPG-----TSEMHFVAALDRVPRMRPV 47 (518)
T ss_pred cHHHHHHHHHHHCCCCEE-EECCC-----cchHHHHHHhhccCCceEE
Confidence 468999999999999998 54433 336778888854 478764
No 148
>PLN02573 pyruvate decarboxylase
Probab=44.52 E-value=38 Score=29.23 Aligned_cols=42 Identities=21% Similarity=0.363 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
-.++..|++++.+.||+.| |=.-| +-+..|.|++.+ .||+++
T Consensus 16 ~~~a~~l~~~L~~~Gv~~v-FGvpG-----~~~~~l~dal~~~~~i~~i 58 (578)
T PLN02573 16 ATLGRHLARRLVEIGVTDV-FSVPG-----DFNLTLLDHLIAEPGLNLI 58 (578)
T ss_pred ccHHHHHHHHHHHcCCCEE-EECCC-----CchHHHHHHHhhcCCceEE
Confidence 4678999999999999998 55433 346678888854 578764
No 149
>TIGR01504 glyox_carbo_lig glyoxylate carboligase. Glyoxylate carboligase, also called tartronate-semialdehyde synthase, releases CO2 while synthesizing a single molecule of tartronate semialdehyde from two molecules of glyoxylate. It is a thiamine pyrophosphate-dependent enzyme, closely related in sequence to the large subunit of acetolactate synthase. In the D-glycerate pathway, part of allantoin degradation in the Enterobacteriaceae, tartronate semialdehyde is converted to D-glycerate and then 3-phosphoglycerate, a product of glycolysis and entry point in the general metabolism.
Probab=44.36 E-value=41 Score=29.08 Aligned_cols=41 Identities=10% Similarity=0.126 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
..+..|++++++.||+.| |-.-| +-+..|.|++.+ .||+++
T Consensus 4 ~~a~~l~~~L~~~GV~~v-FGvpG-----~~~~~l~dal~~~~~i~~V 45 (588)
T TIGR01504 4 RAVDAAVYVLEKEGITTA-FGVPG-----AAINPFYSALKAHGGIRHI 45 (588)
T ss_pred cHHHHHHHHHHHcCCCEE-EECCC-----CCcHHHHHHHhhcCCCcEE
Confidence 468999999999999998 55433 346678888855 478764
No 150
>PRK07282 acetolactate synthase catalytic subunit; Reviewed
Probab=44.33 E-value=42 Score=28.75 Aligned_cols=41 Identities=15% Similarity=0.207 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
..+..|++++++.||+.| |-.-| +-+..|+|++.+ .||+++
T Consensus 11 ~~~~~i~~~L~~~Gv~~v-FgipG-----~~~~~l~dal~~~~~i~~i 52 (566)
T PRK07282 11 SGSDLVLETLRDLGVDTI-FGYPG-----GAVLPLYDAIYNFEGIRHI 52 (566)
T ss_pred cHHHHHHHHHHHcCCCEE-EecCC-----cchHHHHHHHhhcCCceEE
Confidence 468999999999999998 55433 346678888854 578764
No 151
>TIGR00118 acolac_lg acetolactate synthase, large subunit, biosynthetic type. Several isozymes of this enzyme are found in E. coli K12, one of which contains a frameshift in the large subunit gene and is not expressed.
Probab=44.23 E-value=33 Score=29.20 Aligned_cols=40 Identities=18% Similarity=0.257 Sum_probs=31.0
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHH-HcCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLR-EAGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lr-e~Gl~~~ 114 (114)
.+..|++++++.||+.| |-..| +.+..|.+++. +.||+++
T Consensus 3 ~~~~l~~~L~~~Gv~~v-FgvpG-----~~~~~l~~~l~~~~~i~~i 43 (558)
T TIGR00118 3 GAEAIIESLKDEGVKTV-FGYPG-----GAILPIYDALYNDSGIEHI 43 (558)
T ss_pred HHHHHHHHHHHcCCCEE-EeCCC-----cchHHHHHHhhccCCceEE
Confidence 57899999999999998 44333 45778899886 5788764
No 152
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=44.13 E-value=82 Score=24.01 Aligned_cols=43 Identities=9% Similarity=0.040 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCC-c--c-hhhHHHHHHHHHHHcCcc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKRE-Q--R-YHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~-~--~-yhGrV~a~~~~lre~Gl~ 112 (114)
-|+.+++.+.+.|..++.|- .+. . . ...|.++|.+++++.|+.
T Consensus 159 ~~~~a~~~L~~~Ghr~I~~i-~~~~~~~~~~~~R~~gf~~a~~~~gi~ 205 (311)
T TIGR02405 159 AIELLMANLYQQGHRHISFL-GVDPSDKTTGLMRHNAYLAYCESANLE 205 (311)
T ss_pred HHHHHHHHHHHcCCCcEEEE-ccCcccchhHHHHHHHHHHHHHHcCCC
Confidence 34556677777899998765 222 1 1 246899999999999985
No 153
>TIGR02571 ComEB ComE operon protein 2. This protein is found in the ComE operon for "late competence" as characterized in B. subtilis. Proteins in this family contain homology to a cytidine/deoxycytidine deaminase domain family (pfam00383), and may carry out this activity.
Probab=44.11 E-value=43 Score=24.26 Aligned_cols=35 Identities=20% Similarity=0.302 Sum_probs=23.9
Q ss_pred HHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 74 GERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.....+||++|+|-. .+.... +-.+-++++||++
T Consensus 101 a~ai~~agI~~Vvy~~--~~~~~~---~~~~~l~~~gi~v 135 (151)
T TIGR02571 101 TKSIIQAGIKKIYYAQ--DYHNHP---YAIELFEQAGVEL 135 (151)
T ss_pred HHHHHHhCCCEEEEcc--CCCCcH---HHHHHHHHCCCEE
Confidence 4555678999998742 333322 3578999999975
No 154
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=44.09 E-value=39 Score=29.35 Aligned_cols=40 Identities=20% Similarity=0.312 Sum_probs=33.5
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.+++|++.+++.|++.| |-.. +|.+-.|.|++++.||++|
T Consensus 4 ga~~lv~~L~~~GV~~V-FGiP-----G~~i~~~~dal~~~~i~~I 43 (550)
T COG0028 4 GAEALVEALEANGVDTV-FGIP-----GGSILPLYDALYDSGIRHI 43 (550)
T ss_pred HHHHHHHHHHHcCCcEE-EeCC-----CccHHHHHHHHHhCCCcEE
Confidence 46899999999999998 5432 5679999999999999875
No 155
>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=44.07 E-value=1e+02 Score=21.13 Aligned_cols=51 Identities=24% Similarity=0.223 Sum_probs=37.5
Q ss_pred CCHHHHHHHHHHHHHHHhhC-CCCEEEEecCCCcchhh--HHHHHHHHHHHcCccc
Q 033657 61 RDVAAASKIGKILGERLLLK-DIPAVTVFLKREQRYHG--KVKAVIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~-gI~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~ 113 (114)
-|.+.+..+|..++.-..+. +-..|++=. ..+.++ -.++++++++..|+++
T Consensus 18 lt~~~~~~~~~a~~~~~~~~~~~~~VvVg~--D~R~~s~~~~~~~~~~l~~~G~~V 71 (137)
T PF02878_consen 18 LTPEFAARLAQAFASYLKEKGNGSRVVVGR--DTRPSSPMLAKALAAGLRANGVDV 71 (137)
T ss_dssp BSHHHHHHHHHHHHHHHHHTTTSSEEEEEE---SSTTHHHHHHHHHHHHHHTTEEE
T ss_pred CCHHHHHHHHHHHHHhhcccCCCCeEEEEE--cccCCHHHHHHHHHHHHhhccccc
Confidence 48899999999999999885 445554431 223344 4688999999999875
No 156
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=44.06 E-value=34 Score=24.98 Aligned_cols=47 Identities=15% Similarity=0.254 Sum_probs=33.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEecC---C------Ccchhh------HHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLK---R------EQRYHG------KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r---~------~~~yhG------rV~a~~~~lre~Gl~~~ 114 (114)
.+++.|.+++.+.|+.-..+|-. . ++...+ |+..++.-+.++|+.+|
T Consensus 17 TlA~~L~~~L~~~g~~~~~LDgD~lR~~l~~dl~fs~~dR~e~~rr~~~~A~ll~~~G~ivI 78 (156)
T PF01583_consen 17 TLARALERRLFARGIKVYLLDGDNLRHGLNADLGFSKEDREENIRRIAEVAKLLADQGIIVI 78 (156)
T ss_dssp HHHHHHHHHHHHTTS-EEEEEHHHHCTTTTTT--SSHHHHHHHHHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHcCCcEEEecCcchhhccCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEE
Confidence 67888999999999999888731 1 222233 57788888889998654
No 157
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR 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 which i
Probab=43.98 E-value=82 Score=23.10 Aligned_cols=44 Identities=20% Similarity=0.212 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCC-CcchhhHHHHHHHHHHHcCcc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKR-EQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~-~~~yhGrV~a~~~~lre~Gl~ 112 (114)
.|+.+++.+.+.|..++.+-... ....+-|...|.+++.+.|+.
T Consensus 108 ~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~l~~~~~~ 152 (273)
T cd01541 108 GGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKAYREHGIP 152 (273)
T ss_pred HHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHHHHHcCCC
Confidence 45555555566787777543211 122356899999999999874
No 158
>PF14488 DUF4434: Domain of unknown function (DUF4434)
Probab=43.74 E-value=61 Score=23.68 Aligned_cols=40 Identities=13% Similarity=0.132 Sum_probs=28.6
Q ss_pred HHHHhhCCCCEEEEecCCCc----ch--hh-----------HHHHHHHHHHHcCcccC
Q 033657 74 GERLLLKDIPAVTVFLKREQ----RY--HG-----------KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~----~y--hG-----------rV~a~~~~lre~Gl~~~ 114 (114)
-+..++.||+.|++- +.++ -| .+ -|..+++++.+.||+|.
T Consensus 26 ~~~m~~~GidtlIlq-~~~~~~~~~yps~~~~~~~~~~~~d~l~~~L~~A~~~Gmkv~ 82 (166)
T PF14488_consen 26 FRAMKAIGIDTLILQ-WTGYGGFAFYPSKLSPGGFYMPPVDLLEMILDAADKYGMKVF 82 (166)
T ss_pred HHHHHHcCCcEEEEE-EeecCCcccCCccccCccccCCcccHHHHHHHHHHHcCCEEE
Confidence 455677999999774 2222 12 22 68999999999999873
No 159
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=43.69 E-value=72 Score=23.45 Aligned_cols=49 Identities=10% Similarity=0.243 Sum_probs=29.4
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCC---CcchhhHHHHHHHHHHHc-Cccc
Q 033657 62 DVAAASKIGKILGERLLLKDIPAVTVFLKR---EQRYHGKVKAVIDSLREA-GVKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~---~~~yhGrV~a~~~~lre~-Gl~~ 113 (114)
+..+++.+++.|.++. .|-.++.+- .+ ...-..|.++|.+++++. |+++
T Consensus 104 ~~~~g~~~~~~l~~~~--~g~~~i~~l-~~~~~~~~~~~r~~g~~~~~~~~~~~~~ 156 (275)
T cd06320 104 NKANGVRGAEWIIDKL--AEGGKVAII-EGKAGAFAAEQRTEGFTEAIKKASGIEV 156 (275)
T ss_pred cHHHHHHHHHHHHHHh--CCCceEEEE-eCCCCCccHHHHHHHHHHHHhhCCCcEE
Confidence 4444555555555443 166666553 22 122356889999999998 8864
No 160
>TIGR00173 menD 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase. 2-oxoglutarate decarboxylase/SHCHC synthase (menD) is a thiamine pyrophosphate enzyme involved in menaquinone biosynthesis.
Probab=43.68 E-value=31 Score=28.49 Aligned_cols=40 Identities=15% Similarity=0.164 Sum_probs=30.1
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
.+..|++++.+.||+.| |-.. ++.+..|.|++.+ .||+++
T Consensus 2 ~~~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~dal~~~~~i~~v 42 (432)
T TIGR00173 2 WASVLVEELVRLGVRHV-VISP-----GSRSTPLALAAAEHPRLRVH 42 (432)
T ss_pred hHHHHHHHHHHcCCCEE-EECC-----CcccHHHHHHHHhCCCcEEE
Confidence 36789999999999998 4432 4457889999844 578764
No 161
>PRK09526 lacI lac repressor; Reviewed
Probab=43.52 E-value=1e+02 Score=23.59 Aligned_cols=44 Identities=7% Similarity=0.040 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~ 112 (114)
.-|+.+++.+.+.|-.++.|- .+. .....|...|.+++.+.|+.
T Consensus 167 ~~~~~a~~~L~~~G~~~I~~l-~g~~~~~~~~~R~~Gf~~al~~~gi~ 213 (342)
T PRK09526 167 DGTRLGVEHLVELGHQRIALL-AGPESSVSARLRLAGWLEYLTDYQLQ 213 (342)
T ss_pred HHHHHHHHHHHHCCCCeEEEE-eCCCccccHHHHHHHHHHHHHHcCCC
Confidence 345556666677798888765 232 12356899999999999985
No 162
>TIGR03254 oxalate_oxc oxalyl-CoA decarboxylase. In a number of bacteria, including Oxalobacter formigenes from the human gut, a two-gene operon of oxc (oxalyl-CoA decarboxylase) and frc (formyl-CoA transferase) encodes a system for degrading and therefore detoxifying oxalate. Members of this family are the thiamine pyrophosphate (TPP)-containing enzyme oxalyl-CoA decarboxylase.
Probab=43.51 E-value=40 Score=28.68 Aligned_cols=41 Identities=12% Similarity=0.086 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..|++|++++.+.||+.| |-..| +-+..+.+++.+.||+++
T Consensus 4 ~~~~~l~~~L~~~GV~~v-FGvpG-----~~~~~l~~~~~~~~i~~i 44 (554)
T TIGR03254 4 DGFHLVIDALKLNGINTI-YGVVG-----IPVTDLARLAQAKGMRYI 44 (554)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCCC-----cchhHHHHHHhhcCCcEE
Confidence 468999999999999998 55433 336677888888888764
No 163
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=43.47 E-value=57 Score=26.11 Aligned_cols=39 Identities=10% Similarity=0.023 Sum_probs=29.4
Q ss_pred HHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 74 GERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.+.|.++|+..+++. .+|+... .-..+.+.+|+.|+.++
T Consensus 82 l~e~~~~gvk~avI~-s~Gf~~~-~~~~l~~~a~~~girvl 120 (291)
T PRK05678 82 ILEAIDAGIDLIVCI-TEGIPVL-DMLEVKAYLERKKTRLI 120 (291)
T ss_pred HHHHHHCCCCEEEEE-CCCCCHH-HHHHHHHHHHHcCCEEE
Confidence 566889999998887 4676532 12478899999999774
No 164
>PRK07092 benzoylformate decarboxylase; Reviewed
Probab=43.09 E-value=33 Score=29.01 Aligned_cols=42 Identities=7% Similarity=0.004 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
...++..|++++.+.||+.+ |-.. ++.+..|+|++.+ ||+|+
T Consensus 11 ~~~~a~~l~~~L~~~GV~~v-FgiP-----G~~~~~l~dal~~-~i~~i 52 (530)
T PRK07092 11 MTTVRDATIDLLRRFGITTV-FGNP-----GSTELPFLRDFPD-DFRYV 52 (530)
T ss_pred cCcHHHHHHHHHHHcCCCEE-EeCC-----CCcchHHHHHHhh-cCCEE
Confidence 34679999999999999998 4433 3346778888864 67764
No 165
>PRK14324 glmM phosphoglucosamine mutase; Provisional
Probab=42.13 E-value=1.3e+02 Score=24.99 Aligned_cols=60 Identities=18% Similarity=0.232 Sum_probs=39.7
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhCCC-CEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLKDI-PAVTVFLKREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI-~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
+++..+..-|.+-+..+|..+|+-..+.+. ..|++=. ..+..+ --.+++.+|..+|++++
T Consensus 9 iRG~~~~~lt~~~~~~lg~a~g~~l~~~~~~~~V~Vg~--D~R~ss~~l~~a~~~gL~s~G~~V~ 71 (446)
T PRK14324 9 VRGKAGEKLTAFLAMRLAMAAGIYFKKHSITNKILVGK--DTRRSGYMIENALVSGLTSVGYNVI 71 (446)
T ss_pred cceecCCCcCHHHHHHHHHHHHHHHHhCCCCCeEEEEe--CCCcCHHHHHHHHHHHHHHCCCeEE
Confidence 344444445789999999999998876554 2354431 223344 35678899999999763
No 166
>PRK10887 glmM phosphoglucosamine mutase; Provisional
Probab=41.73 E-value=1.3e+02 Score=24.89 Aligned_cols=52 Identities=29% Similarity=0.304 Sum_probs=37.0
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
-+-+-+..+|..+|.-+.+.+-..|++= | ..+..|+ -.+++.+|..+|++++
T Consensus 18 ltpe~~~~lg~a~a~~l~~~~~~~VvVg-~-D~R~ss~~l~~a~~~gL~s~Gv~V~ 71 (443)
T PRK10887 18 ITPDFVLKLGWAAGKVLARQGRPKVLIG-K-DTRISGYMLESALEAGLAAAGVDVL 71 (443)
T ss_pred CCHHHHHHHHHHHHHHHHhCCCCcEEEE-e-CCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 4778899999999998876554555553 1 2233443 4688999999999863
No 167
>PF02006 DUF137: Protein of unknown function DUF137; InterPro: IPR002855 The archaeal proteins in this family have no known function.
Probab=41.60 E-value=62 Score=24.55 Aligned_cols=45 Identities=22% Similarity=0.307 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHhhCCCC-EEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033657 64 AAASKIGKILGERLLLKDIP-AVTVFLKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 64 ~Aa~~vG~~la~R~~e~gI~-~v~~d~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
..|.++-+-+++-++..|.. +|-+|. +...|+++.++-|+++|-.
T Consensus 14 N~AAL~p~eiveLa~~~~A~iEVNLFy----RT~eR~~~I~~~L~~~Ga~ 59 (178)
T PF02006_consen 14 NTAALVPEEIVELAKATGAKIEVNLFY----RTEERVEKIAELLREHGAE 59 (178)
T ss_pred cHHHhChHHHHHHHHHhCCCEEEEccc----CCHHHHHHHHHHHHHcCCC
Confidence 46788888999999998876 666663 4578999999999999964
No 168
>PRK13397 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=41.58 E-value=59 Score=25.71 Aligned_cols=49 Identities=6% Similarity=0.048 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHhhCCCCEE---EEecCC-Ccchhh----HHHHHHHHHHHcCcccC
Q 033657 66 ASKIGKILGERLLLKDIPAV---TVFLKR-EQRYHG----KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v---~~d~r~-~~~yhG----rV~a~~~~lre~Gl~~~ 114 (114)
.+..-..+|+.+++.|+.-+ .||+|. .|.|.| -++.+.+..++.||.|+
T Consensus 27 s~e~~~~~a~~~~~~g~~~~r~g~~kpRts~~sf~G~G~~gl~~L~~~~~~~Gl~~~ 83 (250)
T PRK13397 27 SYDHIRLAASSAKKLGYNYFRGGAYKPRTSAASFQGLGLQGIRYLHEVCQEFGLLSV 83 (250)
T ss_pred CHHHHHHHHHHHHHcCCCEEEecccCCCCCCcccCCCCHHHHHHHHHHHHHcCCCEE
Confidence 34445566777999998743 566653 455655 48889999999999874
No 169
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=41.51 E-value=32 Score=20.90 Aligned_cols=41 Identities=17% Similarity=0.288 Sum_probs=27.0
Q ss_pred HHHHHHHHhhCC--CCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 70 GKILGERLLLKD--IPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~R~~e~g--I~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
|.-+.+.|++.| |.++.+.. + ..+.++..+.+.+.+.|+.+
T Consensus 4 G~~~V~eaL~~~~~i~~l~~~~-~--~~~~~~~~i~~~~~~~~i~v 46 (76)
T PF08032_consen 4 GRHAVEEALKSGPRIKKLFVTE-E--KADKRIKEILKLAKKKGIPV 46 (76)
T ss_dssp SHHHHHHHHHCTGGEEEEEEET-T-----CCTHHHHHHHHHCT-EE
T ss_pred EHHHHHHHHcCCCCccEEEEEc-C--ccchhHHHHHHHHHHcCCeE
Confidence 556677788877 77886663 3 44556788888888888765
No 170
>PF03719 Ribosomal_S5_C: Ribosomal protein S5, C-terminal domain; InterPro: IPR005324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of proteins related to the 30S ribosomal protein S5P from Sulfolobus acidocaldarius (O05641 from SWISSPROT). Ribosomal protein S5 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S5 is known to be important in the assembly and function of the 30S ribosomal subunit. Mutations in S5 have been shown to increase translational error frequencies.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XZN_E 2XZM_E 2WDK_E 3KNJ_E 3HUY_E 2B9M_E 2Y18_E 1XMQ_E 1IBM_E 3TVF_H ....
Probab=41.48 E-value=40 Score=21.60 Aligned_cols=37 Identities=22% Similarity=0.165 Sum_probs=28.1
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE 108 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre 108 (114)
.+-.-|.-+||+.+..-..|....+--++|+.++|..
T Consensus 26 ~vr~il~laGI~Dv~~K~~Gs~n~~n~v~A~~~aL~~ 62 (74)
T PF03719_consen 26 AVRAILELAGIKDVYAKSRGSRNPINVVKATFKALKN 62 (74)
T ss_dssp HHHHHHHHTTESSEEEEEESBSSHHHHHHHHHHHHHT
T ss_pred hHHHHHHhcccccEEeeccCCCChhhHHHHHHHHHHh
Confidence 3344455689999977766766678899999999975
No 171
>PF01301 Glyco_hydro_35: Glycosyl hydrolases family 35; InterPro: IPR001944 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 35 GH35 from CAZY comprises enzymes with only one known activity; beta-galactosidase (3.2.1.23 from EC). Mammalian beta-galactosidase is a lysosomal enzyme (gene GLB1) which cleaves the terminal galactose from gangliosides, glycoproteins, and glycosaminoglycans and whose deficiency is the cause of the genetic disease Gm(1) gangliosidosis (Morquio disease type B).; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3OGS_A 3OGV_A 3OGR_A 3OG2_A 1TG7_A 1XC6_A 3THC_C 3THD_D 3D3A_A 4E8D_B ....
Probab=41.44 E-value=42 Score=27.00 Aligned_cols=43 Identities=12% Similarity=0.312 Sum_probs=27.8
Q ss_pred HHHHHHhhCCCCEEEEec--------CCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 72 ILGERLLLKDIPAVTVFL--------KREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~--------r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
..-+++++.|+..|.... +|-+-+.| -+..|++.++|.||.+|
T Consensus 28 ~~l~k~ka~G~n~v~~yv~W~~he~~~g~~df~g~~dl~~f~~~a~~~gl~vi 80 (319)
T PF01301_consen 28 DRLQKMKAAGLNTVSTYVPWNLHEPEEGQFDFTGNRDLDRFLDLAQENGLYVI 80 (319)
T ss_dssp HHHHHHHHTT-SEEEEE--HHHHSSBTTB---SGGG-HHHHHHHHHHTT-EEE
T ss_pred HHHHHHHhCCcceEEEeccccccCCCCCcccccchhhHHHHHHHHHHcCcEEE
Confidence 345788999999886543 23444555 49999999999999764
No 172
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=41.16 E-value=41 Score=29.00 Aligned_cols=45 Identities=22% Similarity=0.172 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 64 AAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 64 ~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
.+-...+..|++++++.||+.| |-..| +-+..|.|++.+ .||+++
T Consensus 18 ~~~~~~a~~l~~~L~~~GV~~v-FgvpG-----~~~~~l~dal~~~~~i~~i 63 (587)
T PRK06965 18 AADSIGAEILMKALAAEGVEFI-WGYPG-----GAVLYIYDELYKQDKIQHV 63 (587)
T ss_pred chhccHHHHHHHHHHHcCCCEE-EecCC-----cchHHHHHHHhhcCCCeEE
Confidence 3445679999999999999998 54333 447788899876 478764
No 173
>PRK12744 short chain dehydrogenase; Provisional
Probab=41.14 E-value=97 Score=22.82 Aligned_cols=40 Identities=10% Similarity=0.298 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE 108 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre 108 (114)
-+|..+|+++.+.|.+-+.++. ...........+++.+..
T Consensus 19 gIG~~~a~~l~~~G~~vv~i~~-~~~~~~~~~~~~~~~l~~ 58 (257)
T PRK12744 19 NLGGLIARDLAAQGAKAVAIHY-NSAASKADAEETVAAVKA 58 (257)
T ss_pred hHHHHHHHHHHHCCCcEEEEec-CCccchHHHHHHHHHHHH
Confidence 4788888888888887565653 222223344445554443
No 174
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=41.12 E-value=61 Score=24.51 Aligned_cols=46 Identities=24% Similarity=0.299 Sum_probs=33.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCC------cchhhHHHHHHHHHHHcCccc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKRE------QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~------~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+-.+=.+.+++.||+.+++|-.+. ..-.-.+.+.++.++++|+.+
T Consensus 14 tv~~i~~~~L~~~Gikgvi~DlDNTLv~wd~~~~tpe~~~W~~e~k~~gi~v 65 (175)
T COG2179 14 TVFDITPDILKAHGIKGVILDLDNTLVPWDNPDATPELRAWLAELKEAGIKV 65 (175)
T ss_pred hHhhCCHHHHHHcCCcEEEEeccCceecccCCCCCHHHHHHHHHHHhcCCEE
Confidence 4445557788899999998876441 122457999999999999875
No 175
>PRK07738 flagellar protein FlaG; Provisional
Probab=41.06 E-value=47 Score=23.40 Aligned_cols=29 Identities=17% Similarity=0.090 Sum_probs=25.2
Q ss_pred CCCCcEEEEEEeCCceEEEEEeCCCCeEE
Q 033657 15 FLKPYVLRMHFTNKYVSAQVIHSPTATVA 43 (114)
Q Consensus 15 ~~~~~RL~V~~Snkhi~Aqvid~~~~~~l 43 (114)
..+..+..++.....++.+|+|..+|.+|
T Consensus 62 ~~~~L~F~vdeet~~~vVkVvD~~T~EVI 90 (117)
T PRK07738 62 SQTSLKFELHEKLNEYYVQVVDERTNEVI 90 (117)
T ss_pred cCCceEEEEecCCCcEEEEEEECCCCeee
Confidence 44566788999999999999999999999
No 176
>PF00106 adh_short: short chain dehydrogenase alcohol dehydrogenase superfamily signature glucose/ribitol dehydrogenase family signature; InterPro: IPR002198 The short-chain dehydrogenases/reductases family (SDR) [] is a very large family of enzymes, most of which are known to be NAD- or NADP-dependent oxidoreductases. As the first member of this family to be characterised was Drosophila alcohol dehydrogenase, this family used to be called [, , ] 'insect-type', or 'short-chain' alcohol dehydrogenases. Most member of this family are proteins of about 250 to 300 amino acid residues. Most dehydrogenases possess at least 2 domains [], the first binding the coenzyme, often NAD, and the second binding the substrate. This latter domain determines the substrate specificity and contains amino acids involved in catalysis. Little sequence similarity has been found in the coenzyme binding domain although there is a large degree of structural similarity, and it has therefore been suggested that the structure of dehydrogenases has arisen through gene fusion of a common ancestral coenzyme nucleotide sequence with various substrate specific domains [].; GO: 0016491 oxidoreductase activity, 0008152 metabolic process; PDB: 3QWI_D 3QWF_G 3IS3_A 3QWH_C 3ITD_A 3L77_A 1HDC_C 2HSD_C 3KVO_A 3KZV_A ....
Probab=41.02 E-value=1.1e+02 Score=20.74 Aligned_cols=44 Identities=20% Similarity=0.314 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGV 111 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl 111 (114)
+.-+|+-+|+++.+.|-..+++..|+ .-..+...+.+.+.+.|-
T Consensus 9 ~~giG~~~a~~l~~~g~~~v~~~~r~--~~~~~~~~l~~~l~~~~~ 52 (167)
T PF00106_consen 9 SSGIGRALARALARRGARVVILTSRS--EDSEGAQELIQELKAPGA 52 (167)
T ss_dssp TSHHHHHHHHHHHHTTTEEEEEEESS--CHHHHHHHHHHHHHHTTS
T ss_pred CCHHHHHHHHHHHhcCceEEEEeeec--cccccccccccccccccc
Confidence 34689999999999988787776554 224556667777766553
No 177
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=40.96 E-value=72 Score=24.95 Aligned_cols=44 Identities=11% Similarity=0.067 Sum_probs=31.1
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
.+..+++-+.+.|.+++.+-. ..+.| .+...+|.+++++.|+++
T Consensus 111 ~~~~~~~~~~~~g~k~vaii~-~~~~~g~~~~~~f~~~~~~~G~~v 155 (336)
T cd06339 111 EARRAAEYARSQGKRRPLVLA-PDGAYGQRVADAFRQAWQQLGGTV 155 (336)
T ss_pred HHHHHHHHHHhcCccceEEEe-cCChHHHHHHHHHHHHHHHcCCce
Confidence 355666667777888765542 23334 568899999999999875
No 178
>cd07035 TPP_PYR_POX_like Pyrimidine (PYR) binding domain of POX and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) and related protiens subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. For glyoxylate carboligase, which belongs to this subfamily, but lacks this conserved glutamate, the rate of the initial TPP activation step is reduced but the ensuing steps of the enzymic reaction proceed efficiently. The PYR and PP domains have a common fold, but do not share strong sequence conservatio
Probab=40.90 E-value=31 Score=23.86 Aligned_cols=36 Identities=22% Similarity=0.338 Sum_probs=25.4
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.|++.+++.||+.+..-+ | .-+..+.+++.+.|+++
T Consensus 2 ~i~~~L~~~Gv~~vfg~p-g-----~~~~~l~~~~~~~~~~~ 37 (155)
T cd07035 2 ALVEALKAEGVDHVFGVP-G-----GAILPLLDALARSGIRY 37 (155)
T ss_pred HHHHHHHHcCCCEEEECC-C-----CchHHHHHHhccCCCEE
Confidence 578999999999984432 3 33666777776777765
No 179
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=40.68 E-value=1.1e+02 Score=22.27 Aligned_cols=42 Identities=7% Similarity=-0.035 Sum_probs=29.4
Q ss_pred HHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033657 70 GKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~ 112 (114)
|..+++.+.+.|..++.|-. +. .....|...|.+++.+.|+.
T Consensus 104 ~~~~~~~l~~~g~~~I~~i~-~~~~~~~~~~R~~gf~~~~~~~~~~ 148 (265)
T cd06299 104 MTEAVSLLVALGHKKIGYIS-GPQDTSTGRERLEAFRQACASLGLE 148 (265)
T ss_pred HHHHHHHHHHcCCCcEEEEe-CCCCcccHHHHHHHHHHHHHHCCCC
Confidence 45556666777888876642 21 22356899999999999964
No 180
>PRK12457 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=40.64 E-value=85 Score=25.42 Aligned_cols=53 Identities=13% Similarity=0.110 Sum_probs=38.5
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCE---EEEe--cC-CCcchhh-----HHHHHHHHHHHcCcccC
Q 033657 62 DVAAASKIGKILGERLLLKDIPA---VTVF--LK-REQRYHG-----KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~---v~~d--~r-~~~~yhG-----rV~a~~~~lre~Gl~~~ 114 (114)
+.+-...+++.+.+.+.+.|+.- ..|| +| +.|.|.| -++-|.+.-++.||.++
T Consensus 28 s~e~~~~iA~~lk~i~~~~g~~~~fK~sf~KapRTSp~sFqG~G~eeGL~iL~~vk~~~Glpvv 91 (281)
T PRK12457 28 SLDFTLDVCGEYVEVTRKLGIPFVFKASFDKANRSSIHSYRGVGLDEGLRIFEEVKARFGVPVI 91 (281)
T ss_pred CHHHHHHHHHHHHHHHHHCCCcEEeeeccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCceE
Confidence 45667788888888888999954 4455 34 4566665 47888888888888753
No 181
>PRK09532 DNA polymerase III subunit alpha; Reviewed
Probab=40.47 E-value=55 Score=30.24 Aligned_cols=40 Identities=20% Similarity=0.349 Sum_probs=30.9
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
-+.++|++.|++.+.+.|++. .+|-+ .|.+++++.||+.|
T Consensus 23 elv~~A~~~G~~aiAiTDh~~--~~g~~-~f~~~~~~~gik~I 62 (874)
T PRK09532 23 ALVDRAIELGMPAIALTDHGV--MYGAI-ELLKVCRNKGIKPI 62 (874)
T ss_pred HHHHHHHHCCCCEEEEecCCC--hhhHH-HHHHHHHHcCCeEE
Confidence 457889999999999987443 34544 57899999999864
No 182
>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=40.39 E-value=46 Score=27.70 Aligned_cols=31 Identities=26% Similarity=0.324 Sum_probs=27.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhCCCCEEEEe
Q 033657 58 GCTRDVAAASKIGKILGERLLLKDIPAVTVF 88 (114)
Q Consensus 58 ~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d 88 (114)
+.+.+...++..|.-+|+++++.|++.|++.
T Consensus 317 G~gt~~~~~~~~g~eIa~~Lk~dgVDAVILT 347 (349)
T PF07355_consen 317 GNGTAVANAKRFGPEIAKELKEDGVDAVILT 347 (349)
T ss_pred CCCccHHHHHHHHHHHHHHHHHcCCCEEEEe
Confidence 3556788899999999999999999999764
No 183
>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=40.02 E-value=25 Score=24.73 Aligned_cols=39 Identities=15% Similarity=0.231 Sum_probs=27.3
Q ss_pred HHHhhCCCCEEEEecCCCcchh---hHHHHHHHHHHHcCccc
Q 033657 75 ERLLLKDIPAVTVFLKREQRYH---GKVKAVIDSLREAGVKL 113 (114)
Q Consensus 75 ~R~~e~gI~~v~~d~r~~~~yh---GrV~a~~~~lre~Gl~~ 113 (114)
+.+.+.|++.+.+......... .....+.+.+++.||++
T Consensus 2 ~~~~~~G~~~vE~~~~~~~~~~~~~~~~~~~~~~~~~~gl~i 43 (213)
T PF01261_consen 2 EAAAEAGFDGVELRFDDGQPWDEKDDEAEELRRLLEDYGLKI 43 (213)
T ss_dssp HHHHHTTHSEEEEEHHHHSHHTHHHHHHHHHHHHHHHTTCEE
T ss_pred hHHHHcCCCEEEEecCCCcccccchHHHHHHHHHHHHcCCeE
Confidence 4677889888877643222222 46889999999999874
No 184
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=39.86 E-value=84 Score=23.22 Aligned_cols=49 Identities=10% Similarity=0.166 Sum_probs=31.0
Q ss_pred CCCHHHHHHHHHHHHHHHhhCCCCEEEEec-C-CCc------chhhHHHHHHHHHHHcCccc
Q 033657 60 TRDVAAASKIGKILGERLLLKDIPAVTVFL-K-REQ------RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 60 ~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~-r-~~~------~yhGrV~a~~~~lre~Gl~~ 113 (114)
..|..+++..++.|.++ ..++.|-- . ... ..+.|.+.|.+++.+.|+++
T Consensus 96 ~d~~~~g~~a~~~L~~~-----~~~i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~ 152 (269)
T cd06297 96 LDNRLGGRLAGAYLADF-----PGRIGAITVEEEPDRAFRRTVFAERRAGFQQALKDAGRPF 152 (269)
T ss_pred ECcHHHHHHHHHHHHHh-----CCceEEEeCccccccccccccHHHHHHHHHHHHHHcCCCC
Confidence 34667777777777666 23433321 1 112 23578999999999999864
No 185
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=39.70 E-value=1.1e+02 Score=22.52 Aligned_cols=45 Identities=13% Similarity=0.131 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhh--CCCCEEEEecCCCc---chhhHHHHHHHHHHHc-Cccc
Q 033657 68 KIGKILGERLLL--KDIPAVTVFLKREQ---RYHGKVKAVIDSLREA-GVKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e--~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~-Gl~~ 113 (114)
..|+.+++.+.+ .|-.++.+- .+.. ....|.+.|.+++++. |+++
T Consensus 106 ~~g~~~~~~l~~~~~g~~~i~~l-~~~~~~~~~~~R~~g~~~~l~~~~~~~~ 156 (270)
T cd06308 106 EIGRQAGEYIANLLPGKGNILEI-WGLEGSSPAIERHDGFKEALSKYPKIKI 156 (270)
T ss_pred HHHHHHHHHHHHHcCCCceEEEE-ECCCCCchHHHHHHHHHHHHHHCCCCEE
Confidence 344444455554 377777655 2321 2356899999999999 8753
No 186
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=39.42 E-value=1.1e+02 Score=22.43 Aligned_cols=45 Identities=20% Similarity=0.196 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhhC--CCCEEEEecCCC---cchhhHHHHHHHHHHHcC-ccc
Q 033657 68 KIGKILGERLLLK--DIPAVTVFLKRE---QRYHGKVKAVIDSLREAG-VKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e~--gI~~v~~d~r~~---~~yhGrV~a~~~~lre~G-l~~ 113 (114)
..|+.+++.+.+. |..++.+- .+. .....|.+.|.+++.+.| +.+
T Consensus 109 ~~g~~~~~~l~~~~~g~~~i~~i-~~~~~~~~~~~R~~g~~~a~~~~~~~~~ 159 (272)
T cd06300 109 EFGKQGAEWLVKELGGKGNVLVV-RGLAGHPVDEDRYAGAKEVLKEYPGIKI 159 (272)
T ss_pred HHHHHHHHHHHHHcCCCceEEEE-ECCCCCcchHHHHHHHHHHHHHCCCcEE
Confidence 3344455555554 77776554 221 123468999999999988 753
No 187
>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=39.32 E-value=1.2e+02 Score=22.40 Aligned_cols=42 Identities=17% Similarity=0.135 Sum_probs=30.1
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..++-+.+.||..- +..-+.++...++..+++.+++.|+++|
T Consensus 16 ~a~~~L~~~gi~~d-v~V~SaHRtp~~~~~~~~~a~~~g~~vi 57 (156)
T TIGR01162 16 KAADILEEFGIPYE-LRVVSAHRTPELMLEYAKEAEERGIKVI 57 (156)
T ss_pred HHHHHHHHcCCCeE-EEEECcccCHHHHHHHHHHHHHCCCeEE
Confidence 33444566888832 1223788999999999999999988753
No 188
>PRK09228 guanine deaminase; Provisional
Probab=39.02 E-value=1e+02 Score=25.47 Aligned_cols=49 Identities=14% Similarity=0.223 Sum_probs=36.4
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 62 DVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.+.++..+++.+..++..|++.+. |. + +.+-.-..++++++++.|+..
T Consensus 109 ~~~~~~~~a~~~~~e~l~~G~Ttv~-d~-~-~~~~~~~~~~~~a~~~~GiR~ 157 (433)
T PRK09228 109 DPAYAREVAEFFLDELLRNGTTTAL-VF-G-TVHPQSVDALFEAAEARNMRM 157 (433)
T ss_pred CHHHHHHHHHHHHHHHHhCCceEEE-ec-c-ccCHHHHHHHHHHHHHcCCeE
Confidence 4556777788888999999999984 53 2 222235788999999999864
No 189
>PRK07064 hypothetical protein; Provisional
Probab=38.96 E-value=40 Score=28.51 Aligned_cols=41 Identities=7% Similarity=0.198 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
.++..|++++.+.||+.+ |-..| +.+..|+|++.+ .||+++
T Consensus 4 ~~~~~l~~~L~~~Gv~~v-FgvpG-----~~~~~l~~al~~~~~i~~i 45 (544)
T PRK07064 4 TVGELIAAFLEQCGVKTA-FGVIS-----IHNMPILDAIGRRGKIRFV 45 (544)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCCC-----CcchHHHHHHhccCCccEE
Confidence 578999999999999998 54323 457788888865 477653
No 190
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=38.67 E-value=1.2e+02 Score=21.76 Aligned_cols=48 Identities=10% Similarity=0.192 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
....++.+++-+.+.|.+++.+--....-...+..+|.+++++.|+++
T Consensus 120 ~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~~~~~g~~i 167 (299)
T cd04509 120 DEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAAFKKKGGTV 167 (299)
T ss_pred cHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHHHHHcCCEE
Confidence 345666667777777888876542112222446788999999998764
No 191
>PRK05898 dnaE DNA polymerase III DnaE; Validated
Probab=38.54 E-value=62 Score=30.45 Aligned_cols=41 Identities=15% Similarity=0.096 Sum_probs=31.7
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..|+++|+|.|...+.+.|++. .| | +-.|.++++++||+-|
T Consensus 21 ~~lv~~A~e~g~~alALTD~~n-l~-G-aveF~~~ak~~gIkPI 61 (971)
T PRK05898 21 DDIIKFALDNNQPYVCLTDLNN-LY-G-CIEFYDKAKAHNLIPI 61 (971)
T ss_pred HHHHHHHHHCCCCEEEEEeCCc-cc-c-HHHHHHHHHHcCCCEE
Confidence 3468899999999999987432 33 3 5568899999999743
No 192
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=38.17 E-value=1.3e+02 Score=22.39 Aligned_cols=44 Identities=7% Similarity=0.067 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhh--CCCCEEEEecCC--CcchhhHHHHHHHHHHHc-Ccc
Q 033657 68 KIGKILGERLLL--KDIPAVTVFLKR--EQRYHGKVKAVIDSLREA-GVK 112 (114)
Q Consensus 68 ~vG~~la~R~~e--~gI~~v~~d~r~--~~~yhGrV~a~~~~lre~-Gl~ 112 (114)
..|+.+++.+.+ .|-.++.+- .+ ....+.|...|.+++++. |++
T Consensus 115 ~~g~~~~~~L~~~~~g~~~i~~l-~~~~~~~~~~R~~gf~~al~~~~~~~ 163 (280)
T cd06303 115 AGARLLADYFIKRYPNHARYAML-YFSPGYISTARGDTFIDCVHARNNWT 163 (280)
T ss_pred HHHHHHHHHHHHhcCCCcEEEEE-ECCCCcchhHHHHHHHHHHHhCCCce
Confidence 344555555555 677777654 23 234467999999999998 764
No 193
>PRK08273 thiamine pyrophosphate protein; Provisional
Probab=37.97 E-value=57 Score=28.17 Aligned_cols=41 Identities=12% Similarity=0.166 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH--cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE--AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre--~Gl~~~ 114 (114)
.+|..|++++.+.||+.| |-.-| +-+..|.|++.+ .||+++
T Consensus 4 ~~a~~l~~~L~~~GV~~v-FGvpG-----~~~~~l~dal~~~~~~i~~i 46 (597)
T PRK08273 4 TVADFILERLREWGVRRV-FGYPG-----DGINGLLGALGRADDKPEFV 46 (597)
T ss_pred cHHHHHHHHHHHCCCCEE-EEeCC-----CchHHHHHHHHhccCCCeEE
Confidence 468999999999999998 54333 347789999865 368764
No 194
>cd07034 TPP_PYR_PFOR_IOR-alpha_like Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain, of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit (IOR-alpha), and related proteins, subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. The PYR and PP domains have a common fold, but do not share strong sequence conservation. Th
Probab=37.72 E-value=69 Score=22.27 Aligned_cols=39 Identities=10% Similarity=0.216 Sum_probs=26.8
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-----cCcccC
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-----AGVKLL 114 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-----~Gl~~~ 114 (114)
++.+++.+++.||+.+.-- .| +-+..|.|++.+ .+|.++
T Consensus 2 ~e~i~~~L~~~gv~~vfg~-PG-----~~~~~~~~~l~~~~~~~~~i~~i 45 (160)
T cd07034 2 NEAVARGALAAGVDVVAAY-PI-----TPSTEIAETLAKAVLGELGGVVV 45 (160)
T ss_pred hHHHHHHHHHhCCCEEEEe-CC-----CCHHHHHHHHHHHhccCCCcEEE
Confidence 5778999999999998433 23 236667777753 567653
No 195
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=37.51 E-value=58 Score=23.93 Aligned_cols=36 Identities=17% Similarity=0.218 Sum_probs=23.8
Q ss_pred HHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 74 GERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+..+..+||++|+|.. ......+ --.+-|+++|+++
T Consensus 115 a~aI~~~gI~rVvy~~-~~~~~~~---~~~~~L~~~Gi~v 150 (168)
T PHA02588 115 AKAIAQSGIKKLVYCE-KYDRNGP---GWDDILRKSGIEV 150 (168)
T ss_pred HHHHHHhCCCEEEEee-ccCCCcH---HHHHHHHHCCCEE
Confidence 5566779999998753 2112222 2478889999985
No 196
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=37.22 E-value=63 Score=30.92 Aligned_cols=41 Identities=17% Similarity=0.190 Sum_probs=31.4
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.+.++|++.|++.+.+.|++. . +|- ..|.+.+++.||+.|
T Consensus 22 ~elv~~A~~~G~~alAiTDh~~-l-~G~-~~f~~~~~~~gIkpI 62 (1170)
T PRK07374 22 PKMVERAKELGMPAIALTDHGV-M-YGA-IELLKLCKGKGIKPI 62 (1170)
T ss_pred HHHHHHHHHCCCCEEEEecCCc-h-HHH-HHHHHHHHHcCCeEE
Confidence 3578899999999999987542 2 444 467789999999864
No 197
>PRK07586 hypothetical protein; Validated
Probab=37.00 E-value=46 Score=27.95 Aligned_cols=40 Identities=10% Similarity=0.063 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
.+..|++++.+.||+.+ |-..| +-+..|.|++.+ .||+++
T Consensus 3 ~~~~l~~~L~~~Gv~~v-FG~pG-----~~~~~l~dal~~~~~i~~i 43 (514)
T PRK07586 3 GAESLVRTLVDGGVDVC-FANPG-----TSEMHFVAALDRVPGMRCV 43 (514)
T ss_pred HHHHHHHHHHHCCCCEE-EECCC-----CchHHHHHHHhccCCCeEE
Confidence 58899999999999998 54333 346678888866 478764
No 198
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=36.76 E-value=46 Score=28.37 Aligned_cols=42 Identities=21% Similarity=0.355 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA-GVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~-Gl~~~ 114 (114)
...+..|++.+++.||+.| |-.. ++.+..|++++.+. ||+++
T Consensus 8 ~~~~~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~~al~~~~~i~~v 50 (557)
T PRK08199 8 RTGGQILVDALRANGVERV-FCVP-----GESYLAVLDALHDETDIRVI 50 (557)
T ss_pred CcHHHHHHHHHHHcCCCEE-EeCC-----CcchhHHHHHhhccCCCcEE
Confidence 4578999999999999998 4432 34577888888666 47753
No 199
>COG0858 RbfA Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]
Probab=36.60 E-value=1.5e+02 Score=20.68 Aligned_cols=92 Identities=21% Similarity=0.311 Sum_probs=62.3
Q ss_pred CCCCCCccCCCCCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEE
Q 033657 6 PVRPPKLSNFLKPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAV 85 (114)
Q Consensus 6 ~~~~~~~~~~~~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v 85 (114)
-|+.||+.... .-.|..|...-+|.|.=..=| -..++.+..+.. -..|+..+...++++..-.-+-++
T Consensus 25 eikDprl~~~~---Vt~V~vS~Dl~~A~Vyvt~l~---~~~~~~~~~~~~------L~~A~g~ir~~l~~~~~lr~~PeL 92 (118)
T COG0858 25 EIKDPRLGLVT---VTDVEVSKDLSHAKVYVTVLG---DEESSKAEILAA------LNKAKGFIRSELGKRLRLRKTPEL 92 (118)
T ss_pred HccCCCcCceE---EEEEEEcCCCceEEEEEEecC---CchhhHHHHHHH------HHHhHHHHHHHHHHhCCeEeCCeE
Confidence 37888887766 566777777777776442212 122333332222 235788899999999888778887
Q ss_pred EEecCCCcchhhHHHHHHHHHHHc
Q 033657 86 TVFLKREQRYHGKVKAVIDSLREA 109 (114)
Q Consensus 86 ~~d~r~~~~yhGrV~a~~~~lre~ 109 (114)
.|-......+.-++.++++.+...
T Consensus 93 ~F~~D~s~~~~~ki~~Ll~~l~~~ 116 (118)
T COG0858 93 HFVYDDSIENGNKIDALLNDLKKA 116 (118)
T ss_pred EEEeCcccchHHHHHHHHHHhhhc
Confidence 775445788899999999988754
No 200
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=36.54 E-value=62 Score=28.01 Aligned_cols=43 Identities=9% Similarity=0.135 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
...++..|++++++.||+.| |-..| +-+..|.|++.+ .||+++
T Consensus 10 ~~t~a~~l~~~L~~~GV~~v-FGvpG-----~~~~~l~dal~~~~~i~~I 53 (595)
T PRK09107 10 QMTGAEMVVQALKDQGVEHI-FGYPG-----GAVLPIYDEIFQQDDIQHI 53 (595)
T ss_pred hhhHHHHHHHHHHHCCCCEE-EEccC-----cchHHHHHHHhhcCCCeEE
Confidence 34679999999999999998 54433 447778898865 588764
No 201
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=36.52 E-value=68 Score=30.55 Aligned_cols=41 Identities=22% Similarity=0.252 Sum_probs=31.1
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.|.++|++.|++.+.+.|++. . +| +..|.+.+++.||+.|
T Consensus 21 ~elv~~A~e~G~~avAiTDH~~-l-~g-~~~f~~~a~~~gIkpI 61 (1135)
T PRK05673 21 KPLVKKAAELGMPAVALTDHGN-L-FG-AVEFYKAAKGAGIKPI 61 (1135)
T ss_pred HHHHHHHHHcCCCEEEEEcCCc-c-HH-HHHHHHHHHHcCCeEE
Confidence 4468899999999999987432 2 34 4457889999999864
No 202
>COG1109 {ManB} Phosphomannomutase [Carbohydrate transport and metabolism]
Probab=36.43 E-value=1.8e+02 Score=24.38 Aligned_cols=59 Identities=29% Similarity=0.356 Sum_probs=42.5
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh--HHHHHHHHHHHcCccc
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHG--KVKAVIDSLREAGVKL 113 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~ 113 (114)
+|+..+..-|.+-+..+|.-+|+-.++.+-..|++-. ..+.+| --.+++.++..+|+++
T Consensus 15 iRG~~~~~lt~~~~~~~g~a~~~~l~~~~~~~VvVG~--D~R~ss~~~~~a~~~gl~~~G~~v 75 (464)
T COG1109 15 IRGVAGEELTPEFALKLGRALGSVLRKKGAPKVVVGR--DTRLSSEMLAAALAAGLTSAGIDV 75 (464)
T ss_pred cccccCCCcCHHHHHHHHHHHHHHHhhcCCCeEEEEe--cCCCCHHHHHHHHHHHHHHCCCeE
Confidence 3444445678999999999999999983325666542 334444 4678999999999875
No 203
>cd03089 PMM_PGM The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a bisphosphorylated sugar intermediate. The reaction involves two phosphoryl transfers, with an intervening 180 degree reorientation of the reaction intermediate during catalysis. Reorientation of the intermediate occurs without dissociation from the active site of the enzyme and is thus, a simple example of processivity, as defined by multiple rounds of catalysis without release of substrate. Glucose-6-phosphate and glucose-1-phosphate are known to be utilized for energy metabolism and cell surface construction, respectively. PMM/PGM belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other membe
Probab=36.24 E-value=1.9e+02 Score=23.87 Aligned_cols=60 Identities=28% Similarity=0.350 Sum_probs=40.1
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
+++..+..-|.+-+..+|..+|+..++.+-..|++=. ..+..|+ -.+++.+|..+|++++
T Consensus 7 iRG~~~~~lt~~~v~~l~~a~~~~l~~~~~~~VvVg~--D~R~~s~~~~~a~~~gL~s~G~~V~ 68 (443)
T cd03089 7 IRGIAGEELTEEIAYAIGRAFGSWLLEKGAKKVVVGR--DGRLSSPELAAALIEGLLAAGCDVI 68 (443)
T ss_pred cceeeCCccCHHHHHHHHHHHHHHHHhcCCCeEEEEE--CCCCCHHHHHHHHHHHHHHcCCcEE
Confidence 3444334457889999999999988764334455431 2234444 5789999999999763
No 204
>PF14871 GHL6: Hypothetical glycosyl hydrolase 6
Probab=35.80 E-value=80 Score=22.27 Aligned_cols=44 Identities=16% Similarity=0.327 Sum_probs=32.3
Q ss_pred HHHHHHHhhCCCCEEEEecC--CCcch-------------hhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLK--REQRY-------------HGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r--~~~~y-------------hGrV~a~~~~lre~Gl~~~ 114 (114)
+.+++-+++++++.+.++-+ +|+-| ..-+..+.+++++.||.++
T Consensus 3 ~~~~~~lk~~~v~si~i~a~~h~g~ayYPt~~~~~hp~L~~Dllge~v~a~h~~Girv~ 61 (132)
T PF14871_consen 3 EQFVDTLKEAHVNSITIFAKCHGGYAYYPTKVGPRHPGLKRDLLGEQVEACHERGIRVP 61 (132)
T ss_pred HHHHHHHHHhCCCEEEEEcccccEEEEccCCCCcCCCCCCcCHHHHHHHHHHHCCCEEE
Confidence 35678888999999988654 33322 2357899999999999763
No 205
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=35.56 E-value=1.5e+02 Score=21.44 Aligned_cols=45 Identities=13% Similarity=0.138 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|-.++.+-. +.. ....|...|.+.+.+.|+.
T Consensus 102 ~~~~~~~~~~l~~~g~~~i~~l~-~~~~~~~~~~r~~gf~~~l~~~~~~ 149 (268)
T cd06289 102 AAGARLATEHLISLGHRRIAFIG-GLEDSSTRRERLAGYRAALAEAGLP 149 (268)
T ss_pred hHHHHHHHHHHHHCCCCCEEEec-CCccccchHHHHHHHHHHHHHcCCC
Confidence 34577777777788888887652 221 2245899999999999864
No 206
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=35.49 E-value=1.5e+02 Score=21.83 Aligned_cols=43 Identities=14% Similarity=0.064 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc--------chhhHHHHHHHHHHHcCc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQ--------RYHGKVKAVIDSLREAGV 111 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~--------~yhGrV~a~~~~lre~Gl 111 (114)
..|..+++.+.+.|..++.|-- +.. ..+.|...|.+++.+.|+
T Consensus 98 ~a~~~~~~~l~~~g~~~i~~i~-~~~~~~~~~~~~~~~R~~gf~~~~~~~~~ 148 (270)
T cd01544 98 QAVEKALDYLLELGHTRIGFIG-GEEKTTDGHEYIEDPRETAFREYMKEKGL 148 (270)
T ss_pred HHHHHHHHHHHHcCCCcEEEEC-CCcccccccchhhhHHHHHHHHHHHHcCC
Confidence 3466777777778999887652 221 235689999999999984
No 207
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=35.49 E-value=81 Score=24.55 Aligned_cols=39 Identities=13% Similarity=0.072 Sum_probs=28.7
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+-+.++|.++|++-+.+-+ -. ..-...+.+.+++.|+.+
T Consensus 105 e~f~~~~~~aGvdgviipD-lp---~ee~~~~~~~~~~~gl~~ 143 (256)
T TIGR00262 105 EEFYAKCKEVGVDGVLVAD-LP---LEESGDLVEAAKKHGVKP 143 (256)
T ss_pred HHHHHHHHHcCCCEEEECC-CC---hHHHHHHHHHHHHCCCcE
Confidence 5578889999999887654 22 244677888889988864
No 208
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=35.42 E-value=1.5e+02 Score=22.71 Aligned_cols=44 Identities=14% Similarity=0.097 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGV 111 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl 111 (114)
+..|..+++.+.+.|..++.|- .+.. ....|..+|.+++.+.|+
T Consensus 159 ~~~~~~a~~~l~~~G~~~i~~i-~~~~~~~~~~~R~~gf~~~~~~~g~ 205 (327)
T PRK10339 159 ARISKEIIDFYINQGVNRIGFI-GGEDEPGKADIREVAFAEYGRLKQV 205 (327)
T ss_pred HHHHHHHHHHHHHCCCCeEEEe-CCccccchhhHHHHHHHHHHHHcCC
Confidence 6667888999999999988775 2321 234688999999998886
No 209
>TIGR00594 polc DNA-directed DNA polymerase III (polc). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=35.08 E-value=74 Score=29.92 Aligned_cols=41 Identities=22% Similarity=0.287 Sum_probs=31.5
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.++++|++.|++.+.+.|++. . .|-+ .|.+++++.||+.|
T Consensus 20 ~elv~~A~~~G~~alAiTDH~~-l-~g~~-~f~~~~~~~gIkpI 60 (1022)
T TIGR00594 20 KPLVKKAKELGMPALALTDHGN-M-FGAV-EFYKACKKAGIKPI 60 (1022)
T ss_pred HHHHHHHHHCCCCEEEEecCCC-c-hhHH-HHHHHHHHcCCeEE
Confidence 3568899999999999987543 2 4544 57888999999864
No 210
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=35.02 E-value=55 Score=27.97 Aligned_cols=40 Identities=15% Similarity=0.158 Sum_probs=30.6
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
.+..|++++++.||+.| |-..| +.+..|.|++.+ .||+++
T Consensus 5 ~~~~l~~~L~~~Gv~~v-FgipG-----~~~~~l~~~l~~~~~i~~v 45 (563)
T PRK08527 5 GSQMVCEALKEEGVKVV-FGYPG-----GAILNIYDEIYKQNYFKHI 45 (563)
T ss_pred HHHHHHHHHHHcCCCEE-EECCC-----cchHHHHHHHhccCCCeEE
Confidence 48899999999999998 54433 457788888865 488764
No 211
>PF11141 DUF2914: Protein of unknown function (DUF2914); InterPro: IPR022606 This bacterial family of proteins has no known function.
Probab=34.80 E-value=1.1e+02 Score=19.05 Aligned_cols=19 Identities=16% Similarity=0.097 Sum_probs=13.5
Q ss_pred CceEEEEEeCCCCeEEEEEe
Q 033657 28 KYVSAQVIHSPTATVASSAT 47 (114)
Q Consensus 28 khi~Aqvid~~~~~~lasaS 47 (114)
....++|+| ++|.+|.+.+
T Consensus 44 G~WrV~V~~-~~G~~l~~~~ 62 (66)
T PF11141_consen 44 GDWRVEVVD-EDGQVLGSLR 62 (66)
T ss_pred cCEEEEEEc-CCCCEEEEEE
Confidence 356788888 5688886643
No 212
>PRK09259 putative oxalyl-CoA decarboxylase; Validated
Probab=34.78 E-value=73 Score=27.27 Aligned_cols=41 Identities=10% Similarity=0.101 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
..|.+|++++.+.||+.| |-..| +-+..+.+++++.||.++
T Consensus 11 ~~~~~l~~~L~~~GV~~v-FGvpG-----~~~~~l~~~~~~~~i~~i 51 (569)
T PRK09259 11 DGFHLVIDALKLNGIDTI-YGVVG-----IPITDLARLAQAEGIRYI 51 (569)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCCC-----cchHHHHHHHhhCCCCEE
Confidence 358999999999999998 54433 235667788888888764
No 213
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=34.58 E-value=64 Score=27.52 Aligned_cols=40 Identities=13% Similarity=0.136 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH----cCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE----AGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre----~Gl~~~ 114 (114)
.+..|++++++.||+.| |-.. ++.+..|.|++.+ .||+++
T Consensus 4 ~~~~l~~~L~~~GV~~v-Fg~p-----G~~~~~l~dal~~~~~~~~i~~i 47 (572)
T PRK06456 4 GARILVDSLKREGVKVI-FGIP-----GLSNMQIYDAFVEDLANGELRHV 47 (572)
T ss_pred HHHHHHHHHHHcCCCEE-EeCC-----CcchHHHHHHHHhhccCCCCeEE
Confidence 57899999999999998 4432 3457788888864 467764
No 214
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=34.49 E-value=75 Score=29.87 Aligned_cols=40 Identities=8% Similarity=0.048 Sum_probs=29.9
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
-|.++|++.|++.+.+.|++. -+|-+ .|.+.+++.||+.|
T Consensus 23 elv~~Ak~~G~~avAITDh~~--l~G~~-~f~~~a~~~gIkpI 62 (973)
T PRK07135 23 SLIKYAKENNLKTLVLTDHNN--MFGVP-KFYKLCKKNNIKPI 62 (973)
T ss_pred HHHHHHHHcCCCEEEEecCCc--HHhHH-HHHHHHHHcCCeEE
Confidence 367889999999999987332 24444 46788999999865
No 215
>cd04726 KGPDC_HPS 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for L-ascorbate utilization in some eubacteria. HPS catalyzes the formation of D-arabino-3-hexulose-6-phosphate from D-ribulose 5-phosphate and formaldehyde in microorganisms that can use formaldehyde as a carbon source. Both catalyze reactions that involve the Mg2+-assisted formation and stabilization of 1,2-enediolate reaction intermediates.
Probab=34.29 E-value=1e+02 Score=22.14 Aligned_cols=39 Identities=15% Similarity=0.187 Sum_probs=28.4
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+++.+.++|.+-+.+..... .+-...+++.+++.|+.+
T Consensus 68 ~~~~~~~~aGad~i~~h~~~~---~~~~~~~i~~~~~~g~~~ 106 (202)
T cd04726 68 LEAEMAFKAGADIVTVLGAAP---LSTIKKAVKAAKKYGKEV 106 (202)
T ss_pred HHHHHHHhcCCCEEEEEeeCC---HHHHHHHHHHHHHcCCeE
Confidence 456888899999988764222 234677888888888865
No 216
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=34.27 E-value=1.7e+02 Score=22.85 Aligned_cols=53 Identities=13% Similarity=0.176 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHHHHHHh--------hCCCCEEEEe-cCCCcc-hhhHHHHHHHHHHHcCcc
Q 033657 60 TRDVAAASKIGKILGERLL--------LKDIPAVTVF-LKREQR-YHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 60 ~~n~~Aa~~vG~~la~R~~--------e~gI~~v~~d-~r~~~~-yhGrV~a~~~~lre~Gl~ 112 (114)
..|..+++..|+.+++.+. +.|-..+.+- -..... ...|...|.+++++.|+.
T Consensus 132 ~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~ 194 (330)
T PRK15395 132 TDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIK 194 (330)
T ss_pred cChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCC
Confidence 3567788888888888765 3454333321 111222 245899999999999985
No 217
>PRK14318 glmM phosphoglucosamine mutase; Provisional
Probab=34.16 E-value=2.1e+02 Score=23.76 Aligned_cols=60 Identities=25% Similarity=0.207 Sum_probs=39.4
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhCC-----CCEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLKD-----IPAVTVFLKREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~g-----I~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
+++..+..-+-+.|+.+|..+|.-+.+.+ -..|++=. ..+.++ --.|++.+|..+|++++
T Consensus 10 iRG~~~~~ltpe~~~~lg~a~~~~l~~~~~~~~~~~~VvVg~--D~R~ss~~l~~a~~~gL~s~G~~V~ 76 (448)
T PRK14318 10 VRGLANRDLTAELALALGAAAARVLGHAGRPGGRRPVAVVGR--DPRASGEFLEAAVSAGLASAGVDVL 76 (448)
T ss_pred cceecCCccCHHHHHHHHHHHHHHHHhcccccCCCCeEEEEe--CCCcCHHHHHHHHHHHHHHCCCEEE
Confidence 34444445578999999999999877643 23344421 222334 36789999999998763
No 218
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=34.11 E-value=1.6e+02 Score=21.37 Aligned_cols=48 Identities=15% Similarity=0.252 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCc--chhhHHHHHHHHHHHc-Cccc
Q 033657 63 VAAASKIGKILGERLLLKDIPAVTVFLKREQ--RYHGKVKAVIDSLREA-GVKL 113 (114)
Q Consensus 63 ~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~--~yhGrV~a~~~~lre~-Gl~~ 113 (114)
..+++..++.|+++. .|-.++.+- .+.. .-..|.+.|.+++.+. |+++
T Consensus 104 ~~~g~~~~~~l~~~~--~g~~~i~~i-~~~~~~~~~~R~~gf~~~~~~~~~~~~ 154 (267)
T cd06322 104 YAGGVLAGELAAKVL--NGKGQVAII-DYPTVQSVVDRVRGFKEALADYPNIKI 154 (267)
T ss_pred HHHHHHHHHHHHHHh--CCCceEEEE-ecCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 344455555554443 266676654 2221 2245899999999998 8763
No 219
>cd06311 PBP1_ABC_sugar_binding_like_3 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=33.59 E-value=1.4e+02 Score=21.91 Aligned_cols=49 Identities=12% Similarity=0.165 Sum_probs=29.6
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCC--cchhhHHHHHHHHHHHcCccc
Q 033657 62 DVAAASKIGKILGERLLLKDIPAVTVFLKRE--QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~--~~yhGrV~a~~~~lre~Gl~~ 113 (114)
|..+.+..++.|++++. |-.++.+- .+. ..-+.|.+.|.+.+.+.|+++
T Consensus 109 ~~~~g~~aa~~l~~~~~--g~~~i~~~-~g~~~~~~~~R~~gf~~~l~~~~~~~ 159 (274)
T cd06311 109 NYGMGRVAGEYIATKLG--GNGNIVVL-RGIPTPIDNERVDAFDAAIAKYPIKI 159 (274)
T ss_pred cHHHHHHHHHHHHHHhC--CCCeEEEE-ECCCCcchhHHHHHHHHHHhhCCcEE
Confidence 44555555555555432 55566544 221 233568999999999998754
No 220
>PF06792 UPF0261: Uncharacterised protein family (UPF0261); InterPro: IPR008322 The proteins in this entry are functionally uncharacterised.
Probab=33.47 E-value=1.5e+02 Score=25.26 Aligned_cols=49 Identities=22% Similarity=0.248 Sum_probs=31.6
Q ss_pred CCHHHHHHHHHHHHHHHhh-CCCCEEEE--------ecCCCcchhh-HHHHHHHHHHHc
Q 033657 61 RDVAAASKIGKILGERLLL-KDIPAVTV--------FLKREQRYHG-KVKAVIDSLREA 109 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e-~gI~~v~~--------d~r~~~~yhG-rV~a~~~~lre~ 109 (114)
.+.+-+..+|+.||+|+.+ .|-..+.+ |..|+.-|.- -=+||.++++++
T Consensus 312 tt~eE~~~~g~~ia~kLn~~~gpv~v~lP~~G~S~~d~~G~~f~Dpead~al~~~l~~~ 370 (403)
T PF06792_consen 312 TTPEENRQLGEFIAEKLNRAKGPVRVLLPLGGVSALDRPGGPFYDPEADEALFDALREN 370 (403)
T ss_pred CCHHHHHHHHHHHHHHHhcCCCCEEEEECCCCCcccCCCCCcCcChhHHHHHHHHHHHh
Confidence 4667789999999999998 55555544 2222223322 347888888763
No 221
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=33.23 E-value=1.4e+02 Score=22.84 Aligned_cols=49 Identities=8% Similarity=0.051 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 65 AASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 65 Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.....+..+++-++..|.+++.+-.....-..+-+++|.+.+++.|+++
T Consensus 143 ~~~~~~~a~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v 191 (348)
T cd06350 143 SDTSQALAIVALLKHFGWTWVGLVYSDDDYGRSGLSDLEEELEKNGICI 191 (348)
T ss_pred CcHHHHHHHHHHHHHCCCeEEEEEEecchhHHHHHHHHHHHHHHCCCcE
Confidence 3445566666666778888765532112223667899999999999875
No 222
>PRK06154 hypothetical protein; Provisional
Probab=33.19 E-value=61 Score=27.86 Aligned_cols=38 Identities=18% Similarity=0.317 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.++..|++++.+.||+.| |=. . ...|.|++.+.||+++
T Consensus 21 ~~a~~l~~~L~~~GV~~v-FGi--p------~~~l~dal~~~~i~~i 58 (565)
T PRK06154 21 KVAEAVAEILKEEGVELL-FGF--P------VNELFDAAAAAGIRPV 58 (565)
T ss_pred cHHHHHHHHHHHcCCCEE-EeC--c------CHHHHHHHHhcCCeEE
Confidence 578999999999999997 532 2 2368899988888874
No 223
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=33.19 E-value=1.7e+02 Score=21.27 Aligned_cols=43 Identities=16% Similarity=0.102 Sum_probs=26.4
Q ss_pred HHHHHHHHHHhhC--CCCEEEEecCCC--c-chhhHHHHHHHHHHHcCc
Q 033657 68 KIGKILGERLLLK--DIPAVTVFLKRE--Q-RYHGKVKAVIDSLREAGV 111 (114)
Q Consensus 68 ~vG~~la~R~~e~--gI~~v~~d~r~~--~-~yhGrV~a~~~~lre~Gl 111 (114)
..|+.+++.+.+. |-.++.+-. +. + ....|.++|.++++++|.
T Consensus 109 ~~g~~~~~~l~~~~~g~~~i~~l~-~~~~~~~~~~r~~g~~~~~~~~~~ 156 (275)
T cd06317 109 SQGERSAEAMCKALGGKGQIVVIA-GQPGNGTAIERQKGFEDELAEVCP 156 (275)
T ss_pred HHHHHHHHHHHHHcCCCceEEEEe-cCCCCchHHHHHHHHHHHHHhhCC
Confidence 3445555555443 666766552 21 2 234688999999999874
No 224
>PRK14316 glmM phosphoglucosamine mutase; Provisional
Probab=32.88 E-value=2.1e+02 Score=23.69 Aligned_cols=60 Identities=25% Similarity=0.309 Sum_probs=38.6
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhCC--CCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLKD--IPAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~g--I~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
+++..+..-+-+.+..+|..+|.-+.+.+ -..|++= | ..+.+|+ -.+++.+|..+|++++
T Consensus 9 iRG~~~~~ltpe~~~~ig~a~~~~l~~~~~~~~~VvVg-~-D~R~ss~~l~~a~~~gL~s~G~~V~ 72 (448)
T PRK14316 9 VRGVANKELTPELAFKLGRAGGYVLTKHETERPKVLVG-R-DTRISGDMLESALIAGLLSVGAEVM 72 (448)
T ss_pred cceEcCCCCCHHHHHHHHHHHHHHHHhccCCCCeEEEE-E-CCCcCHHHHHHHHHHHHHHCCCEEE
Confidence 44444445578899999999998776521 2335443 1 2233443 3488999999998763
No 225
>cd00175 SNc Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
Probab=32.82 E-value=1.5e+02 Score=19.69 Aligned_cols=66 Identities=14% Similarity=0.181 Sum_probs=46.8
Q ss_pred CCceEEEEEe-CCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc-chhhHHHHHHH
Q 033657 27 NKYVSAQVIH-SPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQ-RYHGKVKAVID 104 (114)
Q Consensus 27 nkhi~Aqvid-~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~-~yhGrV~a~~~ 104 (114)
++.++.++.. |..|..++.+...+ |.-+++.+++.|.-.+... .... .|.....++-+
T Consensus 58 ~~~V~i~~~~~d~~gr~la~v~~~~-------------------~~~v~~~Lv~~G~A~~~~~-~~~~~~~~~~l~~ae~ 117 (129)
T cd00175 58 GKKVQVEVDSKDRYGRTLGTVYLNG-------------------GENIAEELVKEGLARVYRY-YPDDSEYYDELLEAEE 117 (129)
T ss_pred CCEEEEEEccCCCCCCEEEEEEeCC-------------------CCcHHHHHHhcCCEEEEEE-CCCCcHHHHHHHHHHH
Confidence 4667777653 56888998875421 4457888899999988543 2332 67888888888
Q ss_pred HHHHcCcc
Q 033657 105 SLREAGVK 112 (114)
Q Consensus 105 ~lre~Gl~ 112 (114)
.+++.++-
T Consensus 118 ~Ak~~k~G 125 (129)
T cd00175 118 AAKKARKG 125 (129)
T ss_pred HHHHhCcC
Confidence 89887754
No 226
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=32.76 E-value=1.2e+02 Score=22.35 Aligned_cols=51 Identities=16% Similarity=0.152 Sum_probs=29.6
Q ss_pred CHHHHHHHHHHHHHHHhh-CCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 62 DVAAASKIGKILGERLLL-KDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e-~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
|..+++..++.|+++... .+-.++.+- .+.. ...-|.+.|.+++.+.|+++
T Consensus 104 ~~~~g~~~~~~l~~~g~~~~~~~~i~~l-~g~~~~~~~~~R~~g~~~~~~~~~~~~ 158 (268)
T cd06306 104 WYEMGYQAGEYLAQRHPKGSKPAKVAWF-PGPKGAGWVKAVEKGFRDALAGSAIEI 158 (268)
T ss_pred hHHHHHHHHHHHHHHhhcCCCCceEEEE-eCCCCCchHHHHHHHHHHHHhhcCcEE
Confidence 445555555555555531 222566554 2321 23458899999999988863
No 227
>PF02641 DUF190: Uncharacterized ACR, COG1993; InterPro: IPR003793 This is an uncharacterised domain found in proteins of unknown function.; PDB: 2DCL_C 1O51_A.
Probab=32.50 E-value=50 Score=22.04 Aligned_cols=30 Identities=27% Similarity=0.279 Sum_probs=17.9
Q ss_pred HHHHHHHHHhhCCCCEEEEecCC--CcchhhHH
Q 033657 69 IGKILGERLLLKDIPAVTVFLKR--EQRYHGKV 99 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~--~~~yhGrV 99 (114)
+-+.|.++|.+.||..+..+ || ||-.+|++
T Consensus 21 l~~~ll~~~~~~gi~GaTV~-rgi~G~G~~~~i 52 (101)
T PF02641_consen 21 LYEWLLERAREAGIAGATVF-RGIEGFGSSGRI 52 (101)
T ss_dssp HHHHHHHHHHHTT-SEEEEE-E-SEEEE-----
T ss_pred HHHHHHHHHHHCCCCeEEEE-cceeeeCCCCcc
Confidence 45678899999999999888 56 44445543
No 228
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=32.45 E-value=88 Score=29.82 Aligned_cols=41 Identities=15% Similarity=0.173 Sum_probs=31.1
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+-|.++|++.|...+.+.|+| ..| | +-.|.++++++||+-|
T Consensus 22 ~~lv~~A~~~g~~alAlTDh~-~m~-G-a~~F~~~a~~~gIkPI 62 (1107)
T PRK06920 22 DELVVRAKELGYSSLAITDEN-VMY-G-VIPFYKACKKHGIHPI 62 (1107)
T ss_pred HHHHHHHHHCCCCEEEEEeCC-hHh-H-HHHHHHHHHHcCCCEe
Confidence 346889999999999998743 233 3 4567889999999753
No 229
>cd05802 GlmM GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-acetylglucosamine, an essential precursor to components of the cell envelope. In order to be active, GlmM must be phosphorylated, which can occur via autophosphorylation or by the Ser/Thr kinase StkP. GlmM functions in a classical ping-pong bi-bi mechanism with glucosamine-1,6-diphosphate as an intermediate. Other members of the alpha-D-phosphohexomutase superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=32.44 E-value=2.5e+02 Score=23.17 Aligned_cols=60 Identities=27% Similarity=0.281 Sum_probs=40.4
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhCCC-CEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLKDI-PAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI-~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
+++..+..-|.+.+..+|..+|.-..+.+- ..|++=. ..+..++ -.+++.+|..+|++++
T Consensus 7 iRG~~~~~lt~e~~~~lg~a~~~~l~~~~~~~~VvVg~--D~R~ss~~l~~a~~~gL~s~G~~V~ 69 (434)
T cd05802 7 IRGVANEPLTPELALKLGRAAGKVLGKGGGRPKVLIGK--DTRISGYMLESALAAGLTSAGVDVL 69 (434)
T ss_pred cceECCCCCCHHHHHHHHHHHHHHHHhcCCCCeEEEEE--CCCCCHHHHHHHHHHHHHHCCCcEE
Confidence 344444445788999999999998876432 4455431 3344554 6789999999998763
No 230
>PF13880 Acetyltransf_13: ESCO1/2 acetyl-transferase
Probab=32.30 E-value=36 Score=21.84 Aligned_cols=28 Identities=25% Similarity=0.318 Sum_probs=23.7
Q ss_pred CCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033657 80 KDIPAVTVFLKREQRYHGKVKAVIDSLREA 109 (114)
Q Consensus 80 ~gI~~v~~d~r~~~~yhGrV~a~~~~lre~ 109 (114)
.||+.+... ..++..|--..|+|.+|++
T Consensus 6 ~GI~RIWV~--~~~RR~GIAt~Lld~ar~~ 33 (70)
T PF13880_consen 6 CGISRIWVS--PSHRRKGIATRLLDAAREN 33 (70)
T ss_pred EEeEEEEeC--hhhhhhhHHHHHHHHHHHh
Confidence 589999776 3788899999999999975
No 231
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=32.17 E-value=73 Score=27.64 Aligned_cols=42 Identities=14% Similarity=0.129 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH----cCcccC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE----AGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre----~Gl~~~ 114 (114)
...|..|++.+.+.||+.| |-.. +|.+..|.|++.+ .||++|
T Consensus 19 ~~~~~~l~~~L~~~GV~~v-Fgip-----G~~~~~l~dal~~~~~~~~i~~i 64 (616)
T PRK07418 19 ATGAYALMDSLKRHGVKHI-FGYP-----GGAILPIYDELYKAEAEGWLKHI 64 (616)
T ss_pred ccHHHHHHHHHHHcCCCEE-EeCc-----CcchHHHHHHHHhcccCCCceEE
Confidence 4568999999999999998 5433 3457778888764 368764
No 232
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=32.11 E-value=75 Score=26.23 Aligned_cols=39 Identities=23% Similarity=0.572 Sum_probs=28.1
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHH--HHHHHHHHHcCccc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKV--KAVIDSLREAGVKL 113 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV--~a~~~~lre~Gl~~ 113 (114)
.++...++||.+|++=. -... +|+. +.+.+-|+++||++
T Consensus 58 cad~ii~~gi~rVVi~~-D~d~-~G~~~~~~~~~~L~~aGi~V 98 (360)
T PRK14719 58 IADDLIAENISEVILLT-DFDR-AGRVYAKNIMEEFQSRGIKV 98 (360)
T ss_pred HHHHHHHcCCCEEEEEE-CCCC-CCCccchHHHHHHHHCCCEE
Confidence 78888999999987632 1222 6665 35678899999875
No 233
>PRK12827 short chain dehydrogenase; Provisional
Probab=32.01 E-value=1.5e+02 Score=21.23 Aligned_cols=22 Identities=14% Similarity=0.273 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033657 67 SKIGKILGERLLLKDIPAVTVF 88 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d 88 (114)
.-+|..+|+.+.+.|.+-+.++
T Consensus 16 g~iG~~la~~l~~~g~~v~~~~ 37 (249)
T PRK12827 16 GGLGRAIAVRLAADGADVIVLD 37 (249)
T ss_pred ChHHHHHHHHHHHCCCeEEEEc
Confidence 4578888888888887655544
No 234
>TIGR02801 tolR TolR protein. The model describes the inner membrane protein TolR, part of the TolR/TolQ complex that transduces energy from the proton-motive force, through TolA, to an outer membrane complex made up of TolB and Pal (peptidoglycan-associated lipoprotein). The complex is required to maintain outer membrane integrity, and defects may cause a defect in the import of some organic compounds in addition to the resulting morphologic. While several gene pairs homologous to talR and tolQ may be found in a single genome, but the scope of this model is set to favor finding only bone fide TolR, supported by operon structure as well as by score.
Probab=31.90 E-value=1.7e+02 Score=19.90 Aligned_cols=28 Identities=25% Similarity=0.342 Sum_probs=21.8
Q ss_pred EEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033657 84 AVTVFLKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 84 ~v~~d~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
.+.+.- .+...+|.+-.+++.++++|+.
T Consensus 95 ~v~i~a-D~~~~~~~vv~vmd~~~~~G~~ 122 (129)
T TIGR02801 95 PVLIRA-DKTVPYGEVIKVMALLKQAGIE 122 (129)
T ss_pred eEEEEc-CCCCCHHHHHHHHHHHHHcCCC
Confidence 455542 3566789999999999999985
No 235
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=31.83 E-value=1.8e+02 Score=21.57 Aligned_cols=45 Identities=13% Similarity=0.200 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC--------------------cchhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE--------------------QRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~--------------------~~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+.|-.++.+-. +. ..-..|...|.+++.+.|++
T Consensus 101 ~~~g~~~~~~L~~~g~~~i~~i~-~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~ 165 (283)
T cd06279 101 RAAAREAARHLLDLGHRRIGILG-LRLGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGID 165 (283)
T ss_pred HHHHHHHHHHHHHcCCCcEEEec-CcccccccccccccccccccccccHHHHHHHHHHHHHHcCCC
Confidence 44566666666777888876541 21 11246899999999998864
No 236
>PTZ00445 p36-lilke protein; Provisional
Probab=31.67 E-value=1e+02 Score=24.10 Aligned_cols=48 Identities=10% Similarity=0.032 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCC--------Ccch------------hhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKR--------EQRY------------HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~--------~~~y------------hGrV~a~~~~lre~Gl~~ 113 (114)
...-...+.+.+++.||+-|.+|-.+ |+.- .--.+++++.|.+.||.+
T Consensus 27 ~~~~~~~~v~~L~~~GIk~Va~D~DnTlI~~HsgG~~~~~~~~~~~~~~~tpefk~~~~~l~~~~I~v 94 (219)
T PTZ00445 27 PHESADKFVDLLNECGIKVIASDFDLTMITKHSGGYIDPDNDDIRVLTSVTPDFKILGKRLKNSNIKI 94 (219)
T ss_pred HHHHHHHHHHHHHHcCCeEEEecchhhhhhhhcccccCCCcchhhhhccCCHHHHHHHHHHHHCCCeE
Confidence 34445678888999999999887522 2211 113889999999999976
No 237
>TIGR02720 pyruv_oxi_spxB pyruvate oxidase. Members of this family are examples of pyruvate oxidase (EC 1.2.3.3), an enzyme with FAD and TPP as cofactors that catalyzes the reaction pyruvate + phosphate + O2 + H2O = acetyl phosphate + CO2 + H2O2. It should not be confused with pyruvate dehydrogenase [cytochrome] (EC 1.2.2.2) as in E. coli PoxB, although the E. coli enzyme is closely homologous and has pyruvate oxidase as an alternate name.
Probab=31.56 E-value=71 Score=27.45 Aligned_cols=39 Identities=10% Similarity=0.155 Sum_probs=28.5
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc--CcccC
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA--GVKLL 114 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~--Gl~~~ 114 (114)
|..|++++++.||+.| |-.- ++.+..|.|++.+. ||+++
T Consensus 2 ~~~l~~~L~~~GV~~v-Fgvp-----G~~~~~l~dal~~~~~~i~~v 42 (575)
T TIGR02720 2 SAAVLKVLEAWGVDHI-YGIP-----GGSFNSTMDALSAERDRIHYI 42 (575)
T ss_pred HHHHHHHHHHcCCCEE-EECC-----CcchHHHHHHHHhcCCCCcEE
Confidence 6789999999999998 5432 34477788888653 67764
No 238
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....
Probab=31.42 E-value=1.5e+02 Score=19.15 Aligned_cols=42 Identities=19% Similarity=0.196 Sum_probs=28.2
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
-.-++++|++.|+ .|.++ .---.--.-.+.+.+.+++.|..+
T Consensus 75 h~~~~~~~l~~g~-~v~~E-KP~~~~~~~~~~l~~~a~~~~~~~ 116 (120)
T PF01408_consen 75 HAEIAKKALEAGK-HVLVE-KPLALTLEEAEELVEAAKEKGVKV 116 (120)
T ss_dssp HHHHHHHHHHTTS-EEEEE-SSSSSSHHHHHHHHHHHHHHTSCE
T ss_pred hHHHHHHHHHcCC-EEEEE-cCCcCCHHHHHHHHHHHHHhCCEE
Confidence 3456888888998 55455 222233445788888888888764
No 239
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=31.41 E-value=91 Score=29.56 Aligned_cols=41 Identities=15% Similarity=0.166 Sum_probs=31.2
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.|+++|++.|...+.+.|+| -. +| +-.|.++++++||+-|
T Consensus 21 ~~lv~~A~~~g~~alAlTD~~-~m-~G-a~~F~~~a~~~gIkPI 61 (1034)
T PRK07279 21 EKYVERAKELGYQTIGIMDKD-NL-YG-AYHFIEGAQKNGLQPI 61 (1034)
T ss_pred HHHHHHHHHCCCCEEEEEcCC-cc-cc-HHHHHHHHHHcCCcEE
Confidence 457899999999999998743 23 33 4567889999999743
No 240
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=31.38 E-value=1.6e+02 Score=21.48 Aligned_cols=49 Identities=20% Similarity=0.269 Sum_probs=31.0
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCC--cchhhHHHHHHHHHHHc-Ccc
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVTVFLKRE--QRYHGKVKAVIDSLREA-GVK 112 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~--~~yhGrV~a~~~~lre~-Gl~ 112 (114)
.+..+++.+++.|++++ .|..++.|- .+. ....-|.++|.+++.+. |++
T Consensus 102 d~~~~g~~~~~~l~~~~--~g~~~i~~i-~g~~~~~~~~R~~g~~~~~~~~~~~~ 153 (271)
T cd06321 102 DNVQAGEISCQYLADRL--GGKGNVAIL-NGPPVSAVLDRVAGCKAALAKYPGIK 153 (271)
T ss_pred chHHHHHHHHHHHHHHh--CCCceEEEE-eCCCCchHHHHHHHHHHHHHhCCCcE
Confidence 34555566666655543 277888765 232 22346889999999988 664
No 241
>PF02789 Peptidase_M17_N: Cytosol aminopeptidase family, N-terminal domain; InterPro: IPR008283 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M17 (leucyl aminopeptidase family, clan MF), the type example being leucyl aminopeptidase from Bos taurus (Bovine). Aminopeptidases are exopeptidases involved in the processing and regular turnover of intracellular proteins, although their precise role in cellular metabolism is unclear [, ]. Leucine aminopeptidases cleave leucine residues from the N-terminal of polypeptide chains, but substantial rates are evident for all amino acids []. The enzymes exist as homo-hexamers, comprising 2 trimers stacked on top of one another []. Each monomer binds 2 zinc ions and folds into 2 alpha/beta-type quasi-spherical globular domains, producing a comma-like shape []. The N-terminal 150 residues form a 5-stranded beta-sheet with 4 parallel and 1 anti-parallel strand sandwiched between 4 alpha-helices []. An alpha-helix extends into the C-terminal domain, which comprises a central 8-stranded saddle-shaped beta-sheet sandwiched between groups of helices, forming the monomer hydrophobic core []. A 3-stranded beta-sheet resides on the surface of the monomer, where it interacts with other members of the hexamer []. The two zinc ions and the active site are entirely located in the C-terminal catalytic domain [].; GO: 0004177 aminopeptidase activity, 0006508 proteolysis, 0005622 intracellular; PDB: 3PEI_A 1GYT_C 3JRU_A 3H8F_D 3H8G_F 3H8E_A 3KZW_L 1LAP_A 1LAN_A 1LCP_B ....
Probab=31.37 E-value=1.5e+02 Score=19.39 Aligned_cols=51 Identities=12% Similarity=0.069 Sum_probs=37.6
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecC-CCcchhhHHHHHHHHHHHcCc
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVTVFLK-REQRYHGKVKAVIDSLREAGV 111 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r-~~~~yhGrV~a~~~~lre~Gl 111 (114)
-+.+.....+..+++.+.+.++.++.++.. .......-+.++++++..+.-
T Consensus 66 ~~~~~~r~a~~~~~~~l~~~~~~~v~i~l~~~~~~~~~~~~~~~~g~~l~~Y 117 (126)
T PF02789_consen 66 LTAESLRKAGAAAARALKKLKVKSVAIDLPIDGENSDEAAEAAAEGALLGSY 117 (126)
T ss_dssp BCHHHHHHHHHHHHHHHHHTT-SEEEEEGCSSBTTCHHHHHHHHHHHHHHT-
T ss_pred CCHHHHHHHHHHHHHHHhhCCceEEEEeCcccccCcHHHHHHHHHHHHHcCc
Confidence 367889999999999999999999998863 112223678888888876543
No 242
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=31.17 E-value=1.1e+02 Score=24.45 Aligned_cols=41 Identities=12% Similarity=0.019 Sum_probs=29.8
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHG---KVKAVIDSLREAGVK 112 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhG---rV~a~~~~lre~Gl~ 112 (114)
....++|++.|++.|=|| .+...|.. ..+.+++-+...|+.
T Consensus 87 ~e~i~~ai~~GFtSVM~D-gS~lp~eeNi~~T~evv~~Ah~~gv~ 130 (286)
T PRK12738 87 LDDIRRKVHAGVRSAMID-GSHFPFAENVKLVKSVVDFCHSQDCS 130 (286)
T ss_pred HHHHHHHHHcCCCeEeec-CCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 345678999999999888 57777776 455666677776764
No 243
>PF02961 BAF: Barrier to autointegration factor; InterPro: IPR004122 Barrier-to-autointegration factor (BAF) is an essential protein that is highly conserved in metazoan evolution, and which may act as a DNA-bridging protein []. BAF binds directly to double-stranded DNA, to transcription activators, and to inner nuclear membrane proteins, including lamin A filament proteins that anchor nuclear-pore complexes in place, and nuclear LEM-domain proteins that bind to laminins filaments and chromatin. New findings suggest that BAF has structural roles in nuclear assembly and chromatin organisation, represses gene expression and might interlink chromatin structure, nuclear architecture and gene regulation in metazoans []. BAF can be exploited by retroviruses to act as a host component of pre-integration complexes, which promote the integration of the retroviral DNA into the host chromosome by preventing autointegration of retroviral DNA []. BAF might contribute to the assembly or activity of retroviral pre-integration complexes through direct binding to the retroviral proteins p55 Gag and matrix, as well as to DNA.; GO: 0003677 DNA binding; PDB: 2ODG_A 2BZF_A 2EZX_B 2EZY_B 1QCK_B 1CI4_B 2EZZ_B.
Probab=30.91 E-value=24 Score=23.88 Aligned_cols=26 Identities=31% Similarity=0.440 Sum_probs=17.2
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEE
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVT 86 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~ 86 (114)
+.+..-.=||.+|+.|+.++|++++.
T Consensus 19 K~V~~laGIG~~lg~~L~~~GfdKAy 44 (89)
T PF02961_consen 19 KPVTELAGIGPVLGKRLEEKGFDKAY 44 (89)
T ss_dssp -BGGGSTT--HHHHHHHHHTT--BHH
T ss_pred CCccccCCcCHHHHHHHHHCCCcHHH
Confidence 34556667999999999999999863
No 244
>COG2131 ComEB Deoxycytidylate deaminase [Nucleotide transport and metabolism]
Probab=30.78 E-value=98 Score=23.11 Aligned_cols=39 Identities=21% Similarity=0.160 Sum_probs=28.0
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.++...++||++|++- ..|.-+-..+...+.++++|+++
T Consensus 110 Cak~Ii~aGIk~Vvy~--~~Y~~~~~~~~s~~l~~~agv~~ 148 (164)
T COG2131 110 CAKLIIQAGIKEVVYA--EPYPTETVAPYSQELLEEAGVKV 148 (164)
T ss_pred HHHHHHHhCceEEEee--cCCCcchhhHHHHHHHHhCCceE
Confidence 4566677899999754 46665556667778888888864
No 245
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=30.65 E-value=1.6e+02 Score=22.14 Aligned_cols=42 Identities=10% Similarity=0.027 Sum_probs=29.5
Q ss_pred HHHHHHhhCCCCEEEEecCCCc-------chhhHHHHHHHHHHHcCccc
Q 033657 72 ILGERLLLKDIPAVTVFLKREQ-------RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~-------~yhGrV~a~~~~lre~Gl~~ 113 (114)
...+++.+.|++.+.+...... -..+..+.+.+.+.+.||.+
T Consensus 20 e~~~~~~~~G~~~iEl~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gl~i 68 (284)
T PRK13210 20 ERLVFAKELGFDFVEMSVDESDERLARLDWSKEERLSLVKAIYETGVRI 68 (284)
T ss_pred HHHHHHHHcCCCeEEEecCCcccccccccCCHHHHHHHHHHHHHcCCCc
Confidence 3567788899998877532110 12456899999999999974
No 246
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=30.64 E-value=76 Score=27.50 Aligned_cols=41 Identities=17% Similarity=0.150 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre-~Gl~~~ 114 (114)
..+..|++.+.+.||+.| |-..| +.+..|.+++.+ .||+++
T Consensus 32 ~~a~~l~~~L~~~GV~~v-FgipG-----~~~~~l~dal~~~~~i~~v 73 (612)
T PRK07789 32 TGAQAVVRSLEELGVDVV-FGIPG-----GAILPVYDPLFDSTKVRHV 73 (612)
T ss_pred cHHHHHHHHHHHCCCCEE-EEcCC-----cchHHHHHHHhccCCceEE
Confidence 568999999999999998 44333 457778888854 478764
No 247
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases []. This type of polymerases are thought to be involved in UV protection and mutation [, ]. ; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 2W8K_A 2AGQ_A 1RYR_A 3RAX_A ....
Probab=30.60 E-value=29 Score=18.64 Aligned_cols=16 Identities=31% Similarity=0.237 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHhhCCC
Q 033657 67 SKIGKILGERLLLKDI 82 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI 82 (114)
.=+|+..++++.+.||
T Consensus 17 ~GIG~kt~~kL~~~GI 32 (32)
T PF11798_consen 17 WGIGKKTAKKLNKLGI 32 (32)
T ss_dssp TTS-HHHHHHHHCTT-
T ss_pred CCccHHHHHHHHHccC
Confidence 3478999999988886
No 248
>PRK07523 gluconate 5-dehydrogenase; Provisional
Probab=30.33 E-value=1.5e+02 Score=21.68 Aligned_cols=40 Identities=25% Similarity=0.293 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcC
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAG 110 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~G 110 (114)
+.-+|..+++++.+.|.+-+.++ |+. .+..++.+.+++.|
T Consensus 19 ~g~iG~~ia~~l~~~G~~V~~~~-r~~----~~~~~~~~~i~~~~ 58 (255)
T PRK07523 19 SQGIGYALAEGLAQAGAEVILNG-RDP----AKLAAAAESLKGQG 58 (255)
T ss_pred cchHHHHHHHHHHHcCCEEEEEe-CCH----HHHHHHHHHHHhcC
Confidence 45689999999999997544344 443 23444555555443
No 249
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=30.14 E-value=95 Score=29.73 Aligned_cols=41 Identities=17% Similarity=0.156 Sum_probs=31.1
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.+.++|++.|++.+.+.|++. . .| +..|.+.+++.||+.|
T Consensus 24 ~elv~~A~e~G~~avAITDH~~-~-~g-~~~f~~~a~~~gIkpI 64 (1151)
T PRK06826 24 KDLIKRAKELGMDSIAITDHGV-M-YG-VVDFYKAAKKQGIKPI 64 (1151)
T ss_pred HHHHHHHHHCCCCEEEEecCCc-h-Hh-HHHHHHHHHhCCCEEE
Confidence 3578899999999999987432 2 23 4567889999998864
No 250
>PF03900 Porphobil_deamC: Porphobilinogen deaminase, C-terminal domain; InterPro: IPR022418 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. Porphobilinogen deaminase (also known as hydroxymethylbilane synthase, 2.5.1.61 from EC) functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the polymerisation of four PBG molecules into the tetrapyrrole structure, preuroporphyrinogen, with the concomitant release of four molecules of ammonia. This enzyme uses a unique dipyrro-methane cofactor made from two molecules of PBG, which is covalently attached to a cysteine side chain. The tetrapyrrole product is synthesized in an ordered, sequential fashion, by initial attachment of the first pyrrole unit (ring A) to the cofactor, followed by subsequent additions of the remaining pyrrole units (rings B, C, D) to the growing pyrrole chain []. The link between the pyrrole ring and the cofactor is broken once all the pyrroles have been added. This enzyme is folded into three distinct domains that enclose a single, large active site that makes use of an aspartic acid as its one essential catalytic residue, acting as a general acid/base during catalysis [, ]. A deficiency of hydroxymethylbilane synthase is implicated in the neuropathic disease, Acute Intermittent Porphyria (AIP) []. This entry represents the C-terminal domain of porphobilinogen deaminase, an enzyme involved in tetrapyrrole biosynthesis. The structure of this alpha/beta domain consists of alpha-beta(3)-alpha in two layers []. Porphobilinogen deaminase has a three-domain structure. Domains 1 (N-terminal) and 2 are duplications with the same structure, resembling the transferrins and periplasmic binding proteins. The dipyrromethane cofactor is covalently linked to domain 3 (C-terminal), but is bound by extensive salt-bridges and hydrogen-bonds within the cleft between domains 1 and 2, at a position corresponding to the binding sites for small-molecule ligands in the analogous proteins []. The enzyme has a single catalytic site, and the flexibility between domains is thought to aid elongation of the polypyrrole product in the active-site cleft of the enzyme.; GO: 0033014 tetrapyrrole biosynthetic process; PDB: 3EQ1_B 3ECR_A 1GTK_A 1AH5_A 2YPN_A 1PDA_A 1YPN_A.
Probab=30.12 E-value=15 Score=23.04 Aligned_cols=40 Identities=23% Similarity=0.240 Sum_probs=23.5
Q ss_pred ceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhh
Q 033657 29 YVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLL 79 (114)
Q Consensus 29 hi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e 79 (114)
++.+.+.+..+.+.+..++.. .+.+-+..+|+.+|+.+++
T Consensus 35 ~l~~~v~~~dG~~~~~~~~~~-----------~~~~~a~~lg~~la~~l~~ 74 (74)
T PF03900_consen 35 RLRAMVGSPDGSRIIIRVEIT-----------GPIEDAEELGKKLAEELLA 74 (74)
T ss_dssp EEEEEEE-TTSSSEEEEEEEE-----------E-GGGHCCHHHHHHHHHHH
T ss_pred EEEEEEECCCCCEEEEEEEEE-----------cCHHHHHHHHHHHHHHHhC
Confidence 566777765555423233221 2455688899999998874
No 251
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=30.08 E-value=1.7e+02 Score=21.18 Aligned_cols=47 Identities=19% Similarity=0.209 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 64 AAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 64 ~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
..|..+...+.+.|.+.|.+-+ || +...-......+++.++++|-++
T Consensus 76 ~~a~~~~~~~~~~a~~~~~nii-~E--~tl~~~~~~~~~~~~~k~~GY~v 122 (199)
T PF06414_consen 76 KEASRLAEKLIEYAIENRYNII-FE--GTLSNPSKLRKLIREAKAAGYKV 122 (199)
T ss_dssp HHHHHHHHHHHHHHHHCT--EE-EE----TTSSHHHHHHHHHHHCTT-EE
T ss_pred HHHHHHHHHHHHHHHHcCCCEE-Ee--cCCCChhHHHHHHHHHHcCCceE
Confidence 4566677778888899998665 67 44444456666999999988653
No 252
>cd07940 DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain. 2-isopropylmalate synthase (IPMS) catalyzes an aldol-type condensation of acetyl-CoA and 2-oxoisovalerate yielding 2-isopropylmalate and CoA, the first committed step in leucine biosynthesis. This family includes the Arabidopsis thaliana IPMS1 and IPMS2 proteins, the Glycine max GmN56 protein, and the Brassica insularis BatIMS protein. This family also includes a group of archeal IPMS-like proteins represented by the Methanocaldococcus jannaschii AksA protein. AksA catalyzes the condensation of alpha-ketoglutarate and acetyl-CoA to form trans-homoaconitate, one of 13 steps in the conversion of alpha-ketoglutarate and acetylCoA to alpha-ketosuberate, a precursor to coenzyme B and biotin. AksA also catalyzes the condensation of alpha-ketoadipate or alpha-ketopimelate with acetylCoA to form, respectively, the (R)-homocitrate homologs (R)-2-hydroxy-1,2,5-pentanetricarboxylic acid and (R)-2-h
Probab=30.04 E-value=1.2e+02 Score=23.38 Aligned_cols=68 Identities=10% Similarity=0.050 Sum_probs=36.8
Q ss_pred EEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC-CCcchhhHHHHHHHHHHHcCcc
Q 033657 42 VASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLK-REQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 42 ~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r-~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
+-...+..+.-++..++ .+.+.+......+.+.|++.|+. +.|... .+..--..+..+++.+.+.|.+
T Consensus 90 i~i~~~~s~~~~~~~~~--~~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~~~~~~~~~~~~~~~~~~~G~~ 158 (268)
T cd07940 90 IHTFIATSDIHLKYKLK--KTREEVLERAVEAVEYAKSHGLD-VEFSAEDATRTDLDFLIEVVEAAIEAGAT 158 (268)
T ss_pred EEEEecCCHHHHHHHhC--CCHHHHHHHHHHHHHHHHHcCCe-EEEeeecCCCCCHHHHHHHHHHHHHcCCC
Confidence 33344554444433332 34455555566667788888854 434321 1222345677777777777764
No 253
>TIGR00369 unchar_dom_1 uncharacterized domain 1. Most proteins containing this domain consist almost entirely of a single copy of this domain. A protein from C. elegans consists of two tandem copies of the domain. The domain is also found as the N-terminal region of an apparent initiation factor eIF-2B alpha subunit of Aquifex aeolicus. The function of the domain is unknown.
Probab=29.83 E-value=1.2e+02 Score=19.97 Aligned_cols=21 Identities=0% Similarity=0.129 Sum_probs=13.3
Q ss_pred CceEEEEEeCCCCeEEEEEech
Q 033657 28 KYVSAQVIHSPTATVASSATSQ 49 (114)
Q Consensus 28 khi~Aqvid~~~~~~lasaST~ 49 (114)
-.+.+++.| .+|+.+++++..
T Consensus 94 ~~~~~~i~~-~~g~~va~~~~t 114 (117)
T TIGR00369 94 GVAEIEIVD-EQGRLCALSRGT 114 (117)
T ss_pred EEEEEEEEC-CCCCEEEEEEEE
Confidence 345556655 468888887653
No 254
>COG3894 Uncharacterized metal-binding protein [General function prediction only]
Probab=29.64 E-value=1.3e+02 Score=26.80 Aligned_cols=65 Identities=11% Similarity=0.165 Sum_probs=48.1
Q ss_pred CCcEEEEEEeCCceEEEEEeCCCCeEEEEEechhHhhhcc---------------cCCCCCHHHHHHHHHHHHHHHhhCC
Q 033657 17 KPYVLRMHFTNKYVSAQVIHSPTATVASSATSQEKALRSS---------------IGCTRDVAAASKIGKILGERLLLKD 81 (114)
Q Consensus 17 ~~~RL~V~~Snkhi~Aqvid~~~~~~lasaST~e~~~k~~---------------l~~~~n~~Aa~~vG~~la~R~~e~g 81 (114)
+.|=+-+-.-..-|.||+||=.+|+|++|+.|....+... ...+-...+-.++-.++++-|-|.+
T Consensus 163 ~~YGvAvDlGTS~i~aqlVDL~sgevv~t~~T~n~ql~~Ge~m~sr~~~i~~~~D~a~~l~~~vVe~i~~~id~~~~e~~ 242 (614)
T COG3894 163 EAYGVAVDLGTSGIRAQLVDLKSGEVVATVITSNPQLPGGEVMDSRDFAIMMGPDGAEGLQIAVVEAINQLIDKLCEEGE 242 (614)
T ss_pred eeeeeEEecccceeeeEEEeccCCcEEEeeeccCCCCCCchhhHHHHHHHHhCcchhhhhHHHHHHHHHHHHhhhchhcc
Confidence 3455677777788999999999999999999987766531 1122245666777788888887766
No 255
>cd05800 PGM_like2 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other members of this superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four structural domains (subdomains) with a centrally located active site formed by four loops, one from each subdomain. All four subdomains are included in this alignment model.
Probab=29.60 E-value=2.6e+02 Score=23.16 Aligned_cols=60 Identities=17% Similarity=0.256 Sum_probs=39.9
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhC--CCCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLK--DIPAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~--gI~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
+++..+..-+-+-+..+|..+|.-+++. +-..|++-. ..+++++ -.+++.+|..+|++++
T Consensus 8 iRG~~~~~lt~~~~~~lg~a~~~~l~~~~~~~~~Vvvg~--D~R~ss~~l~~a~~~gL~s~G~~V~ 71 (461)
T cd05800 8 WRGIIAEDFTFENVRRVAQAIADYLKEEGGGGRGVVVGY--DTRFLSEEFARAVAEVLAANGIDVY 71 (461)
T ss_pred ccccccCCccHHHHHHHHHHHHHHHHHhCCCCCeEEEEe--CCCcCcHHHHHHHHHHHHHCCCEEE
Confidence 3444444457788999999999988763 223454431 3344453 6789999999998763
No 256
>cd00946 FBP_aldolase_IIA Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is homodimeric and used in gluconeogenesis and glycolysis. The type A and type B Class II FBPA's differ in the presence and absence of distinct indels in the sequence that result in differing loop lengths in the structures.
Probab=29.58 E-value=2.8e+02 Score=22.94 Aligned_cols=55 Identities=4% Similarity=-0.104 Sum_probs=40.6
Q ss_pred cCCCCC-----HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033657 57 IGCTRD-----VAAASKIGKILGERLLLKDIPAVTVFLKREQRYHG---KVKAVIDSLREAGVK 112 (114)
Q Consensus 57 l~~~~n-----~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhG---rV~a~~~~lre~Gl~ 112 (114)
|-.+.+ .+.+..-+.-...+|++.|++.|=|| .+...|.. ..+.+++-+...|+.
T Consensus 94 LDHg~~~~~~~~~~~~~a~~~~~~~a~~~GftSVMiD-gS~lp~eENI~~TkevVe~Ah~~gvs 156 (345)
T cd00946 94 TDHCAKKLLPWFDGLLEADEEYFKQHGEPLFSSHMLD-LSEEPLEENIEICKKYLERMAKINMW 156 (345)
T ss_pred CCCCCCccchhhHHHHHHHHHHHHHhccCCCceEEee-CCCCCHHHHHHHHHHHHHHHHHcCCE
Confidence 445667 78888888888889999999999888 46666766 345566666666664
No 257
>PRK01060 endonuclease IV; Provisional
Probab=29.35 E-value=1.7e+02 Score=22.10 Aligned_cols=40 Identities=13% Similarity=0.068 Sum_probs=30.3
Q ss_pred HHHHHhhCCCCEEEEecCCCcc------hhhHHHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFLKREQR------YHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~------yhGrV~a~~~~lre~Gl~ 112 (114)
..+.+.+.|++.|.++..+... ..+.+..+.+.+.+.||.
T Consensus 17 ~l~~~~~~G~d~vEl~~~~p~~~~~~~~~~~~~~~lk~~~~~~gl~ 62 (281)
T PRK01060 17 AVAEAAEIGANAFMIFTGNPQQWKRKPLEELNIEAFKAACEKYGIS 62 (281)
T ss_pred HHHHHHHcCCCEEEEECCCCCCCcCCCCCHHHHHHHHHHHHHcCCC
Confidence 4578889999999887543322 344688899999999987
No 258
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=29.05 E-value=99 Score=24.74 Aligned_cols=38 Identities=8% Similarity=0.059 Sum_probs=24.4
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.++|+++|++.+.+-| =+..+.. .|.+.+++.||++|
T Consensus 114 F~~~~~~~GvdGlivpD-LP~ee~~---~~~~~~~~~gi~~I 151 (265)
T COG0159 114 FLRRAKEAGVDGLLVPD-LPPEESD---ELLKAAEKHGIDPI 151 (265)
T ss_pred HHHHHHHcCCCEEEeCC-CChHHHH---HHHHHHHHcCCcEE
Confidence 67888888888876543 2333333 45555668888764
No 259
>PRK13761 hypothetical protein; Provisional
Probab=29.03 E-value=1.4e+02 Score=23.85 Aligned_cols=47 Identities=23% Similarity=0.302 Sum_probs=37.4
Q ss_pred CHHHHHHHHHHHHHHHhhCCCC-EEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033657 62 DVAAASKIGKILGERLLLKDIP-AVTVFLKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~-~v~~d~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
|-..|.++-.-+++-+...|-+ +|-+|. +...|+++.++-++++|.+
T Consensus 75 NGN~AAL~p~eiveLa~~~~A~iEVNLF~----RT~eR~~~I~~~l~~~Ga~ 122 (248)
T PRK13761 75 NGNTAALVPEEIVELAEALNAKLEVNLFY----RTEERVEKIAEVLREHGAK 122 (248)
T ss_pred cchHHhhChHHHHHHHHHhCCCEEEEecc----CCHHHHHHHHHHHHHcCCc
Confidence 3456778888889999988877 666663 4578999999999999975
No 260
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=28.95 E-value=1.9e+02 Score=21.41 Aligned_cols=49 Identities=6% Similarity=0.190 Sum_probs=29.5
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcC-cc
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVTVFLKREQ---RYHGKVKAVIDSLREAG-VK 112 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~G-l~ 112 (114)
.|..+.+..++.|.+++ .|-.++.+- .+.. ....|...|.+++.+.| ++
T Consensus 104 d~~~~g~~~~~~l~~~~--~g~~~i~~l-~g~~~~~~~~~R~~gf~~~~~~~~~~~ 156 (272)
T cd06313 104 DNYFMGASVAQALCNAM--GGKGKIAML-QGALGHTGAQGRAQGFNDVIKKYPDIE 156 (272)
T ss_pred CcHHHHHHHHHHHHHHc--CCCceEEEE-ECCCCCcchhHHHHHHHHHHHhCCCCE
Confidence 34555555555555543 266677654 2321 23458999999999876 54
No 261
>COG1985 RibD Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]
Probab=28.92 E-value=1.5e+02 Score=22.70 Aligned_cols=44 Identities=14% Similarity=0.135 Sum_probs=29.3
Q ss_pred CCCCCCccCCCCCcEEEEEEeCC-ceEEEEEeCCCC-eEEEEEech
Q 033657 6 PVRPPKLSNFLKPYVLRMHFTNK-YVSAQVIHSPTA-TVASSATSQ 49 (114)
Q Consensus 6 ~~~~~~~~~~~~~~RL~V~~Snk-hi~Aqvid~~~~-~~lasaST~ 49 (114)
+||.|.......|.|+.+-.+++ ...+.++++..+ .++..++..
T Consensus 62 tvr~~~~~~~~~P~rVIlD~~~rlp~~~~v~~~~~~~p~~v~~~~~ 107 (218)
T COG1985 62 TVRLPEGGEERNPVRVILDSRLRLPLDSRVFRTGEGAPTIVVTTEP 107 (218)
T ss_pred ccccCCCCccCCCEEEEECCCCcCCchhhhhccCCCCcEEEEecCc
Confidence 77777775556677777777744 478888886654 666555544
No 262
>TIGR01132 pgm phosphoglucomutase, alpha-D-glucose phosphate-specific. This enzyme interconverts alpha-D-glucose-1-P and alpha-D-glucose-6-P.
Probab=28.87 E-value=2e+02 Score=24.77 Aligned_cols=52 Identities=13% Similarity=0.156 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHHHHHHHhhCCC-CEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 61 RDVAAASKIGKILGERLLLKDI-PAVTVFLKREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI-~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
-|.+.+..+|..+|+-+.+.|- ..|++=. ..+..+ --.+++.+|..+|++++
T Consensus 55 lt~~~~~~i~~a~a~~~~~~~~~~~VvVG~--D~R~sS~~~~~a~a~gL~s~Gi~V~ 109 (543)
T TIGR01132 55 FNEPHILAIAQAIAEYRAAQGITGPLYIGK--DTHALSEPAFISVLEVLAANGVEVI 109 (543)
T ss_pred cCHHHHHHHHHHHHHHHHHhCCCCcEEEEe--CCCcCCHHHHHHHHHHHHHCCCEEE
Confidence 4788899999999988876663 2254431 222333 35689999999999763
No 263
>PRK08327 acetolactate synthase catalytic subunit; Validated
Probab=28.81 E-value=82 Score=27.04 Aligned_cols=36 Identities=8% Similarity=0.050 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE 108 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre 108 (114)
...|..|++++++.||+.+ |-..| +.+..|.|++.+
T Consensus 7 ~~~a~~l~~~L~~~GV~~i-FgvpG-----~~~~~l~dal~~ 42 (569)
T PRK08327 7 YTAAELFLELLKELGVDYI-FINSG-----TDYPPIIEAKAR 42 (569)
T ss_pred ccHHHHHHHHHHHCCCCEE-EEcCC-----CCcHHHHHHHHh
Confidence 3578999999999999998 44333 346677887754
No 264
>TIGR00730 conserved hypothetical protein, DprA/Smf-related, family 2. This model represents one branch of a subfamily of proteins of unknown function. Both PSI-BLAST and weak hits by this model show a low level of similarity to and suggest an evolutionary relationship of the subfamily to the DprA/Smf family of DNA-processing proteins involved in chromosomal transformation with foreign DNA. Both Aquifex aeolicus and Mycobacterium leprae have one member in each of two branches of this subfamily, suggesting that the branches may have distinct functions.
Probab=28.77 E-value=1.9e+02 Score=21.37 Aligned_cols=41 Identities=22% Similarity=0.262 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033657 63 VAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 63 ~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
.++|..+|+.||++ |+.=| . || -..|-..|++++++++|=.
T Consensus 18 ~~~A~~lG~~la~~----g~~lV--~--GG-g~~GlM~a~a~ga~~~gG~ 58 (178)
T TIGR00730 18 KELAAELGAYLAGQ----GWGLV--Y--GG-GRVGLMGAIADAAMENGGT 58 (178)
T ss_pred HHHHHHHHHHHHHC----CCEEE--E--CC-ChHhHHHHHHHHHHhcCCe
Confidence 46788888888774 65544 3 33 1378999999999998854
No 265
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=28.60 E-value=1.2e+02 Score=19.56 Aligned_cols=37 Identities=30% Similarity=0.465 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+|+.+++.+++.+++-+.+|. .. ...+.+++.|+.+
T Consensus 8 ~~~~~i~~~L~~~~~~vvvid~-d~--------~~~~~~~~~~~~~ 44 (116)
T PF02254_consen 8 RIGREIAEQLKEGGIDVVVIDR-DP--------ERVEELREEGVEV 44 (116)
T ss_dssp HHHHHHHHHHHHTTSEEEEEES-SH--------HHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHhCCCEEEEEEC-Cc--------HHHHHHHhccccc
Confidence 5899999999997777777774 22 1255556666543
No 266
>TIGR02967 guan_deamin guanine deaminase. This model describes guanine deaminase, which hydrolyzes guanine to xanthine and ammonia. Xanthine can then be converted to urate by xanthine dehydrogenase, and urate subsequently degraded. In some bacteria, the guanine deaminase gene is found near the xdhABC genes for xanthine dehydrogenase. Non-homologous forms of guanine deaminase also exist, as well as distantly related forms outside the scope of this model.
Probab=28.59 E-value=2.1e+02 Score=22.91 Aligned_cols=49 Identities=14% Similarity=0.257 Sum_probs=35.2
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 62 DVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.+..+..++..+..++..|++.+. |. ++.+.+-..++++++.+.|+.+
T Consensus 84 ~~~~~~~~a~~~~~e~l~~GvTtv~-d~--~~~~~~~~~~~~~a~~~~G~R~ 132 (401)
T TIGR02967 84 DPDHAEEVAEFFLDELLRNGTTTAL-VF--ATVHPESVDALFEAALKRGMRM 132 (401)
T ss_pred CHHHHHHHHHHHHHHHHhCCCcEEE-ec--cccCHHHHHHHHHHHHHCCCeE
Confidence 4456677777778899999999984 63 2222234678889999998753
No 267
>cd01303 GDEase Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and therefore can play a role in the regulation of cellular GTP and the guanylate nucleotide pool.
Probab=28.58 E-value=1.9e+02 Score=23.74 Aligned_cols=49 Identities=14% Similarity=0.165 Sum_probs=34.4
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 62 DVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.+.++...+.-+..++..|++.+. |. . ..+.+-..++++++.+.|+..
T Consensus 105 ~~~~~~~~a~~~~~e~l~~GvTtv~-d~-~-~~~~~~~~~~~~a~~~~G~R~ 153 (429)
T cd01303 105 DPAYAREVYGRFLDELLRNGTTTAC-YF-A-TIHPESTEALFEEAAKRGQRA 153 (429)
T ss_pred CHHHHHHHHHHHHHHHHhCCceEEE-ee-c-ccChhHHHHHHHHHHHhCCeE
Confidence 3445555567777888999999984 64 2 223445788999999999753
No 268
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=28.44 E-value=1.7e+02 Score=23.04 Aligned_cols=44 Identities=9% Similarity=0.132 Sum_probs=28.7
Q ss_pred HHHHHHHhhCCCCEE---EEecCC-Ccchhh----HHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAV---TVFLKR-EQRYHG----KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v---~~d~r~-~~~yhG----rV~a~~~~lre~Gl~~~ 114 (114)
...|+++++.|+.-+ .|++|. ++.|.| -.+.+.+.+++.||.|+
T Consensus 44 ~~~A~~lk~~g~~~~r~~~~kpRTs~~s~~G~g~~gl~~l~~~~~~~Gl~~~ 95 (266)
T PRK13398 44 VKVAEKLKELGVHMLRGGAFKPRTSPYSFQGLGEEGLKILKEVGDKYNLPVV 95 (266)
T ss_pred HHHHHHHHHcCCCEEEEeeecCCCCCCccCCcHHHHHHHHHHHHHHcCCCEE
Confidence 345667777887733 344443 255554 57788888899999763
No 269
>TIGR02867 spore_II_P stage II sporulation protein P. Stage II sporulation protein P is a protein of the endospore formation program in a number of lineages in the Firmicutes (low-GC Gram-positive bacteria). It is expressed in the mother cell compartment, under control of Sigma-E. SpoIIP, along with SpoIIM and SpoIID, is one of three major proteins involved in engulfment of the forespore by the mother cell. This protein family is named for the single member in Bacillus subtilis, although most sporulating bacteria have two members.
Probab=28.09 E-value=1.5e+02 Score=22.43 Aligned_cols=24 Identities=25% Similarity=0.227 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHhhCCCCEEEEec
Q 033657 65 AASKIGKILGERLLLKDIPAVTVFL 89 (114)
Q Consensus 65 Aa~~vG~~la~R~~e~gI~~v~~d~ 89 (114)
.-..||..|++.+.+.||.-+ +|.
T Consensus 31 ~V~~VG~~L~~~Le~~Gi~vi-hd~ 54 (196)
T TIGR02867 31 NITKVGDRLAKELEEKGIGVI-HDK 54 (196)
T ss_pred cHHHHHHHHHHHHHHCCCeEE-EeC
Confidence 467899999999999999887 573
No 270
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=28.04 E-value=2e+02 Score=21.09 Aligned_cols=44 Identities=11% Similarity=0.336 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhh---CCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 68 KIGKILGERLLL---KDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e---~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
..|+.+++.+.+ .|.+.+ +.. +.. ...-|.++|.+++.+.|+.+
T Consensus 104 ~~g~~a~~~l~~~~~~g~~~~-~~~-~~~~~~~~~~R~~gf~~~~~~~~~~~ 153 (271)
T cd06314 104 AAGRTAGEIMKKALPGGGKVA-IFV-GSLGADNAKERIQGIKDAIKDSKIEI 153 (271)
T ss_pred HHHHHHHHHHHHHcCCCCEEE-EEe-cCCCCCCHHHHHHHHHHHHhcCCcEE
Confidence 344455555444 255544 432 332 23568999999999999863
No 271
>PF02826 2-Hacid_dh_C: D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; InterPro: IPR006140 A number of NAD-dependent 2-hydroxyacid dehydrogenases which seem to be specific for the D-isomer of their substrate have been shown to be functionally and structurally related. All contain a glycine-rich region located in the central section of these enzymes, this region corresponds to the NAD-binding domain. The catalytic domain is described in IPR006139 from INTERPRO ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0048037 cofactor binding, 0055114 oxidation-reduction process; PDB: 3JTM_A 3NAQ_B 3N7U_J 3KB6_B 3GG9_A 1QP8_B 2CUK_C 2W2L_D 2W2K_A 1WWK_A ....
Probab=28.03 E-value=83 Score=22.65 Aligned_cols=26 Identities=15% Similarity=0.238 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCC
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKRE 92 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~ 92 (114)
.-.+|+.+|++++..|.+-+.+| |..
T Consensus 44 ~G~IG~~vA~~l~~fG~~V~~~d-~~~ 69 (178)
T PF02826_consen 44 YGRIGRAVARRLKAFGMRVIGYD-RSP 69 (178)
T ss_dssp TSHHHHHHHHHHHHTT-EEEEEE-SSC
T ss_pred EcCCcCeEeeeeecCCceeEEec-ccC
Confidence 45799999999999999877777 444
No 272
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=27.98 E-value=1e+02 Score=21.36 Aligned_cols=47 Identities=19% Similarity=0.204 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEe---------cCCCcchhhHHHHHHHHHHHcCcc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVF---------LKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d---------~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
+-.|-..+..+|++.|.+.|.+- ..|.+....||+.+-+.|.+.||+
T Consensus 37 ~Grv~~~~il~Af~~GADGV~V~gC~~g~Ch~~~Gn~~a~~Rv~~~k~~L~~~Gi~ 92 (124)
T PF02662_consen 37 SGRVDPEFILRAFEKGADGVLVAGCHPGDCHYREGNYRAEKRVERLKKLLEELGIE 92 (124)
T ss_pred CCccCHHHHHHHHHcCCCEEEEeCCCCCCCCcchhhHHHHHHHHHHHHHHHHcCCC
Confidence 33455567778888888887651 122344556888888888888875
No 273
>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain. FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox
Probab=27.97 E-value=2.8e+02 Score=21.21 Aligned_cols=69 Identities=19% Similarity=0.098 Sum_probs=42.5
Q ss_pred eEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc-chhhHHHHHHHHHHHcCcc
Q 033657 41 TVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQ-RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 41 ~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~-~yhGrV~a~~~~lre~Gl~ 112 (114)
.+-.+.|+.+..++..++ .+.+.+..--..+++.|++.|+. +.|...... .--..+..+++.+.+.|.+
T Consensus 85 ~i~i~~~~s~~~~~~~~~--~~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~~~~~~~~~~~~~~~~~~~G~~ 154 (259)
T cd07939 85 AVHISIPVSDIHLAHKLG--KDRAWVLDQLRRLVGRAKDRGLF-VSVGAEDASRADPDFLIEFAEVAQEAGAD 154 (259)
T ss_pred EEEEEEecCHHHHHHHhC--CCHHHHHHHHHHHHHHHHHCCCe-EEEeeccCCCCCHHHHHHHHHHHHHCCCC
Confidence 344455666666655443 34555555566678899999974 444322222 2356788888888888865
No 274
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=27.84 E-value=1.1e+02 Score=29.37 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=31.1
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.|.++|++.|...+.+.|++. .+|-|++. +++++.||+.|
T Consensus 24 ~Lv~~A~~~g~~AlaiTD~~n--l~Gav~Fy-~~ak~~gikpI 63 (1139)
T COG0587 24 ELVKKAKELGMPALALTDHNN--LYGAVEFY-KAAKKAGIKPI 63 (1139)
T ss_pred HHHHHHHHcCCCeEEEecCCc--ceeHHHHH-HHHHHcCCeEE
Confidence 378999999999999887653 26667654 48999999754
No 275
>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=27.67 E-value=1.4e+02 Score=25.01 Aligned_cols=44 Identities=7% Similarity=-0.076 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
.-.+|.+-+.+.||+.|.++. ....| .-+-+++.+.+.+.||++
T Consensus 75 ~~~~l~~l~~~~~i~~v~~~~-~~~~~~~~rd~~v~~~l~~~gi~~ 119 (475)
T TIGR02766 75 TVAALLDCVRSTGATRLFFNH-LYDPVSLVRDHRAKEVLTAQGISV 119 (475)
T ss_pred HHHHHHHHHHHcCCCEEEEec-ccCHHHHHHHHHHHHHHHHcCCEE
Confidence 345677778889999998774 33333 336777888889999875
No 276
>PF13840 ACT_7: ACT domain ; PDB: 3S1T_A 1ZHV_A 3AB4_K 3AB2_O 2DTJ_A 3AAW_A 2RE1_B 3MAH_A 1ZVP_D.
Probab=27.65 E-value=63 Score=19.62 Aligned_cols=34 Identities=21% Similarity=0.323 Sum_probs=21.6
Q ss_pred CCCEEEEecCCCcc-hhhHHHHHHHHHHHcCcccC
Q 033657 81 DIPAVTVFLKREQR-YHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 81 gI~~v~~d~r~~~~-yhGrV~a~~~~lre~Gl~~~ 114 (114)
++..+.+.-.+-.. ..|.+..+...|-++||.++
T Consensus 5 ~~~~i~v~g~g~~~~~~Gv~a~i~~~La~~~I~i~ 39 (65)
T PF13840_consen 5 DWAKISVVGPGLRFDVPGVAAKIFSALAEAGINIF 39 (65)
T ss_dssp EEEEEEEEEECGTTTSHHHHHHHHHHHHHTTS-EC
T ss_pred CEEEEEEEccccCCCcccHHHHHHHHHHHCCCCEE
Confidence 34445555322222 58899999999999998763
No 277
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=27.60 E-value=2.8e+02 Score=21.71 Aligned_cols=52 Identities=8% Similarity=0.041 Sum_probs=34.8
Q ss_pred CCHHHHHHHHHHHHHHHhh-CCCCEEEEecCC--Cc-chhhHHHHHHHHHHHcCccc
Q 033657 61 RDVAAASKIGKILGERLLL-KDIPAVTVFLKR--EQ-RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e-~gI~~v~~d~r~--~~-~yhGrV~a~~~~lre~Gl~~ 113 (114)
.|.++++..++.|+++... .|-.++.+- .+ .. ....|...|.+++++.|+++
T Consensus 150 D~~~~g~~aa~~L~~~~~~~~g~~~i~~i-~g~~~~~~~~~R~~Gf~~~l~~~~i~~ 205 (343)
T PRK10936 150 SWYQMGYQAGRYLAQWHPKGSKPLNVALL-PGPEGAGGSKAVEQGFRAAIAGSDVRI 205 (343)
T ss_pred ChHHHHHHHHHHHHHHHHhcCCCceEEEE-ECCCCCchHHHHHHHHHHHHhcCCCEE
Confidence 4567777788887777643 346676554 23 22 22458999999999999863
No 278
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=27.59 E-value=2.4e+02 Score=20.30 Aligned_cols=44 Identities=20% Similarity=0.255 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC-c--ch-hhHHHHHHHHHHHcCc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKRE-Q--RY-HGKVKAVIDSLREAGV 111 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~-~--~y-hGrV~a~~~~lre~Gl 111 (114)
+..|+.+++.+.+.|..++.|- .+. . .. .-|.+.|.+++.+.|+
T Consensus 99 ~~~~~~~~~~l~~~g~~~i~~v-~~~~~~~~~~~~r~~gf~~~~~~~~~ 146 (259)
T cd01542 99 YGAGYELGEYLAQQGHKNIAYL-GVSESDIAVGILRKQGYLDALKEHGI 146 (259)
T ss_pred HHHHHHHHHHHHHcCCCcEEEE-cCCcccchhHHHHHHHHHHHHHHcCC
Confidence 4456666777777888887664 222 1 11 3578999999999887
No 279
>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=27.54 E-value=1.5e+02 Score=23.98 Aligned_cols=49 Identities=8% Similarity=0.074 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHhhCCCCEE-EE-ecCC-Cc-chhhHHHHHHHHHHHcCcccC
Q 033657 66 ASKIGKILGERLLLKDIPAV-TV-FLKR-EQ-RYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v-~~-d~r~-~~-~yhGrV~a~~~~lre~Gl~~~ 114 (114)
...=|+.++..|++.|-+.. ++ |+|- .| ...-|..-+-+++.+.||+|.
T Consensus 115 ~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~Rr~~M~~~C~~lGi~fv 167 (275)
T PF12683_consen 115 EISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARRRDIMEEACKDLGIKFV 167 (275)
T ss_dssp HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHHHHHHHHHHHHCT--EE
T ss_pred hhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHHHHHHHHHHHHcCCeEE
Confidence 45669999999999998843 33 4332 11 123377888889999999883
No 280
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=27.12 E-value=1.7e+02 Score=18.48 Aligned_cols=34 Identities=12% Similarity=0.307 Sum_probs=23.3
Q ss_pred hCCCCEEEEecCCCcch------------hhHHHHHHHHHHHcCccc
Q 033657 79 LKDIPAVTVFLKREQRY------------HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 79 e~gI~~v~~d~r~~~~y------------hGrV~a~~~~lre~Gl~~ 113 (114)
.++|.++.++ +....+ ..-+..+.+.|++.|.++
T Consensus 24 ~anI~~~~y~-~~~~~~~~v~i~ie~~~~~~~~~~i~~~L~~~G~~~ 69 (85)
T cd04906 24 PRNITEFNYR-YADEKDAHIFVGVSVANGAEELAELLEDLKSAGYEV 69 (85)
T ss_pred CCceeEEEEE-ccCCCeeEEEEEEEeCCcHHHHHHHHHHHHHCCCCe
Confidence 6788887766 322111 234889999999999876
No 281
>cd04729 NanE N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of related sugars that are found as a component of glycoproteins, gangliosides, and other sialoglycoconjugates.
Probab=27.12 E-value=1.1e+02 Score=22.65 Aligned_cols=40 Identities=10% Similarity=0.058 Sum_probs=28.9
Q ss_pred HHHHHhhCCCCEEEEecCCCcchh--hHHHHHHHHHHHcC-ccc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYH--GKVKAVIDSLREAG-VKL 113 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yh--GrV~a~~~~lre~G-l~~ 113 (114)
..+.|.+.|.+-+.+|. ....+. ..+..+.+.+++.| +.+
T Consensus 84 ~~~~a~~aGad~I~~~~-~~~~~p~~~~~~~~i~~~~~~g~~~i 126 (219)
T cd04729 84 EVDALAAAGADIIALDA-TDRPRPDGETLAELIKRIHEEYNCLL 126 (219)
T ss_pred HHHHHHHcCCCEEEEeC-CCCCCCCCcCHHHHHHHHHHHhCCeE
Confidence 57899999999887773 222222 27888999999888 544
No 282
>TIGR01858 tag_bisphos_ald class II aldolase, tagatose bisphosphate family. This model describes tagatose-1,6-bisphosphate aldolases, and perhaps other closely related class II aldolases. This tetrameric, Zn2+-dependent enzyme is related to the class II fructose bisphosphate aldolase; fructose 1,6-bisphosphate and tagatose 1,6 bisphosphate differ only in chirality at C4.
Probab=27.04 E-value=1.5e+02 Score=23.63 Aligned_cols=39 Identities=10% Similarity=0.033 Sum_probs=28.9
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHG---KVKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhG---rV~a~~~~lre~Gl~ 112 (114)
..++|++.|++.|=|| -+...|.. ..+.+.+-+...|+.
T Consensus 87 ~i~~ai~~GFtSVM~D-gS~lp~eeNi~~T~~vv~~Ah~~gv~ 128 (282)
T TIGR01858 87 DIRQKVHAGVRSAMID-GSHFPFAQNVKLVKEVVDFCHRQDCS 128 (282)
T ss_pred HHHHHHHcCCCEEeec-CCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 3589999999999888 47777766 345666677777764
No 283
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=27.01 E-value=1.3e+02 Score=28.59 Aligned_cols=41 Identities=22% Similarity=0.274 Sum_probs=30.4
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.+.++|++.|++.+.+.|++. .+| +..|.+.+++.||+.|
T Consensus 24 ~elv~~A~~~G~~avAiTDh~~--l~g-~~~f~~~~~~~gIkpI 64 (1046)
T PRK05672 24 EELVERAARLGLRALAITDECG--LAG-VVRAAEAAKELGLRLV 64 (1046)
T ss_pred HHHHHHHHHcCCCEEEEEeCCc--chh-HHHHHHHHHHCCCEEE
Confidence 4568899999999999987432 233 4556678899998764
No 284
>cd05803 PGM_like4 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this superfamily include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=27.01 E-value=3.1e+02 Score=22.73 Aligned_cols=59 Identities=17% Similarity=0.142 Sum_probs=39.9
Q ss_pred hcccCCCCCHHHHHHHHHHHHHHHhhCC-CCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 54 RSSIGCTRDVAAASKIGKILGERLLLKD-IPAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 54 k~~l~~~~n~~Aa~~vG~~la~R~~e~g-I~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
++..+..-|-+.+..+|..+|.-+.+.+ -..|++=. ..++.++ -.+++.+|..+|++++
T Consensus 8 RG~~~~~lt~~~v~~l~~a~~~~l~~~~~~~~Vvvg~--D~R~~s~~l~~a~~~gL~~~G~~V~ 69 (445)
T cd05803 8 RGIVGEGLTPEVITRYVAAFATWQPERTKGGKIVVGR--DGRPSGPMLEKIVIGALLACGCDVI 69 (445)
T ss_pred eeecCCCCCHHHHHHHHHHHHHHHHhcCCCCeEEEEe--CCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 3333334578899999999999887654 23455431 3344554 5789999999998763
No 285
>cd01292 metallo-dependent_hydrolases Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a conserved metal binding site, involving four histidines and one aspartic acid residue. In the common reaction mechanism, the metal ion (or ions) deprotonate a water molecule for a nucleophilic attack on the substrate. The family includes urease alpha, adenosine deaminase, phosphotriesterase dihydroorotases, allantoinases, hydantoinases, AMP-, adenine and cytosine deaminases, imidazolonepropionase, aryldialkylphosphatase, chlorohydrolases, formylmethanofuran dehydrogenases and others.
Probab=26.68 E-value=2e+02 Score=20.47 Aligned_cols=51 Identities=16% Similarity=0.131 Sum_probs=36.6
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchh----hHHHHHHHHHHHc-Cccc
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYH----GKVKAVIDSLREA-GVKL 113 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yh----GrV~a~~~~lre~-Gl~~ 113 (114)
.+.+..+.......+.+.+.|++.+. +. ...... ..+.++++.+++. |+.+
T Consensus 28 ~~~~~~~~~~~~~~~~~~~~Gvttv~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (275)
T cd01292 28 LSPEDLYEDTLRALEALLAGGVTTVV-DM-GSTPPPTTTKAAIEAVAEAARASAGIRV 83 (275)
T ss_pred cCHHHHHHHHHHHHHHHHhcCceEEE-ee-EeecCccccchHHHHHHHHHHHhcCeee
Confidence 35566777888889999999999985 43 222222 3678888998887 7654
No 286
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=26.59 E-value=1.4e+02 Score=22.76 Aligned_cols=38 Identities=8% Similarity=0.007 Sum_probs=27.4
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
-+.+.|.++|++.+.+-| - .+ .-..-+.+.+++.|++.
T Consensus 95 ~fi~~~~~aG~~giiipD--l-~~-ee~~~~~~~~~~~g~~~ 132 (242)
T cd04724 95 RFLRDAKEAGVDGLIIPD--L-PP-EEAEEFREAAKEYGLDL 132 (242)
T ss_pred HHHHHHHHCCCcEEEECC--C-CH-HHHHHHHHHHHHcCCcE
Confidence 467888899999887743 1 12 35778888889988864
No 287
>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain. FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox
Probab=26.53 E-value=1.5e+02 Score=22.66 Aligned_cols=37 Identities=14% Similarity=-0.087 Sum_probs=30.3
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA 109 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~ 109 (114)
+++++.+.|++.+.+-|.-|..+--.|..+...+++.
T Consensus 144 ~~~~~~~~G~~~i~l~DT~G~~~P~~v~~lv~~l~~~ 180 (259)
T cd07939 144 FAEVAQEAGADRLRFADTVGILDPFTTYELIRRLRAA 180 (259)
T ss_pred HHHHHHHCCCCEEEeCCCCCCCCHHHHHHHHHHHHHh
Confidence 4677788999999887777888888888888888764
No 288
>PF03928 DUF336: Domain of unknown function (DUF336); InterPro: IPR005624 This entry contains uncharacterised proteins, including GlcG P45504 from SWISSPROT. The alignment contains many conserved motifs that are suggestive of cofactor binding and enzymatic activity.; PDB: 2A2L_D 3FPW_A 3FPV_E.
Probab=26.08 E-value=1.4e+02 Score=20.45 Aligned_cols=31 Identities=16% Similarity=0.098 Sum_probs=23.0
Q ss_pred CHHHHHHHHHHHHHHHhhCC--CCEEEEecCCCc
Q 033657 62 DVAAASKIGKILGERLLLKD--IPAVTVFLKREQ 93 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~g--I~~v~~d~r~~~ 93 (114)
|.+.|..++...-+.|.+.| +.-.++|. +|.
T Consensus 4 ~~~~A~~l~~~a~~~a~~~g~~v~iaVvd~-~G~ 36 (132)
T PF03928_consen 4 TLEDAWKLGDAAVEEARERGLPVSIAVVDA-GGH 36 (132)
T ss_dssp -HHHHHHHHHHHHHHHHHTT---EEEEEET-TS-
T ss_pred CHHHHHHHHHHHHHHHHHhCCCeEEEEEEC-CCC
Confidence 56789999999999999999 44556774 553
No 289
>PRK06114 short chain dehydrogenase; Provisional
Probab=25.81 E-value=2e+02 Score=21.12 Aligned_cols=22 Identities=18% Similarity=0.067 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033657 67 SKIGKILGERLLLKDIPAVTVF 88 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d 88 (114)
.-+|..+|+++.+.|.+-+..+
T Consensus 18 ~gIG~~ia~~l~~~G~~v~~~~ 39 (254)
T PRK06114 18 SGIGQRIAIGLAQAGADVALFD 39 (254)
T ss_pred chHHHHHHHHHHHCCCEEEEEe
Confidence 3589999999999998666566
No 290
>PRK12393 amidohydrolase; Provisional
Probab=25.74 E-value=1.9e+02 Score=24.05 Aligned_cols=50 Identities=18% Similarity=0.121 Sum_probs=36.9
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchh-----hHHHHHHHHHHHcCccc
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYH-----GKVKAVIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yh-----GrV~a~~~~lre~Gl~~ 113 (114)
.+.+.++.-.++-+..++..|++.+ +|. .+.|| +-..++++++.+.|+..
T Consensus 99 ~~~~~~~~~a~~~~~e~l~~G~Ttv-~d~--~~~~~~~~~~~~~~~~~~a~~~~G~R~ 153 (457)
T PRK12393 99 FDEDLFRLAARIGLVELLRSGCTTV-ADH--HYLYHPGMPFDTGDILFDEAEALGMRF 153 (457)
T ss_pred CCHHHHHHHHHHHHHHHHhCCccEe-ecc--hhhcccccccchHHHHHHHHHHcCCeE
Confidence 3566677778888889999999998 463 22222 23688999999999864
No 291
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=25.72 E-value=2e+02 Score=21.55 Aligned_cols=47 Identities=11% Similarity=0.060 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHhhC-CC-CEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLK-DI-PAVTVFLKRE---QRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~-gI-~~v~~d~r~~---~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+..|+.+++.+.+. |- .++.+.. +. ..-..|.+.|.+++.+.|+++
T Consensus 130 ~~~~g~~~~~~l~~~~~~~~~i~~~~-~~~~~~~~~~R~~gf~~al~~~g~~~ 181 (295)
T PRK10653 130 NVAGGKMAGDFIAKKLGEGAKVIQLE-GIAGTSAARERGEGFKQAVAAHKFNV 181 (295)
T ss_pred hHHHHHHHHHHHHHHhCCCceEEEEE-ccCCCccHHHHHHHHHHHHhhCCCEE
Confidence 344566666666665 32 2343331 22 122468999999999999853
No 292
>KOG1197 consensus Predicted quinone oxidoreductase [Energy production and conversion; General function prediction only]
Probab=25.67 E-value=43 Score=27.49 Aligned_cols=69 Identities=14% Similarity=0.084 Sum_probs=37.5
Q ss_pred EEEEeCCCCeEEEEEechhHhhhcccCCCC---CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHH
Q 033657 32 AQVIHSPTATVASSATSQEKALRSSIGCTR---DVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAV 102 (114)
Q Consensus 32 Aqvid~~~~~~lasaST~e~~~k~~l~~~~---n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~ 102 (114)
+|+..-.+.+||+++||.||.-....++.. |.+. .-.=..+.+--.-+|++.+ +|.-|+..+.+-..++
T Consensus 164 ~Ql~ra~~a~tI~~asTaeK~~~akenG~~h~I~y~~-eD~v~~V~kiTngKGVd~v-yDsvG~dt~~~sl~~L 235 (336)
T KOG1197|consen 164 CQLLRAVGAHTIATASTAEKHEIAKENGAEHPIDYST-EDYVDEVKKITNGKGVDAV-YDSVGKDTFAKSLAAL 235 (336)
T ss_pred HHHHHhcCcEEEEEeccHHHHHHHHhcCCcceeeccc-hhHHHHHHhccCCCCceee-eccccchhhHHHHHHh
Confidence 344555678999999999986433222111 1110 1111222333335788776 7876676666555443
No 293
>PRK14315 glmM phosphoglucosamine mutase; Provisional
Probab=25.42 E-value=3.6e+02 Score=22.40 Aligned_cols=60 Identities=18% Similarity=0.262 Sum_probs=37.6
Q ss_pred hhcccCCC-CCHHHHHHHHHHHHHHHhhCC-CCEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCT-RDVAAASKIGKILGERLLLKD-IPAVTVFLKREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~-~n~~Aa~~vG~~la~R~~e~g-I~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
+++..+.. -|.+-|..+|..+|.-+.+-+ -..|++-. ..+..+ --.+++.+|..+|++++
T Consensus 11 iRG~~~~~~lt~e~~~~lg~a~g~~l~~~~~~~~VvVg~--D~R~ss~~l~~a~~~gL~s~G~~V~ 74 (448)
T PRK14315 11 IRGRANTFPMTAELALRVGQAAGLYFRRGDHRHRVVIGK--DTRLSGYMIENALVAGFTSVGMDVL 74 (448)
T ss_pred ceecCCCCCCCHHHHHHHHHHHHHhHhhcCCCceEEEEe--CCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 34433333 578899999999999877522 11344431 122333 35677899999999763
No 294
>PRK08452 flagellar protein FlaG; Provisional
Probab=25.36 E-value=1.1e+02 Score=21.69 Aligned_cols=27 Identities=11% Similarity=-0.052 Sum_probs=22.5
Q ss_pred CCcEEEEEEeCCceEEEEEeCCCCeEE
Q 033657 17 KPYVLRMHFTNKYVSAQVIHSPTATVA 43 (114)
Q Consensus 17 ~~~RL~V~~Snkhi~Aqvid~~~~~~l 43 (114)
...+..++..-.-++.+|+|..+|.+|
T Consensus 71 ~~L~F~~de~~~~~vVkVvD~~T~eVI 97 (124)
T PRK08452 71 TNIRFGYNDKIKGLVVSVKEANGGKVI 97 (124)
T ss_pred CceEEEEcCCCCcEEEEEEECCCCcee
Confidence 345677777778899999999999999
No 295
>PRK14320 glmM phosphoglucosamine mutase; Provisional
Probab=25.34 E-value=3.1e+02 Score=22.76 Aligned_cols=52 Identities=27% Similarity=0.371 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHHHHHHhhCCC-CEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 61 RDVAAASKIGKILGERLLLKDI-PAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI-~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
-+-+.|..+|..+|.-+.+.+- ..|++= | ..+..++ -.+++.+|...|++++
T Consensus 19 ltpe~~~~lg~a~g~~l~~~~~~~~VvVg-~-D~R~ss~~l~~a~~~gL~s~G~~V~ 73 (443)
T PRK14320 19 ITVEFTQKLGNAVGSLINQKNYPKFVIVG-Q-DTRSSGGFLKFALVSGLNAAGIDVL 73 (443)
T ss_pred CCHHHHHHHHHHHHHhHhhCCCCCeEEEE-E-CCCcCHHHHHHHHHHHHHHCCCEEE
Confidence 4778999999999998765442 224443 1 2223343 5678999999999863
No 296
>PRK07564 phosphoglucomutase; Validated
Probab=25.24 E-value=3.2e+02 Score=23.50 Aligned_cols=52 Identities=13% Similarity=0.070 Sum_probs=36.3
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCC-EEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 61 RDVAAASKIGKILGERLLLKDIP-AVTVFLKREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~-~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
-|.+.+..+|..+|+-+++.+.. .|++=. ..++.+ --.+++.+|..+|++++
T Consensus 54 lt~~~v~~i~~a~a~~~~~~~~~~~VvVG~--D~R~~S~~~a~a~a~gL~s~Gi~V~ 108 (543)
T PRK07564 54 FNENHILAIFQAICEYRGKQGITGPLFVGG--DTHALSEPAIQSALEVLAANGVGVV 108 (543)
T ss_pred cCHHHHHHHHHHHHHHHHhcCCCCeEEEEe--cCCcCCHHHHHHHHHHHHHCCCEEE
Confidence 47889999999999998765542 244421 223334 36789999999999763
No 297
>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=25.20 E-value=2.5e+02 Score=21.63 Aligned_cols=48 Identities=19% Similarity=0.275 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
....+..+++-+.+.|.+++.+-.....--.+...+|.+.+++.|+++
T Consensus 119 ~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v 166 (350)
T cd06366 119 DSSQNPAIAALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQEAGIEI 166 (350)
T ss_pred hHhHHHHHHHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHHHcCCEE
Confidence 345666667766778888765532112112456789999999999875
No 298
>TIGR02415 23BDH acetoin reductases. One member of this family, as characterized in Klebsiella terrigena, is described as able to interconvert acetoin + NADH with meso-2,3-butanediol + NAD(+). It is also called capable of irreversible reduction of diacetyl with NADH to acetoin. Blomqvist, et al. decline to specify either EC 1.1.1.4 which is (R,R)-butanediol dehydrogenase, or EC 1.1.1.5, which is acetoin dehydrogenase without a specified stereochemistry, for this enzyme. This enzyme is a homotetramer in the family of short chain dehydrogenases (pfam00106). Another member of this family, from Corynebacterium glutamicum, is called L-2,3-butanediol dehydrogenase (PubMed:11577733).
Probab=25.10 E-value=2.3e+02 Score=20.53 Aligned_cols=40 Identities=25% Similarity=0.299 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcC
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAG 110 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~G 110 (114)
+.-+|..+++++.+.|.+-+.++ |+ ..+...+++.+++.|
T Consensus 9 sg~iG~~la~~l~~~G~~v~~~~-r~----~~~~~~~~~~l~~~~ 48 (254)
T TIGR02415 9 AQGIGKGIAERLAKDGFAVAVAD-LN----EETAKETAKEINQAG 48 (254)
T ss_pred CchHHHHHHHHHHHCCCEEEEEe-CC----HHHHHHHHHHHHhcC
Confidence 34688888999888887655555 33 233444444444433
No 299
>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=25.07 E-value=2.8e+02 Score=21.07 Aligned_cols=44 Identities=16% Similarity=0.216 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
.+..+++-+.+.|.+++.+-. ..+.| .+-.++|.+.+.+.|+++
T Consensus 124 ~~~~l~~~~~~~~~~~vail~-~~~~~g~~~~~~~~~~~~~~G~~v 168 (312)
T cd06346 124 QGQALAQLAAERGYKSVATTY-INNDYGVGLADAFTKAFEALGGTV 168 (312)
T ss_pred HHHHHHHHHHHcCCCeEEEEE-ccCchhhHHHHHHHHHHHHcCCEE
Confidence 455566666777888876532 23334 345788899999999875
No 300
>PLN03231 putative alpha-galactosidase; Provisional
Probab=25.07 E-value=1.5e+02 Score=24.66 Aligned_cols=53 Identities=17% Similarity=0.148 Sum_probs=38.6
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCC------------------------------cchhh-----HHHHHHHH
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVTVFLKRE------------------------------QRYHG-----KVKAVIDS 105 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~------------------------------~~yhG-----rV~a~~~~ 105 (114)
-|-+.......++++-+++.|.+-|++|+--- .++-. -+++++|-
T Consensus 15 i~E~~i~~~Ad~v~~gL~~~GY~Yv~iDd~W~~~~~~g~~~~~~~~~~~~~~d~~G~l~pd~~rFPs~~~~~G~k~lADy 94 (357)
T PLN03231 15 ISEEQFLENAKIVSETLKPHGYEYVVIDYLWYRKLKHGWFKTSAKSPGYDLIDKWGRPLPDPKRWPSTTGGKGFAPIAAK 94 (357)
T ss_pred cCHHHHHHHHHHHHcchHHhCCEEEEECCcccccccccccccccccccccccCCCCCcccCcccCCCCccccCcHHHHHH
Confidence 45555666667788999999999999995110 01111 39999999
Q ss_pred HHHcCccc
Q 033657 106 LREAGVKL 113 (114)
Q Consensus 106 lre~Gl~~ 113 (114)
+-+-||+|
T Consensus 95 vHs~GLKf 102 (357)
T PLN03231 95 VHALGLKL 102 (357)
T ss_pred HHhCCcce
Confidence 99999987
No 301
>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=25.05 E-value=1.6e+02 Score=24.17 Aligned_cols=41 Identities=15% Similarity=0.170 Sum_probs=29.6
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhh--HHHHHHHHHHHcCccc
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHG--KVKAVIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~ 113 (114)
.+|.+-|.+.||+.|+++. .+...+ +-..+.+.+.+.|+.+
T Consensus 86 ~vl~~L~~~~~~~~V~~~~--~~~~~~~~rd~~v~~~l~~~~i~~ 128 (429)
T TIGR02765 86 DVLPELIKELGVRTVFLHQ--EVGSEEKSVERLLQQALARLGIHV 128 (429)
T ss_pred HHHHHHHHHhCCCEEEEec--cCCHHHHHHHHHHHHHHHhcCceE
Confidence 3555666778999998873 333334 4888899999999874
No 302
>PLN02808 alpha-galactosidase
Probab=24.98 E-value=1.7e+02 Score=24.53 Aligned_cols=53 Identities=13% Similarity=0.130 Sum_probs=38.1
Q ss_pred CCCHHHHHHHHHHH-HHHHhhCCCCEEEEecCCCc---------------chhhHHHHHHHHHHHcCccc
Q 033657 60 TRDVAAASKIGKIL-GERLLLKDIPAVTVFLKREQ---------------RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 60 ~~n~~Aa~~vG~~l-a~R~~e~gI~~v~~d~r~~~---------------~yhGrV~a~~~~lre~Gl~~ 113 (114)
.-|-+-...+...| +.-+++.|.+-+++|+ +=+ ++-.-+++++|-+.+.||+|
T Consensus 45 ~i~e~~i~~~a~~mv~~Gl~~~Gy~yv~iDd-~W~~~~rd~~G~~~~d~~rFP~G~~~lad~iH~~Glkf 113 (386)
T PLN02808 45 NINETLIKQTADAMVSSGLAALGYKYINLDD-CWAELKRDSQGNLVPKASTFPSGIKALADYVHSKGLKL 113 (386)
T ss_pred CCCHHHHHHHHHHHHHcchHHhCCEEEEEcC-CcCCCCcCCCCCEeeChhhcCccHHHHHHHHHHCCCce
Confidence 34556666666655 4557789999999997 311 22234999999999999987
No 303
>PF04028 DUF374: Domain of unknown function (DUF374); InterPro: IPR007172 This is a bacterial domain of unknown function.
Probab=24.74 E-value=1.7e+02 Score=18.74 Aligned_cols=32 Identities=16% Similarity=0.290 Sum_probs=20.7
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHH
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSL 106 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~l 106 (114)
|+++|+-+...|+.-| ||. ...|-++|+.+.+
T Consensus 22 Ge~ia~~~~~~G~~~i----RGS-s~rgg~~Alr~~~ 53 (74)
T PF04028_consen 22 GELIARVLERFGFRTI----RGS-SSRGGARALREML 53 (74)
T ss_pred HHHHHHHHHHcCCCeE----EeC-CCCcHHHHHHHHH
Confidence 7788888888999887 444 3344455544433
No 304
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=24.74 E-value=2e+02 Score=23.07 Aligned_cols=38 Identities=16% Similarity=0.246 Sum_probs=27.6
Q ss_pred HHHHhhCCCCEEEEecCCCcchhhH---HHHHHHHHHHcCcc
Q 033657 74 GERLLLKDIPAVTVFLKREQRYHGK---VKAVIDSLREAGVK 112 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~yhGr---V~a~~~~lre~Gl~ 112 (114)
.++|++.|++.|=|| .+...|..- .+.+++-+...|+.
T Consensus 93 i~~ai~~GftSVM~D-gS~l~~eeNi~~T~~vve~Ah~~gv~ 133 (286)
T PRK08610 93 CKEAIDAGFTSVMID-ASHSPFEENVATTKKVVEYAHEKGVS 133 (286)
T ss_pred HHHHHHcCCCEEEEe-CCCCCHHHHHHHHHHHHHHHHHcCCE
Confidence 477999999999888 477777764 45566666666664
No 305
>TIGR01455 glmM phosphoglucosamine mutase. This model describes GlmM, phosphoglucosamine mutase, also designated in MrsA and YhbF E. coli, UreC in Helicobacter pylori, and femR315 or FemD in Staphlococcus aureus. It converts glucosamine-6-phosphate to glucosamine-1-phosphate as part of the pathway toward UDP-N-acetylglucosamine for peptidoglycan and lipopolysaccharides.
Probab=24.66 E-value=2.8e+02 Score=22.92 Aligned_cols=52 Identities=25% Similarity=0.245 Sum_probs=35.6
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCC--EEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 61 RDVAAASKIGKILGERLLLKDIP--AVTVFLKREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~--~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
-|-+-+..+|..+|.-+.+.+.. .|++-. ..+..+ --.+++.+|..+|++++
T Consensus 15 ltp~~~~~l~~a~~~~l~~~~~~~~~V~Vg~--D~R~~s~~l~~a~~~gL~s~G~~V~ 70 (443)
T TIGR01455 15 LTAELALLLGAAAGRVLRQGRDTAPRVVIGK--DTRLSGYMLENALAAGLNSAGVDVL 70 (443)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCCCCeEEEEe--CCCcChHHHHHHHHHHHHHCCCeEE
Confidence 47789999999999988765422 344421 122333 36789999999999863
No 306
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=24.57 E-value=1.8e+02 Score=23.23 Aligned_cols=39 Identities=13% Similarity=0.077 Sum_probs=28.5
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHG---KVKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhG---rV~a~~~~lre~Gl~ 112 (114)
..++|++.|++.|=|| -+...|.. ..+.+++-+...|+.
T Consensus 89 ~i~~ai~~GftSVMiD-gS~lp~eeNi~~T~~vv~~Ah~~gvs 130 (284)
T PRK12737 89 DIKKKVRAGIRSVMID-GSHLSFEENIAIVKEVVEFCHRYDAS 130 (284)
T ss_pred HHHHHHHcCCCeEEec-CCCCCHHHHHHHHHHHHHHHHHcCCE
Confidence 4589999999999888 46666766 345666777777764
No 307
>PF07756 DUF1612: Protein of unknown function (DUF1612); InterPro: IPR011670 This family includes sequences of largely unknown function but which share a number of features in common. They are expressed by bacterial species, and in many cases these bacteria are known to associate symbiotically with plants. Moreover, the majority are coded for by plasmids, which in many cases are known to confer on the organism the ability to interact symbiotically with leguminous plants. An example of such a plasmid is NGR234, which encodes Y4CF, a protein of unknown function that is a member of this family []. Other members of this family are expressed by organisms with a documented genomic similarity to plant symbionts [].
Probab=24.56 E-value=52 Score=23.70 Aligned_cols=33 Identities=15% Similarity=0.217 Sum_probs=25.0
Q ss_pred HhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033657 77 LLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA 109 (114)
Q Consensus 77 ~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~ 109 (114)
|+..|.+.+-.+.|.......|+-||++++.++
T Consensus 72 aln~GLk~ip~errr~r~r~tRL~a~l~a~~~a 104 (128)
T PF07756_consen 72 ALNLGLKTIPRERRRHRDRETRLLAFLDAIEAA 104 (128)
T ss_pred HHhcccccCCHHHhcCCcHHHHHHHHHHHHHHH
Confidence 456778888888666666788999999987653
No 308
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=24.54 E-value=1.2e+02 Score=22.11 Aligned_cols=51 Identities=20% Similarity=0.254 Sum_probs=36.2
Q ss_pred CCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033657 59 CTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 59 ~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
+..+-.....+.+.+--+....+-+.+++...|. .+|+.+|.+.|+..||.
T Consensus 93 ~~~~r~~i~~i~~~f~a~ivdv~~~~~~ie~tG~---~~ki~~~~~~l~~~gi~ 143 (157)
T TIGR00119 93 PGEGRDEIIRLTNIFRGRIVDVSPDSYTVEVTGD---SDKIDAFLELLRPFGIK 143 (157)
T ss_pred CccCHHHHHHHHHHhCCEEEEecCCEEEEEEcCC---HHHHHHHHHHhhhcCCE
Confidence 3345666777777775555566666676665333 78999999999999973
No 309
>PF01488 Shikimate_DH: Shikimate / quinate 5-dehydrogenase; InterPro: IPR006151 This entry represents a domain found in shikimate and quinate dehydrogenases, as well as glutamyl-tRNA reductases. Shikimate 5-dehydrogenase (1.1.1.25 from EC) catalyses the conversion of shikimate to 5-dehydroshikimate [, ]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids []. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites, 3-dehydroquinate and dehydroshikimate. Glutamyl-tRNA reductase (1.2.1.70 from EC) catalyzes the first step of tetrapyrrole biosynthesis in plants, archaea and most bacteria. The dimeric enzyme has an unusual V-shaped architecture where each monomer consists of three domains linked by a long 'spinal' alpha-helix. The central catalytic domain specifically recognises the glutamate moiety of the substrate []. ; PDB: 2EV9_B 2CY0_B 1WXD_A 2D5C_A 1NVT_B 2EGG_A 3PWZ_A 3DOO_A 3DON_A 3FBT_C ....
Probab=24.35 E-value=1.9e+02 Score=19.76 Aligned_cols=37 Identities=8% Similarity=0.169 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHH
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLR 107 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lr 107 (114)
--.|+.++..+.+.|++++.+..|. ..|.+.+++.+.
T Consensus 21 Gg~ar~v~~~L~~~g~~~i~i~nRt----~~ra~~l~~~~~ 57 (135)
T PF01488_consen 21 GGAARAVAAALAALGAKEITIVNRT----PERAEALAEEFG 57 (135)
T ss_dssp SHHHHHHHHHHHHTTSSEEEEEESS----HHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHcCCCEEEEEECC----HHHHHHHHHHcC
Confidence 3467778888888999988877553 567888888773
No 310
>cd01305 archeal_chlorohydrolases Predicted chlorohydrolases. These metallo-dependent hydrolases from archea are part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. They have a conserved metal binding site, involving four histidines and one aspartic acid residue. In the common reaction mechanism, the metal ion (or ions) deprotonate a water molecule for a nucleophilic attack on the substrate. Some members of this subgroup are predicted to be chlorohyrolases.
Probab=24.25 E-value=3.1e+02 Score=20.57 Aligned_cols=49 Identities=12% Similarity=0.009 Sum_probs=35.5
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033657 61 RDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
-+-+..+.-.++.+..++..|++.+ +|. . .....-+.++++++++.|+.
T Consensus 45 ~~~~~~~~~a~~~~~e~l~~GtTt~-~d~-~-~~~~~~~~a~~~a~~~~g~r 93 (263)
T cd01305 45 ADDRELAEAMRKVLRDMRETGIGAF-ADF-R-EGGVEGIELLRRALGKLPVP 93 (263)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCeEE-EEc-c-CcchhHHHHHHHHHHhcCCC
Confidence 3556666778888889999999986 564 1 11112478999999999986
No 311
>COG3185 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]
Probab=24.20 E-value=88 Score=26.26 Aligned_cols=39 Identities=33% Similarity=0.477 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.+|+-|++ -.-.||..+.|. .-.|.+-++.||+.|++|+
T Consensus 233 qi~efl~~-y~G~GIQHIA~~-------T~dI~~tv~~lr~rG~~fl 271 (363)
T COG3185 233 QIGEFLRE-YRGEGIQHIAFG-------TDDIYATVAALRERGVKFL 271 (363)
T ss_pred HHHHHHHH-hCCCcceEEEec-------ccHHHHHHHHHHHcCCccC
Confidence 55665543 345789999886 3448889999999999986
No 312
>PRK15493 5-methylthioadenosine/S-adenosylhomocysteine deaminase; Provisional
Probab=24.17 E-value=2.1e+02 Score=23.55 Aligned_cols=49 Identities=6% Similarity=0.027 Sum_probs=34.8
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 62 DVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.+.++....+-+..++..|++.+ +|. .+..+.--.++++++++.||..
T Consensus 98 ~~e~~~~~a~~~~~e~l~~G~Ttv-~d~--~~~~~~~~~~~~~a~~~~GiR~ 146 (435)
T PRK15493 98 TPELAVASTELGLLEMVKSGTTSF-SDM--FNPIGVDQDAIMETVSRSGMRA 146 (435)
T ss_pred CHHHHHHHHHHHHHHHHhCCccEE-Ecc--ccccccCHHHHHHHHHHcCCcE
Confidence 466777788888899999999997 564 1111122357789999999863
No 313
>PF02593 dTMP_synthase: Thymidylate synthase; InterPro: IPR003745 This entry describes proteins of unknown function.
Probab=24.10 E-value=2.3e+02 Score=21.96 Aligned_cols=43 Identities=21% Similarity=0.196 Sum_probs=32.3
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+...|++.|.+.|++.+++-. .... -|-+..|.+.+.+.|+.+
T Consensus 64 l~~~l~~~~~e~g~kavIvp~-~~~~-~g~~~~lk~~~e~~gi~~ 106 (217)
T PF02593_consen 64 LTYELPEIAKEAGVKAVIVPS-ESPK-PGLRRQLKKQLEEFGIEV 106 (217)
T ss_pred hHHHHHHHHHHcCCCEEEEec-CCCc-cchHHHHHHHHHhcCcee
Confidence 345678889999999997653 2222 688889999999999875
No 314
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=24.06 E-value=1.9e+02 Score=23.21 Aligned_cols=40 Identities=15% Similarity=0.070 Sum_probs=28.1
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhH---HHHHHHHHHHcCcc
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGK---VKAVIDSLREAGVK 112 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGr---V~a~~~~lre~Gl~ 112 (114)
-..++|++.|++.|=|| -+...|..- .+.+++-+...|+.
T Consensus 88 e~i~~Ai~~GftSVM~D-gS~l~~eeNi~~T~~vv~~Ah~~gv~ 130 (284)
T PRK09195 88 DDIAQKVRSGVRSVMID-GSHLPFAQNISLVKEVVDFCHRFDVS 130 (284)
T ss_pred HHHHHHHHcCCCEEEeC-CCCCCHHHHHHHHHHHHHHHHHcCCE
Confidence 34778899999999888 466666663 45566666666654
No 315
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=23.88 E-value=2e+02 Score=23.57 Aligned_cols=39 Identities=15% Similarity=0.187 Sum_probs=28.6
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhH---HHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGK---VKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGr---V~a~~~~lre~Gl~ 112 (114)
+.++|++.|++.|-|| -+...|..- .+.+++-+...|+.
T Consensus 100 ~i~~ai~~GftSVMiD-~S~lp~eeNI~~T~evv~~Ah~~Gvs 141 (321)
T PRK07084 100 LCKDCIDSGFSSVMID-GSHLPYEENVALTKKVVEYAHQFDVT 141 (321)
T ss_pred HHHHHHHcCCCEEEee-CCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 5689999999999888 466666663 45566677777764
No 316
>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=23.84 E-value=2e+02 Score=21.73 Aligned_cols=40 Identities=13% Similarity=0.129 Sum_probs=27.4
Q ss_pred HHHHhhCCCCEEEEecCCCc------c-hhhHHHHHHHHHHHcCccc
Q 033657 74 GERLLLKDIPAVTVFLKREQ------R-YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~------~-yhGrV~a~~~~lre~Gl~~ 113 (114)
.+.+.+.|.+.|.++..... . ..+.+..+.+.+++.||++
T Consensus 27 ~~~~~~~G~~~iEl~~~~~~~~~~~~~~~~~~~~~l~~~l~~~gl~i 73 (283)
T PRK13209 27 LAIAKTAGFDFVEMSVDESDERLARLDWSREQRLALVNALVETGFRV 73 (283)
T ss_pred HHHHHHcCCCeEEEecCccccchhccCCCHHHHHHHHHHHHHcCCce
Confidence 44566789998877642211 1 2446888999999999975
No 317
>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=23.82 E-value=1.8e+02 Score=24.54 Aligned_cols=42 Identities=24% Similarity=0.298 Sum_probs=30.1
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
.+|.+-+.+.|++.|+++. ....| ..+-.++.+.+.+.|+.+
T Consensus 80 ~vl~~l~~~~~~~~V~~~~-~~~~~~~~rd~~v~~~l~~~~i~~ 122 (471)
T TIGR03556 80 QLIPQLAQQLGAKAVYWNL-DVEPYGRKRDRAVAAALKEAGIAV 122 (471)
T ss_pred HHHHHHHHHcCCCEEEEec-ccCHHHHHHHHHHHHHHHHCCCEE
Confidence 3566667778999998773 32223 346888899999999875
No 318
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=23.76 E-value=2.4e+02 Score=21.10 Aligned_cols=49 Identities=10% Similarity=-0.004 Sum_probs=30.6
Q ss_pred CHHHHHHHHHHHHHHHh--hCCCCEEEEec-CCC-cchhhHHHHHHHHHHHcC
Q 033657 62 DVAAASKIGKILGERLL--LKDIPAVTVFL-KRE-QRYHGKVKAVIDSLREAG 110 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~--e~gI~~v~~d~-r~~-~~yhGrV~a~~~~lre~G 110 (114)
|.++++..++.|.+++. ..|-.++.+-. ... ..-..|..+|.+++.+.|
T Consensus 103 ~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~l~~~~ 155 (288)
T cd01538 103 NEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFNGAMSVLKPLI 155 (288)
T ss_pred hHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHHHHHHHHHhcc
Confidence 45566666666666654 23666766541 111 223468999999999987
No 319
>PRK08085 gluconate 5-dehydrogenase; Provisional
Probab=23.67 E-value=2.2e+02 Score=20.73 Aligned_cols=37 Identities=16% Similarity=0.152 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE 108 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre 108 (114)
.-+|..+++++.+.|.+-+..+ |+ ..+...+.+.+++
T Consensus 19 ~giG~~ia~~L~~~G~~vvl~~-r~----~~~~~~~~~~l~~ 55 (254)
T PRK08085 19 QGIGFLLATGLAEYGAEIIIND-IT----AERAELAVAKLRQ 55 (254)
T ss_pred ChHHHHHHHHHHHcCCEEEEEc-CC----HHHHHHHHHHHHh
Confidence 4688888888888887555444 43 2344444444443
No 320
>PF12689 Acid_PPase: Acid Phosphatase; InterPro: IPR010036 This entry represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterised as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues [, ].; GO: 0016791 phosphatase activity; PDB: 1U7P_A 1U7O_A 2WM8_A.
Probab=23.42 E-value=1.3e+02 Score=22.27 Aligned_cols=18 Identities=17% Similarity=0.202 Sum_probs=11.9
Q ss_pred hhHHHHHHHHHHHcCccc
Q 033657 96 HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 96 hGrV~a~~~~lre~Gl~~ 113 (114)
+.|+..|-+..++.||.+
T Consensus 107 gsK~~Hf~~i~~~tgI~y 124 (169)
T PF12689_consen 107 GSKTTHFRRIHRKTGIPY 124 (169)
T ss_dssp S-HHHHHHHHHHHH---G
T ss_pred CchHHHHHHHHHhcCCCh
Confidence 568999999999999865
No 321
>PLN02746 hydroxymethylglutaryl-CoA lyase
Probab=23.36 E-value=1.7e+02 Score=24.13 Aligned_cols=71 Identities=20% Similarity=0.081 Sum_probs=41.3
Q ss_pred CeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEE-EEecCCCcch-----hhHHHHHHHHHHHcCcc
Q 033657 40 ATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAV-TVFLKREQRY-----HGKVKAVIDSLREAGVK 112 (114)
Q Consensus 40 ~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v-~~d~r~~~~y-----hGrV~a~~~~lre~Gl~ 112 (114)
+.+-...|+.+.-++..++ .+.+-+...-..+.+.|++.|+.-. .+-.-=+..| -..+..+++.+.+.|.+
T Consensus 136 ~~v~i~~s~Sd~h~~~n~~--~t~~e~l~~~~~~v~~Ak~~Gl~v~~~is~~fg~p~~~r~~~~~l~~~~~~~~~~Gad 212 (347)
T PLN02746 136 KEVAVFASASESFSKSNIN--CSIEESLVRYREVALAAKKHSIPVRGYVSCVVGCPIEGPVPPSKVAYVAKELYDMGCY 212 (347)
T ss_pred CEEEEEEecCHHHHHHHhC--CCHHHHHHHHHHHHHHHHHcCCeEEEEEEeeecCCccCCCCHHHHHHHHHHHHHcCCC
Confidence 3444566666665554433 3456666666677888888887531 1210001122 34588888888888865
No 322
>PRK11024 colicin uptake protein TolR; Provisional
Probab=23.21 E-value=2.7e+02 Score=19.41 Aligned_cols=39 Identities=15% Similarity=0.099 Sum_probs=25.1
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
|.+...+..=..|.+.- .+...+|.+-.++|.++++|+.
T Consensus 94 l~~~~~~~~~~~V~i~a-D~~~~~~~vv~vmd~~k~aG~~ 132 (141)
T PRK11024 94 AKSRFKANPKTVFLIGG-AKDVPYDEIIKALNLLHSAGVK 132 (141)
T ss_pred HHHHHhhCCCceEEEEc-CCCCCHHHHHHHHHHHHHcCCC
Confidence 34433333323344431 3566799999999999999984
No 323
>PRK13813 orotidine 5'-phosphate decarboxylase; Provisional
Probab=23.21 E-value=2.6e+02 Score=20.49 Aligned_cols=42 Identities=19% Similarity=0.250 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.....++.+.+.|.+-+.+....+ ..-++++++.+++.|+.+
T Consensus 68 ~~~~~~~~~~~~gad~vtvh~e~g---~~~l~~~i~~~~~~g~~~ 109 (215)
T PRK13813 68 TNRLICEAVFEAGAWGIIVHGFTG---RDSLKAVVEAAAESGGKV 109 (215)
T ss_pred HHHHHHHHHHhCCCCEEEEcCcCC---HHHHHHHHHHHHhcCCeE
Confidence 345556778888999887764222 235888899999988764
No 324
>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=23.16 E-value=2.6e+02 Score=21.20 Aligned_cols=46 Identities=15% Similarity=0.184 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
..-+..+++.+.+.|.+++.+-- ....| ..+...+.+.+++.|+++
T Consensus 119 ~~~~~~~~~~l~~~~~~~v~~l~-~~~~~g~~~~~~~~~~~~~~G~~v 165 (336)
T cd06360 119 AQWAAPMGKYAADDGYKKVVTVA-WDYAFGYEVVEGFKEAFTEAGGKI 165 (336)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEe-ccchhhHHHHHHHHHHHHHcCCEE
Confidence 34466667777778888876642 33333 345788999999999875
No 325
>TIGR00212 hemC porphobilinogen deaminase. Biosynthesis of cofactors, prosthetic groups, and carriers: Heme and porphyrin
Probab=22.88 E-value=3e+02 Score=22.24 Aligned_cols=41 Identities=20% Similarity=0.227 Sum_probs=27.4
Q ss_pred CceEEEEEeCCCCeEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCC
Q 033657 28 KYVSAQVIHSPTATVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKD 81 (114)
Q Consensus 28 khi~Aqvid~~~~~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~g 81 (114)
-++++.+.++.+.+.+ ..+. .++.+.| .+|..+|+..++.|
T Consensus 252 l~l~~~v~~~dG~~~~-~~~~-----------~g~~~~a-~lG~~la~~l~~~g 292 (292)
T TIGR00212 252 LTLIAMVADLDGKEVI-REEK-----------EGNIEDA-ELGTEVAEELLKRG 292 (292)
T ss_pred EEEEEEEECCCCCEEE-EEEE-----------ecCHHHH-HHHHHHHHHHHhcC
Confidence 4667777776554444 4332 1345667 99999999998876
No 326
>PF00857 Isochorismatase: Isochorismatase family; InterPro: IPR000868 This is a family of hydrolase enzymes. Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate (3.3.2.1 from EC).; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1XN4_A 3KL2_F 1YZV_A 3IRV_A 1IM5_A 1ILW_A 3PL1_A 1NF9_A 1NF8_A 1X9G_A ....
Probab=22.80 E-value=1.4e+02 Score=20.79 Aligned_cols=42 Identities=21% Similarity=0.158 Sum_probs=31.3
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+.-|.+.+++.||+++++- |...+.=|.+-+..+.+.|..+
T Consensus 99 ~~t~L~~~L~~~gi~~vil~---G~~t~~CV~~Ta~~a~~~g~~v 140 (174)
T PF00857_consen 99 FGTDLDEILRKRGIDTVILC---GVATDVCVLATARDAFDRGYRV 140 (174)
T ss_dssp TTSSHHHHHHHTTESEEEEE---EESTTTHHHHHHHHHHHTT-EE
T ss_pred ccccccccccccccceEEEc---ccccCcEEehhHHHHHHCCCEE
Confidence 34457777888999998774 6667777888888888888764
No 327
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=22.71 E-value=3e+02 Score=20.07 Aligned_cols=48 Identities=8% Similarity=0.064 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHc-Ccc
Q 033657 62 DVAAASKIGKILGERLLLKDIPAVTVFLKRE---QRYHGKVKAVIDSLREA-GVK 112 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~---~~yhGrV~a~~~~lre~-Gl~ 112 (114)
+..+++..++.|++++ .|..++.+-. +. .....|.+.|.+++.+. ++.
T Consensus 106 ~~~~g~~~~~~l~~~~--~g~~~i~~i~-~~~~~~~~~~R~~Gf~~~l~~~~~~~ 157 (273)
T cd06309 106 FVEEGRRAADWLAKAT--GGKGNIVELQ-GTVGSSVAIDRKKGFAEVIKKYPNMK 157 (273)
T ss_pred hHHHHHHHHHHHHHHc--CCCceEEEEe-CCCCCchHHHHHHHHHHHHHHCCCCE
Confidence 4445555555554443 3666665542 22 12356899999999987 453
No 328
>PF04298 Zn_peptidase_2: Putative neutral zinc metallopeptidase; InterPro: IPR007395 Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=22.69 E-value=1.5e+02 Score=23.20 Aligned_cols=44 Identities=25% Similarity=0.369 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhh-CCCCEEEEe-----------cC------CCcchhh-HHHHHHHHHHHcC
Q 033657 67 SKIGKILGERLLL-KDIPAVTVF-----------LK------REQRYHG-KVKAVIDSLREAG 110 (114)
Q Consensus 67 ~~vG~~la~R~~e-~gI~~v~~d-----------~r------~~~~yhG-rV~a~~~~lre~G 110 (114)
-.+|..+|++.++ .||+.|.+. ++ +...|+| -+.|++-++-|.|
T Consensus 36 g~TGae~Ar~iL~~~gl~~V~Ve~~~G~LtDHYdP~~k~vrLS~~vy~~~SiaAvaVAAHEvG 98 (222)
T PF04298_consen 36 GMTGAEVARHILDRNGLSDVRVERVPGELTDHYDPRNKVVRLSEDVYNGRSIAAVAVAAHEVG 98 (222)
T ss_pred CCCHHHHHHHHHHHCCCCCeeEEEeCCCCCCCcCCCCCEEEeCCccCCCCCHHHHHHHHHHHh
Confidence 3578888999887 789877553 22 1234666 4899999998887
No 329
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=22.65 E-value=2.3e+02 Score=21.33 Aligned_cols=52 Identities=10% Similarity=0.067 Sum_probs=32.6
Q ss_pred CCHHHHHHHHHHHHHHHhh-CCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033657 61 RDVAAASKIGKILGERLLL-KDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e-~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~~ 113 (114)
.|..+++..++.|++.... .|-.++.+- .+.. .-..|.+.|.+++++.|+.+
T Consensus 103 D~~~~g~~~~~~L~~~~~~~~g~~~I~~i-~g~~~~~~~~~R~~Gf~~al~~~g~~~ 158 (295)
T TIGR02955 103 DWYQMGYQAGEYLAQRHPKGSGPTTLAWL-PGPKNRGGTKPVTQGFRAALEGSDVEI 158 (295)
T ss_pred cHHHHHHHHHHHHHHhcccCCCCeeEEEE-eCCCcCCchhHHHHHHHHHHhcCCcEE
Confidence 3556777777777774322 244456554 2322 23558999999999999753
No 330
>TIGR03855 NAD_NadX aspartate dehydrogenase. Members of this protein family are L-aspartate dehydrogenase, as shown for the NADP-dependent enzyme TM_1643 of Thermotoga maritima. Members lack homology to NadB, the aspartate oxidase (EC 1.4.3.16) of most mesophilic bacteria (described by TIGR00551), which this enzyme replaces in the generation of oxaloacetate from aspartate for the NAD biosynthetic pathway. All members of the seed alignment are found adjacent to other genes of NAD biosynthesis, although other uses of L-aspartate dehydrogenase may occur.
Probab=22.63 E-value=2.3e+02 Score=21.75 Aligned_cols=42 Identities=14% Similarity=0.133 Sum_probs=29.5
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
..++.+++++|.+-++.-. +...-......+.+.+++.|.+|
T Consensus 51 ~e~a~~aL~aGkhVl~~s~-gAlad~e~~~~l~~aA~~~g~~l 92 (229)
T TIGR03855 51 KEYAEKILKNGKDLLIMSV-GALADRELRERLREVARSSGRKV 92 (229)
T ss_pred HHHHHHHHHCCCCEEEECC-cccCCHHHHHHHHHHHHhcCCEE
Confidence 4568888999988776432 33324467788888888888765
No 331
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=22.60 E-value=1.6e+02 Score=20.00 Aligned_cols=36 Identities=14% Similarity=0.053 Sum_probs=12.9
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE 108 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre 108 (114)
+++.|.+.|+.-+.+-..++......|.+|.+.+.+
T Consensus 49 ~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~ 84 (110)
T PF04273_consen 49 EAAAAEALGLQYVHIPVDGGAITEEDVEAFADALES 84 (110)
T ss_dssp HHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHT
T ss_pred HHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHh
Confidence 344444455544433322233334445555444443
No 332
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=22.50 E-value=2.2e+02 Score=23.40 Aligned_cols=40 Identities=20% Similarity=0.251 Sum_probs=31.8
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 72 ILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+.+-+.+.++++|.+.. ....+.++..+++.+++.|+++
T Consensus 179 ~l~~~i~~~~id~ViIa~--p~~~~~~~~~ll~~~~~~gv~V 218 (445)
T TIGR03025 179 DLVELVRAHRVDEVIIAL--PLSEEARILELLLQLRDLGVDV 218 (445)
T ss_pred HHHHHHHhCCCCEEEEec--CcccHHHHHHHHHHHHhcCCEE
Confidence 366777889999998874 4445677899999999999875
No 333
>PRK08217 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=22.40 E-value=2.7e+02 Score=19.98 Aligned_cols=23 Identities=22% Similarity=0.251 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEe
Q 033657 66 ASKIGKILGERLLLKDIPAVTVF 88 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d 88 (114)
+.-+|..+++++.+.|..-+.+|
T Consensus 14 ~g~iG~~~a~~l~~~G~~vi~~~ 36 (253)
T PRK08217 14 AQGLGRAMAEYLAQKGAKLALID 36 (253)
T ss_pred CchHHHHHHHHHHHCCCEEEEEe
Confidence 35688889999988887655455
No 334
>cd05801 PGM_like3 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other members of this superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=22.36 E-value=2.9e+02 Score=23.56 Aligned_cols=51 Identities=12% Similarity=0.079 Sum_probs=34.5
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCE-EEE--ecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 61 RDVAAASKIGKILGERLLLKDIPA-VTV--FLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~gI~~-v~~--d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
-|...+..+|.-+|+.+++.+... |++ |.|. .-.--..+++.+|..+|+++
T Consensus 37 lt~~~v~~i~~a~~~~l~~~~~~~~VvVg~D~R~--~S~~~~~~~~~gL~s~Gi~V 90 (522)
T cd05801 37 FNEAHILAISQAICDYRKSQGITGPLFLGKDTHA--LSEPAFISALEVLAANGVEV 90 (522)
T ss_pred hhHHHHHHHHHHHHHHHHhhCCCCeEEEEeCCCc--CCHHHHHHHHHHHHHCCCEE
Confidence 478899999999999987655423 443 4321 11223556669999999975
No 335
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=22.36 E-value=1.9e+02 Score=17.28 Aligned_cols=38 Identities=16% Similarity=0.258 Sum_probs=27.3
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhh----HHHHHHHHHHH
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHG----KVKAVIDSLRE 108 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhG----rV~a~~~~lre 108 (114)
+.||+-+.+-|...+.|..|.....+| .+.++.+.|.|
T Consensus 27 ~~la~ia~~yg~~~irlT~~Q~l~l~~v~~~~~~~i~~~L~~ 68 (69)
T PF03460_consen 27 RALAEIAEKYGDGEIRLTTRQNLQLRGVPEENLPAIFEELKE 68 (69)
T ss_dssp HHHHHHHHHHSTSEEEEETTSCEEEEEEEGGGHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCeEEECCCCeEEEeCCCHHHHHHHHHHHHc
Confidence 456777778888998888766655554 67777777765
No 336
>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=22.28 E-value=2.1e+02 Score=21.71 Aligned_cols=39 Identities=13% Similarity=0.158 Sum_probs=24.7
Q ss_pred HHHHhhCCCCEEEEecCCCcch------hhHHHHHHHHHHHc-Ccc
Q 033657 74 GERLLLKDIPAVTVFLKREQRY------HGKVKAVIDSLREA-GVK 112 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~y------hGrV~a~~~~lre~-Gl~ 112 (114)
-+.|.+.|++.+.++.+....+ ...++.+.+.+.+. |+.
T Consensus 16 l~~a~~~G~d~vEl~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 61 (279)
T cd00019 16 LKRAKEIGFDTVAMFLGNPRSWLSRPLKKERAEKFKAIAEEGPSIC 61 (279)
T ss_pred HHHHHHcCCCEEEEEcCCCCccCCCCCCHHHHHHHHHHHHHcCCCc
Confidence 3567778887776654333222 26788888888877 554
No 337
>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain. Citramalate synthase (CMS) catalyzes the conversion of pyruvate and acetyl-CoA to (R)-citramalate in the first dedicated step of the citramalate pathway. Citramalate is only found in Leptospira interrogans and a few other microorganisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center con
Probab=22.27 E-value=2e+02 Score=22.61 Aligned_cols=68 Identities=15% Similarity=0.110 Sum_probs=39.7
Q ss_pred EEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC--C-Ccc-hhhHHHHHHHHHHHcCcc
Q 033657 42 VASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLK--R-EQR-YHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 42 ~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r--~-~~~-yhGrV~a~~~~lre~Gl~ 112 (114)
+-...|+.+.-++..++ .+.+-+...-..+.+.|++.|+. +.+..- + +|+ -...+..+++.+.+.|.+
T Consensus 91 i~i~~~~S~~h~~~~~~--~t~~e~l~~~~~~i~~a~~~G~~-v~~~~~d~~~~~r~~~~~~~~~~~~~~~~G~~ 162 (280)
T cd07945 91 LNLLTKGSLKHCTEQLR--KTPEEHFADIREVIEYAIKNGIE-VNIYLEDWSNGMRDSPDYVFQLVDFLSDLPIK 162 (280)
T ss_pred EEEEEeCCHHHHHHHHC--cCHHHHHHHHHHHHHHHHhCCCE-EEEEEEeCCCCCcCCHHHHHHHHHHHHHcCCC
Confidence 44455565555554433 34555555566668888888864 333321 1 222 245778888888888865
No 338
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=22.27 E-value=2e+02 Score=21.33 Aligned_cols=11 Identities=9% Similarity=0.090 Sum_probs=5.0
Q ss_pred HHHHhhCCCCE
Q 033657 74 GERLLLKDIPA 84 (114)
Q Consensus 74 a~R~~e~gI~~ 84 (114)
.+.|.+.|+.-
T Consensus 115 ~~~~~~~g~~~ 125 (235)
T cd00958 115 AAEAHKYGLPL 125 (235)
T ss_pred HHHHHHcCCCE
Confidence 33444455543
No 339
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=22.16 E-value=2.4e+02 Score=22.99 Aligned_cols=39 Identities=15% Similarity=0.216 Sum_probs=28.1
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHG---KVKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhG---rV~a~~~~lre~Gl~ 112 (114)
..++|++.|++.|=|| -+...|.. +.+.+++-+...|+.
T Consensus 89 ~i~~ai~~GftSVM~D-gS~l~~eeNi~~T~~vve~Ah~~gv~ 130 (307)
T PRK05835 89 SCEKAVKAGFTSVMID-ASHHAFEENLELTSKVVKMAHNAGVS 130 (307)
T ss_pred HHHHHHHcCCCEEEEe-CCCCCHHHHHHHHHHHHHHHHHcCCE
Confidence 3567999999999888 46666665 455667777777764
No 340
>cd05799 PGM2 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and deoxyribose-1-phosphate to the corresponding 5-phosphopentoses. PGM2L1 is thought to catalyze the 1,3-bisphosphoglycerate-dependent synthesis of glucose 1,6-bisphosphate and other aldose-bisphosphates that serve as cofactors for several sugar phosphomutases and possibly also as regulators of glycolytic enzymes. PGM2 and PGM2L1 belong to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other members of this superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/ph
Probab=22.15 E-value=4.2e+02 Score=22.17 Aligned_cols=52 Identities=15% Similarity=0.137 Sum_probs=36.9
Q ss_pred CCHHHHHHHHHHHHHHHhhCC----CCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 61 RDVAAASKIGKILGERLLLKD----IPAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~Aa~~vG~~la~R~~e~g----I~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
-|...+..+|..+|.-+++.+ -..|++= ...+++++ ..+++.+|..+|++++
T Consensus 20 l~~~~~~~l~~a~~~~l~~~~~~~~~~~V~Vg--~D~R~~s~~~~~a~~~gL~s~Gi~V~ 77 (487)
T cd05799 20 MNDYTVRQATQGLANYLKKKGPDAKNRGVVIG--YDSRHNSREFAELTAAVLAANGIKVY 77 (487)
T ss_pred ccHHHHHHHHHHHHHHHHHhcccccCCeEEEE--cCCCCChHHHHHHHHHHHHHCCCEEE
Confidence 477889999999999987543 1345443 13344554 6799999999998763
No 341
>cd06312 PBP1_ABC_sugar_binding_like_4 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=22.10 E-value=3.2e+02 Score=19.94 Aligned_cols=45 Identities=27% Similarity=0.345 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHhh-CCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033657 67 SKIGKILGERLLL-KDIPAVTVFLKREQ---RYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e-~gI~~v~~d~r~~~---~yhGrV~a~~~~lre~Gl~ 112 (114)
+..|+.+++.+.+ .|-.++.+-. +.. ...-|...|.+++.+.|+.
T Consensus 109 ~~~g~~~~~~l~~~~g~~~i~~i~-g~~~~~~~~~r~~g~~~~~~~~~~~ 157 (271)
T cd06312 109 YAAGEAAGERLAELKGGKNVLCVI-HEPGNVTLEDRCAGFADGLGGAGIT 157 (271)
T ss_pred HHHHHHHHHHHHHhcCCCeEEEEe-cCCCCccHHHHHHHHHHHHHhcCce
Confidence 3445555555555 7888876652 311 1245899999999988874
No 342
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=22.09 E-value=3e+02 Score=19.56 Aligned_cols=46 Identities=22% Similarity=0.278 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHhhC--CCCEEEEec-CCC-cchhhHHHHHHHHHHHcC-cc
Q 033657 67 SKIGKILGERLLLK--DIPAVTVFL-KRE-QRYHGKVKAVIDSLREAG-VK 112 (114)
Q Consensus 67 ~~vG~~la~R~~e~--gI~~v~~d~-r~~-~~yhGrV~a~~~~lre~G-l~ 112 (114)
+..|+.+++.+.+. |..++.+-. ... .....+...|.+++++.| +.
T Consensus 104 ~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~ 154 (267)
T cd01536 104 YEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRDALKEYPDIE 154 (267)
T ss_pred HHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHHHHHhCCCcE
Confidence 44455556665555 777776532 112 123458899999999984 54
No 343
>PF03659 Glyco_hydro_71: Glycosyl hydrolase family 71 ; InterPro: IPR005197 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is a family of alpha-1,3-glucanases belonging to glycoside hydrolase family 71 (GH71 from CAZY).
Probab=22.08 E-value=1.9e+02 Score=24.07 Aligned_cols=39 Identities=10% Similarity=0.110 Sum_probs=29.4
Q ss_pred HHHhhCCCCEEEEecCCCc-chhhHHHHHHHHHHHcCccc
Q 033657 75 ERLLLKDIPAVTVFLKREQ-RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 75 ~R~~e~gI~~v~~d~r~~~-~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.|+++||+-..++.-... -+-.++..+.+++.+.|.+|
T Consensus 24 ~~A~~~GIDgFaLNig~~d~~~~~~l~~a~~AA~~~gFKl 63 (386)
T PF03659_consen 24 RLAQAAGIDGFALNIGSSDSWQPDQLADAYQAAEAVGFKL 63 (386)
T ss_pred HHHHHcCCCEEEEecccCCcccHHHHHHHHHHHHhcCCEE
Confidence 5678889999999873133 34578999999999888664
No 344
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=21.98 E-value=97 Score=23.96 Aligned_cols=43 Identities=26% Similarity=0.478 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
.-|.-|=.++.+.|+.--+++. .| ||-|....++++.+-++||
T Consensus 61 ~sGlelq~~L~~~~~~~PVIfi-TG---hgDIpmaV~AmK~GAvDFL 103 (202)
T COG4566 61 MSGLELQDRLAERGIRLPVIFL-TG---HGDIPMAVQAMKAGAVDFL 103 (202)
T ss_pred CchHHHHHHHHhcCCCCCEEEE-eC---CCChHHHHHHHHcchhhHH
Confidence 4578888999999999766676 45 8989999999998888886
No 345
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668. This family consists of sequences from fungi, plants, cyanobacteria, gram-positive bacteria and Deinococcus. There is presently no characterization of any sequence in this family.
Probab=21.92 E-value=2.1e+02 Score=20.31 Aligned_cols=35 Identities=26% Similarity=0.304 Sum_probs=21.6
Q ss_pred hhCCCCEEEEecCCCc-------chhhHHHHHHHHHHHcCccc
Q 033657 78 LLKDIPAVTVFLKREQ-------RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 78 ~e~gI~~v~~d~r~~~-------~yhGrV~a~~~~lre~Gl~~ 113 (114)
++.|++-+++|..+-. .|.| +..+++.|++.|+.+
T Consensus 21 ~~~~v~~vv~D~Dgtl~~~~~~~~~pg-v~e~L~~Lk~~g~~l 62 (170)
T TIGR01668 21 KKVGIKGVVLDKDNTLVYPDHNEAYPA-LRDWIEELKAAGRKL 62 (170)
T ss_pred HHCCCCEEEEecCCccccCCCCCcChh-HHHHHHHHHHcCCEE
Confidence 4578888777753322 2232 566778888887654
No 346
>PRK00124 hypothetical protein; Validated
Probab=21.91 E-value=1.5e+02 Score=21.66 Aligned_cols=36 Identities=22% Similarity=0.340 Sum_probs=22.8
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh-H------HHHHHHHHHHcCc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHG-K------VKAVIDSLREAGV 111 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhG-r------V~a~~~~lre~Gl 111 (114)
||.+|+++|..-+ ++ .|+.|.. - ..-+.+.+|++|.
T Consensus 78 LAa~~l~Kga~vl--~p-rG~~yt~~nI~~~L~~R~~~~~lR~~G~ 120 (151)
T PRK00124 78 LAALALEKGAIVL--NP-RGYIYTNDNIDQLLAMRDLMATLRRSGI 120 (151)
T ss_pred HHHHHHHCCCEEE--CC-CCcCCCHHHHHHHHHHHHHHHHHHHcCC
Confidence 6788888887744 54 4555543 2 3445667777764
No 347
>PRK14319 glmM phosphoglucosamine mutase; Provisional
Probab=21.89 E-value=2.9e+02 Score=22.84 Aligned_cols=56 Identities=20% Similarity=0.313 Sum_probs=36.6
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033657 53 LRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHG--KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhG--rV~a~~~~lre~Gl~~~ 114 (114)
+++..+..-+.+.|..+|..+|.-+. ..|++= | ..+..+ --.|++.+|..+|++++
T Consensus 9 IRG~~~~~ltpe~~~~lg~a~g~~~~----~~V~Vg-~-D~R~ss~~l~~a~~~gL~s~G~~V~ 66 (430)
T PRK14319 9 IRGVVNEFLTPEIAFRLGNALGNMVD----KKIFIA-K-DTRASGDMLEAALVAGITSAGADVY 66 (430)
T ss_pred cceecCCCcCHHHHHHHHHHHHhccC----CcEEEE-e-CCCCChHHHHHHHHHHHHHCCCeEE
Confidence 44444444578899999999888764 234332 1 222333 36789999999998763
No 348
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=21.84 E-value=3.1e+02 Score=19.66 Aligned_cols=45 Identities=18% Similarity=0.173 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhC--CCCEEEEec--CCCcchhhHHHHHHHHHHH-cCccc
Q 033657 69 IGKILGERLLLK--DIPAVTVFL--KREQRYHGKVKAVIDSLRE-AGVKL 113 (114)
Q Consensus 69 vG~~la~R~~e~--gI~~v~~d~--r~~~~yhGrV~a~~~~lre-~Gl~~ 113 (114)
.|..+++.+.+. |-.++.+-. .+......|...|.+++++ .|+++
T Consensus 106 ~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~l~~~~~~~~ 155 (268)
T cd06323 106 GGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEVVDKYPGLKV 155 (268)
T ss_pred HHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 344444444444 666665531 1112235688999999999 48764
No 349
>COG1056 NadR Nicotinamide mononucleotide adenylyltransferase [Coenzyme metabolism]
Probab=21.84 E-value=2e+02 Score=21.53 Aligned_cols=39 Identities=26% Similarity=0.393 Sum_probs=29.4
Q ss_pred HHHHHhhCCCCEEEEec---------CCCcchhhHHHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFL---------KREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~---------r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
+.++|++. .+++++=. ++.+.-+.|+..+-+.|+|+|++
T Consensus 22 vi~~al~~-vDeliI~iGSa~~~~t~~nPfTagER~~mi~~~L~~~~~~ 69 (172)
T COG1056 22 VIKRALSK-VDELIIVIGSAQESHTLKNPFTAGERIPMIRDRLREAGLD 69 (172)
T ss_pred HHHHHHHh-CCEEEEEEccCcccccccCCCCccchhHHHHHHHHhcCCC
Confidence 45677777 78876643 23456788999999999999986
No 350
>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain. 4-hydroxy 2-ketovalerate aldolase (Also known as 4-hydroxy-2-ketovalerate aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA)) converts 4-hydroxy-2-oxopentanoate to acetaldehyde and pyruvate, the penultimate step in the meta-cleavage pathway for the degradation of phenols, cresols and catechol. This family includes the Escherichia coli MhpE aldolase, the Pseudomonas DmpG aldolase, and the Burkholderia xenovorans BphI pyruvate aldolase. In Pseudomonas, the DmpG aldolase tightly associates with a dehydrogenase (DmpF ) and is inactive without it. HOA has a canonical TIM-barrel fold with a C-terminal extension that forms a funnel leading to the active site. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate
Probab=21.81 E-value=2.1e+02 Score=21.90 Aligned_cols=16 Identities=6% Similarity=0.133 Sum_probs=7.8
Q ss_pred hHHHHHHHHHHHcCcc
Q 033657 97 GKVKAVIDSLREAGVK 112 (114)
Q Consensus 97 GrV~a~~~~lre~Gl~ 112 (114)
..+..+++.+.+.|.+
T Consensus 141 ~~~~~~~~~~~~~G~d 156 (263)
T cd07943 141 EELAEQAKLMESYGAD 156 (263)
T ss_pred HHHHHHHHHHHHcCCC
Confidence 3444555555555543
No 351
>PF03447 NAD_binding_3: Homoserine dehydrogenase, NAD binding domain; InterPro: IPR005106 Bacteria, plants and fungi metabolise aspartic acid to produce four amino acids - lysine, threonine, methionine and isoleucine - in a series of reactions known as the aspartate pathway. Additionally, several important metabolic intermediates are produced by these reactions, such as diaminopimelic acid, an essential component of bacterial cell wall biosynthesis, and dipicolinic acid, which is involved in sporulation in Gram-positive bacteria. Members of the animal kingdom do not posses this pathway and must therefore acquire these essential amino acids through their diet. Research into improving the metabolic flux through this pathway has the potential to increase the yield of the essential amino acids in important crops, thus improving their nutritional value. Additionally, since the enzymes are not present in animals, inhibitors of them are promising targets for the development of novel antibiotics and herbicides. For more information see []. Homoserine dehydrogenase (1.1.1.3 from EC) catalyses the third step in the aspartate pathway; theNAD(P)-dependent reduction of aspartate beta-semialdehyde into homoserine [, ]. Homoserine is an intermediate in the biosynthesis of threonine, isoleucine, and methionine. The enzyme can be found in a monofunctional form, in some bacteria and yeast, or a bifunctional form consisting of an N-terminal aspartokinase domain and a C-terminal homoserine dehydrogenase domain, as found in bacteria such as Escherichia coli and in plants. Structural analysis of the yeast monofunctional enzyme (P31116 from SWISSPROT) indicates that the enzyme is a dimer composed of three distinct regions; an N-terminal nucleotide-binding domain, a short central dimerisation region, and a C-terminal catalytic domain []. The N-terminal domain forms a modified Rossman fold, while the catalytic domain forms a novel alpha-beta mixed sheet. This entry represents the NAD(P)-binding domain of aspartate and homoserine dehydrogenase. Asparate dehydrogenase (1.4.1.21 from EC) is strictly specific for L-aspartate as substrate and catalyses the first step in NAD biosynthesis from aspartate. The enzyme has a higher affinity for NAD+ than NADP+ []. Note that the C terminus of the protein contributes a helix to this domain that is not covered by this model.; GO: 0016491 oxidoreductase activity, 0050661 NADP binding, 0055114 oxidation-reduction process; PDB: 3ING_A 3MTJ_A 3DO5_A 3JSA_A 3C8M_A 1J5P_A 1H2H_A 2EJW_E 1TVE_A 1EBU_D ....
Probab=21.79 E-value=79 Score=20.87 Aligned_cols=42 Identities=19% Similarity=0.169 Sum_probs=28.6
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.-...++++.|++=|... .+...-...-..+.+.++++|..|
T Consensus 73 ~~~~~~~L~~G~~VVt~n-k~ala~~~~~~~L~~~A~~~g~~~ 114 (117)
T PF03447_consen 73 AEYYEKALERGKHVVTAN-KGALADEALYEELREAARKNGVRI 114 (117)
T ss_dssp HHHHHHHHHTTCEEEES--HHHHHSHHHHHHHHHHHHHHT-EE
T ss_pred HHHHHHHHHCCCeEEEEC-HHHhhhHHHHHHHHHHHHHcCCEE
Confidence 357889999999988754 233322245677888899998776
No 352
>TIGR03845 sulfopyru_alph sulfopyruvate decarboxylase, alpha subunit. This model represents the alpha subunit, or the N-terminal region, of sulfopyruvate decarboxylase, an enzyme of coenzyme M biosynthesis. Coenzyme M is found almost exclusively in the methanogenic archaea. However, the enzyme also occurs in Roseovarius nubinhibens ISM in a degradative pathway, where the resulting sulfoacetaldehyde is desulfonated to acetyl phosphate, then converted to acetyl-CoA (see PubMed:19581363).
Probab=21.75 E-value=1.8e+02 Score=20.87 Aligned_cols=37 Identities=11% Similarity=0.101 Sum_probs=25.3
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~~ 114 (114)
+.+++.+++.||+.+ |-.. .+-+..|.+++. .++.++
T Consensus 2 ~~~v~~L~~~Gv~~v-fGvP-----g~~~~~l~dal~-~~i~~i 38 (157)
T TIGR03845 2 EAVYNILKDAGIDLV-ASVP-----CDNLKNLLPLIE-KDFRHI 38 (157)
T ss_pred hHHHHHHHHCCCeEE-EecC-----cHhHHHHHHHHH-hCCcEE
Confidence 357889999999998 4432 344677888884 346653
No 353
>PRK08868 flagellar protein FlaG; Provisional
Probab=21.69 E-value=1.4e+02 Score=21.81 Aligned_cols=28 Identities=11% Similarity=0.075 Sum_probs=23.9
Q ss_pred CCCcEEEEEEeCCceEEEEEeCCCCeEE
Q 033657 16 LKPYVLRMHFTNKYVSAQVIHSPTATVA 43 (114)
Q Consensus 16 ~~~~RL~V~~Snkhi~Aqvid~~~~~~l 43 (114)
.+..+..|+....-++++|+|..+|.+|
T Consensus 88 n~~L~F~vdeetgr~VVkViD~~T~EVI 115 (144)
T PRK08868 88 NKGLSFRVDEESGRDVVTIYEASTGDII 115 (144)
T ss_pred cCceEEEEecCCCCEEEEEEECCCCcee
Confidence 4456778888888999999999999998
No 354
>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain. This family of bacterial enzymes is sequence-similar to 4-hydroxy-2-oxovalerate aldolase (HOA) but its exact function is unknown. This family includes the Bacteroides vulgatus Bvu_2661 protein and belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues t
Probab=21.68 E-value=2.3e+02 Score=22.02 Aligned_cols=36 Identities=19% Similarity=0.101 Sum_probs=23.4
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLRE 108 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre 108 (114)
+++++.+.|++.+.+-|..|...--.+..+...+++
T Consensus 143 ~~~~~~~~g~~~i~l~DT~G~~~P~~v~~lv~~l~~ 178 (266)
T cd07944 143 LLELVNEIKPDVFYIVDSFGSMYPEDIKRIISLLRS 178 (266)
T ss_pred HHHHHHhCCCCEEEEecCCCCCCHHHHHHHHHHHHH
Confidence 456666677777766656666666666666666654
No 355
>COG1052 LdhA Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]
Probab=21.67 E-value=1.4e+02 Score=24.16 Aligned_cols=23 Identities=17% Similarity=0.150 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEec
Q 033657 67 SKIGKILGERLLLKDIPAVTVFL 89 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~ 89 (114)
-.+|+.+|+|++..|.+-+.+|+
T Consensus 155 GrIG~avA~r~~~Fgm~v~y~~~ 177 (324)
T COG1052 155 GRIGQAVARRLKGFGMKVLYYDR 177 (324)
T ss_pred CHHHHHHHHHHhcCCCEEEEECC
Confidence 46999999999999998888884
No 356
>PRK13396 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=21.67 E-value=1.6e+02 Score=24.40 Aligned_cols=44 Identities=7% Similarity=0.103 Sum_probs=30.2
Q ss_pred HHHHHHHhhCCCCE---EEEecCC-Ccchhh----HHHHHHHHHHHcCcccC
Q 033657 71 KILGERLLLKDIPA---VTVFLKR-EQRYHG----KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~R~~e~gI~~---v~~d~r~-~~~yhG----rV~a~~~~lre~Gl~~~ 114 (114)
...|+++++.|++- -.|++|. .|.|.| -++.+.+...+.||.|+
T Consensus 118 l~~A~~lk~~g~~~~r~g~~kpRtsp~sf~G~g~~gl~~L~~~~~e~Gl~~~ 169 (352)
T PRK13396 118 VETAKRVKAAGAKFLRGGAYKPRTSPYAFQGHGESALELLAAAREATGLGII 169 (352)
T ss_pred HHHHHHHHHcCCCEEEeeeecCCCCCcccCCchHHHHHHHHHHHHHcCCcEE
Confidence 34567777778763 3466653 455655 58888888999999864
No 357
>PLN02419 methylmalonate-semialdehyde dehydrogenase [acylating]
Probab=21.61 E-value=63 Score=28.59 Aligned_cols=27 Identities=26% Similarity=0.247 Sum_probs=23.7
Q ss_pred CCCCCCCCCccCCCCCcEEEEEEeCCc
Q 033657 3 IPPPVRPPKLSNFLKPYVLRMHFTNKY 29 (114)
Q Consensus 3 ~~~~~~~~~~~~~~~~~RL~V~~Snkh 29 (114)
.||+-|||-+.-....||++++-|-|.
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 44 (604)
T PLN02419 18 YPPTWRNPTTSFAPDQHRVSIHSSLKS 44 (604)
T ss_pred CCCcccCCccccCCccceeeeehhhhh
Confidence 599999999999999999999987653
No 358
>PF03446 NAD_binding_2: NAD binding domain of 6-phosphogluconate dehydrogenase; InterPro: IPR006115 6-Phosphogluconate dehydrogenase (1.1.1.44 from EC) (6PGD) is an oxidative carboxylase that catalyses the decarboxylating reduction of 6-phosphogluconate into ribulose 5-phosphate in the presence of NADP. This reaction is a component of the hexose mono-phosphate shunt and pentose phosphate pathways (PPP) [, ]. Prokaryotic and eukaryotic 6PGD are proteins of about 470 amino acids whose sequence are highly conserved []. The protein is a homodimer in which the monomers act independently []: each contains a large, mainly alpha-helical domain and a smaller beta-alpha-beta domain, containing a mixed parallel and anti-parallel 6-stranded beta sheet []. NADP is bound in a cleft in the small domain, the substrate binding in an adjacent pocket []. This family represents the NADP binding domain of 6-phosphogluconate dehydrogenase which adopts a Rossman fold. The C-terminal domain is described in IPR006114 from INTERPRO.; GO: 0004616 phosphogluconate dehydrogenase (decarboxylating) activity, 0006098 pentose-phosphate shunt, 0055114 oxidation-reduction process; PDB: 3AX6_D 3PDU_G 3Q3C_A 3OBB_A 4DLL_B 1PGP_A 1PGN_A 2PGD_A 1PGQ_A 1PGO_A ....
Probab=21.57 E-value=1.9e+02 Score=20.29 Aligned_cols=23 Identities=9% Similarity=0.138 Sum_probs=19.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKR 91 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~ 91 (114)
+.|.-+|+++.++|.+=.+|| |.
T Consensus 11 ~mG~~~a~~L~~~g~~v~~~d-~~ 33 (163)
T PF03446_consen 11 NMGSAMARNLAKAGYEVTVYD-RS 33 (163)
T ss_dssp HHHHHHHHHHHHTTTEEEEEE-SS
T ss_pred HHHHHHHHHHHhcCCeEEeec-cc
Confidence 579999999999999877777 44
No 359
>smart00822 PKS_KR This enzymatic domain is part of bacterial polyketide synthases and catalyses the first step in the reductive modification of the beta-carbonyl centres in the growing polyketide chain. It uses NADPH to reduce the keto group to a hydroxy group.
Probab=21.56 E-value=2.5e+02 Score=18.41 Aligned_cols=24 Identities=13% Similarity=0.184 Sum_probs=15.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCC
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKR 91 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~ 91 (114)
-+|.-+++.+.+.|...+.+..|+
T Consensus 11 ~iG~~~~~~l~~~g~~~v~~~~r~ 34 (180)
T smart00822 11 GLGLELARWLAERGARHLVLLSRS 34 (180)
T ss_pred hHHHHHHHHHHHhhCCeEEEEeCC
Confidence 577788888877777655444343
No 360
>PF07485 DUF1529: Domain of Unknown Function (DUF1259); InterPro: IPR011094 This family is the lppY/lpqO homologue family. They are related to 'probable conserved lipoproteins' LppY and LpqO from Mycobacterium bovis.
Probab=21.52 E-value=70 Score=22.60 Aligned_cols=19 Identities=32% Similarity=0.658 Sum_probs=15.9
Q ss_pred hhhHHHHHHHHHHHcCccc
Q 033657 95 YHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 95 yhGrV~a~~~~lre~Gl~~ 113 (114)
...-|..|.++||++||++
T Consensus 66 l~~EV~pvi~aL~~~GI~v 84 (123)
T PF07485_consen 66 LEDEVNPVISALRKNGIEV 84 (123)
T ss_pred cHHHHHHHHHHHHHCCceE
Confidence 3456999999999999975
No 361
>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional
Probab=21.49 E-value=2e+02 Score=22.78 Aligned_cols=70 Identities=16% Similarity=0.023 Sum_probs=37.8
Q ss_pred EEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEE-----EEec-CCCcchhhHHHHHHHHHHHcCccc
Q 033657 42 VASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAV-----TVFL-KREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 42 ~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v-----~~d~-r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+-...|+.+.-.+..++ .+.+.+...-+...+.|++.|+.-. .|.. -.+..--..+..+++.+.+.|.+-
T Consensus 96 v~i~~~~s~~~~~~n~~--~~~~e~l~~~~~~v~~ak~~g~~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~G~d~ 171 (287)
T PRK05692 96 VAVFASASEAFSQKNIN--CSIAESLERFEPVAEAAKQAGVRVRGYVSCVLGCPYEGEVPPEAVADVAERLFALGCYE 171 (287)
T ss_pred EEEEEecCHHHHHHHhC--CCHHHHHHHHHHHHHHHHHcCCEEEEEEEEEecCCCCCCCCHHHHHHHHHHHHHcCCcE
Confidence 33455555543333222 3455556666777888888887521 1210 011112346777788888887653
No 362
>COG2108 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]
Probab=21.35 E-value=1.5e+02 Score=24.76 Aligned_cols=43 Identities=7% Similarity=0.036 Sum_probs=26.4
Q ss_pred HHHHHHHHhhCCCCEEEEec-CCCcchhhHHHHHHHHHHHcCcc
Q 033657 70 GKILGERLLLKDIPAVTVFL-KREQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~-r~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
.+-..+++-++|++++.|.+ +-+.+++.+..-.+.-+++.|++
T Consensus 123 ~~e~l~~L~eAGLDEIRfHp~~~~~~~~e~~i~~l~~A~~~g~d 166 (353)
T COG2108 123 TEEALKALAEAGLDEIRFHPPRPGSKSSEKYIENLKIAKKYGMD 166 (353)
T ss_pred CHHHHHHHHhCCCCeEEecCCCccccccHHHHHHHHHHHHhCcc
Confidence 33445666789999999885 12445555555555555555554
No 363
>COG1893 ApbA Ketopantoate reductase [Coenzyme metabolism]
Probab=21.29 E-value=1.6e+02 Score=23.44 Aligned_cols=38 Identities=29% Similarity=0.652 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
|-.+|-++|-++.++| ..|.+.-|+ +. ++++++.||.+
T Consensus 8 aGAvG~l~g~~L~~~g-~~V~~~~R~--------~~-~~~l~~~GL~i 45 (307)
T COG1893 8 AGAIGSLLGARLAKAG-HDVTLLVRS--------RR-LEALKKKGLRI 45 (307)
T ss_pred CcHHHHHHHHHHHhCC-CeEEEEecH--------HH-HHHHHhCCeEE
Confidence 4578999999999999 888887542 22 67777778764
No 364
>PRK09701 D-allose transporter subunit; Provisional
Probab=21.21 E-value=3.4e+02 Score=20.74 Aligned_cols=48 Identities=17% Similarity=0.305 Sum_probs=27.7
Q ss_pred CHHHHHHHHHHHHHHHhhCCC--CEEEEecCC--C-cchhhHHHHHHHHHHHcC-ccc
Q 033657 62 DVAAASKIGKILGERLLLKDI--PAVTVFLKR--E-QRYHGKVKAVIDSLREAG-VKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI--~~v~~d~r~--~-~~yhGrV~a~~~~lre~G-l~~ 113 (114)
|..+++..++.|.++. |. .++.+- .+ + ....-|...|.+++.++| +.+
T Consensus 137 ~~~~g~~aa~~L~~~~---g~~~~~i~~l-~g~~~~~~~~~R~~Gf~~al~~~~~~~~ 190 (311)
T PRK09701 137 NVAVGAKGASFIIDKL---GAEGGEVAII-EGKAGNASGEARRNGATEAFKKASQIKL 190 (311)
T ss_pred hHHHHHHHHHHHHHHh---CCCCCEEEEE-ECCCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 4445555555544443 43 455443 12 1 223568999999999988 653
No 365
>PRK07709 fructose-bisphosphate aldolase; Provisional
Probab=21.13 E-value=2.6e+02 Score=22.37 Aligned_cols=38 Identities=11% Similarity=0.162 Sum_probs=27.6
Q ss_pred HHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033657 74 GERLLLKDIPAVTVFLKREQRYHG---KVKAVIDSLREAGVK 112 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~yhG---rV~a~~~~lre~Gl~ 112 (114)
..+|++.|++.|=|| -+...|.. ..+.+++-+...|+.
T Consensus 93 i~~ai~~GftSVM~D-gS~lp~eeNi~~Trevv~~Ah~~gv~ 133 (285)
T PRK07709 93 CKEAIDAGFTSVMID-ASHHPFEENVETTKKVVEYAHARNVS 133 (285)
T ss_pred HHHHHHcCCCEEEEe-CCCCCHHHHHHHHHHHHHHHHHcCCE
Confidence 448899999999888 46666766 455666777777764
No 366
>PRK14317 glmM phosphoglucosamine mutase; Provisional
Probab=21.00 E-value=4.3e+02 Score=22.10 Aligned_cols=53 Identities=19% Similarity=0.174 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHHHHHHhhC--CCCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033657 60 TRDVAAASKIGKILGERLLLK--DIPAVTVFLKREQRYHGK--VKAVIDSLREAGVKLL 114 (114)
Q Consensus 60 ~~n~~Aa~~vG~~la~R~~e~--gI~~v~~d~r~~~~yhGr--V~a~~~~lre~Gl~~~ 114 (114)
.-+-+-|..+|..+|+-.++. +-..|++= | ..+..++ -.+++.+|..+|++++
T Consensus 31 ~ltpe~a~~lg~a~g~~l~~~~~~~~~VvVG-~-D~R~ss~~l~~a~~~gL~s~Gv~V~ 87 (465)
T PRK14317 31 LLTAPLALQVGFWAGQVLRQTAPGEGPVLIG-Q-DSRNSSDMLAMALAAGLTAAGREVW 87 (465)
T ss_pred ccCHHHHHHHHHHHHHHHHhccCCCCcEEEE-E-CCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 346788999999888877542 22335443 1 2233443 4689999999998763
No 367
>TIGR01949 AroFGH_arch predicted phospho-2-dehydro-3-deoxyheptonate aldolase. Together these two genes appear to perform the synthesis of 3-dehydroquinate. It is presumed that the substrates and the chemical transformations involved are identical, but this has not yet been proven experimentally.
Probab=20.86 E-value=1.5e+02 Score=22.74 Aligned_cols=19 Identities=11% Similarity=-0.008 Sum_probs=11.5
Q ss_pred HHHHHHHHHHhhCCCCEEE
Q 033657 68 KIGKILGERLLLKDIPAVT 86 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~ 86 (114)
...+.+.+.|.+.|+.-++
T Consensus 123 ~~~~~i~~~~~~~g~~liv 141 (258)
T TIGR01949 123 RDLGMIAEICDDWGVPLLA 141 (258)
T ss_pred HHHHHHHHHHHHcCCCEEE
Confidence 4455566677777766443
No 368
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=20.82 E-value=2.6e+02 Score=18.39 Aligned_cols=45 Identities=16% Similarity=0.021 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 66 ASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+...-...++.+++.|.+ +++|. ..........+.+.+++.|..+
T Consensus 55 ~~~~~~~~~~~~l~~g~~-~vvd~--~~~~~~~r~~~~~~~~~~~~~~ 99 (143)
T PF13671_consen 55 AYQILNAAIRKALRNGNS-VVVDN--TNLSREERARLRELARKHGYPV 99 (143)
T ss_dssp HHHHHHHHHHHHHHTT-E-EEEES--S--SHHHHHHHHHHHHHCTEEE
T ss_pred HHHHHHHHHHHHHHcCCC-ceecc--CcCCHHHHHHHHHHHHHcCCeE
Confidence 333444456777789988 55784 3333455688889999888653
No 369
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=20.73 E-value=2.6e+02 Score=25.75 Aligned_cols=44 Identities=14% Similarity=0.092 Sum_probs=32.1
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchh-hHHHHHHHHHHHcCcccC
Q 033657 69 IGKILGERLLLKDIPAVTVFLKREQRYH-GKVKAVIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~R~~e~gI~~v~~d~r~~~~yh-GrV~a~~~~lre~Gl~~~ 114 (114)
+++++-..+++.||+.|.+. ||--|. =-.+.+++.+.+.|.+|+
T Consensus 681 ~~e~~~~~a~~~gi~~V~ls--GGVf~N~~l~~~~~~~l~~~~f~~~ 725 (750)
T COG0068 681 FAELAVELAKKYGINKVVLS--GGVFQNRLLLERLAKYLKKEGFRFL 725 (750)
T ss_pred HHHHHHHHHHhcCccEEEee--CCeeecHHHHHHHHHHHHhcCceEe
Confidence 44455667778999999875 554333 347889999999998875
No 370
>PF07488 Glyco_hydro_67M: Glycosyl hydrolase family 67 middle domain; InterPro: IPR011100 Alpha-glucuronidases, components of an ensemble of enzymes central to the recycling of photosynthetic biomass, remove the alpha-1,2 linked 4-O-methyl glucuronic acid from xylans. This family represents the central catalytic domain of alpha-glucuronidase [].; GO: 0046559 alpha-glucuronidase activity, 0045493 xylan catabolic process, 0005576 extracellular region; PDB: 1MQP_A 1K9E_A 1MQQ_A 1L8N_A 1K9D_A 1MQR_A 1K9F_A 1GQL_A 1GQI_B 1GQJ_B ....
Probab=20.72 E-value=1.9e+02 Score=24.03 Aligned_cols=48 Identities=23% Similarity=0.326 Sum_probs=29.1
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCC------CcchhhHHHHHHHHHHHcCccc
Q 033657 62 DVAAASKIGKILGERLLLKDIPAVTVFLKR------EQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 62 n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~------~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.+....-++++| ..||..++++.-+ ...|-.+|+++++.+|.-||++
T Consensus 55 ~~~R~~~YARllA----SiGINgvvlNNVNa~~~~Lt~~~l~~v~~lAdvfRpYGIkv 108 (328)
T PF07488_consen 55 DLTRYRDYARLLA----SIGINGVVLNNVNANPKLLTPEYLDKVARLADVFRPYGIKV 108 (328)
T ss_dssp --HHHHHHHHHHH----HTT--EEE-S-SS--CGGGSTTTHHHHHHHHHHHHHTT-EE
T ss_pred chhHHHHHHHHHh----hcCCceEEecccccChhhcCHHHHHHHHHHHHHHhhcCCEE
Confidence 4455555555444 4799999886422 2246779999999999999975
No 371
>TIGR01830 3oxo_ACP_reduc 3-oxoacyl-(acyl-carrier-protein) reductase. This model represents 3-oxoacyl-[ACP] reductase, also called 3-ketoacyl-acyl carrier protein reductase, an enzyme of fatty acid biosynthesis.
Probab=20.54 E-value=3.1e+02 Score=19.40 Aligned_cols=40 Identities=15% Similarity=0.382 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAG 110 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~G 110 (114)
--+|..+++++.+.|..-+.++ |+. ......+.+.+.+.|
T Consensus 8 g~iG~~la~~l~~~G~~v~~~~-r~~---~~~~~~~~~~~~~~~ 47 (239)
T TIGR01830 8 RGIGRAIALKLAKEGAKVIITY-RSS---EEGAEEVVEELKAYG 47 (239)
T ss_pred cHHHHHHHHHHHHCCCEEEEEe-CCc---hhHHHHHHHHHHhcC
Confidence 3578999999999897655555 433 123444444444444
No 372
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=20.51 E-value=1.5e+02 Score=21.79 Aligned_cols=23 Identities=30% Similarity=0.221 Sum_probs=16.5
Q ss_pred HHHHHHHh-hCCCCEEEEecCCCc
Q 033657 71 KILGERLL-LKDIPAVTVFLKREQ 93 (114)
Q Consensus 71 ~~la~R~~-e~gI~~v~~d~r~~~ 93 (114)
..|.+++. ..|+.-++||+.|.|
T Consensus 41 ~~ll~~l~~~~~~~~ii~D~~GEY 64 (229)
T PF01935_consen 41 KVLLEELLKKKGAKVIIFDPHGEY 64 (229)
T ss_pred HHHHHHHHhcCCCCEEEEcCCCcc
Confidence 34455555 889999999986654
No 373
>PRK12595 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed
Probab=20.48 E-value=1.3e+02 Score=24.75 Aligned_cols=43 Identities=14% Similarity=0.250 Sum_probs=28.5
Q ss_pred HHHHHHhhCCCCEE---EEecCC-Ccchhh----HHHHHHHHHHHcCcccC
Q 033657 72 ILGERLLLKDIPAV---TVFLKR-EQRYHG----KVKAVIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~R~~e~gI~~v---~~d~r~-~~~yhG----rV~a~~~~lre~Gl~~~ 114 (114)
-.|+++++.|+.-+ .|++|. .|.|.| -.+.+.+..++.||.|+
T Consensus 136 ~~A~~lk~~g~~~~r~~~~kpRtsp~~f~g~~~e~l~~L~~~~~~~Gl~~~ 186 (360)
T PRK12595 136 AVAKALKAKGLKLLRGGAFKPRTSPYDFQGLGVEGLKILKQVADEYGLAVI 186 (360)
T ss_pred HHHHHHHHcCCcEEEccccCCCCCCccccCCCHHHHHHHHHHHHHcCCCEE
Confidence 34777788887633 455442 233444 57788999999999874
No 374
>TIGR00542 hxl6Piso_put hexulose-6-phosphate isomerase, putative. This family is conserved at better than 40 % identity among the four known examples from three species: Escherichia coli (SgbU and SgaU), Haemophilus influenzae, and Mycoplasma pneumoniae. The rarity of the family, high level of conservation, and proposed catabolic role suggests lateral transfer may be a part of the evolutionary history of this protein.
Probab=20.48 E-value=2.4e+02 Score=21.46 Aligned_cols=39 Identities=13% Similarity=0.175 Sum_probs=28.3
Q ss_pred HHHhhCCCCEEEEecCCCc-------chhhHHHHHHHHHHHcCccc
Q 033657 75 ERLLLKDIPAVTVFLKREQ-------RYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 75 ~R~~e~gI~~v~~d~r~~~-------~yhGrV~a~~~~lre~Gl~~ 113 (114)
+.+.+.|++.|.+...... ...+.++.+.+.+.+.||++
T Consensus 23 ~~~~~~G~~~VEl~~~~~~~~~~~~~~~~~~~~~~~~~l~~~gl~i 68 (279)
T TIGR00542 23 QLAKTCGFDFVEMSVDETDDRLSRLDWSREQRLALVNAIIETGVRI 68 (279)
T ss_pred HHHHHcCCCEEEEecCCccchhhccCCCHHHHHHHHHHHHHcCCCc
Confidence 5566889998877642211 12567899999999999975
No 375
>PRK07791 short chain dehydrogenase; Provisional
Probab=20.48 E-value=2.7e+02 Score=21.15 Aligned_cols=22 Identities=14% Similarity=0.048 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033657 67 SKIGKILGERLLLKDIPAVTVF 88 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d 88 (114)
.-+|..+|+++.+.|..-+.++
T Consensus 16 ~GIG~aia~~la~~G~~vii~~ 37 (286)
T PRK07791 16 GGIGRAHALAFAAEGARVVVND 37 (286)
T ss_pred chHHHHHHHHHHHCCCEEEEee
Confidence 4688889999988887766555
No 376
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=20.38 E-value=3.1e+02 Score=21.98 Aligned_cols=45 Identities=9% Similarity=0.083 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 68 KIGKILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
..+..+++-+...|.+++.+-. ...-| .+-.++|.+.+++.|+++
T Consensus 162 ~~~~al~~~l~~~~~k~vaii~-~~~~~g~~~~~~~~~~l~~~gi~i 207 (410)
T cd06363 162 DQIEAMVQLLQEFGWNWVAFLG-SDDEYGRDGLQLFSELIANTGICI 207 (410)
T ss_pred HHHHHHHHHHHHCCCcEEEEEE-eCChhHHHHHHHHHHHHHHCCeEE
Confidence 4455555555667888765542 23333 455789999999999865
No 377
>cd00947 TBP_aldolase_IIB Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1,6-bisphosphate. There is an absolute requirement for a divalent metal ion, usually zinc, and in addition the enzymes are activated by monovalent cations such as Na+. The type A and type B Class II FBPA's differ in the presence and absence of distinct indels in the sequence that result in differing loop lengths in the structures.
Probab=20.35 E-value=2.4e+02 Score=22.49 Aligned_cols=39 Identities=21% Similarity=0.262 Sum_probs=27.4
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHG---KVKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhG---rV~a~~~~lre~Gl~ 112 (114)
...+|++.|++.|=|| .+...+.. ..+.+++-++..|+.
T Consensus 84 ~i~~ai~~GftSVMiD-~S~l~~eeNi~~t~~vv~~ah~~gv~ 125 (276)
T cd00947 84 LIKRAIRAGFSSVMID-GSHLPFEENVAKTKEVVELAHAYGVS 125 (276)
T ss_pred HHHHHHHhCCCEEEeC-CCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 3457888999999887 46666666 445666677777764
No 378
>PRK12743 oxidoreductase; Provisional
Probab=20.35 E-value=3.3e+02 Score=19.97 Aligned_cols=23 Identities=22% Similarity=0.144 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEe
Q 033657 66 ASKIGKILGERLLLKDIPAVTVF 88 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d 88 (114)
+.-+|..+++++.+.|.+-+.++
T Consensus 11 s~giG~~~a~~l~~~G~~V~~~~ 33 (256)
T PRK12743 11 DSGIGKACALLLAQQGFDIGITW 33 (256)
T ss_pred CchHHHHHHHHHHHCCCEEEEEe
Confidence 34588888888888887655444
No 379
>PRK12548 shikimate 5-dehydrogenase; Provisional
Probab=20.29 E-value=3.3e+02 Score=21.28 Aligned_cols=42 Identities=7% Similarity=0.248 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREA 109 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~ 109 (114)
--.|+-++..+.+.|++++.+..|+. .+..+.+.+++.+.+.
T Consensus 135 GGagrAia~~La~~G~~~V~I~~R~~-~~~~~a~~l~~~l~~~ 176 (289)
T PRK12548 135 GGAATAIQVQCALDGAKEITIFNIKD-DFYERAEQTAEKIKQE 176 (289)
T ss_pred cHHHHHHHHHHHHCCCCEEEEEeCCc-hHHHHHHHHHHHHhhc
Confidence 35667788888889999876655543 1234566777666543
No 380
>cd06341 PBP1_ABC_ligand_binding_like_7 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=20.29 E-value=2.9e+02 Score=21.10 Aligned_cols=44 Identities=14% Similarity=0.055 Sum_probs=29.1
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033657 70 GKILGERLLLKDIPAVTVFLKREQRY-HGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~R~~e~gI~~v~~d~r~~~~y-hGrV~a~~~~lre~Gl~~ 113 (114)
+..+++-+++.|.+++.+-......| ..+.++|.+++.+.|+++
T Consensus 120 ~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~~~~~G~~v 164 (341)
T cd06341 120 LTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARSLAAAGVSV 164 (341)
T ss_pred hHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHHHHHcCCcc
Confidence 44556666777877765432122223 568999999999999875
No 381
>PRK06124 gluconate 5-dehydrogenase; Provisional
Probab=20.26 E-value=2.9e+02 Score=20.09 Aligned_cols=23 Identities=13% Similarity=-0.022 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEe
Q 033657 66 ASKIGKILGERLLLKDIPAVTVF 88 (114)
Q Consensus 66 a~~vG~~la~R~~e~gI~~v~~d 88 (114)
+.-+|+.+++++.+.|..-+.++
T Consensus 20 s~~IG~~la~~l~~~G~~v~~~~ 42 (256)
T PRK06124 20 ARGLGFEIARALAGAGAHVLVNG 42 (256)
T ss_pred CchHHHHHHHHHHHcCCeEEEEe
Confidence 34577888888877787544444
No 382
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=20.17 E-value=2.7e+02 Score=22.22 Aligned_cols=39 Identities=13% Similarity=0.123 Sum_probs=27.4
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033657 73 LGERLLLKDIPAVTVFLKREQRYHG---KVKAVIDSLREAGVK 112 (114)
Q Consensus 73 la~R~~e~gI~~v~~d~r~~~~yhG---rV~a~~~~lre~Gl~ 112 (114)
...+|++.|.+.|=|| .+...|.. +.+.+++-+...|+.
T Consensus 89 ~i~~ai~~GftSVM~D-gS~lp~eeNi~~T~~vv~~Ah~~gvs 130 (284)
T PRK12857 89 QVMKCIRNGFTSVMID-GSKLPLEENIALTKKVVEIAHAVGVS 130 (284)
T ss_pred HHHHHHHcCCCeEEEe-CCCCCHHHHHHHHHHHHHHHHHcCCE
Confidence 4678899999999888 46666766 345566666666654
No 383
>TIGR03128 RuMP_HxlA 3-hexulose-6-phosphate synthase. 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. In these species, the enzyme is viewed as a lyase rather than a synthase and is called D-arabino 3-hexulose 6-phosphate formaldehyde lyase. Note that there is some overlap in specificity with the Escherichia coli enzyme 3-keto-L-gulonate 6-phosphate decarboxylase.
Probab=20.16 E-value=2.9e+02 Score=19.93 Aligned_cols=40 Identities=15% Similarity=0.204 Sum_probs=27.7
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 71 KILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
..-++.+.+.|.+.+.+.- . .-...+..+.+.+++.|+.+
T Consensus 66 ~~~~~~~~~~Gad~i~vh~--~-~~~~~~~~~i~~~~~~g~~~ 105 (206)
T TIGR03128 66 EYEAEQAFAAGADIVTVLG--V-ADDATIKGAVKAAKKHGKEV 105 (206)
T ss_pred HHHHHHHHHcCCCEEEEec--c-CCHHHHHHHHHHHHHcCCEE
Confidence 3457888889988887652 1 11235788888888888865
No 384
>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members. are a sub-families of this Pfam.; InterPro: IPR000891 Pyruvate carboxylase (6.4.1.1 from EC) (PC), a member of the biotin-dependent enzyme family, is involved in the gluconeogenesis by mediating the carboxylation of pyruvate to oxaloacetate. Biotin-dependent carboxylase enzymes perform a two step reaction. Enzyme-bound biotin is first carboxylated by bicarbonate and ATP and the carboxyl group temporarily bound to biotin is subsequently transferred to an acceptor substrate such as pyruvate []. PC has three functional domains: a biotin carboxylase (BC) domain, a carboxyltransferase (CT) domain which perform the second part of the reaction and a biotinyl domain [, ]. The mechanism by which the carboxyl group is transferred from the carboxybiotin to the pyruvate is not well understood. The pyruvate carboxyltransferase domain is also found in other pyruvate binding enzymes and acetyl-CoA dependent enzymes suggesting that this domain can be associated with different enzymatic activities. This domain is found towards the N-terminal region of various aldolase enzymes. This N-terminal TIM barrel domain [] interacts with the C-terminal domain. The C-terminal DmpG_comm domain (IPR012425 from INTERPRO) is thought to promote heterodimerisation with members of IPR003361 from INTERPRO to form a bifunctional aldolase-dehydrogenase []. ; GO: 0003824 catalytic activity; PDB: 3MP5_E 3MP3_E 2CW6_E 3MP4_D 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1YDN_B 3RMJ_A ....
Probab=20.16 E-value=3.7e+02 Score=19.86 Aligned_cols=71 Identities=8% Similarity=0.010 Sum_probs=41.4
Q ss_pred eEEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033657 41 TVASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAGVKL 113 (114)
Q Consensus 41 ~~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~Gl~~ 113 (114)
.+-...+..+.-++..+. .+.+.+......+.+.+++.|++-............+.+..+++.+.+.|.+.
T Consensus 83 ~i~i~~~~s~~~~~~~~~--~~~~~~~~~~~~~v~~ak~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 153 (237)
T PF00682_consen 83 IIRIFISVSDLHIRKNLN--KSREEALERIEEAVKYAKELGYEVAFGCEDASRTDPEELLELAEALAEAGADI 153 (237)
T ss_dssp EEEEEEETSHHHHHHHTC--SHHHHHHHHHHHHHHHHHHTTSEEEEEETTTGGSSHHHHHHHHHHHHHHT-SE
T ss_pred EEEecCcccHHHHHHhhc--CCHHHHHHHHHHHHHHHHhcCCceEeCccccccccHHHHHHHHHHHHHcCCeE
Confidence 333455555544444332 35566666667778888888877532222223334567888888888877653
No 385
>PRK06801 hypothetical protein; Provisional
Probab=20.12 E-value=2.6e+02 Score=22.35 Aligned_cols=38 Identities=18% Similarity=0.197 Sum_probs=25.6
Q ss_pred HHHHhhCCCCEEEEecCCCcchhhH---HHHHHHHHHHcCcc
Q 033657 74 GERLLLKDIPAVTVFLKREQRYHGK---VKAVIDSLREAGVK 112 (114)
Q Consensus 74 a~R~~e~gI~~v~~d~r~~~~yhGr---V~a~~~~lre~Gl~ 112 (114)
.++|++.|++.|-|| -+...+..- .+.+.+-++..|+.
T Consensus 90 i~~Ai~~GftSVm~D-~S~l~~eeNi~~t~~v~~~a~~~gv~ 130 (286)
T PRK06801 90 VVRALRLGFSSVMFD-GSTLEYEENVRQTREVVKMCHAVGVS 130 (286)
T ss_pred HHHHHHhCCcEEEEc-CCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 668888999999887 355555543 44455556666764
No 386
>TIGR02286 PaaD phenylacetic acid degradation protein PaaD. Sequences scoring between trusted and noise include those from archaea and other species not known to catabolize phenylacetic acid and which are not adjacent to other genes potentially involved with such a pathway.
Probab=20.12 E-value=2.5e+02 Score=18.29 Aligned_cols=21 Identities=5% Similarity=0.077 Sum_probs=14.2
Q ss_pred eCCceEEEEEeCCCCeEEEEEe
Q 033657 26 TNKYVSAQVIHSPTATVASSAT 47 (114)
Q Consensus 26 Snkhi~Aqvid~~~~~~lasaS 47 (114)
+...+.+++.| .+|+.+|.++
T Consensus 88 ~~~~~~~~i~~-~~~~~va~~~ 108 (114)
T TIGR02286 88 RTGTYDVEVVN-QEGELVALFR 108 (114)
T ss_pred cEEEEEEEEEc-CCCCEEEEEE
Confidence 34467778777 6678876654
No 387
>PRK08278 short chain dehydrogenase; Provisional
Probab=20.07 E-value=3e+02 Score=20.63 Aligned_cols=43 Identities=19% Similarity=0.264 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQR---YHGKVKAVIDSLREAG 110 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~---yhGrV~a~~~~lre~G 110 (114)
.-+|..+|+.+.+.|.+-+.++ |.... -.+++..+++.+++.|
T Consensus 16 ~gIG~~ia~~l~~~G~~V~~~~-r~~~~~~~~~~~l~~~~~~~~~~~ 61 (273)
T PRK08278 16 RGIGLAIALRAARDGANIVIAA-KTAEPHPKLPGTIHTAAEEIEAAG 61 (273)
T ss_pred chHHHHHHHHHHHCCCEEEEEe-cccccccchhhHHHHHHHHHHhcC
Confidence 4678888888888887655555 44321 1223445555555444
No 388
>PRK07792 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=20.07 E-value=2.7e+02 Score=21.44 Aligned_cols=40 Identities=20% Similarity=0.174 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcC
Q 033657 67 SKIGKILGERLLLKDIPAVTVFLKREQRYHGKVKAVIDSLREAG 110 (114)
Q Consensus 67 ~~vG~~la~R~~e~gI~~v~~d~r~~~~yhGrV~a~~~~lre~G 110 (114)
.-+|+.+|+++.+.|..-+..| ++. ......+++.+++.|
T Consensus 22 ~gIG~~ia~~L~~~Ga~Vv~~~-~~~---~~~~~~~~~~i~~~g 61 (306)
T PRK07792 22 AGLGRAEALGLARLGATVVVND-VAS---ALDASDVLDEIRAAG 61 (306)
T ss_pred ChHHHHHHHHHHHCCCEEEEec-CCc---hhHHHHHHHHHHhcC
Confidence 4678888888888887655444 332 234455555555433
No 389
>PRK11858 aksA trans-homoaconitate synthase; Reviewed
Probab=20.05 E-value=2.4e+02 Score=23.16 Aligned_cols=68 Identities=9% Similarity=-0.024 Sum_probs=37.2
Q ss_pred EEEEEechhHhhhcccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC-CCcchhhHHHHHHHHHHHcCcc
Q 033657 42 VASSATSQEKALRSSIGCTRDVAAASKIGKILGERLLLKDIPAVTVFLK-REQRYHGKVKAVIDSLREAGVK 112 (114)
Q Consensus 42 ~lasaST~e~~~k~~l~~~~n~~Aa~~vG~~la~R~~e~gI~~v~~d~r-~~~~yhGrV~a~~~~lre~Gl~ 112 (114)
+-.+.++.+.-++..++ .+.+.+...-....+.|++.|+. |.|... .+..-...+..+++.+.+.|..
T Consensus 92 i~i~~~~Sd~h~~~~~~--~s~~~~l~~~~~~v~~a~~~G~~-v~~~~ed~~r~~~~~l~~~~~~~~~~Ga~ 160 (378)
T PRK11858 92 VHIFIATSDIHIKHKLK--KTREEVLERMVEAVEYAKDHGLY-VSFSAEDASRTDLDFLIEFAKAAEEAGAD 160 (378)
T ss_pred EEEEEcCCHHHHHHHhC--CCHHHHHHHHHHHHHHHHHCCCe-EEEEeccCCCCCHHHHHHHHHHHHhCCCC
Confidence 33455555554444332 34555555556666777777764 333311 2222345677777777777754
Done!