Query 033650
Match_columns 114
No_of_seqs 120 out of 1080
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 04:42:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033650.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033650hhsearch_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 4.3E-42 9.3E-47 238.9 13.0 104 9-113 6-109 (109)
2 PRK05593 rplR 50S ribosomal pr 100.0 4.9E-40 1.1E-44 231.0 12.2 101 11-113 17-117 (117)
3 TIGR00060 L18_bact ribosomal p 100.0 8.2E-40 1.8E-44 229.0 12.2 97 12-113 16-114 (114)
4 COG0256 RplR Ribosomal protein 100.0 1.2E-38 2.7E-43 225.8 11.2 100 13-113 24-125 (125)
5 PTZ00032 60S ribosomal protein 100.0 2.6E-38 5.7E-43 238.7 12.4 98 15-113 102-211 (211)
6 cd00432 Ribosomal_L18_L5e Ribo 100.0 3.4E-37 7.4E-42 211.0 13.0 102 9-111 2-103 (103)
7 PF00861 Ribosomal_L18p: Ribos 100.0 2.5E-36 5.5E-41 212.3 13.1 101 12-113 17-119 (119)
8 PRK08569 rpl18p 50S ribosomal 100.0 3E-35 6.6E-40 221.4 12.6 100 13-113 27-130 (193)
9 KOG3333 Mitochondrial/chloropl 99.8 6.1E-20 1.3E-24 134.7 8.9 97 16-113 58-154 (188)
10 PTZ00069 60S ribosomal protein 99.7 5.2E-17 1.1E-21 128.7 8.8 96 17-113 47-174 (300)
11 PTZ00090 40S ribosomal protein 98.2 3.4E-05 7.5E-10 59.7 11.7 93 15-113 115-208 (233)
12 PF00411 Ribosomal_S11: Riboso 98.1 4.3E-05 9.2E-10 53.0 9.5 87 21-113 3-89 (110)
13 CHL00041 rps11 ribosomal prote 98.0 0.00012 2.6E-09 51.4 10.1 88 20-113 15-102 (116)
14 TIGR03632 bact_S11 30S ribosom 98.0 0.00013 2.8E-09 50.5 10.0 87 21-113 3-89 (108)
15 KOG0875 60S ribosomal protein 97.8 1.1E-05 2.4E-10 63.4 2.8 97 16-113 46-173 (264)
16 PRK05309 30S ribosomal protein 97.8 0.00035 7.7E-09 49.8 10.1 90 18-113 17-106 (128)
17 PRK09607 rps11p 30S ribosomal 97.6 0.0011 2.4E-08 47.6 10.4 93 19-113 10-107 (132)
18 TIGR03628 arch_S11P archaeal r 97.6 0.0013 2.8E-08 46.3 9.9 91 21-113 5-100 (114)
19 PTZ00129 40S ribosomal protein 97.4 0.0025 5.5E-08 46.7 9.3 93 19-113 29-126 (149)
20 COG0100 RpsK Ribosomal protein 96.9 0.02 4.4E-07 41.1 10.2 87 21-113 21-107 (129)
21 KOG0408 Mitochondrial/chloropl 96.0 0.075 1.6E-06 39.9 8.8 95 14-114 75-169 (190)
22 KOG0407 40S ribosomal protein 94.9 0.39 8.4E-06 34.1 8.7 92 20-113 18-114 (139)
23 PF14419 SPOUT_MTase_2: AF2226 84.6 4.2 9.1E-05 30.5 6.1 53 56-109 6-58 (173)
24 TIGR01917 gly_red_sel_B glycin 80.2 6.6 0.00014 33.4 6.4 54 59-113 314-367 (431)
25 PRK04302 triosephosphate isome 77.5 5.8 0.00013 29.9 4.9 47 68-114 72-118 (223)
26 TIGR01918 various_sel_PB selen 76.1 11 0.00024 32.1 6.6 54 59-113 314-367 (431)
27 smart00481 POLIIIAc DNA polyme 74.7 11 0.00023 22.8 4.8 42 70-114 17-58 (67)
28 cd07039 TPP_PYR_POX Pyrimidine 74.2 6 0.00013 28.6 4.1 40 69-114 2-42 (164)
29 COG1472 BglX Beta-glucosidase- 73.6 8.1 0.00018 32.2 5.2 55 57-111 89-161 (397)
30 PF02776 TPP_enzyme_N: Thiamin 73.4 7.1 0.00015 28.0 4.3 40 69-114 3-43 (172)
31 PF13380 CoA_binding_2: CoA bi 72.6 4.6 0.0001 27.6 3.0 40 69-114 67-106 (116)
32 PRK00366 ispG 4-hydroxy-3-meth 72.4 8.6 0.00019 32.0 5.0 53 60-113 63-133 (360)
33 COG1611 Predicted Rossmann fol 72.0 6.3 0.00014 30.0 3.9 41 63-113 33-73 (205)
34 cd06296 PBP1_CatR_like Ligand- 70.4 18 0.00039 26.5 6.0 46 67-113 102-150 (270)
35 COG0041 PurE Phosphoribosylcar 69.6 17 0.00037 27.1 5.5 42 72-114 20-61 (162)
36 cd06288 PBP1_sucrose_transcrip 69.0 17 0.00038 26.5 5.6 44 68-112 102-148 (269)
37 PRK09492 treR trehalose repres 68.9 20 0.00044 27.2 6.1 44 69-113 162-209 (315)
38 cd01543 PBP1_XylR Ligand-bindi 68.8 22 0.00047 26.2 6.2 47 66-113 93-141 (265)
39 PF02065 Melibiase: Melibiase; 68.3 9.6 0.00021 31.8 4.5 42 71-113 61-120 (394)
40 cd06280 PBP1_LacI_like_4 Ligan 68.1 25 0.00053 25.8 6.3 48 66-113 99-147 (263)
41 PLN00125 Succinyl-CoA ligase [ 67.1 13 0.00027 30.1 4.8 42 72-114 84-125 (300)
42 cd06285 PBP1_LacI_like_7 Ligan 66.8 22 0.00048 26.0 5.9 46 67-113 99-147 (265)
43 TIGR00612 ispG_gcpE 1-hydroxy- 66.8 11 0.00024 31.3 4.4 53 60-113 55-124 (346)
44 PRK10014 DNA-binding transcrip 66.5 24 0.00052 27.1 6.2 46 67-113 167-215 (342)
45 cd06319 PBP1_ABC_sugar_binding 66.4 29 0.00064 25.4 6.4 51 61-112 102-157 (277)
46 PRK07449 2-succinyl-5-enolpyru 66.2 13 0.00028 31.7 5.0 43 66-114 8-51 (568)
47 PF07071 DUF1341: Protein of u 66.2 17 0.00037 28.3 5.1 39 75-113 142-180 (218)
48 PRK07710 acetolactate synthase 66.2 9.6 0.00021 32.6 4.2 41 68-114 17-57 (571)
49 cd06276 PBP1_FucR_like Ligand- 66.1 24 0.00051 26.3 5.9 47 66-113 99-149 (247)
50 PRK10423 transcriptional repre 65.7 23 0.00049 27.0 5.9 46 67-113 159-207 (327)
51 PF00532 Peripla_BP_1: Peripla 64.3 20 0.00043 27.6 5.4 47 66-113 102-152 (279)
52 cd06277 PBP1_LacI_like_1 Ligan 64.2 26 0.00057 25.7 5.8 46 67-113 103-151 (268)
53 cd06282 PBP1_GntR_like_2 Ligan 64.0 25 0.00054 25.5 5.6 46 67-113 101-150 (266)
54 COG0529 CysC Adenylylsulfate k 63.5 15 0.00033 28.2 4.4 45 68-114 38-99 (197)
55 cd06281 PBP1_LacI_like_5 Ligan 63.2 29 0.00064 25.5 5.9 44 69-113 103-149 (269)
56 PRK10703 DNA-binding transcrip 62.8 30 0.00065 26.6 6.1 46 67-113 163-211 (341)
57 PLN02591 tryptophan synthase 62.8 16 0.00034 28.6 4.5 40 71-114 96-135 (250)
58 PF13377 Peripla_BP_3: Peripla 62.6 16 0.00034 24.8 4.1 40 74-113 1-42 (160)
59 cd06293 PBP1_LacI_like_11 Liga 62.0 34 0.00074 25.1 6.1 46 67-113 101-149 (269)
60 cd06283 PBP1_RegR_EndR_KdgR_li 61.7 31 0.00067 25.0 5.7 45 67-112 101-149 (267)
61 cd06286 PBP1_CcpB_like Ligand- 61.6 34 0.00074 24.9 6.0 45 68-113 100-147 (260)
62 cd06275 PBP1_PurR Ligand-bindi 61.6 33 0.00072 25.0 5.9 47 66-113 101-150 (269)
63 PF13727 CoA_binding_3: CoA-bi 61.2 14 0.0003 25.5 3.6 41 71-113 131-171 (175)
64 cd06273 PBP1_GntR_like_1 This 61.2 32 0.00069 25.1 5.8 45 67-112 101-149 (268)
65 TIGR01481 ccpA catabolite cont 61.0 33 0.00071 26.2 6.0 45 68-113 162-210 (329)
66 PRK05337 beta-hexosaminidase; 61.0 22 0.00048 28.9 5.2 50 63-112 96-161 (337)
67 cd06271 PBP1_AglR_RafR_like Li 60.6 34 0.00073 24.8 5.8 45 67-112 105-152 (268)
68 COG3345 GalA Alpha-galactosida 60.5 12 0.00026 33.3 3.7 41 72-113 313-371 (687)
69 cd06295 PBP1_CelR Ligand bindi 60.4 38 0.00082 24.9 6.1 45 67-112 110-157 (275)
70 PF01346 FKBP_N: Domain amino 60.2 9.6 0.00021 25.8 2.6 24 61-84 21-44 (124)
71 cd06310 PBP1_ABC_sugar_binding 60.0 30 0.00064 25.4 5.4 44 69-113 108-157 (273)
72 cd01545 PBP1_SalR Ligand-bindi 59.6 40 0.00087 24.5 6.1 47 66-113 102-151 (270)
73 TIGR03457 sulphoacet_xsc sulfo 59.6 14 0.00029 31.7 3.9 41 68-114 3-43 (579)
74 PRK08617 acetolactate synthase 59.4 16 0.00034 31.1 4.3 41 68-114 6-46 (552)
75 PF00933 Glyco_hydro_3: Glycos 59.3 21 0.00045 28.1 4.7 55 58-112 79-150 (299)
76 PRK08978 acetolactate synthase 58.8 15 0.00033 31.1 4.1 40 69-114 3-42 (548)
77 cd06294 PBP1_ycjW_transcriptio 58.7 40 0.00087 24.5 5.9 45 67-112 107-154 (270)
78 cd06274 PBP1_FruR Ligand bindi 57.9 41 0.00089 24.6 5.9 45 67-112 101-148 (264)
79 COG0299 PurN Folate-dependent 57.9 21 0.00045 27.5 4.3 40 74-114 43-83 (200)
80 PRK10727 DNA-binding transcrip 57.5 37 0.00081 26.2 5.8 45 68-113 162-209 (343)
81 cd06284 PBP1_LacI_like_6 Ligan 57.3 44 0.00095 24.2 5.9 46 67-113 100-148 (267)
82 TIGR02717 AcCoA-syn-alpha acet 56.9 22 0.00048 29.8 4.7 43 71-114 78-125 (447)
83 COG1908 FrhD Coenzyme F420-red 56.9 31 0.00067 24.8 4.8 40 72-112 44-93 (132)
84 cd06267 PBP1_LacI_sugar_bindin 56.8 51 0.0011 23.5 6.1 44 69-112 103-148 (264)
85 PF03646 FlaG: FlaG protein; 56.6 26 0.00056 23.4 4.2 33 15-47 53-85 (107)
86 PRK13111 trpA tryptophan synth 56.5 23 0.00051 27.7 4.6 39 72-114 108-146 (258)
87 PRK08322 acetolactate synthase 56.0 17 0.00038 30.6 4.0 40 69-114 3-42 (547)
88 cd06270 PBP1_GalS_like Ligand 56.0 45 0.00098 24.4 5.9 46 67-113 101-149 (268)
89 TIGR02418 acolac_catab acetola 55.8 16 0.00035 30.8 3.8 39 70-114 2-40 (539)
90 TIGR03581 EF_0839 conserved hy 55.6 36 0.00078 26.8 5.3 38 75-112 142-179 (236)
91 COG0645 Predicted kinase [Gene 55.5 44 0.00096 25.0 5.6 54 57-113 52-105 (170)
92 PRK11041 DNA-binding transcrip 55.4 45 0.00097 25.1 5.9 46 67-113 137-185 (309)
93 cd06291 PBP1_Qymf_like Ligand 55.2 54 0.0012 23.9 6.1 46 67-113 97-146 (265)
94 COG1609 PurR Transcriptional r 55.1 45 0.00097 26.5 6.0 46 67-113 160-208 (333)
95 cd01574 PBP1_LacI Ligand-bindi 55.1 56 0.0012 23.7 6.2 46 67-113 101-149 (264)
96 cd01391 Periplasmic_Binding_Pr 54.9 51 0.0011 23.0 5.8 47 67-113 109-156 (269)
97 COG0684 MenG Demethylmenaquino 54.9 31 0.00067 26.6 4.8 61 15-88 46-106 (210)
98 PF01301 Glyco_hydro_35: Glyco 54.4 21 0.00046 28.7 4.1 43 72-114 28-80 (319)
99 PF00289 CPSase_L_chain: Carba 54.4 29 0.00063 23.7 4.2 49 62-114 55-103 (110)
100 PRK11303 DNA-binding transcrip 54.1 47 0.001 25.3 5.9 44 68-112 165-211 (328)
101 cd06298 PBP1_CcpA_like Ligand- 53.1 59 0.0013 23.6 6.0 45 68-113 102-150 (268)
102 PRK13397 3-deoxy-7-phosphohept 53.0 35 0.00075 26.9 5.0 48 67-114 28-83 (250)
103 CHL00200 trpA tryptophan synth 52.9 28 0.00061 27.4 4.5 39 72-114 110-148 (263)
104 TIGR02417 fruct_sucro_rep D-fr 52.9 55 0.0012 25.0 6.0 42 70-112 166-210 (327)
105 cd06278 PBP1_LacI_like_2 Ligan 52.6 59 0.0013 23.5 6.0 46 67-113 100-148 (266)
106 cd06287 PBP1_LacI_like_8 Ligan 52.4 56 0.0012 24.5 5.9 46 67-113 103-151 (269)
107 PF02811 PHP: PHP domain; Int 52.1 31 0.00067 23.7 4.2 40 72-114 20-59 (175)
108 PRK06725 acetolactate synthase 51.9 24 0.00052 30.3 4.2 42 67-114 15-56 (570)
109 PRK09542 manB phosphomannomuta 51.8 81 0.0017 26.2 7.2 60 53-114 6-67 (445)
110 COG0821 gcpE 1-hydroxy-2-methy 51.7 33 0.00071 28.6 4.8 52 61-113 58-126 (361)
111 smart00812 Alpha_L_fucos Alpha 51.6 35 0.00075 28.3 5.0 43 71-113 84-144 (384)
112 PRK06048 acetolactate synthase 51.5 23 0.00051 30.2 4.1 42 67-114 8-49 (561)
113 PRK06546 pyruvate dehydrogenas 50.7 16 0.00035 31.4 3.0 42 67-114 3-45 (578)
114 cd06290 PBP1_LacI_like_9 Ligan 50.7 64 0.0014 23.5 5.9 44 69-113 102-148 (265)
115 cd01540 PBP1_arabinose_binding 50.5 63 0.0014 23.9 5.9 52 61-112 106-162 (289)
116 PRK05858 hypothetical protein; 50.4 26 0.00056 29.8 4.1 41 68-114 6-46 (542)
117 PRK14987 gluconate operon tran 50.2 66 0.0014 24.6 6.1 44 68-112 166-211 (331)
118 cd06292 PBP1_LacI_like_10 Liga 50.0 71 0.0015 23.4 6.1 45 67-112 107-154 (273)
119 PRK06457 pyruvate dehydrogenas 49.8 27 0.0006 29.7 4.3 41 68-114 3-43 (549)
120 cd06272 PBP1_hexuronate_repres 49.8 57 0.0012 23.8 5.5 45 67-112 96-143 (261)
121 PF01583 APS_kinase: Adenylyls 49.5 27 0.00059 25.5 3.7 47 68-114 17-78 (156)
122 PF14488 DUF4434: Domain of un 49.4 45 0.00097 24.4 4.8 41 73-114 25-82 (166)
123 PF00070 Pyr_redox: Pyridine n 49.3 61 0.0013 19.9 5.1 45 69-114 10-58 (80)
124 cd06320 PBP1_allose_binding Pe 49.2 52 0.0011 24.2 5.3 49 62-113 104-156 (275)
125 cd06339 PBP1_YraM_LppC_lipopro 49.1 46 0.00099 26.0 5.2 45 69-114 111-156 (336)
126 PRK06276 acetolactate synthase 48.9 29 0.00062 29.8 4.2 40 69-114 3-42 (586)
127 PRK09124 pyruvate dehydrogenas 48.8 24 0.00053 30.1 3.8 41 68-114 4-45 (574)
128 PRK10401 DNA-binding transcrip 48.6 74 0.0016 24.6 6.2 43 70-113 164-209 (346)
129 PRK06466 acetolactate synthase 48.4 24 0.00052 30.2 3.7 41 68-114 5-46 (574)
130 PF01120 Alpha_L_fucos: Alpha- 48.2 41 0.00089 27.2 4.8 44 70-113 93-154 (346)
131 cd06326 PBP1_STKc_like Type I 47.8 63 0.0014 24.6 5.7 47 66-113 120-167 (336)
132 TIGR01019 sucCoAalpha succinyl 47.7 47 0.001 26.5 5.0 40 73-114 79-118 (286)
133 cd07038 TPP_PYR_PDC_IPDC_like 47.6 27 0.00059 25.0 3.4 37 72-114 2-39 (162)
134 cd01537 PBP1_Repressors_Sugar_ 47.6 73 0.0016 22.6 5.7 44 67-110 103-148 (264)
135 PRK07524 hypothetical protein; 47.6 28 0.00062 29.4 4.0 41 68-114 3-43 (535)
136 PRK08266 hypothetical protein; 47.0 32 0.00069 29.1 4.2 41 68-114 5-47 (542)
137 PRK08155 acetolactate synthase 46.8 27 0.00058 29.8 3.7 42 67-114 13-55 (564)
138 PF04551 GcpE: GcpE protein; 46.8 41 0.00089 28.1 4.7 51 61-113 53-134 (359)
139 TIGR02405 trehalos_R_Ecol treh 46.6 71 0.0015 24.3 5.8 43 69-112 159-205 (311)
140 PF00875 DNA_photolyase: DNA p 46.3 36 0.00078 24.0 3.9 43 70-113 77-120 (165)
141 PF03719 Ribosomal_S5_C: Ribos 45.5 35 0.00076 21.8 3.3 37 72-108 26-62 (74)
142 PF07355 GRDB: Glycine/sarcosi 45.5 32 0.0007 28.5 3.9 30 59-88 318-347 (349)
143 PRK08979 acetolactate synthase 45.4 35 0.00075 29.3 4.2 41 68-114 5-46 (572)
144 cd01575 PBP1_GntR Ligand-bindi 45.3 91 0.002 22.5 6.0 45 67-112 101-148 (268)
145 PRK09526 lacI lac repressor; R 45.2 94 0.002 23.8 6.3 44 68-112 167-213 (342)
146 PRK06882 acetolactate synthase 44.8 36 0.00077 29.1 4.2 41 68-114 5-46 (574)
147 PRK13125 trpA tryptophan synth 44.5 55 0.0012 25.0 4.9 40 73-113 93-132 (244)
148 TIGR00173 menD 2-succinyl-5-en 44.5 29 0.00064 28.6 3.5 40 69-114 2-42 (432)
149 TIGR03394 indol_phenyl_DC indo 44.4 32 0.0007 29.3 3.9 40 69-114 2-42 (535)
150 cd01541 PBP1_AraR Ligand-bindi 44.4 80 0.0017 23.1 5.6 45 68-112 107-152 (273)
151 PRK08611 pyruvate oxidase; Pro 44.0 36 0.00078 29.2 4.1 41 68-114 5-47 (576)
152 cd06333 PBP1_ABC-type_HAAT_lik 44.0 84 0.0018 23.8 5.8 46 67-113 118-164 (312)
153 PF02878 PGM_PMM_I: Phosphoglu 44.0 1E+02 0.0023 21.1 6.7 51 61-113 18-71 (137)
154 PRK07525 sulfoacetaldehyde ace 43.9 35 0.00076 29.3 4.0 42 67-114 6-47 (588)
155 cd07037 TPP_PYR_MenD Pyrimidin 43.6 33 0.00072 24.8 3.4 37 72-114 2-39 (162)
156 TIGR02571 ComEB ComE operon pr 43.4 45 0.00099 24.1 4.0 35 74-113 101-135 (151)
157 PRK09532 DNA polymerase III su 43.1 47 0.001 30.6 4.9 40 72-114 23-62 (874)
158 PRK14324 glmM phosphoglucosami 42.5 1.3E+02 0.0028 25.1 7.1 60 53-114 9-71 (446)
159 cd06308 PBP1_sensor_kinase_lik 42.3 91 0.002 22.9 5.6 45 68-113 106-156 (270)
160 PF14871 GHL6: Hypothetical gl 42.3 73 0.0016 22.4 4.9 44 71-114 3-61 (132)
161 PRK07092 benzoylformate decarb 42.0 35 0.00075 28.9 3.7 42 66-114 11-52 (530)
162 PLN02470 acetolactate synthase 41.9 33 0.00072 29.5 3.6 42 67-114 13-55 (585)
163 TIGR00118 acolac_lg acetolacta 41.9 37 0.0008 28.9 3.8 40 69-114 3-43 (558)
164 PRK06965 acetolactate synthase 41.8 38 0.00082 29.2 3.9 44 65-114 19-63 (587)
165 PRK05898 dnaE DNA polymerase I 41.8 52 0.0011 30.9 4.9 40 71-113 21-60 (971)
166 PF03900 Porphobil_deamC: Porp 41.2 29 0.00062 21.7 2.4 40 29-79 35-74 (74)
167 PRK07979 acetolactate synthase 41.0 46 0.001 28.5 4.3 41 68-114 5-46 (574)
168 PRK10887 glmM phosphoglucosami 41.0 1.2E+02 0.0025 25.2 6.6 52 61-114 18-71 (443)
169 PRK07374 dnaE DNA polymerase I 41.0 51 0.0011 31.5 4.8 41 71-114 22-62 (1170)
170 PRK11269 glyoxylate carboligas 40.9 37 0.0008 29.2 3.7 41 68-114 5-46 (591)
171 cd06297 PBP1_LacI_like_12 Liga 40.8 81 0.0017 23.3 5.2 48 61-113 97-152 (269)
172 PRK05678 succinyl-CoA syntheta 40.8 67 0.0014 25.7 4.9 40 73-114 81-120 (291)
173 KOG1185 Thiamine pyrophosphate 40.2 53 0.0011 28.9 4.5 42 67-114 14-55 (571)
174 cd06300 PBP1_ABC_sugar_binding 39.7 1.1E+02 0.0023 22.5 5.6 44 69-113 110-159 (272)
175 cd07035 TPP_PYR_POX_like Pyrim 39.3 33 0.00073 23.7 2.7 36 72-113 2-37 (155)
176 PRK12457 2-dehydro-3-deoxyphos 39.1 93 0.002 25.2 5.5 53 62-114 28-91 (281)
177 PRK05673 dnaE DNA polymerase I 39.0 59 0.0013 30.9 4.9 41 71-114 21-61 (1135)
178 PF06414 Zeta_toxin: Zeta toxi 39.0 1E+02 0.0022 22.3 5.4 48 63-113 75-122 (199)
179 cd06289 PBP1_MalI_like Ligand- 38.9 1.2E+02 0.0026 21.9 5.8 45 67-112 102-149 (268)
180 PRK06154 hypothetical protein; 38.8 42 0.00091 28.8 3.7 38 68-114 21-58 (565)
181 PRK07738 flagellar protein Fla 38.8 32 0.00069 24.2 2.5 29 15-43 62-90 (117)
182 PF01261 AP_endonuc_2: Xylose 38.5 30 0.00066 24.3 2.5 39 75-113 2-43 (213)
183 COG1109 {ManB} Phosphomannomut 38.5 1.6E+02 0.0035 24.7 7.1 60 53-114 15-76 (464)
184 cd06303 PBP1_LuxPQ_Quorum_Sens 38.3 1.3E+02 0.0028 22.4 6.0 44 68-112 115-163 (280)
185 TIGR00594 polc DNA-directed DN 38.2 61 0.0013 30.4 4.9 41 71-114 20-60 (1022)
186 cd04509 PBP1_ABC_transporter_G 38.2 1.2E+02 0.0025 21.9 5.6 47 66-113 120-167 (299)
187 PHA02588 cd deoxycytidylate de 37.6 59 0.0013 23.9 3.9 36 74-113 115-150 (168)
188 PRK12744 short chain dehydroge 37.4 1.2E+02 0.0026 22.3 5.6 21 68-88 19-39 (257)
189 cd06299 PBP1_LacI_like_13 Liga 37.1 1.3E+02 0.0029 21.7 5.8 43 69-112 103-148 (265)
190 TIGR03254 oxalate_oxc oxalyl-C 37.0 51 0.0011 28.0 4.0 41 68-114 4-44 (554)
191 PRK07135 dnaE DNA polymerase I 36.9 65 0.0014 30.2 4.8 40 72-114 23-62 (973)
192 cd01544 PBP1_GalR Ligand-bindi 36.4 1.4E+02 0.0031 21.9 5.9 43 68-111 98-148 (270)
193 cd06311 PBP1_ABC_sugar_binding 36.1 1.2E+02 0.0026 22.2 5.5 49 62-113 109-159 (274)
194 PRK10339 DNA-binding transcrip 36.1 1.4E+02 0.0031 22.8 6.0 44 67-111 159-205 (327)
195 PRK06920 dnaE DNA polymerase I 36.1 70 0.0015 30.4 4.9 41 71-114 22-62 (1107)
196 PRK15098 beta-D-glucoside gluc 35.9 51 0.0011 29.7 3.9 53 57-109 126-195 (765)
197 PRK13398 3-deoxy-7-phosphohept 35.8 72 0.0016 25.1 4.3 44 71-114 44-95 (266)
198 PLN02808 alpha-galactosidase 35.7 81 0.0018 26.4 4.8 53 60-113 45-113 (386)
199 cd06322 PBP1_ABC_sugar_binding 35.3 1.5E+02 0.0032 21.5 5.8 48 63-113 104-154 (267)
200 PF04298 Zn_peptidase_2: Putat 35.3 46 0.001 25.9 3.1 43 68-110 37-98 (222)
201 COG2179 Predicted hydrolase of 35.1 89 0.0019 23.6 4.5 46 68-113 14-65 (175)
202 PRK08273 thiamine pyrophosphat 35.0 66 0.0014 27.7 4.4 41 68-114 4-46 (597)
203 cd05802 GlmM GlmM is a bacteri 35.0 1.7E+02 0.0037 24.1 6.7 59 54-114 8-69 (434)
204 PRK07279 dnaE DNA polymerase I 34.8 74 0.0016 30.1 4.9 40 71-113 21-60 (1034)
205 cd07034 TPP_PYR_PFOR_IOR-alpha 34.6 77 0.0017 22.0 4.0 39 70-114 2-45 (160)
206 PF08032 SpoU_sub_bind: RNA 2' 34.6 42 0.00091 20.3 2.4 41 70-113 4-46 (76)
207 PF02641 DUF190: Uncharacteriz 34.5 46 0.00099 22.2 2.7 30 69-99 21-52 (101)
208 PF00106 adh_short: short chai 34.3 1.5E+02 0.0032 20.0 5.5 44 66-111 9-52 (167)
209 cd03089 PMM_PGM The phosphoman 34.3 2.1E+02 0.0046 23.6 7.1 59 54-114 8-68 (443)
210 PRK07586 hypothetical protein; 34.3 59 0.0013 27.3 3.9 40 69-114 3-43 (514)
211 cd06306 PBP1_TorT-like TorT-li 34.0 1.1E+02 0.0023 22.6 4.9 51 62-113 104-158 (268)
212 PRK08527 acetolactate synthase 33.8 58 0.0012 27.8 3.8 40 69-114 5-45 (563)
213 PRK07064 hypothetical protein; 33.7 52 0.0011 27.7 3.5 41 68-114 4-45 (544)
214 TIGR00262 trpA tryptophan synt 33.6 91 0.002 24.2 4.6 39 71-113 105-143 (256)
215 TIGR03393 indolpyr_decarb indo 33.6 52 0.0011 27.9 3.5 41 68-114 2-43 (539)
216 TIGR02801 tolR TolR protein. T 33.6 1.5E+02 0.0033 20.0 6.0 28 84-112 95-122 (129)
217 PRK15395 methyl-galactoside AB 33.4 1.8E+02 0.0038 22.7 6.2 52 61-112 133-194 (330)
218 PRK14318 glmM phosphoglucosami 33.4 2.2E+02 0.0047 23.7 7.0 58 53-114 10-76 (448)
219 PRK12827 short chain dehydroge 33.3 1.4E+02 0.0031 21.4 5.4 22 67-88 16-37 (249)
220 PF03928 DUF336: Domain of unk 33.1 92 0.002 21.4 4.1 31 62-93 4-36 (132)
221 COG0159 TrpA Tryptophan syntha 33.0 77 0.0017 25.3 4.1 38 73-114 114-151 (265)
222 PF12683 DUF3798: Protein of u 33.0 98 0.0021 25.0 4.7 49 66-114 115-167 (275)
223 PRK06826 dnaE DNA polymerase I 33.0 79 0.0017 30.2 4.7 41 71-114 24-64 (1151)
224 PRK08199 thiamine pyrophosphat 32.8 56 0.0012 27.8 3.6 42 67-114 8-50 (557)
225 PRK12474 hypothetical protein; 32.8 61 0.0013 27.3 3.7 41 68-114 6-47 (518)
226 TIGR01504 glyox_carbo_lig glyo 32.8 58 0.0013 28.1 3.7 41 68-114 4-45 (588)
227 PRK07282 acetolactate synthase 32.7 67 0.0015 27.5 4.0 41 68-114 11-52 (566)
228 COG0028 IlvB Thiamine pyrophos 32.7 72 0.0016 27.7 4.2 40 69-114 4-43 (550)
229 PRK06456 acetolactate synthase 32.2 73 0.0016 27.2 4.1 40 69-114 4-47 (572)
230 cd06317 PBP1_ABC_sugar_binding 32.2 1.8E+02 0.0038 21.1 5.8 42 69-111 110-156 (275)
231 PLN02573 pyruvate decarboxylas 32.1 60 0.0013 28.0 3.6 42 67-114 16-58 (578)
232 PRK01060 endonuclease IV; Prov 32.1 1.4E+02 0.0031 22.5 5.4 40 73-112 17-62 (281)
233 PLN03231 putative alpha-galact 31.8 90 0.002 25.9 4.5 53 61-113 15-102 (357)
234 cd06279 PBP1_LacI_like_3 Ligan 31.5 1.9E+02 0.004 21.5 5.9 45 67-112 101-165 (283)
235 cd04729 NanE N-acetylmannosami 31.3 85 0.0018 23.3 4.0 40 73-113 84-126 (219)
236 PRK09107 acetolactate synthase 31.0 86 0.0019 27.1 4.4 42 67-114 11-53 (595)
237 PF01373 Glyco_hydro_14: Glyco 30.8 82 0.0018 26.7 4.1 39 75-113 23-69 (402)
238 PRK05672 dnaE2 error-prone DNA 30.3 1E+02 0.0022 29.2 4.9 41 71-114 24-64 (1046)
239 PRK07418 acetolactate synthase 30.3 80 0.0017 27.3 4.1 42 67-114 19-64 (616)
240 PRK14719 bifunctional RNAse/5- 30.2 80 0.0017 26.0 3.9 39 73-113 58-98 (360)
241 TIGR01132 pgm phosphoglucomuta 30.1 1.8E+02 0.0039 25.0 6.2 52 61-114 55-109 (543)
242 cd06313 PBP1_ABC_sugar_binding 30.0 1.8E+02 0.0039 21.6 5.6 49 61-112 104-156 (272)
243 cd04726 KGPDC_HPS 3-Keto-L-gul 30.0 1.4E+02 0.0029 21.5 4.8 39 72-113 68-106 (202)
244 PF02254 TrkA_N: TrkA-N domain 29.9 1.1E+02 0.0024 19.7 4.0 37 68-113 8-44 (116)
245 PRK10936 TMAO reductase system 29.8 2.4E+02 0.0053 22.0 6.5 52 61-113 150-205 (343)
246 PRK13210 putative L-xylulose 5 29.5 1.7E+02 0.0037 22.0 5.4 42 72-113 20-68 (284)
247 PRK12738 kbaY tagatose-bisphos 29.5 1.3E+02 0.0028 24.1 4.9 41 71-112 87-130 (286)
248 PRK14316 glmM phosphoglucosami 29.5 2.5E+02 0.0055 23.2 6.8 60 53-114 9-72 (448)
249 cd06321 PBP1_ABC_sugar_binding 29.4 1.8E+02 0.0039 21.2 5.5 49 61-112 102-153 (271)
250 TIGR02720 pyruv_oxi_spxB pyruv 29.2 81 0.0018 27.1 3.9 39 70-114 2-42 (575)
251 PRK09228 guanine deaminase; Pr 28.7 1.9E+02 0.0042 23.8 5.9 49 62-113 109-157 (433)
252 cd06314 PBP1_tmGBP Periplasmic 28.6 1.9E+02 0.0041 21.2 5.5 45 67-113 103-153 (271)
253 cd05800 PGM_like2 This PGM-lik 28.6 2.8E+02 0.006 23.0 6.9 60 53-114 8-71 (461)
254 PLN02803 beta-amylase 28.5 1.2E+02 0.0026 26.8 4.8 39 75-113 114-160 (548)
255 PF13840 ACT_7: ACT domain ; P 28.4 64 0.0014 19.5 2.4 34 81-114 5-39 (65)
256 COG2131 ComEB Deoxycytidylate 28.3 1.1E+02 0.0024 22.8 4.0 39 73-113 110-148 (164)
257 PF02006 DUF137: Protein of un 28.2 1.4E+02 0.003 22.6 4.5 45 64-112 14-59 (178)
258 TIGR00212 hemC porphobilinogen 27.9 2E+02 0.0043 23.3 5.7 41 28-81 252-292 (292)
259 PRK09259 putative oxalyl-CoA d 27.8 98 0.0021 26.4 4.2 41 68-114 11-51 (569)
260 PRK07789 acetolactate synthase 27.6 91 0.002 27.0 4.0 41 68-114 32-73 (612)
261 PRK10653 D-ribose transporter 27.5 1.8E+02 0.0039 21.8 5.3 47 66-113 130-181 (295)
262 PRK12595 bifunctional 3-deoxy- 27.5 95 0.0021 25.6 3.9 44 71-114 135-186 (360)
263 PF02961 BAF: Barrier to autoi 27.4 15 0.00031 24.9 -0.7 26 61-86 19-44 (89)
264 PF11798 IMS_HHH: IMS family H 27.3 36 0.00078 18.2 1.0 15 68-82 18-32 (32)
265 cd05803 PGM_like4 This PGM-lik 27.3 2.5E+02 0.0054 23.2 6.4 55 58-114 12-69 (445)
266 PF13671 AAA_33: AAA domain; P 27.3 1.9E+02 0.0041 19.1 5.7 45 66-113 55-99 (143)
267 TIGR03190 benz_CoA_bzdN benzoy 27.2 1.5E+02 0.0033 24.2 5.0 39 72-111 334-376 (377)
268 PRK13396 3-deoxy-7-phosphohept 27.1 1.2E+02 0.0025 25.2 4.3 44 71-114 118-169 (352)
269 PLN02801 beta-amylase 27.1 1.3E+02 0.0029 26.3 4.8 39 75-113 44-90 (517)
270 cd07940 DRE_TIM_IPMS 2-isoprop 27.0 1.4E+02 0.0031 22.9 4.7 50 62-112 108-158 (268)
271 PRK07523 gluconate 5-dehydroge 26.6 1.9E+02 0.004 21.2 5.1 39 67-110 20-58 (255)
272 PF02826 2-Hacid_dh_C: D-isome 26.5 92 0.002 22.4 3.3 24 68-92 46-69 (178)
273 COG2055 Malate/L-lactate dehyd 26.5 2E+02 0.0043 24.0 5.5 45 64-112 91-136 (349)
274 PRK14320 glmM phosphoglucosami 26.3 2.9E+02 0.0063 22.9 6.6 50 61-114 19-73 (443)
275 PRK14315 glmM phosphoglucosami 26.1 3.3E+02 0.0072 22.6 6.9 50 61-114 20-74 (448)
276 COG2100 Predicted Fe-S oxidore 26.0 52 0.0011 27.7 2.1 49 66-114 199-259 (414)
277 cd01542 PBP1_TreR_like Ligand- 25.9 2.5E+02 0.0055 20.1 5.8 44 67-111 99-146 (259)
278 cd06350 PBP1_GPCR_family_C_lik 25.9 2.2E+02 0.0049 21.7 5.6 46 67-113 145-191 (348)
279 PRK08327 acetolactate synthase 25.9 94 0.002 26.6 3.8 36 67-108 7-42 (569)
280 PF07485 DUF1529: Domain of Un 25.7 52 0.0011 23.2 1.8 18 96-113 67-84 (123)
281 PF12286 DUF3622: Protein of u 25.7 1.9E+02 0.0042 18.7 4.3 34 14-47 2-36 (71)
282 PF02789 Peptidase_M17_N: Cyto 25.6 2E+02 0.0043 18.8 6.9 51 61-111 66-117 (126)
283 PRK11024 colicin uptake protei 25.6 2.4E+02 0.0051 19.7 6.1 39 73-112 94-132 (141)
284 TIGR00730 conserved hypothetic 25.5 2.1E+02 0.0046 21.0 5.2 41 63-112 18-58 (178)
285 COG1056 NadR Nicotinamide mono 25.5 1.5E+02 0.0033 22.1 4.4 39 73-112 22-69 (172)
286 PLN02161 beta-amylase 25.3 1.5E+02 0.0032 26.1 4.8 39 75-113 124-170 (531)
287 TIGR02867 spore_II_P stage II 25.2 1.9E+02 0.0041 21.9 4.9 24 65-89 31-54 (196)
288 PRK06114 short chain dehydroge 25.1 2.1E+02 0.0046 21.0 5.2 22 67-88 18-39 (254)
289 cd01538 PBP1_ABC_xylose_bindin 25.1 2.2E+02 0.0047 21.3 5.3 50 61-110 102-155 (288)
290 PF06370 DUF1069: Protein of u 25.1 33 0.00071 25.4 0.7 21 76-97 161-181 (206)
291 TIGR01858 tag_bisphos_ald clas 24.8 1.8E+02 0.0039 23.2 5.0 39 73-112 87-128 (282)
292 PF01408 GFO_IDH_MocA: Oxidore 24.8 2E+02 0.0043 18.5 5.2 41 70-113 75-116 (120)
293 COG4566 TtrR Response regulato 24.7 77 0.0017 24.5 2.7 44 67-114 60-103 (202)
294 PF06792 UPF0261: Uncharacteri 24.6 2.6E+02 0.0056 23.7 6.0 47 61-108 312-369 (403)
295 PRK11570 peptidyl-prolyl cis-t 24.6 1.4E+02 0.003 22.6 4.1 23 62-84 10-32 (206)
296 TIGR02803 ExbD_1 TonB system t 24.5 2.3E+02 0.0049 19.1 6.0 29 83-112 86-114 (122)
297 COG1489 SfsA DNA-binding prote 24.4 1.2E+02 0.0026 23.9 3.8 50 1-50 1-58 (235)
298 PRK08452 flagellar protein Fla 24.4 1.3E+02 0.0029 21.2 3.7 28 16-43 70-97 (124)
299 cd04724 Tryptophan_synthase_al 24.4 1.7E+02 0.0036 22.4 4.6 39 71-113 94-132 (242)
300 cd00946 FBP_aldolase_IIA Class 24.3 4.1E+02 0.0089 22.0 7.0 55 57-112 94-156 (345)
301 PRK07564 phosphoglucomutase; V 24.2 2.8E+02 0.0061 23.8 6.3 52 61-114 54-108 (543)
302 cd07939 DRE_TIM_NifV Streptomy 24.1 1.8E+02 0.0039 22.2 4.7 69 41-112 85-154 (259)
303 PLN00197 beta-amylase; Provisi 24.1 1.6E+02 0.0034 26.2 4.8 39 75-113 134-180 (573)
304 PF13880 Acetyltransf_13: ESCO 24.1 72 0.0016 20.4 2.1 28 80-109 6-33 (70)
305 PLN02692 alpha-galactosidase 24.1 1.7E+02 0.0038 24.8 4.9 52 61-113 70-137 (412)
306 TIGR01162 purE phosphoribosyla 24.1 2.6E+02 0.0057 20.5 5.3 42 72-114 16-57 (156)
307 TIGR01455 glmM phosphoglucosam 23.7 3E+02 0.0066 22.7 6.3 52 61-114 15-70 (443)
308 cd06323 PBP1_ribose_binding Pe 23.7 2.5E+02 0.0054 20.1 5.3 45 69-113 106-155 (268)
309 TIGR02766 crypt_chrom_pln cryp 23.7 1.9E+02 0.004 24.3 5.0 44 69-113 75-119 (475)
310 cd00958 DhnA Class I fructose- 23.6 1.9E+02 0.004 21.5 4.6 14 72-85 113-126 (235)
311 TIGR01949 AroFGH_arch predicte 23.5 1.2E+02 0.0027 23.1 3.7 47 68-114 123-173 (258)
312 PF03447 NAD_binding_3: Homose 23.2 92 0.002 20.5 2.6 42 71-113 73-114 (117)
313 PF07756 DUF1612: Protein of u 23.2 58 0.0012 23.4 1.6 33 77-109 72-104 (128)
314 COG3894 Uncharacterized metal- 23.1 99 0.0021 27.4 3.3 66 17-82 163-243 (614)
315 cd06346 PBP1_ABC_ligand_bindin 23.1 3E+02 0.0064 20.9 5.8 44 69-113 124-168 (312)
316 PF07075 DUF1343: Protein of u 23.0 86 0.0019 26.1 2.9 35 80-114 77-115 (365)
317 cd04906 ACT_ThrD-I_1 First of 22.8 2.1E+02 0.0045 18.0 4.5 34 79-113 24-69 (85)
318 PTZ00187 succinyl-CoA syntheta 22.7 1.6E+02 0.0034 24.1 4.3 41 72-114 103-144 (317)
319 PLN02705 beta-amylase 22.7 1.7E+02 0.0037 26.5 4.8 39 75-113 275-321 (681)
320 PRK14317 glmM phosphoglucosami 22.6 3.7E+02 0.008 22.4 6.6 52 61-114 32-87 (465)
321 cd06309 PBP1_YtfQ_like Peripla 22.6 3E+02 0.0066 20.0 5.6 48 62-112 106-157 (273)
322 PF00682 HMGL-like: HMGL-like 22.5 1.7E+02 0.0036 21.7 4.2 53 61-113 101-153 (237)
323 PRK08610 fructose-bisphosphate 22.5 2.4E+02 0.0051 22.6 5.2 38 74-112 93-133 (286)
324 PF02593 dTMP_synthase: Thymid 22.4 2.6E+02 0.0056 21.6 5.2 43 69-113 64-106 (217)
325 PHA03003 palmytilated EEV memb 22.4 1.1E+02 0.0024 25.0 3.4 40 66-113 62-102 (369)
326 COG0569 TrkA K+ transport syst 22.3 2.7E+02 0.0059 21.0 5.3 23 67-89 9-31 (225)
327 cd05799 PGM2 This CD includes 22.3 4.1E+02 0.0089 22.2 6.9 52 61-114 20-77 (487)
328 PRK12737 gatY tagatose-bisphos 22.3 2.2E+02 0.0047 22.8 4.9 40 73-113 89-131 (284)
329 cd07939 DRE_TIM_NifV Streptomy 22.2 3.6E+02 0.0078 20.5 8.4 38 72-109 143-180 (259)
330 TIGR00587 nfo apurinic endonuc 22.2 2.7E+02 0.0059 21.3 5.4 40 73-112 16-61 (274)
331 PRK07084 fructose-bisphosphate 22.0 2.3E+02 0.0051 23.2 5.2 39 73-112 100-141 (321)
332 cd00175 SNc Staphylococcal nuc 22.0 2.5E+02 0.0054 18.6 6.5 66 27-112 58-125 (129)
333 cd05801 PGM_like3 This bacteri 22.0 3E+02 0.0065 23.5 6.1 52 61-114 37-91 (522)
334 PRK08217 fabG 3-ketoacyl-(acyl 21.9 2.8E+02 0.006 19.9 5.2 22 67-88 15-36 (253)
335 PRK08085 gluconate 5-dehydroge 21.7 2.6E+02 0.0056 20.4 5.0 22 67-88 19-40 (254)
336 PRK09195 gatY tagatose-bisphos 21.5 2.2E+02 0.0048 22.7 4.9 40 72-112 88-130 (284)
337 PF00857 Isochorismatase: Isoc 21.5 1.6E+02 0.0034 20.4 3.7 42 69-113 99-140 (174)
338 PRK09701 D-allose transporter 21.5 3.3E+02 0.0072 20.8 5.8 48 62-113 137-190 (311)
339 TIGR02765 crypto_DASH cryptoch 21.4 2.1E+02 0.0046 23.5 4.9 42 71-113 86-128 (429)
340 cd01536 PBP1_ABC_sugar_binding 21.2 3.1E+02 0.0068 19.5 5.6 46 67-112 104-154 (267)
341 cd06360 PBP1_alkylbenzenes_lik 21.2 2.8E+02 0.006 21.0 5.3 46 67-113 119-165 (336)
342 PRK01130 N-acetylmannosamine-6 21.2 1.7E+02 0.0036 21.7 3.9 41 73-113 80-122 (221)
343 PF02844 GARS_N: Phosphoribosy 21.2 1E+02 0.0023 20.9 2.6 38 71-113 52-89 (100)
344 COG0068 HypF Hydrogenase matur 21.1 2.5E+02 0.0055 25.8 5.5 44 69-114 681-725 (750)
345 TIGR03845 sulfopyru_alph sulfo 21.1 1.9E+02 0.0041 20.7 4.1 37 71-114 2-38 (157)
346 cd06301 PBP1_rhizopine_binding 21.0 2.7E+02 0.0059 20.2 5.0 43 69-112 108-156 (272)
347 PF02662 FlpD: Methyl-viologen 20.7 1.7E+02 0.0038 20.2 3.7 44 69-112 40-92 (124)
348 cd01292 metallo-dependent_hydr 20.7 3.2E+02 0.0069 19.4 5.4 51 61-113 28-83 (275)
349 PF07488 Glyco_hydro_67M: Glyc 20.6 1.9E+02 0.0042 23.9 4.4 48 62-113 55-108 (328)
350 PRK12743 oxidoreductase; Provi 20.6 3.2E+02 0.007 20.0 5.4 22 67-88 12-33 (256)
351 cd07943 DRE_TIM_HOA 4-hydroxy- 20.6 2.3E+02 0.005 21.7 4.7 33 75-107 148-180 (263)
352 PRK13209 L-xylulose 5-phosphat 20.6 2.9E+02 0.0064 20.8 5.3 40 74-113 27-73 (283)
353 PRK14319 glmM phosphoglucosami 20.5 3.1E+02 0.0067 22.6 5.7 56 53-114 9-66 (430)
354 cd00019 AP2Ec AP endonuclease 20.4 2.4E+02 0.0053 21.3 4.8 39 74-112 16-61 (279)
355 TIGR03556 photolyase_8HDF deox 20.4 2.3E+02 0.005 23.8 5.0 42 71-113 80-122 (471)
356 PRK08868 flagellar protein Fla 20.4 95 0.0021 22.7 2.3 29 15-43 87-115 (144)
357 TIGR02415 23BDH acetoin reduct 20.3 3.2E+02 0.007 19.7 5.3 22 67-88 10-31 (254)
358 PRK07791 short chain dehydroge 20.3 2.8E+02 0.006 21.1 5.1 22 67-88 16-37 (286)
359 PLN02229 alpha-galactosidase 20.3 3.1E+02 0.0066 23.4 5.7 53 61-113 77-144 (427)
360 PRK05835 fructose-bisphosphate 20.1 2.8E+02 0.006 22.5 5.2 40 73-113 89-131 (307)
361 TIGR03855 NAD_NadX aspartate d 20.1 2.8E+02 0.006 21.3 5.0 42 71-113 51-92 (229)
362 cd06307 PBP1_uncharacterized_s 20.0 3.6E+02 0.0077 19.7 6.5 49 62-112 106-157 (275)
363 COG3185 4-hydroxyphenylpyruvat 20.0 1.2E+02 0.0026 25.4 3.1 39 68-114 233-271 (363)
364 PF04273 DUF442: Putative phos 20.0 2E+02 0.0043 19.5 3.8 36 73-108 49-84 (110)
365 PF03446 NAD_binding_2: NAD bi 20.0 2.2E+02 0.0047 20.0 4.2 23 68-91 11-33 (163)
366 smart00822 PKS_KR This enzymat 20.0 2.7E+02 0.0058 18.2 5.1 21 68-88 11-31 (180)
No 1
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=100.00 E-value=4.3e-42 Score=238.93 Aligned_cols=104 Identities=26% Similarity=0.387 Sum_probs=99.7
Q ss_pred CCccCCCCCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEe
Q 033650 9 PLKTYQPSEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 9 ~~~~~~~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d 88 (114)
+.+..+..++|||+|++||+|||||||||.+|+||+||||.||++++|+++++|++||+.||++||+||+++||++|+||
T Consensus 6 r~ki~g~~~rpRL~V~rSnkhiyaQvidd~~g~tlasaST~ek~~~~~~~~~~n~~aA~~vG~lla~ra~~~gi~~vvfD 85 (109)
T CHL00139 6 RKKIKGTAERPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKKGITKVVFD 85 (109)
T ss_pred eeeecCCCCCCEEEEEEeCCeEEEEEEECCCCCEEEEEecCchhhhccccCCCCHHHHHHHHHHHHHHHHHCCCCEEEEc
Confidence 44556789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcchhhHHHHHHHHHHHcCccc
Q 033650 89 LKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 89 ~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
||+++|||||+||+|++||+||+|
T Consensus 86 -rgg~~yhGrV~a~a~~are~GL~f 109 (109)
T CHL00139 86 -RGGKLYHGRIKALAEAAREAGLQF 109 (109)
T ss_pred -CCCCccchHHHHHHHHHHHhCCCC
Confidence 899999999999999999999997
No 2
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=100.00 E-value=4.9e-40 Score=231.04 Aligned_cols=101 Identities=36% Similarity=0.468 Sum_probs=95.5
Q ss_pred ccCCCCCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC
Q 033650 11 KTYQPSEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLK 90 (114)
Q Consensus 11 ~~~~~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~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 346789999999999999999999999999999999999999976554 89999999999999999999999999999 7
Q ss_pred CCcchhhHHHHHHHHHHHcCccc
Q 033650 91 REQRYHGKVKAIIDSLREAGVKL 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=8.2e-40 Score=228.98 Aligned_cols=97 Identities=35% Similarity=0.471 Sum_probs=91.8
Q ss_pred cCCCC--CCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEec
Q 033650 12 TYQPS--EPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFL 89 (114)
Q Consensus 12 ~~~~~--~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~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 34566 79999999999999999999999999999999999876 678999999999999999999999999999
Q ss_pred CCCcchhhHHHHHHHHHHHcCccc
Q 033650 90 KREQRYHGKVKAIIDSLREAGVKL 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 899999999999999999999997
No 4
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-38 Score=225.78 Aligned_cols=100 Identities=33% Similarity=0.433 Sum_probs=95.1
Q ss_pred CCCCCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhh--ccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC
Q 033650 13 YQPSEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRS--TIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLK 90 (114)
Q Consensus 13 ~~~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~--~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r 90 (114)
.+.+++|||+|++||+|||||||||..+.++++|||.++++++ |+..++|+++|++||+++|+||+++||++++|| |
T Consensus 24 ~g~~~rpRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~~~g~~~~~~N~~aA~~vG~lia~ra~~kgi~~vVfd-r 102 (125)
T COG0256 24 LGTSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGKKGGGGNTEAAYLVGKLIAERALAKGIEEVVFD-R 102 (125)
T ss_pred ccCCCCcEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhcccCCCCCHHHHHHHHHHHHHHHHHcCCcEEEEc-C
Confidence 4669999999999999999999999999999999999999965 667788999999999999999999999999988 8
Q ss_pred CCcchhhHHHHHHHHHHHcCccc
Q 033650 91 REQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 91 ~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
++++|||||+|++|++||+||+|
T Consensus 103 ~g~~yhgRV~Ala~~AreaGL~f 125 (125)
T COG0256 103 GGYKYHGRVAALADGAREAGLEF 125 (125)
T ss_pred CCCCcchHHHHHHHHHHHcCcCC
Confidence 99999999999999999999997
No 5
>PTZ00032 60S ribosomal protein L18; Provisional
Probab=100.00 E-value=2.6e-38 Score=238.73 Aligned_cols=98 Identities=28% Similarity=0.369 Sum_probs=93.3
Q ss_pred CCCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccC------------CCCCHHHHHHHHHHHHHHHhhCCC
Q 033650 15 PSEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIG------------CTRDVAAASKIGKLLGERLLLKDI 82 (114)
Q Consensus 15 ~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~------------~~~n~~AA~~vG~~la~ra~e~gI 82 (114)
-.++|||+|++||+|||||||||.+++||+||||+++++++.+. .++|+++|+.||++||+||+++||
T Consensus 102 gkrrPRLsV~RSnkHIYAQIIDD~~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~IAerAl~kGI 181 (211)
T PTZ00032 102 GKRRPRLTLKNTNNQMYATIVDDYTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKLIGRKALSKGI 181 (211)
T ss_pred CCCcceEEEEecCCeEEEEEEECCCCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHHHHHHHHHCCC
Confidence 36799999999999999999999999999999999999987665 578999999999999999999999
Q ss_pred CEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 83 PAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 83 ~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
++|+|| ||||+|||||+||||++||+||+|
T Consensus 182 ~kVvFD-RgGy~YHGRVkALAdaARe~GLkF 211 (211)
T PTZ00032 182 SKVRFD-RAHYKYAGKVEALAEGARAVGLQF 211 (211)
T ss_pred CEEEEe-CCCCeehhHHHHHHHHHHHcCCCC
Confidence 999999 899999999999999999999987
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=3.4e-37 Score=211.04 Aligned_cols=102 Identities=33% Similarity=0.437 Sum_probs=97.5
Q ss_pred CCccCCCCCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEe
Q 033650 9 PLKTYQPSEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 9 ~~~~~~~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d 88 (114)
+++..+...+|||+|++||+||||||+||.+++||++|||.|+++++++++++|.+||+.||++||+||+++||++++||
T Consensus 2 ~~~~~~~~~~~RL~v~~Sn~~i~aqvi~~~~~~vl~sast~e~~~~~~~~~~~n~~aA~~vG~~la~r~~~~gi~~vv~D 81 (103)
T cd00432 2 RRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVFD 81 (103)
T ss_pred ceEecCcCCCCEEEEEEeCCEEEEEEEEeCcCeEEEEEecCchhhcccccCCCcHHHHHHHHHHHHHHHHHCCCCEEEEe
Confidence 34556788999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcchhhHHHHHHHHHHHcCc
Q 033650 89 LKREQRYHGKVKAIIDSLREAGV 111 (114)
Q Consensus 89 ~r~~~~yhGrv~a~~~~lre~Gl 111 (114)
|++++|||||+||+|++||+||
T Consensus 82 -~~~~~~~grv~a~~~~~r~~Gl 103 (103)
T cd00432 82 -RGGYRYHGRVKALAKGAREGGL 103 (103)
T ss_pred -CCCcccccHHHHHHHHHHHcCC
Confidence 7999999999999999999997
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=2.5e-36 Score=212.26 Aligned_cols=101 Identities=34% Similarity=0.457 Sum_probs=94.9
Q ss_pred cCCCCCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhc--cCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEec
Q 033650 12 TYQPSEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRST--IGCTRDVAAASKIGKLLGERLLLKDIPAVSVFL 89 (114)
Q Consensus 12 ~~~~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~--l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~ 89 (114)
.+..+++|||+|++||+|||||||||.++.++++|||.|+++++. ..+++|++||+.||++||+||+++||..++||
T Consensus 17 ~~~~~~~~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~~~~~~~~~n~~aa~~vG~lla~ra~~~gi~~v~fd- 95 (119)
T PF00861_consen 17 IKGTAERPRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKKYGWKGSTKNVEAAYLVGELLAKRALEKGIAKVVFD- 95 (119)
T ss_dssp HHHTTSSEEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGGTT-SSTTSSHHHHHHHHHHHHHHHHHTTSSEEEEC-
T ss_pred HhcCCCCCEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhhhhhccCCCCEehHHHHHHHHHHHHHHcCCcEEEEc-
Confidence 356788999999999999999999999999999999999999964 57788999999999999999999999999988
Q ss_pred CCCcchhhHHHHHHHHHHHcCccc
Q 033650 90 KREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 90 r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
|++++|||||+||+|++||+||+|
T Consensus 96 r~~~~y~grv~a~~~~~re~Gl~f 119 (119)
T PF00861_consen 96 RGGYKYHGRVKALADGAREGGLEF 119 (119)
T ss_dssp TSTSSSSSHHHHHHHHHHHTTCB-
T ss_pred CCCCcccHHHHHHHHHHHHcCCCC
Confidence 799999999999999999999997
No 8
>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed
Probab=100.00 E-value=3e-35 Score=221.36 Aligned_cols=100 Identities=27% Similarity=0.202 Sum_probs=95.8
Q ss_pred CCCCCCcEEEEEEeCCceeeEEE--ECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecC
Q 033650 13 YQPSEPYVLKMHLTNKYVSAQVV--HSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLK 90 (114)
Q Consensus 13 ~~~~~~~rL~V~~Snkhi~Aqvi--~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r 90 (114)
+..+++|||+|++||+||||||| ||++|+||+||||.|+..++|+.+++|++||+.||+++|+||+++||++|+|| |
T Consensus 27 l~~~~kpRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g~~~~~~N~~AAy~vG~llA~ral~kGi~~vvfD-r 105 (193)
T PRK08569 27 LLLSGKPRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYGWKGDTGNTPAAYLTGLLAGKKALKAGVEEAVLD-I 105 (193)
T ss_pred HHhcCCCEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhccccCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEe-c
Confidence 34578999999999999999999 89999999999999999999998999999999999999999999999999999 7
Q ss_pred CCcchh--hHHHHHHHHHHHcCccc
Q 033650 91 REQRYH--GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 91 ~~~~yh--Grv~a~~~~lre~Gl~~ 113 (114)
|+++|| |||+|++|++||+||+|
T Consensus 106 Gg~~yh~gGRV~A~akgArd~GL~f 130 (193)
T PRK08569 106 GLHRPTKGSRVFAALKGAIDAGLEI 130 (193)
T ss_pred CCccccCCccHHHHHHHHHHcCCcC
Confidence 999999 99999999999999987
No 9
>KOG3333 consensus Mitochondrial/chloroplast ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=99.82 E-value=6.1e-20 Score=134.73 Aligned_cols=97 Identities=27% Similarity=0.285 Sum_probs=84.9
Q ss_pred CCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcch
Q 033650 16 SEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRY 95 (114)
Q Consensus 16 ~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~y 95 (114)
+=-|+|.|.++..|+.+-|.|.++|. ++||||.||+|+++|+++.|++||.++|++||+||+++||+++++.+.--...
T Consensus 58 sywh~lev~~~~~hveg~v~H~~~gv-vvSAST~EwaIk~qLYst~dtsA~~niGRVLAqRCLqsGI~fm~~~~t~ea~~ 136 (188)
T KOG3333|consen 58 SYWHRLEVIRTQHHVEGLVEHQNGGV-VVSASTREWAIKKQLYSTRDTSACENIGRVLAQRCLQSGINFMVYQPTPEAAA 136 (188)
T ss_pred hheeEEEEeecccceeeeeeEecCCE-EEEecccchHHHHHHhhccchHHHHHHHHHHHHHHHHhCcceeccCCChhhcc
Confidence 33589999999999999999977665 57999999999999999999999999999999999999999998764222234
Q ss_pred hhHHHHHHHHHHHcCccc
Q 033650 96 HGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 96 hGrv~a~~~~lre~Gl~~ 113 (114)
....+-|..++.|+|+.|
T Consensus 137 ~s~~q~l~~a~~e~Gv~l 154 (188)
T KOG3333|consen 137 SSSMQRLQSAMTEGGVVL 154 (188)
T ss_pred chHHHHHHHHHHhCCeee
Confidence 567888999999999976
No 10
>PTZ00069 60S ribosomal protein L5; Provisional
Probab=99.70 E-value=5.2e-17 Score=128.73 Aligned_cols=96 Identities=24% Similarity=0.213 Sum_probs=86.9
Q ss_pred CCcEEEEEEeCCceeeEEEE--CCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhC--------CCC---
Q 033650 17 EPYVLKMHLTNKYVSAQVVH--SPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLK--------DIP--- 83 (114)
Q Consensus 17 ~~~rL~V~~Snkhi~Aqvi~--~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~--------gI~--- 83 (114)
.+|||+|++||++|.|||+. .++++||+||+|.|+.-.+|..+.+|.+|||.+|.++|.|++++ |++
T Consensus 47 pK~RlVVR~TN~~ii~Qiv~~~~~GD~vl~sA~S~eL~kyG~k~gl~N~~AAY~TGlL~arR~L~kl~ld~~y~G~~e~~ 126 (300)
T PTZ00069 47 PKYRLVVRITNKDIICQIVYATIVGDKVLAAAYSHELPRFGIPVGLTNYAAAYATGLLLARRLLKKLGLDKQFEGVKEAD 126 (300)
T ss_pred CCceEEEEEECCcEEEEEEEeecCCCEEEEEeehhhHhhcCcCCCCccHHHHHHHHHHHHHHHHHhhcccccccCccccc
Confidence 36999999999999999998 67999999999999998899999999999999999999999998 773
Q ss_pred -----------------EEEEecCCCc--chhhHHHHHHHHHHHcCccc
Q 033650 84 -----------------AVSVFLKREQ--RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 84 -----------------~v~~d~r~~~--~yhGrv~a~~~~lre~Gl~~ 113 (114)
++++|. |.. ..++||+|+++|+.|+||++
T Consensus 127 g~~y~v~e~~~~~~rpf~a~LDi-GL~rtt~G~RVFaalKGa~DgGl~I 174 (300)
T PTZ00069 127 GEYYHVDEEDDEERRPFKAILDV-GLARTTTGNRVFGALKGAVDGGLHI 174 (300)
T ss_pred CcccccccccccCCCCceEEEee-ccccCCCCceeeeehhcccccCccc
Confidence 677886 754 46789999999999999985
No 11
>PTZ00090 40S ribosomal protein S11; Provisional
Probab=98.22 E-value=3.4e-05 Score=59.66 Aligned_cols=93 Identities=18% Similarity=0.322 Sum_probs=75.2
Q ss_pred CCCCcEEEEEEeCCceeeEEEECCCCe-EEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc
Q 033650 15 PSEPYVLKMHLTNKYVSAQVVHSPTAT-VASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQ 93 (114)
Q Consensus 15 ~~~~~rL~V~~Snkhi~Aqvi~~~~~~-~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~ 93 (114)
.-.++.++|.-|-+.+.++|.|..+.. ||+-+|+-..-+++.. .+.--||+.+++.+|++|++.||..|.+..+|.
T Consensus 115 p~~~f~~vI~aSfNNTIVTlTD~~GNv~tl~WSSAG~~GFKGsK--KsTpfAAQ~aae~aakka~~~GIk~V~V~vKGp- 191 (233)
T PTZ00090 115 PTDRFMLVITTSKNNVHAQVVNKSKNYKTVFGSFAGNVGFRKKL--QQSERCAYRIGENIAKKCRRLGIFAVDIKFRRI- 191 (233)
T ss_pred CCCcEEEEEEeccCcEEEEEEeCCCCEEEEEEEcccccCcccCc--cCCHHHHHHHHHHHHHHHHHcCCeEEEEEEeCC-
Confidence 356789999999999999999966664 5777776665666532 345668899999999999999999998877665
Q ss_pred chhhHHHHHHHHHHHcCccc
Q 033650 94 RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 94 ~yhGrv~a~~~~lre~Gl~~ 113 (114)
.| ..+++.++..+||++
T Consensus 192 --Gg-REtALRaL~~~GLkI 208 (233)
T PTZ00090 192 --MR-VETVLQAFYANGLQV 208 (233)
T ss_pred --Ch-HHHHHHHHHHCCCEE
Confidence 34 899999999999986
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=98.11 E-value=4.3e-05 Score=52.97 Aligned_cols=87 Identities=15% Similarity=0.169 Sum_probs=69.6
Q ss_pred EEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHH
Q 033650 21 LKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVK 100 (114)
Q Consensus 21 L~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~ 100 (114)
+.|+-|.+.+...+.| ..|.++.+.|+-...+++. ......||+.+++.++++|++.||+.+.+..+|. --||-
T Consensus 3 ihI~~s~NNt~vtlTd-~~G~~~~~~S~G~~gfK~~--rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~ikG~--g~gr~- 76 (110)
T PF00411_consen 3 IHIKSSFNNTIVTLTD-LKGNVLFWSSAGSLGFKGA--RKSTPYAAQQAAEKIAKKAKELGIKTVRVKIKGF--GPGRE- 76 (110)
T ss_dssp EEEEEESSEEEEEEEE-TTSEEEEEEETTTSSTTTT--CGSSHHHHHHHHHHHHHHHHCTTEEEEEEEEESS--STTHH-
T ss_pred EEEEecCCCEEEEEEC-CCCCEEEEEeccccccccc--cccCHHHHHHHHHHHHHHHHHcCCeEEEEEEcCC--CccHH-
Confidence 6788899999999998 5577888888877777763 3567899999999999999999999988877652 13444
Q ss_pred HHHHHHHHcCccc
Q 033650 101 AIIDSLREAGVKL 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 5668888899876
No 13
>CHL00041 rps11 ribosomal protein S11
Probab=98.00 E-value=0.00012 Score=51.37 Aligned_cols=88 Identities=16% Similarity=0.211 Sum_probs=71.2
Q ss_pred EEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHH
Q 033650 20 VLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKV 99 (114)
Q Consensus 20 rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv 99 (114)
.+.|+.|.+.+...+.|. .|.++.++|.-...+++. .....-||..+++.++++|++.|+..+.+..||.- .||
T Consensus 15 i~hI~~t~NNTiiTlTd~-~G~~l~~~S~G~~gfKg~--rK~T~~Aa~~~a~~~~~~~~~~gi~~v~I~ikG~G--~Gr- 88 (116)
T CHL00041 15 VIHIQASFNNTIVTVTDV-RGRVISWSSAGACGFKGA--RKGTPFAAQTAAENAIRTVIDQGMKRAEVMIKGPG--LGR- 88 (116)
T ss_pred EEEEEcccCCEEEEEEcC-CCCEEEEEecCceeeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECCC--CcH-
Confidence 578889999999999985 567888888876667653 24567899999999999999999999988876532 355
Q ss_pred HHHHHHHHHcCccc
Q 033650 100 KAIIDSLREAGVKL 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 66779999999986
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=97.99 E-value=0.00013 Score=50.49 Aligned_cols=87 Identities=18% Similarity=0.219 Sum_probs=69.5
Q ss_pred EEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHH
Q 033650 21 LKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVK 100 (114)
Q Consensus 21 L~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~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--KKSTPYAAQLAAEDAAKKAKEFGMKTVDVYVKGPG-A-GR-E 76 (108)
T ss_pred EEEEccCCCEEEEEEcC-CCCEEEEEecCceeeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECCC-C-cH-H
Confidence 57888999999999986 456788888766666653 34567889999999999999999999988876532 2 44 6
Q ss_pred HHHHHHHHcCccc
Q 033650 101 AIIDSLREAGVKL 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 7888889899986
No 15
>KOG0875 consensus 60S ribosomal protein L5 [Translation, ribosomal structure and biogenesis]
Probab=97.84 E-value=1.1e-05 Score=63.36 Aligned_cols=97 Identities=20% Similarity=0.165 Sum_probs=75.4
Q ss_pred CCCcEEEEEEeCCceeeEEEE--CCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhh-CCCCEE-------
Q 033650 16 SEPYVLKMHLTNKYVSAQVVH--SPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLL-KDIPAV------- 85 (114)
Q Consensus 16 ~~~~rL~V~~Snkhi~Aqvi~--~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~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 457999999999999999997 4577788899999998777666678999999999999999986 564432
Q ss_pred -------------------EEecCCCcc--hhhHHHHHHHHHHHcCccc
Q 033650 86 -------------------SVFLKREQR--YHGKVKAIIDSLREAGVKL 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 1121 1111 2348999999999999875
No 16
>PRK05309 30S ribosomal protein S11; Validated
Probab=97.83 E-value=0.00035 Score=49.81 Aligned_cols=90 Identities=20% Similarity=0.238 Sum_probs=71.2
Q ss_pred CcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh
Q 033650 18 PYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHG 97 (114)
Q Consensus 18 ~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhG 97 (114)
.-.+.|+-|.+.+...+.|. .|.+++.+|.-...+++. ..+..-||..+++.+++.|++.||..+.+..+|. - .|
T Consensus 17 ~gi~hI~~t~NNTiitlTd~-~G~~~~~~S~G~~gfKg~--rK~T~~Aa~~aa~~~~~~~~~~gi~~v~v~ikG~-G-~G 91 (128)
T PRK05309 17 SGVAHIHATFNNTIVTITDR-QGNVISWASAGGLGFKGS--RKSTPYAAQVAAEDAAKKAKEHGMKTVEVFVKGP-G-SG 91 (128)
T ss_pred eeEEEEEccCCCEEEEEEcC-CCCEEEEEecCccEeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECC-C-Cc
Confidence 34688999999999999984 567788888766666653 3456789999999999999999999998887653 2 24
Q ss_pred HHHHHHHHHHHcCccc
Q 033650 98 KVKAIIDSLREAGVKL 113 (114)
Q Consensus 98 rv~a~~~~lre~Gl~~ 113 (114)
| .+++.+|...||++
T Consensus 92 r-~~air~L~~~glkI 106 (128)
T PRK05309 92 R-ESAIRALQAAGLEV 106 (128)
T ss_pred H-HHHHHHHHHCCCEE
Confidence 4 67778888899976
No 17
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=97.64 E-value=0.0011 Score=47.65 Aligned_cols=93 Identities=14% Similarity=0.075 Sum_probs=68.7
Q ss_pred cEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCC--Ccc--
Q 033650 19 YVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKR--EQR-- 94 (114)
Q Consensus 19 ~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~--~~~-- 94 (114)
-.+.|+-|-+.....|.|..+..+++.+|.-..-+++. ..+.--||...++.++++|++.||+.|.+..+| +..
T Consensus 10 gi~hI~as~NNTivtvTD~~G~~~~~~~S~G~~g~kg~--kK~TpyAAq~aae~~~~~~~~~Gi~~v~v~vkG~Ggn~~~ 87 (132)
T PRK09607 10 GIAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADR--DESSPYAAMQAAEKAAEDAKEKGITGVHIKVRAPGGNGQK 87 (132)
T ss_pred eEEEEEcccCCeEEEEEcCCCCEEEEEecCcceeeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCc
Confidence 36788999999999999866556887777765544432 234456899999999999999999999888876 111
Q ss_pred -hhhHHHHHHHHHHHcCccc
Q 033650 95 -YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 95 -yhGrv~a~~~~lre~Gl~~ 113 (114)
++--=.+.+.+|...||++
T Consensus 88 ~~G~Gr~~airal~~~glkI 107 (132)
T PRK09607 88 SPGPGAQAAIRALARAGLRI 107 (132)
T ss_pred CCCCcHHHHHHHHHHCCCEE
Confidence 2212356678888899986
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=97.59 E-value=0.0013 Score=46.26 Aligned_cols=91 Identities=12% Similarity=0.072 Sum_probs=67.5
Q ss_pred EEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCC--Ccc---h
Q 033650 21 LKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKR--EQR---Y 95 (114)
Q Consensus 21 L~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~--~~~---y 95 (114)
+.|+-|-+.....|.|..+..+++-+|.-..-+++. ..+.--||....+.++++|++.||..+.+..|| +.+ +
T Consensus 5 ~hI~as~NNTiitvTD~~G~~~~~~~S~G~~g~kg~--kk~TpyAAq~aa~~~~~~~~~~Gi~~v~v~ikG~gg~~~~~~ 82 (114)
T TIGR03628 5 AHIYSSFNNTIITITDITGAETIARSSGGMVVKADR--DESSPYAAMQAAGRAAEKAKERGITGLHIKVRAPGGNGQKSP 82 (114)
T ss_pred EEEEccCCCeEEEEEcCCCCEEEEEecCcceEeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCCCC
Confidence 567888888999999866667887777765555542 234556899999999999999999999888876 222 2
Q ss_pred hhHHHHHHHHHHHcCccc
Q 033650 96 HGKVKAIIDSLREAGVKL 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 212356678889999986
No 19
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=97.36 E-value=0.0025 Score=46.71 Aligned_cols=93 Identities=15% Similarity=0.066 Sum_probs=67.1
Q ss_pred cEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCC--Ccc--
Q 033650 19 YVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKR--EQR-- 94 (114)
Q Consensus 19 ~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~--~~~-- 94 (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-GRETLVRVTGGMKVKADR-DESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRTK 106 (149)
T ss_pred EEEEEEcccCCeEEEEEccc-CCEEEEEecCcceecccc-cCCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEecCCCCCC
Confidence 36788889899999999855 555666676555566431 133456889999999999999999999888754 222
Q ss_pred -hhhHHHHHHHHHHHcCccc
Q 033650 95 -YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 95 -yhGrv~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 2212456778999999986
No 20
>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=96.93 E-value=0.02 Score=41.08 Aligned_cols=87 Identities=22% Similarity=0.189 Sum_probs=63.0
Q ss_pred EEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHH
Q 033650 21 LKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVK 100 (114)
Q Consensus 21 L~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~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 4455566666666665 67778889998777777642 4566778889999999999999999877766620 23 35
Q ss_pred HHHHHHHHcCccc
Q 033650 101 AIIDSLREAGVKL 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 6677777888875
No 21
>KOG0408 consensus Mitochondrial/chloroplast ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=96.04 E-value=0.075 Score=39.90 Aligned_cols=95 Identities=19% Similarity=0.169 Sum_probs=71.2
Q ss_pred CCCCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc
Q 033650 14 QPSEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQ 93 (114)
Q Consensus 14 ~~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~ 93 (114)
.+.+-|...|.-|-++...+|.| ..|.++..+|-----+++. ..+..-||...|-..+.|+.+.|+..+-+-.+|.
T Consensus 75 ~f~eiPi~hIraS~NNTivtVtd-~kg~vi~~~ScgteGFrnt--rkgT~iAaQtaavaa~~r~v~~G~~~vrV~VkGl- 150 (190)
T KOG0408|consen 75 NFREIPIIHIRASFNNTIVTVTD-VKGEVISWSSCGTEGFRNT--RKGTPIAAQTAAVAAIRRAVDQGMQTVRVRVKGL- 150 (190)
T ss_pred cccccceEEEEecCCCeEEEEEc-cCCcEEEEeeccccccccc--ccCCchhHHHHHHHHHHHHHHhcceEEEEEEecC-
Confidence 34667788999999999999997 6677776655544446552 2345568888999999999999999987776553
Q ss_pred chhhHHHHHHHHHHHcCcccC
Q 033650 94 RYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 94 ~yhGrv~a~~~~lre~Gl~~~ 114 (114)
=-||..| +.+|+-+||.++
T Consensus 151 -GpGRmsa-~kgl~m~Gl~vv 169 (190)
T KOG0408|consen 151 -GPGRMSA-LKGLRMGGLLVV 169 (190)
T ss_pred -CccHHHH-HhhhhhcceEEE
Confidence 1477765 589999998763
No 22
>KOG0407 consensus 40S ribosomal protein S14 [Translation, ribosomal structure and biogenesis]
Probab=94.88 E-value=0.39 Score=34.08 Aligned_cols=92 Identities=11% Similarity=0.093 Sum_probs=63.6
Q ss_pred EEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCC--Ccc---
Q 033650 20 VLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKR--EQR--- 94 (114)
Q Consensus 20 rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~--~~~--- 94 (114)
...++-|-+..+..|.|-.+..||+-.+---+ +|.+ ...++--||-+-..-.|.+|++.||+.+.+-.|. |.+
T Consensus 18 vahi~asfndtfvhitdlsg~eti~rvtggmk-vkad-rdesspyaamlaaqdva~kck~~gi~alh~klratgg~ktkt 95 (139)
T KOG0407|consen 18 VAHIFASFNDTFVHVTDLSGKETIVRVTGGMK-VKAD-RDESSPYAAMLAAQDVAAKCKELGITALHIKLRATGGTKTKT 95 (139)
T ss_pred EEEEEeecccceEEEeccCCceEEEEecCCeE-Eecc-cccCChHHHHHHHHHHHHHHHhcCeeEEEEEEEecCCcccCC
Confidence 34677788888888888888889887665322 2221 2335666788888999999999999999887653 322
Q ss_pred hhhHHHHHHHHHHHcCccc
Q 033650 95 YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 95 yhGrv~a~~~~lre~Gl~~ 113 (114)
.+---++.+.+|-.+|+.+
T Consensus 96 pgpgaqsalralar~gmri 114 (139)
T KOG0407|consen 96 PGPGAQSALRALARSGMRI 114 (139)
T ss_pred CCccHHHHHHHHHHhccee
Confidence 2223566677777777764
No 23
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=84.61 E-value=4.2 Score=30.49 Aligned_cols=53 Identities=17% Similarity=0.244 Sum_probs=41.1
Q ss_pred ccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033650 56 TIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA 109 (114)
Q Consensus 56 ~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~ 109 (114)
|++--++.+||++.|+-++..+....+.+.++-+. +.--.=-+..|++|++++
T Consensus 6 Q~pYlGd~~a~r~mGerIGRaaQ~FEV~eLiiap~-~~vda~eL~~Fl~gV~~G 58 (173)
T PF14419_consen 6 QMPYLGDLKACRKMGERIGRAAQAFEVKELIIAPK-EKVDAYELMEFLRGVREG 58 (173)
T ss_pred eccccCCHHHHHHHHHHHhHHHhhcchheEEEecc-CccCHHHHHHHHHHHHHh
Confidence 44556899999999999999999999999988762 222222377888888874
No 24
>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=80.15 E-value=6.6 Score=33.43 Aligned_cols=54 Identities=17% Similarity=0.201 Sum_probs=42.2
Q ss_pred CCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 59 CTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 59 ~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
.+.+...+...|..+|+++++.|++.|++-. .=-.-|=-....++.+.++||..
T Consensus 314 ~gt~~~~a~~~g~eIa~~Lk~dgVDAvILts-tCgtCtrcga~m~keiE~~GIPv 367 (431)
T TIGR01917 314 NGTAVANSKQFAKEFSKELLAAGVDAVILTS-TUGTCTRCGATMVKEIERAGIPV 367 (431)
T ss_pred CCccHHHHHHHHHHHHHHHHHcCCCEEEEcC-CCCcchhHHHHHHHHHHHcCCCE
Confidence 4567788999999999999999999998873 32233445677888888899864
No 25
>PRK04302 triosephosphate isomerase; Provisional
Probab=77.53 E-value=5.8 Score=29.92 Aligned_cols=47 Identities=11% Similarity=0.203 Sum_probs=38.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 67889999999999999988752233567789999999999998653
No 26
>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=76.13 E-value=11 Score=32.13 Aligned_cols=54 Identities=15% Similarity=0.118 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 59 CTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 59 ~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
.+.+...+...|..+|+++++.|++.|++-. .=-.-|=-....++.+.++||.+
T Consensus 314 ~gt~~~~a~~~g~eIa~~Lk~dgVDAVILTs-tCgtC~r~~a~m~keiE~~GiPv 367 (431)
T TIGR01918 314 NGTTVAESKQFAKEFVVELKQGGVDAVILTS-TUGTCTRCGATMVKEIERAGIPV 367 (431)
T ss_pred CCchHHHHHHHHHHHHHHHHHcCCCEEEEcC-CCCcchhHHHHHHHHHHHcCCCE
Confidence 4456788889999999999999999998873 22233445677788888899864
No 27
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=74.69 E-value=11 Score=22.76 Aligned_cols=42 Identities=17% Similarity=0.206 Sum_probs=29.8
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 70 GKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 70 G~~la~ra~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 3568899999999999887643 23332 355677778888764
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=74.20 E-value=6 Score=28.56 Aligned_cols=40 Identities=15% Similarity=0.307 Sum_probs=30.5
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~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 4422 3446778888876 788764
No 29
>COG1472 BglX Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]
Probab=73.58 E-value=8.1 Score=32.20 Aligned_cols=55 Identities=25% Similarity=0.360 Sum_probs=40.5
Q ss_pred cCCCCCHHHHHHHHHHHHHHHhhCCCCEE---EEec----CC---Ccc-hhh-------HHHHHHHHHHHcCc
Q 033650 57 IGCTRDVAAASKIGKLLGERLLLKDIPAV---SVFL----KR---EQR-YHG-------KVKAIIDSLREAGV 111 (114)
Q Consensus 57 l~~~~n~~AA~~vG~~la~ra~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 56778999999999999999999999842 1222 21 223 432 36788999998886
No 30
>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=73.36 E-value=7.1 Score=27.98 Aligned_cols=40 Identities=18% Similarity=0.267 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA-GVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~-Gl~~~ 114 (114)
+++.|++.+++.||+.+.--+ .+-+..|.+++.+. |+.++
T Consensus 3 ~~~~l~~~L~~~Gv~~vfgvp------G~~~~~l~~al~~~~~i~~i 43 (172)
T PF02776_consen 3 GAEALAEALKANGVTHVFGVP------GSGNLPLLDALEKSPGIRFI 43 (172)
T ss_dssp HHHHHHHHHHHTT-SEEEEE--------GGGHHHHHHHHHTTTSEEE
T ss_pred HHHHHHHHHHHCCCeEEEEEe------ChhHhHHHHHhhhhcceeee
Confidence 578999999999999984332 34466799999988 68764
No 31
>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=72.59 E-value=4.6 Score=27.63 Aligned_cols=40 Identities=18% Similarity=0.236 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
....+.+.|.++|+..++|.. | ..-..+.+.++++|+.++
T Consensus 67 ~~~~~v~~~~~~g~~~v~~~~-g-----~~~~~~~~~a~~~gi~vi 106 (116)
T PF13380_consen 67 KVPEIVDEAAALGVKAVWLQP-G-----AESEELIEAAREAGIRVI 106 (116)
T ss_dssp HHHHHHHHHHHHT-SEEEE-T-T-----S--HHHHHHHHHTT-EEE
T ss_pred HHHHHHHHHHHcCCCEEEEEc-c-----hHHHHHHHHHHHcCCEEE
Confidence 344456777888999998884 4 667889999999999874
No 32
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=72.43 E-value=8.6 Score=32.03 Aligned_cols=53 Identities=13% Similarity=0.248 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHHH-----------------HHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033650 60 TRDVAAASKIGKL-----------------LGERLLLKDIPAVSVFLKREQRY-HGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 60 ~~n~~AA~~vG~~-----------------la~ra~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 4578899998865 89999999999999996 66544 779999999999999864
No 33
>COG1611 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]
Probab=72.01 E-value=6.3 Score=29.98 Aligned_cols=41 Identities=22% Similarity=0.254 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 63 VAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 63 ~~AA~~vG~~la~ra~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 356888888888876 55555 234 789999999999988654
No 34
>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=70.37 E-value=18 Score=26.47 Aligned_cols=46 Identities=17% Similarity=0.161 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQR---YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 4456677777777899998776 23222 2478999999999988753
No 35
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=69.56 E-value=17 Score=27.08 Aligned_cols=42 Identities=21% Similarity=0.164 Sum_probs=33.0
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
-.++-+.+.||..-+.= =+.|+-..++..+++.+++.|+++|
T Consensus 20 ~Aa~~L~~fgi~ye~~V-vSAHRTPe~m~~ya~~a~~~g~~vi 61 (162)
T COG0041 20 KAAEILEEFGVPYEVRV-VSAHRTPEKMFEYAEEAEERGVKVI 61 (162)
T ss_pred HHHHHHHHcCCCeEEEE-EeccCCHHHHHHHHHHHHHCCCeEE
Confidence 34566677899865433 2788999999999999999999764
No 36
>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=68.97 E-value=17 Score=26.46 Aligned_cols=44 Identities=20% Similarity=0.208 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 68 ~vG~~la~ra~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 3456666666667988887652 221 2246899999999999975
No 37
>PRK09492 treR trehalose repressor; Provisional
Probab=68.91 E-value=20 Score=27.19 Aligned_cols=44 Identities=16% Similarity=0.099 Sum_probs=31.7
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCC--c--chhhHHHHHHHHHHHcCccc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKRE--Q--RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~ra~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 44556666667899998765 222 1 12579999999999999864
No 38
>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=68.76 E-value=22 Score=26.21 Aligned_cols=47 Identities=19% Similarity=0.316 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCC-cc-hhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKRE-QR-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 34567777788888899998765 222 11 2368999999999999864
No 39
>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=68.29 E-value=9.6 Score=31.78 Aligned_cols=42 Identities=12% Similarity=0.105 Sum_probs=30.2
Q ss_pred HHHHHHHhhCCCCEEEEecCCC------------------cchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKRE------------------QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~e~gI~~v~~d~r~~------------------~~yhGrv~a~~~~lre~Gl~~ 113 (114)
..+|+.+++.|++-+++|| |= .++-+-++++++.+++.|++|
T Consensus 61 ~~~a~~~~~~G~e~fviDD-GW~~~r~~d~~~~GdW~~~~~kFP~Gl~~l~~~i~~~Gmk~ 120 (394)
T PF02065_consen 61 LELADAAAELGYEYFVIDD-GWFGGRDDDNAGLGDWEPDPKKFPNGLKPLADYIHSLGMKF 120 (394)
T ss_dssp HHHHHHHHHHT-SEEEE-S-SSBCTESTTTSTTSBECBBTTTSTTHHHHHHHHHHHTT-EE
T ss_pred HHHHHHHHHhCCEEEEEcC-ccccccCCCcccCCceeEChhhhCCcHHHHHHHHHHCCCeE
Confidence 3457788999999999997 31 134445999999999999986
No 40
>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=68.06 E-value=25 Score=25.83 Aligned_cols=48 Identities=13% Similarity=0.168 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEec-CCCcchhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFL-KREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 455677777777888998887542 112223468999999999999864
No 41
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=67.14 E-value=13 Score=30.06 Aligned_cols=42 Identities=12% Similarity=0.080 Sum_probs=33.5
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
-..+.|.++||..+++. ..++.-.|....+.+.+|++|+.++
T Consensus 84 ~al~e~~~~Gvk~~vIi-saGf~e~g~~~~~~~~ar~~girvi 125 (300)
T PLN00125 84 AAILEAMEAELDLVVCI-TEGIPQHDMVRVKAALNRQSKTRLI 125 (300)
T ss_pred HHHHHHHHcCCCEEEEE-CCCCCcccHHHHHHHHHhhcCCEEE
Confidence 44566889999999888 4788888866667777899999764
No 42
>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=66.78 E-value=22 Score=26.02 Aligned_cols=46 Identities=20% Similarity=0.255 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 34555666666667888876652 322 23479999999999999864
No 43
>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=66.75 E-value=11 Score=31.25 Aligned_cols=53 Identities=15% Similarity=0.320 Sum_probs=45.3
Q ss_pred CCCHHHHHHHHHH-----------------HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 60 TRDVAAASKIGKL-----------------LGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 60 ~~n~~AA~~vG~~-----------------la~ra~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 4578899988864 89999999999999996 76666789999999999999864
No 44
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=66.53 E-value=24 Score=27.13 Aligned_cols=46 Identities=15% Similarity=0.220 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~---~yhGrv~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|..++.|- .+.. ....|...|.+++.+.|+.+
T Consensus 167 ~~~~~~a~~~L~~~G~~~I~~i-~g~~~~~~~~~R~~Gf~~al~~~g~~~ 215 (342)
T PRK10014 167 MQAAQLLTEHLIRNGHQRIAWL-GGQSSSLTRAERVGGYCATLLKFGLPF 215 (342)
T ss_pred HHHHHHHHHHHHHCCCCEEEEE-cCCcccccHHHHHHHHHHHHHHcCCCC
Confidence 3455566666677899898765 2322 22469999999999999863
No 45
>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=66.42 E-value=29 Score=25.43 Aligned_cols=51 Identities=18% Similarity=0.286 Sum_probs=37.4
Q ss_pred CCHHHHHHHHHHHHHHHhhC--CCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033650 61 RDVAAASKIGKLLGERLLLK--DIPAVSVFLKRE---QRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 46778889999999988865 55666554 221 22356899999999999975
No 46
>PRK07449 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase; Validated
Probab=66.22 E-value=13 Score=31.66 Aligned_cols=43 Identities=12% Similarity=0.084 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 66 A~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
...++..|++++++.||+.+.--+ ++.+..|.+++.+ .||+++
T Consensus 8 ~~~~a~~l~~~L~~~GV~~vFgvp------G~~~~~l~~~l~~~~~i~~v 51 (568)
T PRK07449 8 NTLWAAVILEELTRLGVRHVVIAP------GSRSTPLTLAAAEHPRLRLH 51 (568)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECC------CCccHHHHHHHHhCCCcEEE
Confidence 378999999999999999984332 4567788888854 478764
No 47
>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=66.21 E-value=17 Score=28.26 Aligned_cols=39 Identities=15% Similarity=0.123 Sum_probs=28.2
Q ss_pred HHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 75 ERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 75 ~ra~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 346789999999998788888888999999999999753
No 48
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=66.21 E-value=9.6 Score=32.56 Aligned_cols=41 Identities=20% Similarity=0.290 Sum_probs=33.1
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
.++..|++++++.||+.|.--+ ++.+..|++++.+.|++++
T Consensus 17 ~~~~~i~~~L~~~Gv~~vFg~p------G~~~~~l~~al~~~~i~~i 57 (571)
T PRK07710 17 TGAQMLIEALEKEGVEVIFGYP------GGAVLPLYDALYDCGIPHI 57 (571)
T ss_pred hHHHHHHHHHHHcCCCEEEeCC------CcchHHHHHHHHhcCCcEE
Confidence 5799999999999999984332 4668889999988888764
No 49
>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=66.11 E-value=24 Score=26.28 Aligned_cols=47 Identities=6% Similarity=-0.150 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHhh--CCCCEEEEecCCC--cchhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLL--KDIPAVSVFLKRE--QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 35567778888888 899998654 122 233578999999999999864
No 50
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=65.69 E-value=23 Score=27.00 Aligned_cols=46 Identities=13% Similarity=0.179 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 3446777778888999998765 2322 23469999999999999864
No 51
>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=64.28 E-value=20 Score=27.61 Aligned_cols=47 Identities=19% Similarity=0.250 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHhhCCCCE-EEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIPA-VSVFLKREQ---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 3455667888888999999 75552 322 23468999999999999853
No 52
>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=64.16 E-value=26 Score=25.69 Aligned_cols=46 Identities=11% Similarity=0.105 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQR---YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 3456667777777898888665 23222 2358899999999999864
No 53
>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=64.00 E-value=25 Score=25.53 Aligned_cols=46 Identities=11% Similarity=0.156 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---c-chhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE---Q-RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~---~-~yhGrv~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|..++.+- .+. . ..+.|.+.|.+.+.+.|+++
T Consensus 101 ~~~g~~~~~~l~~~g~~~i~~i-~~~~~~~~~~~~r~~gf~~~l~~~~~~~ 150 (266)
T cd06282 101 RAAARDVAQALAALGHRRIAML-AGRLAASDRARQRYAGYRAAMRAAGLAP 150 (266)
T ss_pred HHHHHHHHHHHHHcCcccEEEe-ccccccCchHHHHHHHHHHHHHHcCCCC
Confidence 5566667777777799988665 221 1 23568999999999999863
No 54
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=63.48 E-value=15 Score=28.16 Aligned_cols=45 Identities=24% Similarity=0.380 Sum_probs=35.5
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhh-----------------HHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHG-----------------KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 366778999999999998888 4443333 78999999999998653
No 55
>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=63.16 E-value=29 Score=25.50 Aligned_cols=44 Identities=9% Similarity=0.021 Sum_probs=31.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCccc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQR---YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~ra~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 45666777777899998766 33222 2358899999999999753
No 56
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=62.84 E-value=30 Score=26.61 Aligned_cols=46 Identities=20% Similarity=0.330 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE---QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 4557777788888898888665 231 223568999999999999875
No 57
>PLN02591 tryptophan synthase
Probab=62.77 E-value=16 Score=28.63 Aligned_cols=40 Identities=10% Similarity=0.053 Sum_probs=30.9
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 3578899999999987654 224667888899999998764
No 58
>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=62.58 E-value=16 Score=24.78 Aligned_cols=40 Identities=10% Similarity=0.240 Sum_probs=29.6
Q ss_pred HHHHhhCCCCEEEEec--CCCcchhhHHHHHHHHHHHcCccc
Q 033650 74 GERLLLKDIPAVSVFL--KREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 74 a~ra~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 4678899999986653 123346789999999999999864
No 59
>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=62.01 E-value=34 Score=25.08 Aligned_cols=46 Identities=13% Similarity=0.110 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC-c--chhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE-Q--RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 4455666666677899998655 222 1 12368999999999999753
No 60
>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=61.69 E-value=31 Score=25.03 Aligned_cols=45 Identities=13% Similarity=0.138 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cc-hhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE---QR-YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 45678888888888999876652 22 22 247999999999999864
No 61
>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=61.59 E-value=34 Score=24.87 Aligned_cols=45 Identities=18% Similarity=0.076 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCC---CcchhhHHHHHHHHHHHcCccc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKR---EQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~ra~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 EAFYEALKYLIQKGYRKIAYC-IGRKKSLNSQSRKKAYKDALEEYGLTP 147 (260)
T ss_pred HHHHHHHHHHHHCCCceEEEE-cCCcccchhHHHHHHHHHHHHHcCCCC
Confidence 455566667777899998654 22 1234579999999999999753
No 62
>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=61.56 E-value=33 Score=25.01 Aligned_cols=47 Identities=13% Similarity=0.171 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKRE---QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 SEEGGYLATRHLIELGHRRIGCIT-GPLEKAPAQQRLAGFRRAMAEAGLPV 150 (269)
T ss_pred cHHHHHHHHHHHHHCCCceEEEEe-CCCCCccHHHHHHHHHHHHHHcCCCC
Confidence 355667777777788988886652 22 123458999999999999864
No 63
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=61.20 E-value=14 Score=25.46 Aligned_cols=41 Identities=29% Similarity=0.349 Sum_probs=28.3
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~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 4566777788999998774 4555789999999999999875
No 64
>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=61.19 E-value=32 Score=25.10 Aligned_cols=45 Identities=16% Similarity=0.318 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc----hhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQR----YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 55667777777778999887652 3221 125899999999999865
No 65
>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=61.01 E-value=33 Score=26.21 Aligned_cols=45 Identities=13% Similarity=0.203 Sum_probs=32.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc--c--hhhHHHHHHHHHHHcCccc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQ--R--YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~ra~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 346667777788899998765 2322 1 2568999999999999864
No 66
>PRK05337 beta-hexosaminidase; Provisional
Probab=60.96 E-value=22 Score=28.90 Aligned_cols=50 Identities=24% Similarity=0.316 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEE---EEec--CCC---c-chh------h-HHHHHHHHHHHcCcc
Q 033650 63 VAAASKIGKLLGERLLLKDIPAV---SVFL--KRE---Q-RYH------G-KVKAIIDSLREAGVK 112 (114)
Q Consensus 63 ~~AA~~vG~~la~ra~e~gI~~v---~~d~--r~~---~-~yh------G-rv~a~~~~lre~Gl~ 112 (114)
.+.++..|+++|+.+++.||+-. ++|. +.. . .|+ + -..|++++++++|+-
T Consensus 96 ~~la~~~g~~~a~Elra~Gin~~~aPvlDv~~~~~~ig~RsfgeDp~lv~~~a~a~i~Glq~~gv~ 161 (337)
T PRK05337 96 LKLAEEAGWLMAAELRACGIDLSFAPVLDLDGISAVIGDRAFHRDPQVVAALASAFIDGMHAAGMA 161 (337)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccccCccCCCCCCCeeeccCCCCCHHHHHHHHHHHHHHHHHCCCE
Confidence 78899999999999999999863 2343 111 1 121 1 357899999999873
No 67
>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=60.63 E-value=34 Score=24.82 Aligned_cols=45 Identities=13% Similarity=0.111 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc--c-hhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ--R-YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 45566667777778999987652 221 1 246899999999999875
No 68
>COG3345 GalA Alpha-galactosidase [Carbohydrate transport and metabolism]
Probab=60.48 E-value=12 Score=33.35 Aligned_cols=41 Identities=7% Similarity=0.039 Sum_probs=33.7
Q ss_pred HHHHHHhhCCCCEEEEecCCCc------------------chhhHHHHHHHHHHHcCccc
Q 033650 72 LLGERLLLKDIPAVSVFLKREQ------------------RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~ra~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 433 46667999999999999986
No 69
>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=60.37 E-value=38 Score=24.92 Aligned_cols=45 Identities=22% Similarity=0.279 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc--ch-hhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ--RY-HGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~--~y-hGrv~a~~~~lre~Gl~ 112 (114)
+..|+.+|+.+.+.|..++.+.. +.. .. .-|...|.+++++.|++
T Consensus 110 ~~~g~~~a~~l~~~g~~~i~~i~-~~~~~~~~~~r~~gf~~~~~~~~~~ 157 (275)
T cd06295 110 VGGGRLATEHLLARGRRRIAFLG-GPQDMPEGEERLEGYREALAEAGLP 157 (275)
T ss_pred HHHHHHHHHHHHHCCCCeEEEEc-CCCCcchhHHHHHHHHHHHHHcCCC
Confidence 45677777777888988887652 321 22 36899999999999864
No 70
>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=60.24 E-value=9.6 Score=25.83 Aligned_cols=24 Identities=13% Similarity=0.246 Sum_probs=20.8
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCE
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPA 84 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 456789999999999999988776
No 71
>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=59.99 E-value=30 Score=25.41 Aligned_cols=44 Identities=23% Similarity=0.312 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhC--CCCEEEEecCCCcch---hhHHHHHHHHHHHc-Cccc
Q 033650 69 IGKLLGERLLLK--DIPAVSVFLKREQRY---HGKVKAIIDSLREA-GVKL 113 (114)
Q Consensus 69 vG~~la~ra~e~--gI~~v~~d~r~~~~y---hGrv~a~~~~lre~-Gl~~ 113 (114)
.|+.+++.+.+. |..++.+- .+...+ .-|.+.|.++++++ |+++
T Consensus 108 ~~~~~~~~l~~~~~g~~~i~~i-~~~~~~~~~~~r~~gf~~a~~~~~~~~~ 157 (273)
T cd06310 108 AGKLAAEALAELLGKKGKVAVI-SFVPGSSTTDQREEGFLEGLKEYPGIEI 157 (273)
T ss_pred HHHHHHHHHHHHcCCCceEEEE-eCCCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 444444444444 78888766 332222 34889999999998 8764
No 72
>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=59.65 E-value=40 Score=24.53 Aligned_cols=47 Identities=17% Similarity=0.236 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCc--c-hhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKREQ--R-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 35566777777777898887664 2322 2 2357899999999998864
No 73
>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=59.59 E-value=14 Score=31.73 Aligned_cols=41 Identities=12% Similarity=0.200 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 44323 346668888888888874
No 74
>PRK08617 acetolactate synthase; Reviewed
Probab=59.41 E-value=16 Score=31.08 Aligned_cols=41 Identities=20% Similarity=0.305 Sum_probs=32.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
..+..|++.+++.||+.|.--+ ++.+..+.+++.+.||+++
T Consensus 6 ~~~~~l~~~L~~~GV~~vFg~p------G~~~~~l~~al~~~~i~~i 46 (552)
T PRK08617 6 YGADLVVDSLINQGVKYVFGIP------GAKIDRVFDALEDSGPELI 46 (552)
T ss_pred cHHHHHHHHHHHcCCCEEEeCC------CccHHHHHHHHhhCCCCEE
Confidence 4689999999999999983222 4568888999988888764
No 75
>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=59.31 E-value=21 Score=28.12 Aligned_cols=55 Identities=24% Similarity=0.337 Sum_probs=37.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhCCCCEE---EEe----cCCC--cc-hh------h-HHHHHHHHHHHcCcc
Q 033650 58 GCTRDVAAASKIGKLLGERLLLKDIPAV---SVF----LKRE--QR-YH------G-KVKAIIDSLREAGVK 112 (114)
Q Consensus 58 ~~~~n~~AA~~vG~~la~ra~e~gI~~v---~~d----~r~~--~~-yh------G-rv~a~~~~lre~Gl~ 112 (114)
..+.|.+.++..|..+|+.+++.||+-. ++| ++++ .+ |+ + -..|++++++++||-
T Consensus 79 ~at~d~~~a~~~g~~~a~el~~~Gin~~~aPv~Dv~~~p~~~~~~rsfgeDp~~v~~~~~a~v~G~q~~gv~ 150 (299)
T PF00933_consen 79 AATWDPELAYEVGRIIARELRALGINVNFAPVVDVNRNPRWGRGERSFGEDPDLVAEMARAFVRGLQGAGVA 150 (299)
T ss_dssp HHHTCHHHHHHHHHHHHHHHHHTT-SEEEEEB----SSTTSTTGGGSS-SSHHHHHHHHHHHHHHHHCTTSE
T ss_pred hhhccchHHHHHHHHHHHHHHHhhhccccccceeeeeeccccccccccchhHHHHHHHHHHHhccccccccc
Confidence 3468999999999999999999999973 122 2221 11 11 1 466899999999873
No 76
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=58.77 E-value=15 Score=31.08 Aligned_cols=40 Identities=20% Similarity=0.286 Sum_probs=31.7
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
.++.|++.+++.||+.|.--+ ++.+..|.+++.+.||+++
T Consensus 3 ~~~~l~~~L~~~Gv~~vFg~p------G~~~~~l~~al~~~~i~~v 42 (548)
T PRK08978 3 GAQWVVHALRAQGVDTVFGYP------GGAIMPVYDALYDGGVEHL 42 (548)
T ss_pred HHHHHHHHHHHcCCCEEEeCC------CcchHHHHHHHHhcCCeEE
Confidence 588999999999999984332 4567788999888888764
No 77
>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=58.69 E-value=40 Score=24.54 Aligned_cols=45 Identities=11% Similarity=0.165 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQR---YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 5667777777777798887655 23222 245899999999999864
No 78
>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=57.93 E-value=41 Score=24.56 Aligned_cols=45 Identities=16% Similarity=0.122 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 3445555555556788887654 2322 2346899999999999975
No 79
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=57.89 E-value=21 Score=27.49 Aligned_cols=40 Identities=28% Similarity=0.338 Sum_probs=29.4
Q ss_pred HHHHhhCCCCEEEEecCCCcc-hhhHHHHHHHHHHHcCcccC
Q 033650 74 GERLLLKDIPAVSVFLKREQR-YHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 74 a~ra~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 479999999999888 45543 22235788888888888764
No 80
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=57.49 E-value=37 Score=26.22 Aligned_cols=45 Identities=13% Similarity=0.192 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~---~yhGrv~a~~~~lre~Gl~~ 113 (114)
.-|+.+++.+.+.|..++.|- .+.. ....|...|.+++.+.|+.+
T Consensus 162 ~~~~~a~~~L~~~G~~~I~~i-~~~~~~~~~~~R~~Gf~~al~~~gi~~ 209 (343)
T PRK10727 162 YGAWLATRHLIQQGHTRIGYL-CSNHSISDAEDRLQGYYDALAESGIPA 209 (343)
T ss_pred HHHHHHHHHHHHCCCccEEEE-eCCccccchHHHHHHHHHHHHHCCCCC
Confidence 346666777777899888665 2322 23569999999999999863
No 81
>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=57.34 E-value=44 Score=24.20 Aligned_cols=46 Identities=13% Similarity=0.184 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC--c-chhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE--Q-RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~--~-~yhGrv~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|..++.|.. +. . .-..|...|.+++.+.|+++
T Consensus 100 ~~~g~~~~~~l~~~g~~~i~~l~-~~~~~~~~~~r~~gf~~~~~~~~~~~ 148 (267)
T cd06284 100 VAAARLAVDHLISLGHRRIALIT-GPRDNPLARDRLEGYRQALAEAGLPA 148 (267)
T ss_pred cHHHHHHHHHHHHcCCceEEEEc-CCccchhHHHHHHHHHHHHHHcCCCC
Confidence 44556666666677888887652 32 1 23468999999999999653
No 82
>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=56.92 E-value=22 Score=29.77 Aligned_cols=43 Identities=19% Similarity=0.217 Sum_probs=32.3
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhh-----HHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHG-----KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~e~gI~~v~~d~r~~~~yhG-----rv~a~~~~lre~Gl~~~ 114 (114)
.-+.+.|.++|+..+++. .+|+...| .-..+.+.+|++|+.++
T Consensus 78 ~~~l~e~~~~gv~~~vi~-s~gf~e~g~~g~~~~~~l~~~a~~~girvl 125 (447)
T TIGR02717 78 PQVVEECGEKGVKGAVVI-TAGFKEVGEEGAELEQELVEIARKYGMRLL 125 (447)
T ss_pred HHHHHHHHhcCCCEEEEE-CCCccccCcchHHHHHHHHHHHHHcCCEEE
Confidence 344566888999999887 46766544 23789999999999864
No 83
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=56.92 E-value=31 Score=24.81 Aligned_cols=40 Identities=15% Similarity=0.217 Sum_probs=28.7
Q ss_pred HHHHHHhhCCCCEE----------EEecCCCcchhhHHHHHHHHHHHcCcc
Q 033650 72 LLGERLLLKDIPAV----------SVFLKREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 72 ~la~ra~e~gI~~v----------~~d~r~~~~yhGrv~a~~~~lre~Gl~ 112 (114)
.+.-+|+..|++.| .|+ +|.++-.-|+..+.+.|.|-||+
T Consensus 44 ~fvl~Al~~GaDGV~v~GC~~geCHy~-~GN~ka~rR~~~lke~l~elgie 93 (132)
T COG1908 44 EFVLKALRKGADGVLVAGCKIGECHYI-SGNYKAKRRMELLKELLKELGIE 93 (132)
T ss_pred HHHHHHHHcCCCeEEEecccccceeee-ccchHHHHHHHHHHHHHHHhCCC
Confidence 45667788888776 334 56666667888888888888874
No 84
>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=56.81 E-value=51 Score=23.46 Aligned_cols=44 Identities=16% Similarity=0.151 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhCCCCEEEEecC-CCcc-hhhHHHHHHHHHHHcCcc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLK-REQR-YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 69 vG~~la~ra~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 4566666666678888766521 1222 347899999999999854
No 85
>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=56.60 E-value=26 Score=23.36 Aligned_cols=33 Identities=12% Similarity=0.120 Sum_probs=24.7
Q ss_pred CCCCcEEEEEEeCCceeeEEEECCCCeEEEEec
Q 033650 15 PSEPYVLKMHLTNKYVSAQVVHSPTATVASSAS 47 (114)
Q Consensus 15 ~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saS 47 (114)
.....+..|......++.+|+|..+|++|=-.=
T Consensus 53 ~~~~l~F~vde~~~~~vVkViD~~T~eVIRqIP 85 (107)
T PF03646_consen 53 LNTSLRFSVDEESGRVVVKVIDKETGEVIRQIP 85 (107)
T ss_dssp SS--EEEEEEEETTEEEEEEEETTT-SEEEEE-
T ss_pred cCCceEEEEecCCCcEEEEEEECCCCcEEEeCC
Confidence 456678899999999999999999999984443
No 86
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=56.55 E-value=23 Score=27.70 Aligned_cols=39 Identities=5% Similarity=0.083 Sum_probs=28.9
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~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-LP---PEEAEELRAAAKKHGLDLI 146 (258)
T ss_pred HHHHHHHHcCCcEEEECC-CC---HHHHHHHHHHHHHcCCcEE
Confidence 468888889998887653 22 3577788888888888753
No 87
>PRK08322 acetolactate synthase; Reviewed
Probab=56.04 E-value=17 Score=30.65 Aligned_cols=40 Identities=15% Similarity=0.222 Sum_probs=31.8
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
.+..|++.+++.||+.|. -. .++.+..+.|++.+.||+++
T Consensus 3 ~~~~l~~~L~~~Gv~~vF-g~-----pG~~~~~l~dal~~~~i~~i 42 (547)
T PRK08322 3 AADLFVKCLENEGVEYIF-GI-----PGEENLDLLEALRDSSIKLI 42 (547)
T ss_pred HHHHHHHHHHHcCCCEEE-eC-----CCcchHHHHHHHHhcCCcEE
Confidence 578999999999999983 32 14567889999988888764
No 88
>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=56.01 E-value=45 Score=24.41 Aligned_cols=46 Identities=22% Similarity=0.260 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC--c-chhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE--Q-RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 34466667777777888876542 22 1 22468999999999999764
No 89
>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=55.84 E-value=16 Score=30.85 Aligned_cols=39 Identities=21% Similarity=0.408 Sum_probs=30.5
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 70 GKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 70 G~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
+..|++++++.||+.| |-.- ++.+..+.|++.+.||+++
T Consensus 2 ~~~l~~~L~~~Gv~~v-Fg~p-----G~~~~~l~dal~~~~i~~i 40 (539)
T TIGR02418 2 ADLVVDQLENQGVRYV-FGIP-----GAKIDRVFDALEDKGIELI 40 (539)
T ss_pred HHHHHHHHHHcCCCEE-EECC-----CCchHHHHHHHhhCCCCEE
Confidence 6789999999999998 4422 3447788888888888764
No 90
>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=55.59 E-value=36 Score=26.78 Aligned_cols=38 Identities=13% Similarity=0.021 Sum_probs=33.0
Q ss_pred HHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033650 75 ERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 75 ~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~ 112 (114)
.-+++.|.+.+.|++=+|-.+-.-++++++++-++|+.
T Consensus 142 aml~dmG~~SiKffPM~Gl~~leE~~avA~aca~~g~~ 179 (236)
T TIGR03581 142 AMLKDMGGSSVKFFPMGGLKHLEEYAAVAKACAKHGFY 179 (236)
T ss_pred HHHHHcCCCeeeEeecCCcccHHHHHHHHHHHHHcCCc
Confidence 44778999999999878888888899999999999975
No 91
>COG0645 Predicted kinase [General function prediction only]
Probab=55.46 E-value=44 Score=25.02 Aligned_cols=54 Identities=17% Similarity=-0.027 Sum_probs=41.8
Q ss_pred cCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 57 IGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 57 l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
+++....++.|..-.-.|++|+..|++-| +| +.+-.+-.-.+...-+++.|+.|
T Consensus 52 ~ys~~~~~~vy~~l~~~A~l~l~~G~~VV-lD--a~~~r~~~R~~~~~~A~~~gv~~ 105 (170)
T COG0645 52 LYSPAATAAVYDELLGRAELLLSSGHSVV-LD--ATFDRPQERALARALARDVGVAF 105 (170)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHhCCCcEE-Ee--cccCCHHHHHHHHHHHhccCCce
Confidence 45666788899999999999999998865 78 56665666666677777777765
No 92
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=55.38 E-value=45 Score=25.06 Aligned_cols=46 Identities=11% Similarity=0.131 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc--c-hhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ--R-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 LTAAFEAVNYLHELGHKRIACI-AGPEEMPLCHYRLQGYVQALRRCGITV 185 (309)
T ss_pred HHHHHHHHHHHHHcCCceEEEE-eCCccccchHHHHHHHHHHHHHcCCCC
Confidence 4455566666666798888654 2322 2 2458999999999999864
No 93
>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=55.17 E-value=54 Score=23.87 Aligned_cols=46 Identities=17% Similarity=0.296 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---c-hhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ---R-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 34566666666677988886652 322 1 2368999999999999863
No 94
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=55.14 E-value=45 Score=26.54 Aligned_cols=46 Identities=17% Similarity=0.178 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE---QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 4456777888889999988665 343 234679999999999999874
No 95
>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=55.09 E-value=56 Score=23.73 Aligned_cols=46 Identities=15% Similarity=0.147 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQR---YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 34556666666667888887652 3221 2368899999999999864
No 96
>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=54.86 E-value=51 Score=22.98 Aligned_cols=47 Identities=17% Similarity=0.287 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC-cchhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE-QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 34567777777777788775542122 234678999999999998654
No 97
>COG0684 MenG Demethylmenaquinone methyltransferase [Coenzyme metabolism]
Probab=54.86 E-value=31 Score=26.61 Aligned_cols=61 Identities=8% Similarity=0.057 Sum_probs=45.2
Q ss_pred CCCCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEe
Q 033650 15 PSEPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 15 ~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d 88 (114)
.++-..+..+-.|-.++..+-....|.+|+-...-.. .+...|.+|+..|+..|+.-+++|
T Consensus 46 ~G~A~TV~~~~~d~~~~~al~~~~~GdVLVid~~g~~-------------~~A~~Gd~la~~a~~~G~~GvVid 106 (210)
T COG0684 46 VGPAVTVRCFPDDWLLHVALEQAGPGDVLVIDGGGDL-------------RRALWGDLLATLAKVRGWAGVVID 106 (210)
T ss_pred eeEEEEEEEeCCCchhhheeecCCCCCEEEEeCCCCc-------------ceeehHHHHHHHHHHcCccEEEEe
Confidence 3555667777777777775555667778776554221 367899999999999999999988
No 98
>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=54.40 E-value=21 Score=28.67 Aligned_cols=43 Identities=14% Similarity=0.323 Sum_probs=28.1
Q ss_pred HHHHHHhhCCCCEEEEec--------CCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFL--------KREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~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 345788999999986543 24444555 49999999999999764
No 99
>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=54.37 E-value=29 Score=23.65 Aligned_cols=49 Identities=6% Similarity=0.036 Sum_probs=36.5
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 62 DVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
.-..+|.--+.+.+-|++.|+..+ . +||-+-.--..|++.+.++||.||
T Consensus 55 ~~~~~yl~~e~I~~ia~~~g~~~i--~--pGyg~lse~~~fa~~~~~~gi~fi 103 (110)
T PF00289_consen 55 PSPESYLNIEAIIDIARKEGADAI--H--PGYGFLSENAEFAEACEDAGIIFI 103 (110)
T ss_dssp SGGGTTTSHHHHHHHHHHTTESEE--E--STSSTTTTHHHHHHHHHHTT-EES
T ss_pred hhhhhhccHHHHhhHhhhhcCccc--c--cccchhHHHHHHHHHHHHCCCEEE
Confidence 334566667778888888899887 3 466665667889999999999986
No 100
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=54.09 E-value=47 Score=25.29 Aligned_cols=44 Identities=11% Similarity=0.125 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 68 ~vG~~la~ra~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 346677778888899988665 2322 2346899999999999975
No 101
>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=53.08 E-value=59 Score=23.58 Aligned_cols=45 Identities=13% Similarity=0.153 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCC---c-chhhHHHHHHHHHHHcCccc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKRE---Q-RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~---~-~yhGrv~a~~~~lre~Gl~~ 113 (114)
..|+.+++.+.+.|..++.+- .+. . .-+.|.+.|.+++.+.|+++
T Consensus 102 ~~~~~~~~~l~~~g~~~i~~l-~~~~~~~~~~~~r~~gf~~~~~~~~~~~ 150 (268)
T cd06298 102 KAAFEATELLIKNGHKKIAFI-SGPLEDSINGDERLAGYKEALSEANIEF 150 (268)
T ss_pred HHHHHHHHHHHHcCCceEEEE-eCCcccccchhHHHHHHHHHHHHcCCCC
Confidence 455566666666788887655 222 2 23468999999999999763
No 102
>PRK13397 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=53.00 E-value=35 Score=26.94 Aligned_cols=48 Identities=8% Similarity=0.060 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHhhCCCCEE---EEecCC-Ccchhh----HHHHHHHHHHHcCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAV---SVFLKR-EQRYHG----KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v---~~d~r~-~~~yhG----rv~a~~~~lre~Gl~~~ 114 (114)
+..-...|+.+++.|+.-+ .||+|. .+.|.| -++.+.+..++.||.|+
T Consensus 28 ~e~~~~~a~~~~~~g~~~~r~g~~kpRts~~sf~G~G~~gl~~L~~~~~~~Gl~~~ 83 (250)
T PRK13397 28 YDHIRLAASSAKKLGYNYFRGGAYKPRTSAASFQGLGLQGIRYLHEVCQEFGLLSV 83 (250)
T ss_pred HHHHHHHHHHHHHcCCCEEEecccCCCCCCcccCCCCHHHHHHHHHHHHHcCCCEE
Confidence 3444556777999998754 566653 455555 48889999999999874
No 103
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=52.91 E-value=28 Score=27.36 Aligned_cols=39 Identities=5% Similarity=0.009 Sum_probs=29.3
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
-+.++|+++|++.+.+-| =+ ..-..-+.+.++++||.++
T Consensus 110 ~F~~~~~~aGvdgviipD-LP---~ee~~~~~~~~~~~gi~~I 148 (263)
T CHL00200 110 KFIKKISQAGVKGLIIPD-LP---YEESDYLISVCNLYNIELI 148 (263)
T ss_pred HHHHHHHHcCCeEEEecC-CC---HHHHHHHHHHHHHcCCCEE
Confidence 378889999999987664 22 3447788888899998763
No 104
>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=52.87 E-value=55 Score=24.99 Aligned_cols=42 Identities=17% Similarity=0.189 Sum_probs=32.3
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033650 70 GKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 70 G~~la~ra~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 6777888888999988765 2322 2356999999999999975
No 105
>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=52.59 E-value=59 Score=23.49 Aligned_cols=46 Identities=24% Similarity=0.331 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc---hhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQR---YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 3345555556666788888665 23222 2358899999999998753
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=52.38 E-value=56 Score=24.52 Aligned_cols=46 Identities=15% Similarity=0.148 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE---QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~---~~yhGrv~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+.|..++-|- .+. ....-|...|.+++++.|+.+
T Consensus 103 ~~~~~~a~~~L~~~G~~~I~~i-~~~~~~~~~~~R~~gf~~a~~~~g~~~ 151 (269)
T cd06287 103 AATARMLLEHLRAQGARQIALI-VGSARRNSYLEAEAAYRAFAAEHGMPP 151 (269)
T ss_pred HHHHHHHHHHHHHcCCCcEEEE-eCCcccccHHHHHHHHHHHHHHcCCCc
Confidence 5568888899999999988654 121 223458999999999999853
No 107
>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=52.11 E-value=31 Score=23.71 Aligned_cols=40 Identities=15% Similarity=0.277 Sum_probs=28.7
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
-+.++|++.|++.+.+-|. ..+.| ...+.+.+++.||+++
T Consensus 20 e~v~~A~~~Gl~~i~iTDH--~~~~~-~~~~~~~~~~~~i~vi 59 (175)
T PF02811_consen 20 EYVEQAKEKGLDAIAITDH--NNFAG-YPDFYKEAKKKGIKVI 59 (175)
T ss_dssp HHHHHHHHTTESEEEEEEE--TTTTT-HHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHcCCCEEEEcCC--ccccc-chHHHHHHHhcCCceE
Confidence 3459999999999988874 22233 6677777777888764
No 108
>PRK06725 acetolactate synthase 3 catalytic subunit; Validated
Probab=51.92 E-value=24 Score=30.32 Aligned_cols=42 Identities=19% Similarity=0.176 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
..++..|++++++.||+.| |=.- ++-+..|.|++.+.||+++
T Consensus 15 ~~~a~~l~~~L~~~GV~~v-FGip-----G~~~~~l~dal~~~~i~~i 56 (570)
T PRK06725 15 VTGAGHVIQCLKKLGVTTV-FGYP-----GGAILPVYDALYESGLKHI 56 (570)
T ss_pred ccHHHHHHHHHHHcCCCEE-EEcC-----CcchHHHHHHHHhcCCcEE
Confidence 4579999999999999998 4422 3457778999888888764
No 109
>PRK09542 manB phosphomannomutase/phosphoglucomutase; Reviewed
Probab=51.80 E-value=81 Score=26.23 Aligned_cols=60 Identities=13% Similarity=0.247 Sum_probs=40.7
Q ss_pred hhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 53 LRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~AA~~vG~~la~ra~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 VRGVVGEQIDEDLVRDVGAAFARLMRAEGATTVVIG-H-DMRDSSPELAAAFAEGVTAQGLDVV 67 (445)
T ss_pred cccccCCCcCHHHHHHHHHHHHHHHHHcCCCeEEEE-e-CCCCCHHHHHHHHHHHHHHCCCEEE
Confidence 444444446788999999999998876554555543 1 112233 36899999999999863
No 110
>COG0821 gcpE 1-hydroxy-2-methyl-2-(e)-butenyl 4-diphosphate synthase [Lipid metabolism]
Probab=51.67 E-value=33 Score=28.62 Aligned_cols=52 Identities=13% Similarity=0.291 Sum_probs=41.8
Q ss_pred CCHHHHHHHHH-----------------HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 61 RDVAAASKIGK-----------------LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~AA~~vG~-----------------~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
.+.++|..+-+ .||..+-+.|++.+-+.+ |..-..-+++.+++++++.|+.+
T Consensus 58 ~~~e~A~A~~~Ik~~~~vPLVaDiHf~~rla~~~~~~g~~k~RINP-GNig~~~~v~~vVe~Ak~~g~pi 126 (361)
T COG0821 58 PDMEAAEALKEIKQRLNVPLVADIHFDYRLALEAAECGVDKVRINP-GNIGFKDRVREVVEAAKDKGIPI 126 (361)
T ss_pred CCHHHHHHHHHHHHhCCCCEEEEeeccHHHHHHhhhcCcceEEECC-cccCcHHHHHHHHHHHHHcCCCE
Confidence 46677776654 478889999999999886 66656669999999999999864
No 111
>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=51.62 E-value=35 Score=28.32 Aligned_cols=43 Identities=16% Similarity=0.161 Sum_probs=31.8
Q ss_pred HHHHHHHhhCCCCEEEEecC--CCc--------c--------hhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLK--REQ--------R--------YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~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 56789999999999876321 000 0 1236999999999999987
No 112
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=51.46 E-value=23 Score=30.15 Aligned_cols=42 Identities=10% Similarity=0.152 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
..++..|++++++.||+.| |=.- ++.+-.|.|++.+.||+++
T Consensus 8 ~~~~~~l~~~L~~~Gv~~v-Fgip-----G~~~~~l~~al~~~~i~~v 49 (561)
T PRK06048 8 MTGARAIIKCLEKEGVEVI-FGYP-----GGAIIPVYDELYDSDLRHI 49 (561)
T ss_pred ccHHHHHHHHHHHcCCCEE-EECC-----CcchHHHHHHHhhCCCeEE
Confidence 3578999999999999998 3322 3557788889888888764
No 113
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=50.75 E-value=16 Score=31.37 Aligned_cols=42 Identities=17% Similarity=0.400 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA-GVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~-Gl~~~ 114 (114)
..+++.|++.+.+.||+.+.--+ ++..-.|.|++.+. ||+++
T Consensus 3 ~t~~~~l~~~L~~~GV~~vFg~p------G~~~~~l~dal~~~~~i~~i 45 (578)
T PRK06546 3 KTVAEQLVEQLVAAGVKRIYGIV------GDSLNPIVDAVRRTGGIEWV 45 (578)
T ss_pred ccHHHHHHHHHHHcCCCEEEECC------CCchHHHHHHHhccCCCeEE
Confidence 46799999999999999983222 44567788998776 78764
No 114
>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=50.65 E-value=64 Score=23.50 Aligned_cols=44 Identities=16% Similarity=0.184 Sum_probs=29.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCc--c-hhhHHHHHHHHHHHcCccc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQ--R-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~ra~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 444555556666888886652 321 1 2368999999999998764
No 115
>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=50.46 E-value=63 Score=23.92 Aligned_cols=52 Identities=8% Similarity=0.241 Sum_probs=36.8
Q ss_pred CCHHHHHHHHHHHHHHHhhCCC--CEEEE-ec--CCCcchhhHHHHHHHHHHHcCcc
Q 033650 61 RDVAAASKIGKLLGERLLLKDI--PAVSV-FL--KREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e~gI--~~v~~-d~--r~~~~yhGrv~a~~~~lre~Gl~ 112 (114)
.|..+++..|+.|++.+.+.|. .++.+ .. .....-.-|...|.+++.+.|+.
T Consensus 106 d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~ 162 (289)
T cd01540 106 SATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRTDGALEALKAPGFP 162 (289)
T ss_pred CHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHHHHHHHHHhcCCCC
Confidence 5678889999999998888886 44433 21 11112356899999999998875
No 116
>PRK05858 hypothetical protein; Provisional
Probab=50.37 E-value=26 Score=29.79 Aligned_cols=41 Identities=27% Similarity=0.518 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 3322 3457788888888888764
No 117
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=50.20 E-value=66 Score=24.64 Aligned_cols=44 Identities=11% Similarity=0.186 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCC--cchhhHHHHHHHHHHHcCcc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKRE--QRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~--~~yhGrv~a~~~~lre~Gl~ 112 (114)
.-|+.+++.+.+.|..++.|- .+. .....|...|.+++.++|+.
T Consensus 166 ~~~~~a~~~L~~~Gh~~I~~i-~~~~~~~~~~R~~Gf~~al~~~g~~ 211 (331)
T PRK14987 166 EAARQMTTAIIARGHRHIAYL-GARLDERTIIKQKGYEQAMLDAGLV 211 (331)
T ss_pred HHHHHHHHHHHHCCCceEEEE-cCCCcccHHHHHHHHHHHHHHcCCC
Confidence 346666777778899988765 221 22346899999999999973
No 118
>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=50.00 E-value=71 Score=23.37 Aligned_cols=45 Identities=16% Similarity=0.130 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc--c-hhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ--R-YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 4455566666667799998765 2321 1 246899999999999974
No 119
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=49.83 E-value=27 Score=29.65 Aligned_cols=41 Identities=15% Similarity=0.268 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
.+++.|++.+.+.||+.|.--+ ++.+..|.|++.+.||+++
T Consensus 3 ~~a~~l~~~L~~~GV~~vFg~p------G~~~~~l~dal~~~~i~~v 43 (549)
T PRK06457 3 SVAEVIIRVLEDNGIQRIYGIP------GDSIDPLVDAIRKSKVKYV 43 (549)
T ss_pred cHHHHHHHHHHHcCCCEEEEcC------CcchHHHHHHHHhcCCeEE
Confidence 4689999999999999984332 5568889999988888763
No 120
>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=49.81 E-value=57 Score=23.78 Aligned_cols=45 Identities=18% Similarity=0.163 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE---QRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 44567777777788999887652 22 22345889999999999963
No 121
>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=49.53 E-value=27 Score=25.48 Aligned_cols=47 Identities=13% Similarity=0.259 Sum_probs=33.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEec---CC------Ccchhh------HHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFL---KR------EQRYHG------KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 6788899999999999998874 11 222223 67888888999998754
No 122
>PF14488 DUF4434: Domain of unknown function (DUF4434)
Probab=49.37 E-value=45 Score=24.35 Aligned_cols=41 Identities=15% Similarity=0.149 Sum_probs=29.3
Q ss_pred HHHHHhhCCCCEEEEecCCCc----chh-------------hHHHHHHHHHHHcCcccC
Q 033650 73 LGERLLLKDIPAVSVFLKREQ----RYH-------------GKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~----~yh-------------Grv~a~~~~lre~Gl~~~ 114 (114)
.-+..++.||+.|++-. .++ -|. .-|..+++++.+.|++|.
T Consensus 25 ~~~~m~~~GidtlIlq~-~~~~~~~~yps~~~~~~~~~~~~d~l~~~L~~A~~~Gmkv~ 82 (166)
T PF14488_consen 25 EFRAMKAIGIDTLILQW-TGYGGFAFYPSKLSPGGFYMPPVDLLEMILDAADKYGMKVF 82 (166)
T ss_pred HHHHHHHcCCcEEEEEE-eecCCcccCCccccCccccCCcccHHHHHHHHHHHcCCEEE
Confidence 34557789999998752 222 121 268999999999999873
No 123
>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=49.30 E-value=61 Score=19.91 Aligned_cols=45 Identities=22% Similarity=0.244 Sum_probs=29.8
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcch----hhHHHHHHHHHHHcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRY----HGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~y----hGrv~a~~~~lre~Gl~~~ 114 (114)
+|-.+|.-+.+.|.+-..++ ++.... .---+.+.+.+++.|++|+
T Consensus 10 ig~E~A~~l~~~g~~vtli~-~~~~~~~~~~~~~~~~~~~~l~~~gV~v~ 58 (80)
T PF00070_consen 10 IGIELAEALAELGKEVTLIE-RSDRLLPGFDPDAAKILEEYLRKRGVEVH 58 (80)
T ss_dssp HHHHHHHHHHHTTSEEEEEE-SSSSSSTTSSHHHHHHHHHHHHHTTEEEE
T ss_pred HHHHHHHHHHHhCcEEEEEe-ccchhhhhcCHHHHHHHHHHHHHCCCEEE
Confidence 55666777778887665566 554433 2245667789999999873
No 124
>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=49.18 E-value=52 Score=24.18 Aligned_cols=49 Identities=10% Similarity=0.268 Sum_probs=29.3
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHc-Cccc
Q 033650 62 DVAAASKIGKLLGERLLLKDIPAVSVFLKRE---QRYHGKVKAIIDSLREA-GVKL 113 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~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 3444555555554443 166676554 221 22346889999999999 9864
No 125
>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=49.08 E-value=46 Score=26.03 Aligned_cols=45 Identities=11% Similarity=0.081 Sum_probs=31.1
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRY-HGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~y-hGrv~a~~~~lre~Gl~~~ 114 (114)
.+..+++-+.+.|.+++.+-. ....| .+...+|.+++++.|++++
T Consensus 111 ~~~~~~~~~~~~g~k~vaii~-~~~~~g~~~~~~f~~~~~~~G~~vv 156 (336)
T cd06339 111 EARRAAEYARSQGKRRPLVLA-PDGAYGQRVADAFRQAWQQLGGTVV 156 (336)
T ss_pred HHHHHHHHHHhcCccceEEEe-cCChHHHHHHHHHHHHHHHcCCcee
Confidence 355666666677888765442 23334 3788999999999998763
No 126
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=48.89 E-value=29 Score=29.85 Aligned_cols=40 Identities=10% Similarity=0.110 Sum_probs=31.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~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 3322 4557788999887888764
No 127
>PRK09124 pyruvate dehydrogenase; Provisional
Probab=48.82 E-value=24 Score=30.10 Aligned_cols=41 Identities=12% Similarity=0.249 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA-GVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 3321 45577788888764 78764
No 128
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=48.60 E-value=74 Score=24.57 Aligned_cols=43 Identities=12% Similarity=0.173 Sum_probs=30.2
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033650 70 GKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~ra~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 5555555667799988655 2322 23569999999999999853
No 129
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=48.43 E-value=24 Score=30.18 Aligned_cols=41 Identities=20% Similarity=0.139 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 368999999999999998 4422 4567889999854 588764
No 130
>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=48.17 E-value=41 Score=27.17 Aligned_cols=44 Identities=16% Similarity=0.106 Sum_probs=29.7
Q ss_pred HHHHHHHHhhCCCCEEEEecC---C---------Cc---c---hhhHHHHHHHHHHHcCccc
Q 033650 70 GKLLGERLLLKDIPAVSVFLK---R---------EQ---R---YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~ra~e~gI~~v~~d~r---~---------~~---~---yhGrv~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 356788999999999987321 0 00 0 1236999999999999986
No 131
>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=47.78 E-value=63 Score=24.56 Aligned_cols=47 Identities=13% Similarity=0.250 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKREQRY-HGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 344567778888888998875542 22223 468999999999999864
No 132
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=47.74 E-value=47 Score=26.52 Aligned_cols=40 Identities=13% Similarity=0.150 Sum_probs=30.5
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
..+.|.++||..+++. -.++... .-+.+.+.+|++|+.++
T Consensus 79 ~l~e~~~~Gvk~avIi-s~Gf~e~-~~~~l~~~a~~~giril 118 (286)
T TIGR01019 79 AIFEAIDAGIELIVCI-TEGIPVH-DMLKVKRYMEESGTRLI 118 (286)
T ss_pred HHHHHHHCCCCEEEEE-CCCCCHH-HHHHHHHHHHHcCCEEE
Confidence 4456889999999887 4666443 35789999999999774
No 133
>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=47.60 E-value=27 Score=25.00 Aligned_cols=37 Identities=22% Similarity=0.233 Sum_probs=26.1
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA-GVKLL 114 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~-Gl~~~ 114 (114)
.|++.+++.||+.+.--+ ++.+..+.+++.+. |+.++
T Consensus 2 ~l~~~L~~~Gi~~vFg~p------G~~~~~l~~al~~~~~i~~i 39 (162)
T cd07038 2 YLLERLKQLGVKHVFGVP------GDYNLPLLDAIEENPGLRWV 39 (162)
T ss_pred HHHHHHHHcCCCEEEEeC------CccHHHHHHHHhhcCCceEE
Confidence 578899999999983332 33466688888554 78764
No 134
>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=47.59 E-value=73 Score=22.59 Aligned_cols=44 Identities=27% Similarity=0.383 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCC-C-cchhhHHHHHHHHHHHcC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKR-E-QRYHGKVKAIIDSLREAG 110 (114)
Q Consensus 67 ~~vG~~la~ra~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 4678888888888888887654211 2 123468999999999887
No 135
>PRK07524 hypothetical protein; Provisional
Probab=47.56 E-value=28 Score=29.37 Aligned_cols=41 Identities=15% Similarity=0.133 Sum_probs=32.0
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
.++..|++++.+.||+.+ |-. .++.+..|.|++.+.+|+++
T Consensus 3 ~~a~~l~~~L~~~Gv~~v-Fg~-----pG~~~~~~~dal~~~~i~~i 43 (535)
T PRK07524 3 TCGEALVRLLEAYGVETV-FGI-----PGVHTVELYRGLAGSGIRHV 43 (535)
T ss_pred cHHHHHHHHHHHcCCCEE-EeC-----CCcchHHHHHHHhhcCCcEE
Confidence 468999999999999998 332 24567788899987788764
No 136
>PRK08266 hypothetical protein; Provisional
Probab=47.03 E-value=32 Score=29.10 Aligned_cols=41 Identities=15% Similarity=0.225 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc--CcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA--GVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~--Gl~~~ 114 (114)
.++..|++.+++.||+.+.--+ ++.+..+.+++.+. +++++
T Consensus 5 ~~~~~l~~~L~~~Gv~~vFg~p------G~~~~~l~~al~~~~~~i~~v 47 (542)
T PRK08266 5 TGGEAIVAGLVAHGVDTVFGLP------GAQLYWLFDALYKAGDRIRVI 47 (542)
T ss_pred cHHHHHHHHHHHcCCCEEEECC------CcchHHHHHHHHhcCCCCeEE
Confidence 5689999999999999984332 45678889998764 77653
No 137
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=46.84 E-value=27 Score=29.79 Aligned_cols=42 Identities=17% Similarity=0.206 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA-GVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~-Gl~~~ 114 (114)
...++.|++++++.||+.|.--+ ++.+..|.|++.+. ||+++
T Consensus 13 ~~~~~~l~~~L~~~GV~~vFgvp------G~~~~~l~dal~~~~~i~~i 55 (564)
T PRK08155 13 FTGAELIVRLLERQGIRIVTGIP------GGAILPLYDALSQSTQIRHI 55 (564)
T ss_pred ccHHHHHHHHHHHcCCCEEEeCC------CcccHHHHHHHhccCCceEE
Confidence 35799999999999999983222 45577788998654 78764
No 138
>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=46.82 E-value=41 Score=28.06 Aligned_cols=51 Identities=16% Similarity=0.288 Sum_probs=36.9
Q ss_pred CCHHHHHHHHHHH----------------------HHHHhhCCCCEEEEecCCCc--------ch-hhHHHHHHHHHHHc
Q 033650 61 RDVAAASKIGKLL----------------------GERLLLKDIPAVSVFLKREQ--------RY-HGKVKAIIDSLREA 109 (114)
Q Consensus 61 ~n~~AA~~vG~~l----------------------a~ra~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 5778888887764 4477888 99999886 655 33 77999999999999
Q ss_pred Cccc
Q 033650 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 9864
No 139
>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=46.62 E-value=71 Score=24.33 Aligned_cols=43 Identities=14% Similarity=0.057 Sum_probs=31.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCC-c--c-hhhHHHHHHHHHHHcCcc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKRE-Q--R-YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 69 vG~~la~ra~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 44566777777899998765 222 1 1 246899999999999985
No 140
>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=46.33 E-value=36 Score=23.98 Aligned_cols=43 Identities=16% Similarity=0.138 Sum_probs=29.8
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcc-hhhHHHHHHHHHHHcCccc
Q 033650 70 GKLLGERLLLKDIPAVSVFLKREQR-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~ra~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 EEVLPELAKEYGATAVYFN-EEYTPYERRRDERVRKALKKHGIKV 120 (165)
T ss_dssp HHHHHHHHHHHTESEEEEE----SHHHHHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHhcCcCeeEec-cccCHHHHHHHHHHHHHHHhcceEE
Confidence 3455555667799999888 33323 3367889999999999876
No 141
>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=45.51 E-value=35 Score=21.80 Aligned_cols=37 Identities=22% Similarity=0.156 Sum_probs=28.6
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE 108 (114)
Q Consensus 72 ~la~ra~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 3444466689999977766766788899999999974
No 142
>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=45.48 E-value=32 Score=28.55 Aligned_cols=30 Identities=23% Similarity=0.247 Sum_probs=26.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhhCCCCEEEEe
Q 033650 59 CTRDVAAASKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 59 ~~~n~~AA~~vG~~la~ra~e~gI~~v~~d 88 (114)
.+.+...++..|..+|+++++.|++.|++-
T Consensus 318 ~gt~~~~~~~~g~eIa~~Lk~dgVDAVILT 347 (349)
T PF07355_consen 318 NGTAVANAKRFGPEIAKELKEDGVDAVILT 347 (349)
T ss_pred CCccHHHHHHHHHHHHHHHHHcCCCEEEEe
Confidence 445778899999999999999999999764
No 143
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=45.40 E-value=35 Score=29.25 Aligned_cols=41 Identities=20% Similarity=0.314 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
..++.|++++++.||+.| |-.- ++-+..|.|++.+ .||+++
T Consensus 5 ~~~~~l~~~L~~~Gv~~v-Fgvp-----G~~~~~l~~al~~~~~i~~v 46 (572)
T PRK08979 5 SGASMIVRSLIDEGVKHI-FGYP-----GGSVLDIYDALHEKSGIEHI 46 (572)
T ss_pred cHHHHHHHHHHHcCCCEE-EEcC-----CcchHHHHHHHhhcCCCeEE
Confidence 358999999999999998 4432 3457778999976 478764
No 144
>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=45.31 E-value=91 Score=22.52 Aligned_cols=45 Identities=18% Similarity=0.376 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE---QRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 55677777777778888876542 22 22346889999999999874
No 145
>PRK09526 lacI lac repressor; Reviewed
Probab=45.16 E-value=94 Score=23.79 Aligned_cols=44 Identities=9% Similarity=0.083 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCcc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 68 ~vG~~la~ra~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 345566666667799988765 2321 2346899999999999986
No 146
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=44.79 E-value=36 Score=29.05 Aligned_cols=41 Identities=17% Similarity=0.200 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
..++.|++++++.||+.+. -.- ++.+..|.+++.+ .||+++
T Consensus 5 ~~a~~l~~~L~~~GV~~vF-g~p-----G~~~~~l~~al~~~~~i~~v 46 (574)
T PRK06882 5 SGAEMVVQSLRDEGVEYVF-GYP-----GGSVLDIYDAIHTLGGIEHV 46 (574)
T ss_pred cHHHHHHHHHHHcCCCEEE-eCC-----CcchHHHHHHHhhcCCCeEE
Confidence 3588999999999999983 322 4567788888877 588764
No 147
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=44.54 E-value=55 Score=24.98 Aligned_cols=40 Identities=10% Similarity=0.017 Sum_probs=29.3
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 73 la~ra~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 47788899999987653 23322355778999999999875
No 148
>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=44.46 E-value=29 Score=28.58 Aligned_cols=40 Identities=13% Similarity=0.122 Sum_probs=30.3
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
.+..|++++.+.||+.|.--+ ++.+..|.|++.+ .||+++
T Consensus 2 ~~~~l~~~L~~~GV~~vFg~p------G~~~~~l~dal~~~~~i~~v 42 (432)
T TIGR00173 2 WASVLVEELVRLGVRHVVISP------GSRSTPLALAAAEHPRLRVH 42 (432)
T ss_pred hHHHHHHHHHHcCCCEEEECC------CcccHHHHHHHHhCCCcEEE
Confidence 368899999999999983222 5568889999844 578764
No 149
>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=44.45 E-value=32 Score=29.29 Aligned_cols=40 Identities=13% Similarity=0.115 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcC-cccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAG-VKLL 114 (114)
Q Consensus 69 vG~~la~ra~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 4422 345777888887776 7764
No 150
>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=44.40 E-value=80 Score=23.13 Aligned_cols=45 Identities=22% Similarity=0.243 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecC-CCcchhhHHHHHHHHHHHcCcc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLK-REQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r-~~~~yhGrv~a~~~~lre~Gl~ 112 (114)
..|+.+++.+.+.|..++.+--. .....+-|...|.+++.+.|+.
T Consensus 107 ~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~l~~~~~~ 152 (273)
T cd01541 107 KGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKAYREHGIP 152 (273)
T ss_pred HHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHHHHHcCCC
Confidence 34555555556678887754321 1122346899999999999974
No 151
>PRK08611 pyruvate oxidase; Provisional
Probab=44.02 E-value=36 Score=29.21 Aligned_cols=41 Identities=27% Similarity=0.342 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH--cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE--AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 3321 4557789999965 578764
No 152
>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=43.98 E-value=84 Score=23.77 Aligned_cols=46 Identities=9% Similarity=0.163 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRY-HGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 33455666667778999987652 33333 367889999999999875
No 153
>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=43.96 E-value=1e+02 Score=21.09 Aligned_cols=51 Identities=25% Similarity=0.266 Sum_probs=36.7
Q ss_pred CCHHHHHHHHHHHHHHHhhC-CCCEEEEecCCCcchhh--HHHHHHHHHHHcCccc
Q 033650 61 RDVAAASKIGKLLGERLLLK-DIPAVSVFLKREQRYHG--KVKAIIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 LTPEFAARLAQAFASYLKEKGNGSRVVVG--RDTRPSSPMLAKALAAGLRANGVDV 71 (137)
T ss_dssp BSHHHHHHHHHHHHHHHHHTTTSSEEEEE--E-SSTTHHHHHHHHHHHHHHTTEEE
T ss_pred CCHHHHHHHHHHHHHhhcccCCCCeEEEE--EcccCCHHHHHHHHHHHHhhccccc
Confidence 58889999999999998885 34444432 1223344 4678999999999876
No 154
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=43.85 E-value=35 Score=29.31 Aligned_cols=42 Identities=14% Similarity=0.135 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
..++..|++.+.+.||+.+ |-.- ++.+..|.|++.+.||++|
T Consensus 6 ~~~~~~l~~~L~~~GV~~v-FGvp-----G~~~~~l~dal~~~~i~~i 47 (588)
T PRK07525 6 MTPSEAFVETLQAHGITHA-FGII-----GSAFMDASDLFPPAGIRFI 47 (588)
T ss_pred ccHHHHHHHHHHHcCCCEE-EEeC-----CCchHHHHHHHhccCCCEE
Confidence 4678999999999999998 3322 3457778888877788764
No 155
>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=43.59 E-value=33 Score=24.85 Aligned_cols=37 Identities=19% Similarity=0.129 Sum_probs=27.4
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 72 ~la~ra~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 4421 4457888888854 588764
No 156
>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=43.38 E-value=45 Score=24.06 Aligned_cols=35 Identities=20% Similarity=0.323 Sum_probs=23.2
Q ss_pred HHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 74 GERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 74 a~ra~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 TKSIIQAGIKKIYYA--QDYHNHP---YAIELFEQAGVEL 135 (151)
T ss_pred HHHHHHhCCCEEEEc--cCCCCcH---HHHHHHHHCCCEE
Confidence 344467899999765 2232221 3578999999986
No 157
>PRK09532 DNA polymerase III subunit alpha; Reviewed
Probab=43.05 E-value=47 Score=30.62 Aligned_cols=40 Identities=20% Similarity=0.349 Sum_probs=30.0
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~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 ALVDRAIELGMPAIALTDHG-VM-YGAI-ELLKVCRNKGIKPI 62 (874)
T ss_pred HHHHHHHHCCCCEEEEecCC-Ch-hhHH-HHHHHHHHcCCeEE
Confidence 46788999999999888733 23 3433 67899999999764
No 158
>PRK14324 glmM phosphoglucosamine mutase; Provisional
Probab=42.46 E-value=1.3e+02 Score=25.08 Aligned_cols=60 Identities=18% Similarity=0.258 Sum_probs=38.9
Q ss_pred hhhccCCCCCHHHHHHHHHHHHHHHhhCCC-CEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 53 LRSTIGCTRDVAAASKIGKLLGERLLLKDI-PAVSVFLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~AA~~vG~~la~ra~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 VRGKAGEKLTAFLAMRLAMAAGIYFKKHSITNKILVG--KDTRRSGYMIENALVSGLTSVGYNVI 71 (446)
T ss_pred cceecCCCcCHHHHHHHHHHHHHHHHhCCCCCeEEEE--eCCCcCHHHHHHHHHHHHHHCCCeEE
Confidence 344334445788999999999998876554 234332 1122333 34678899999999863
No 159
>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=42.28 E-value=91 Score=22.86 Aligned_cols=45 Identities=13% Similarity=0.134 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhh--CCCCEEEEecCCCc---chhhHHHHHHHHHHHc-Cccc
Q 033650 68 KIGKLLGERLLL--KDIPAVSVFLKREQ---RYHGKVKAIIDSLREA-GVKL 113 (114)
Q Consensus 68 ~vG~~la~ra~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 344444444444 377787655 2322 2246899999999999 8863
No 160
>PF14871 GHL6: Hypothetical glycosyl hydrolase 6
Probab=42.28 E-value=73 Score=22.41 Aligned_cols=44 Identities=14% Similarity=0.319 Sum_probs=32.9
Q ss_pred HHHHHHHhhCCCCEEEEecC--CCcch-------------hhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLK--REQRY-------------HGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 45678889999999988754 33322 2357899999999999863
No 161
>PRK07092 benzoylformate decarboxylase; Reviewed
Probab=42.03 E-value=35 Score=28.87 Aligned_cols=42 Identities=7% Similarity=-0.015 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 66 A~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
...++..|++++.+.||+.+. -.- ++.+..|+|++.+ ||+|+
T Consensus 11 ~~~~a~~l~~~L~~~GV~~vF-giP-----G~~~~~l~dal~~-~i~~i 52 (530)
T PRK07092 11 MTTVRDATIDLLRRFGITTVF-GNP-----GSTELPFLRDFPD-DFRYV 52 (530)
T ss_pred cCcHHHHHHHHHHHcCCCEEE-eCC-----CCcchHHHHHHhh-cCCEE
Confidence 346799999999999999983 322 4457778888864 67764
No 162
>PLN02470 acetolactate synthase
Probab=41.91 E-value=33 Score=29.46 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA-GVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~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 3322 45577888888654 78764
No 163
>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=41.86 E-value=37 Score=28.86 Aligned_cols=40 Identities=20% Similarity=0.257 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHH-HcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLR-EAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lr-e~Gl~~~ 114 (114)
.+..|++++++.||+.| |=.- ++.+..|.|++. +.||+++
T Consensus 3 ~~~~l~~~L~~~Gv~~v-Fgvp-----G~~~~~l~~~l~~~~~i~~i 43 (558)
T TIGR00118 3 GAEAIIESLKDEGVKTV-FGYP-----GGAILPIYDALYNDSGIEHI 43 (558)
T ss_pred HHHHHHHHHHHcCCCEE-EeCC-----CcchHHHHHHhhccCCceEE
Confidence 58899999999999998 3322 356778899986 5788764
No 164
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=41.81 E-value=38 Score=29.16 Aligned_cols=44 Identities=20% Similarity=0.152 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 65 AASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 65 AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
+-...+..|++++++.||+.| |-.- ++.+..|.|++.+ .||+++
T Consensus 19 ~~~~~a~~l~~~L~~~GV~~v-Fgvp-----G~~~~~l~dal~~~~~i~~i 63 (587)
T PRK06965 19 ADSIGAEILMKALAAEGVEFI-WGYP-----GGAVLYIYDELYKQDKIQHV 63 (587)
T ss_pred hhccHHHHHHHHHHHcCCCEE-EecC-----CcchHHHHHHHhhcCCCeEE
Confidence 445679999999999999998 3322 4557788999876 478764
No 165
>PRK05898 dnaE DNA polymerase III DnaE; Validated
Probab=41.77 E-value=52 Score=30.91 Aligned_cols=40 Identities=13% Similarity=0.022 Sum_probs=32.3
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
+.|.++|++.|...+.+.|+ +..|+ +-.|.++++++||+-
T Consensus 21 ~~lv~~A~e~g~~alALTD~-~nl~G--aveF~~~ak~~gIkP 60 (971)
T PRK05898 21 DDIIKFALDNNQPYVCLTDL-NNLYG--CIEFYDKAKAHNLIP 60 (971)
T ss_pred HHHHHHHHHCCCCEEEEEeC-Ccccc--HHHHHHHHHHcCCCE
Confidence 45788999999999999874 44555 667899999999974
No 166
>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=41.22 E-value=29 Score=21.71 Aligned_cols=40 Identities=23% Similarity=0.253 Sum_probs=23.2
Q ss_pred ceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhh
Q 033650 29 YVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLL 79 (114)
Q Consensus 29 hi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~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 566667665555523333221 2445588899999988764
No 167
>PRK07979 acetolactate synthase 3 catalytic subunit; Validated
Probab=41.04 E-value=46 Score=28.47 Aligned_cols=41 Identities=20% Similarity=0.272 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
..++.|++++++.||+.| |-.- ++-+..|.|++.+ .||+++
T Consensus 5 ~~a~~l~~~L~~~Gv~~v-Fgvp-----G~~~~~l~d~l~~~~~i~~i 46 (574)
T PRK07979 5 SGAEMVVRSLIDQGVKQV-FGYP-----GGAVLDIYDALHTVGGIDHV 46 (574)
T ss_pred cHHHHHHHHHHHcCCCEE-EEcc-----CcchHHHHHHHHhcCCceEE
Confidence 468999999999999998 4432 3457778888876 588764
No 168
>PRK10887 glmM phosphoglucosamine mutase; Provisional
Probab=40.99 E-value=1.2e+02 Score=25.24 Aligned_cols=52 Identities=29% Similarity=0.303 Sum_probs=36.1
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGK--VKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 4678899999999998876554445443 1 1223443 4688999999999863
No 169
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=40.96 E-value=51 Score=31.50 Aligned_cols=41 Identities=20% Similarity=0.292 Sum_probs=31.2
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 PKMVERAKELGMPAIALTDH-GVMY-G-AIELLKLCKGKGIKPI 62 (1170)
T ss_pred HHHHHHHHHCCCCEEEEecC-CchH-H-HHHHHHHHHHcCCeEE
Confidence 35788999999999988874 3333 3 4477899999999864
No 170
>PRK11269 glyoxylate carboligase; Provisional
Probab=40.94 E-value=37 Score=29.20 Aligned_cols=41 Identities=7% Similarity=0.124 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA-GVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 3321 45577888988654 78764
No 171
>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=40.83 E-value=81 Score=23.30 Aligned_cols=48 Identities=10% Similarity=0.200 Sum_probs=30.2
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEec-C-CCc------chhhHHHHHHHHHHHcCccc
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVSVFL-K-REQ------RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e~gI~~v~~d~-r-~~~------~yhGrv~a~~~~lre~Gl~~ 113 (114)
.|..+++..++.|.++ ..++.|-- . ... .-+.|.+.|.+++.+.|+++
T Consensus 97 d~~~~g~~a~~~L~~~-----~~~i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~ 152 (269)
T cd06297 97 DNRLGGRLAGAYLADF-----PGRIGAITVEEEPDRAFRRTVFAERRAGFQQALKDAGRPF 152 (269)
T ss_pred CcHHHHHHHHHHHHHh-----CCceEEEeCccccccccccccHHHHHHHHHHHHHHcCCCC
Confidence 4666777766666665 34443321 1 111 23478999999999999864
No 172
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=40.79 E-value=67 Score=25.70 Aligned_cols=40 Identities=8% Similarity=-0.002 Sum_probs=29.7
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
+.+.|.++||..+++. ..++.... -..+.+.+++.|+.++
T Consensus 81 ~l~e~~~~gvk~avI~-s~Gf~~~~-~~~l~~~a~~~girvl 120 (291)
T PRK05678 81 AILEAIDAGIDLIVCI-TEGIPVLD-MLEVKAYLERKKTRLI 120 (291)
T ss_pred HHHHHHHCCCCEEEEE-CCCCCHHH-HHHHHHHHHHcCCEEE
Confidence 4456889999999888 46765321 2378899999999764
No 173
>KOG1185 consensus Thiamine pyrophosphate-requiring enzyme [Amino acid transport and metabolism; Coenzyme transport and metabolism]
Probab=40.17 E-value=53 Score=28.89 Aligned_cols=42 Identities=14% Similarity=0.173 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~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 3346778888899999997 4432 3448899999999999986
No 174
>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=39.70 E-value=1.1e+02 Score=22.46 Aligned_cols=44 Identities=20% Similarity=0.191 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhC--CCCEEEEecCCC--c-chhhHHHHHHHHHHHcC-ccc
Q 033650 69 IGKLLGERLLLK--DIPAVSVFLKRE--Q-RYHGKVKAIIDSLREAG-VKL 113 (114)
Q Consensus 69 vG~~la~ra~e~--gI~~v~~d~r~~--~-~yhGrv~a~~~~lre~G-l~~ 113 (114)
.|+.+++.+.+. |..++.+- .+. . ....|.+.|.+++.+.| +++
T Consensus 110 ~g~~~~~~l~~~~~g~~~i~~i-~~~~~~~~~~~R~~g~~~a~~~~~~~~~ 159 (272)
T cd06300 110 FGKQGAEWLVKELGGKGNVLVV-RGLAGHPVDEDRYAGAKEVLKEYPGIKI 159 (272)
T ss_pred HHHHHHHHHHHHcCCCceEEEE-ECCCCCcchHHHHHHHHHHHHHCCCcEE
Confidence 444555555554 77776544 222 1 22468999999999988 753
No 175
>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=39.26 E-value=33 Score=23.67 Aligned_cols=36 Identities=22% Similarity=0.338 Sum_probs=25.6
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~ra~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 578999999999985443 3 33666777776777765
No 176
>PRK12457 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=39.11 E-value=93 Score=25.15 Aligned_cols=53 Identities=15% Similarity=0.119 Sum_probs=39.0
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCE---EEEe--cC-CCcchhh-----HHHHHHHHHHHcCcccC
Q 033650 62 DVAAASKIGKLLGERLLLKDIPA---VSVF--LK-REQRYHG-----KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~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 55667888888888899999964 3455 44 3566665 57888888888898763
No 177
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=39.03 E-value=59 Score=30.94 Aligned_cols=41 Identities=20% Similarity=0.243 Sum_probs=31.0
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 KPLVKKAAELGMPAVALTDH-GNLFG--AVEFYKAAKGAGIKPI 61 (1135)
T ss_pred HHHHHHHHHcCCCEEEEEcC-CccHH--HHHHHHHHHHcCCeEE
Confidence 45788999999999988873 33333 4567899999999864
No 178
>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=39.02 E-value=1e+02 Score=22.34 Aligned_cols=48 Identities=19% Similarity=0.201 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 63 VAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 63 ~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
-..|..+.+.+.+.|.+.|.+-+ +| +...-......+++.++++|-++
T Consensus 75 ~~~a~~~~~~~~~~a~~~~~nii-~E--~tl~~~~~~~~~~~~~k~~GY~v 122 (199)
T PF06414_consen 75 QKEASRLAEKLIEYAIENRYNII-FE--GTLSNPSKLRKLIREAKAAGYKV 122 (199)
T ss_dssp HHHHHHHHHHHHHHHHHCT--EE-EE----TTSSHHHHHHHHHHHCTT-EE
T ss_pred HHHHHHHHHHHHHHHHHcCCCEE-Ee--cCCCChhHHHHHHHHHHcCCceE
Confidence 34566677888899999999776 67 44444455666999999988653
No 179
>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=38.95 E-value=1.2e+02 Score=21.89 Aligned_cols=45 Identities=16% Similarity=0.153 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc--c-hhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ--R-YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 34577777777788988886652 221 2 246899999999999864
No 180
>PRK06154 hypothetical protein; Provisional
Probab=38.84 E-value=42 Score=28.82 Aligned_cols=38 Identities=18% Similarity=0.322 Sum_probs=29.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 331 2 2368999988888864
No 181
>PRK07738 flagellar protein FlaG; Provisional
Probab=38.76 E-value=32 Score=24.20 Aligned_cols=29 Identities=21% Similarity=0.170 Sum_probs=25.2
Q ss_pred CCCCcEEEEEEeCCceeeEEEECCCCeEE
Q 033650 15 PSEPYVLKMHLTNKYVSAQVVHSPTATVA 43 (114)
Q Consensus 15 ~~~~~rL~V~~Snkhi~Aqvi~~~~~~~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 45567788999899999999999999997
No 182
>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=38.55 E-value=30 Score=24.26 Aligned_cols=39 Identities=15% Similarity=0.242 Sum_probs=27.4
Q ss_pred HHHhhCCCCEEEEecCCCcchh---hHHHHHHHHHHHcCccc
Q 033650 75 ERLLLKDIPAVSVFLKREQRYH---GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 75 ~ra~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 4677889888877643232222 46889999999999874
No 183
>COG1109 {ManB} Phosphomannomutase [Carbohydrate transport and metabolism]
Probab=38.46 E-value=1.6e+02 Score=24.69 Aligned_cols=60 Identities=30% Similarity=0.392 Sum_probs=42.1
Q ss_pred hhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 53 LRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhG--rv~a~~~~lre~Gl~~~ 114 (114)
+|+..+..-|.+-|+++|..+|+-..+.+-..|++= .-.+++| --.+++.++..+|++++
T Consensus 15 iRG~~~~~lt~~~~~~~g~a~~~~l~~~~~~~VvVG--~D~R~ss~~~~~a~~~gl~~~G~~v~ 76 (464)
T COG1109 15 IRGVAGEELTPEFALKLGRALGSVLRKKGAPKVVVG--RDTRLSSEMLAAALAAGLTSAGIDVY 76 (464)
T ss_pred cccccCCCcCHHHHHHHHHHHHHHHhhcCCCeEEEE--ecCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 344444557899999999999999998322455543 1234444 46789999999999863
No 184
>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=38.29 E-value=1.3e+02 Score=22.38 Aligned_cols=44 Identities=9% Similarity=0.087 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhh--CCCCEEEEecCC--CcchhhHHHHHHHHHHHc-Ccc
Q 033650 68 KIGKLLGERLLL--KDIPAVSVFLKR--EQRYHGKVKAIIDSLREA-GVK 112 (114)
Q Consensus 68 ~vG~~la~ra~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 345555555555 677777554 23 233467999999999998 765
No 185
>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=38.24 E-value=61 Score=30.41 Aligned_cols=41 Identities=20% Similarity=0.300 Sum_probs=30.9
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 KPLVKKAKELGMPALALTDHG-NMF-GA-VEFYKACKKAGIKPI 60 (1022)
T ss_pred HHHHHHHHHCCCCEEEEecCC-Cch-hH-HHHHHHHHHcCCeEE
Confidence 457889999999999888743 233 43 467888999999864
No 186
>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=38.19 E-value=1.2e+02 Score=21.89 Aligned_cols=47 Identities=13% Similarity=0.299 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKREQRY-HGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~e~gI~~v~~d~r~~~~y-hGrv~a~~~~lre~Gl~~ 113 (114)
....++.+++-+.+.|.+++.+-- ....+ ..+..++.+++++.|+++
T Consensus 120 ~~~~~~~~~~~l~~~~~~~v~iv~-~~~~~~~~~~~~~~~~~~~~g~~i 167 (299)
T cd04509 120 DEQQAEALADYIKEYNWKKVAILY-DDDSYGRGLLEAFKAAFKKKGGTV 167 (299)
T ss_pred cHHHHHHHHHHHHHcCCcEEEEEe-cCchHHHHHHHHHHHHHHHcCCEE
Confidence 345666667777777888876542 22222 356888999999999865
No 187
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=37.58 E-value=59 Score=23.87 Aligned_cols=36 Identities=17% Similarity=0.216 Sum_probs=23.4
Q ss_pred HHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 74 GERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 74 a~ra~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 4555678999998763 2112222 1478889999986
No 188
>PRK12744 short chain dehydrogenase; Provisional
Probab=37.43 E-value=1.2e+02 Score=22.30 Aligned_cols=21 Identities=24% Similarity=0.449 Sum_probs=14.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEe
Q 033650 68 KIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d 88 (114)
-+|..+|+++.+.|.+-+.++
T Consensus 19 gIG~~~a~~l~~~G~~vv~i~ 39 (257)
T PRK12744 19 NLGGLIARDLAAQGAKAVAIH 39 (257)
T ss_pred hHHHHHHHHHHHCCCcEEEEe
Confidence 477777777777777655555
No 189
>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=37.08 E-value=1.3e+02 Score=21.67 Aligned_cols=43 Identities=7% Similarity=-0.052 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCC---cchhhHHHHHHHHHHHcCcc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKRE---QRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~---~~yhGrv~a~~~~lre~Gl~ 112 (114)
.|..+++.+.+.|..++.|-. +. ..-.-|...|.+++.+.|++
T Consensus 103 ~~~~~~~~l~~~g~~~I~~i~-~~~~~~~~~~R~~gf~~~~~~~~~~ 148 (265)
T cd06299 103 GMTEAVSLLVALGHKKIGYIS-GPQDTSTGRERLEAFRQACASLGLE 148 (265)
T ss_pred HHHHHHHHHHHcCCCcEEEEe-CCCCcccHHHHHHHHHHHHHHCCCC
Confidence 355566666777888876542 21 12346899999999999965
No 190
>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=37.00 E-value=51 Score=28.01 Aligned_cols=41 Identities=15% Similarity=0.104 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 44323 346677888888888764
No 191
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=36.94 E-value=65 Score=30.24 Aligned_cols=40 Identities=10% Similarity=0.131 Sum_probs=29.6
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~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 SLIKYAKENNLKTLVLTDH-NNMF-G-VPKFYKLCKKNNIKPI 62 (973)
T ss_pred HHHHHHHHcCCCEEEEecC-CcHH-h-HHHHHHHHHHcCCeEE
Confidence 3678899999999988873 2233 3 3456788999999864
No 192
>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=36.44 E-value=1.4e+02 Score=21.91 Aligned_cols=43 Identities=14% Similarity=0.082 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCc--------chhhHHHHHHHHHHHcCc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQ--------RYHGKVKAIIDSLREAGV 111 (114)
Q Consensus 68 ~vG~~la~ra~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 3466777777778999886652 321 235689999999999984
No 193
>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=36.14 E-value=1.2e+02 Score=22.25 Aligned_cols=49 Identities=12% Similarity=0.169 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCC--cchhhHHHHHHHHHHHcCccc
Q 033650 62 DVAAASKIGKLLGERLLLKDIPAVSVFLKRE--QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~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 44455555555555431 55666544 221 223568999999999999764
No 194
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=36.12 E-value=1.4e+02 Score=22.77 Aligned_cols=44 Identities=14% Similarity=0.114 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGV 111 (114)
Q Consensus 67 ~~vG~~la~ra~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 5678888999999999998766 2321 224688999999999887
No 195
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=36.06 E-value=70 Score=30.41 Aligned_cols=41 Identities=12% Similarity=0.123 Sum_probs=31.8
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 DELVVRAKELGYSSLAITDE-NVMYG--VIPFYKACKKHGIHPI 62 (1107)
T ss_pred HHHHHHHHHCCCCEEEEEeC-ChHhH--HHHHHHHHHHcCCCEe
Confidence 45788999999999998873 44444 5667889999999743
No 196
>PRK15098 beta-D-glucoside glucohydrolase; Provisional
Probab=35.91 E-value=51 Score=29.74 Aligned_cols=53 Identities=9% Similarity=0.151 Sum_probs=37.2
Q ss_pred cCCCCCHHHHHHHHHHHHHHHhhCCCCEE---EE----ecCCC--cc-hh-------hHHHHHHHHHHHc
Q 033650 57 IGCTRDVAAASKIGKLLGERLLLKDIPAV---SV----FLKRE--QR-YH-------GKVKAIIDSLREA 109 (114)
Q Consensus 57 l~~~~n~~AA~~vG~~la~ra~e~gI~~v---~~----d~r~~--~~-yh-------Grv~a~~~~lre~ 109 (114)
+..+.|.+.++.+|+.+|+.+++.||+-. ++ |++.+ ++ |+ --..|+++|+++.
T Consensus 126 laat~d~~l~~~~g~~~a~E~ra~Gin~~laPv~Dv~r~p~~gr~~rsfgeDP~lv~~~~~a~v~GlQ~~ 195 (765)
T PRK15098 126 LASSWDLDAVATVGRVSAYEAADDGLNMTWAPMVDISRDPRWGRASEGFGEDTYLTSIMGKTMVKAMQGK 195 (765)
T ss_pred HHHcCCHHHHHHHHHHHHHHHHHcCCCEEeeCcccccCCCCccccccCcCCCHHHHHHHHHHHHHHHcCC
Confidence 45678999999999999999999999953 11 22222 11 11 1346888888875
No 197
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=35.79 E-value=72 Score=25.13 Aligned_cols=44 Identities=9% Similarity=0.143 Sum_probs=28.8
Q ss_pred HHHHHHHhhCCCCEE---EEecCC-Ccchhh----HHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAV---SVFLKR-EQRYHG----KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 345666677887743 344443 345554 57788888999999863
No 198
>PLN02808 alpha-galactosidase
Probab=35.73 E-value=81 Score=26.43 Aligned_cols=53 Identities=13% Similarity=0.136 Sum_probs=38.0
Q ss_pred CCCHHHHHHHHHHH-HHHHhhCCCCEEEEecCCCc---------------chhhHHHHHHHHHHHcCccc
Q 033650 60 TRDVAAASKIGKLL-GERLLLKDIPAVSVFLKREQ---------------RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 60 ~~n~~AA~~vG~~l-a~ra~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 4567889999999997 311 22233999999999999987
No 199
>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=35.32 E-value=1.5e+02 Score=21.52 Aligned_cols=48 Identities=17% Similarity=0.227 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcc--hhhHHHHHHHHHHHc-Cccc
Q 033650 63 VAAASKIGKLLGERLLLKDIPAVSVFLKREQR--YHGKVKAIIDSLREA-GVKL 113 (114)
Q Consensus 63 ~~AA~~vG~~la~ra~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--NGKGQVAIID-YPTVQSVVDRVRGFKEALADYPNIKI 154 (267)
T ss_pred HHHHHHHHHHHHHHh--CCCceEEEEe-cCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 344455555554443 3767766542 2222 235899999999998 8864
No 200
>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=35.28 E-value=46 Score=25.94 Aligned_cols=43 Identities=23% Similarity=0.386 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhh-CCCCEEEE-----------ecC------CCcchhhH-HHHHHHHHHHcC
Q 033650 68 KIGKLLGERLLL-KDIPAVSV-----------FLK------REQRYHGK-VKAIIDSLREAG 110 (114)
Q Consensus 68 ~vG~~la~ra~e-~gI~~v~~-----------d~r------~~~~yhGr-v~a~~~~lre~G 110 (114)
.+|..+|++.++ .||..|.+ |++ +...|+|+ |.|++=++-|.|
T Consensus 37 ~TGae~Ar~iL~~~gl~~V~Ve~~~G~LtDHYdP~~k~vrLS~~vy~~~SiaAvaVAAHEvG 98 (222)
T PF04298_consen 37 MTGAEVARHILDRNGLSDVRVERVPGELTDHYDPRNKVVRLSEDVYNGRSIAAVAVAAHEVG 98 (222)
T ss_pred CCHHHHHHHHHHHCCCCCeeEEEeCCCCCCCcCCCCCEEEeCCccCCCCCHHHHHHHHHHHh
Confidence 468888888875 78887744 332 13356664 999999999888
No 201
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=35.07 E-value=89 Score=23.59 Aligned_cols=46 Identities=22% Similarity=0.269 Sum_probs=34.1
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCC---c---chhhHHHHHHHHHHHcCccc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKRE---Q---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~ra~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 4555667888899999998885431 1 12347999999999999875
No 202
>PRK08273 thiamine pyrophosphate protein; Provisional
Probab=35.04 E-value=66 Score=27.75 Aligned_cols=41 Identities=12% Similarity=0.179 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH--cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE--AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre--~Gl~~~ 114 (114)
.++..|++++.+.||+.| |=.- ++-+..|.|++.+ .||+++
T Consensus 4 ~~a~~l~~~L~~~GV~~v-FGvp-----G~~~~~l~dal~~~~~~i~~i 46 (597)
T PRK08273 4 TVADFILERLREWGVRRV-FGYP-----GDGINGLLGALGRADDKPEFV 46 (597)
T ss_pred cHHHHHHHHHHHCCCCEE-EEeC-----CCchHHHHHHHHhccCCCeEE
Confidence 468999999999999998 3322 3457789999865 368764
No 203
>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=34.97 E-value=1.7e+02 Score=24.08 Aligned_cols=59 Identities=27% Similarity=0.302 Sum_probs=39.2
Q ss_pred hhccCCCCCHHHHHHHHHHHHHHHhhCCC-CEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033650 54 RSTIGCTRDVAAASKIGKLLGERLLLKDI-PAVSVFLKREQRYHGK--VKAIIDSLREAGVKLL 114 (114)
Q Consensus 54 k~~l~~~~n~~AA~~vG~~la~ra~e~gI-~~v~~d~r~~~~yhGr--v~a~~~~lre~Gl~~~ 114 (114)
++..+..-|.+.|..+|..+|.-..+.+- ..|++= .-.+..++ -.+++.+|..+|++++
T Consensus 8 RG~~~~~lt~e~~~~lg~a~~~~l~~~~~~~~VvVg--~D~R~ss~~l~~a~~~gL~s~G~~V~ 69 (434)
T cd05802 8 RGVANEPLTPELALKLGRAAGKVLGKGGGRPKVLIG--KDTRISGYMLESALAAGLTSAGVDVL 69 (434)
T ss_pred ceECCCCCCHHHHHHHHHHHHHHHHhcCCCCeEEEE--ECCCCCHHHHHHHHHHHHHHCCCcEE
Confidence 34334445788999999999998876432 334433 12234443 6789999999999863
No 204
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=34.79 E-value=74 Score=30.07 Aligned_cols=40 Identities=15% Similarity=0.209 Sum_probs=31.8
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
+-|+++|++.|...+.+.|. +..|+ +--|.++++++||+-
T Consensus 21 ~~lv~~A~~~g~~alAlTD~-~~m~G--a~~F~~~a~~~gIkP 60 (1034)
T PRK07279 21 EKYVERAKELGYQTIGIMDK-DNLYG--AYHFIEGAQKNGLQP 60 (1034)
T ss_pred HHHHHHHHHCCCCEEEEEcC-Ccccc--HHHHHHHHHHcCCcE
Confidence 45789999999999998873 44454 567889999999974
No 205
>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=34.65 E-value=77 Score=21.98 Aligned_cols=39 Identities=13% Similarity=0.210 Sum_probs=27.0
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-----cCcccC
Q 033650 70 GKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-----AGVKLL 114 (114)
Q Consensus 70 G~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-----~Gl~~~ 114 (114)
++.+++.+++.||+.+.--+ | +-+..|.|++.+ .++.++
T Consensus 2 ~e~i~~~L~~~gv~~vfg~P-G-----~~~~~~~~~l~~~~~~~~~i~~i 45 (160)
T cd07034 2 NEAVARGALAAGVDVVAAYP-I-----TPSTEIAETLAKAVLGELGGVVV 45 (160)
T ss_pred hHHHHHHHHHhCCCEEEEeC-C-----CCHHHHHHHHHHHhccCCCcEEE
Confidence 57889999999999985443 3 336667777753 566653
No 206
>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=34.62 E-value=42 Score=20.34 Aligned_cols=41 Identities=20% Similarity=0.293 Sum_probs=25.5
Q ss_pred HHHHHHHHhhCC--CCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 70 GKLLGERLLLKD--IPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~ra~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 455666777777 67776663 3 34445778888888888765
No 207
>PF02641 DUF190: Uncharacterized ACR, COG1993; InterPro: IPR003793 This is an uncharacterised domain found in proteins of unknown function.; PDB: 2DCL_C 1O51_A.
Probab=34.54 E-value=46 Score=22.20 Aligned_cols=30 Identities=23% Similarity=0.281 Sum_probs=18.1
Q ss_pred HHHHHHHHHhhCCCCEEEEecCC--CcchhhHH
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKR--EQRYHGKV 99 (114)
Q Consensus 69 vG~~la~ra~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 66 44344443
No 208
>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=34.30 E-value=1.5e+02 Score=20.00 Aligned_cols=44 Identities=20% Similarity=0.310 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCc
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGV 111 (114)
Q Consensus 66 A~~vG~~la~ra~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 34688888888888877777666544 223556666666665553
No 209
>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=34.27 E-value=2.1e+02 Score=23.61 Aligned_cols=59 Identities=31% Similarity=0.383 Sum_probs=38.7
Q ss_pred hhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033650 54 RSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGK--VKAIIDSLREAGVKLL 114 (114)
Q Consensus 54 k~~l~~~~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGr--v~a~~~~lre~Gl~~~ 114 (114)
++..+..-|.+.+..+|..+|+-..+.+-..|++= .-.++.|+ -.+++.+|..+|++++
T Consensus 8 RG~~~~~lt~~~v~~l~~a~~~~l~~~~~~~VvVg--~D~R~~s~~~~~a~~~gL~s~G~~V~ 68 (443)
T cd03089 8 RGIAGEELTEEIAYAIGRAFGSWLLEKGAKKVVVG--RDGRLSSPELAAALIEGLLAAGCDVI 68 (443)
T ss_pred ceeeCCccCHHHHHHHHHHHHHHHHhcCCCeEEEE--ECCCCCHHHHHHHHHHHHHHcCCcEE
Confidence 33333345778899999999998876433345433 12233443 5789999999999763
No 210
>PRK07586 hypothetical protein; Validated
Probab=34.27 E-value=59 Score=27.28 Aligned_cols=40 Identities=10% Similarity=0.065 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~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 43 (514)
T PRK07586 3 GAESLVRTLVDGGVDVC-FANP-----GTSEMHFVAALDRVPGMRCV 43 (514)
T ss_pred HHHHHHHHHHHCCCCEE-EECC-----CCchHHHHHHHhccCCCeEE
Confidence 68899999999999998 3322 3457778888865 478764
No 211
>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=34.01 E-value=1.1e+02 Score=22.64 Aligned_cols=51 Identities=16% Similarity=0.151 Sum_probs=29.7
Q ss_pred CHHHHHHHHHHHHHHHh-hCCCCEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033650 62 DVAAASKIGKLLGERLL-LKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~-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 44555555555555553 1222566554 2322 22458899999999998864
No 212
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=33.80 E-value=58 Score=27.81 Aligned_cols=40 Identities=18% Similarity=0.164 Sum_probs=30.5
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
.+..|++++++.||+.| |=.- ++.+..|.|++.+ .||+++
T Consensus 5 ~~~~l~~~L~~~Gv~~v-Fgip-----G~~~~~l~~~l~~~~~i~~v 45 (563)
T PRK08527 5 GSQMVCEALKEEGVKVV-FGYP-----GGAILNIYDEIYKQNYFKHI 45 (563)
T ss_pred HHHHHHHHHHHcCCCEE-EECC-----CcchHHHHHHHhccCCCeEE
Confidence 48999999999999998 4422 3567788998865 488764
No 213
>PRK07064 hypothetical protein; Provisional
Probab=33.68 E-value=52 Score=27.74 Aligned_cols=41 Identities=12% Similarity=0.215 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
.++..|++++.+.||+.+ |-.- ++.+..|+|++.+ .||+++
T Consensus 4 ~~~~~l~~~L~~~Gv~~v-Fgvp-----G~~~~~l~~al~~~~~i~~i 45 (544)
T PRK07064 4 TVGELIAAFLEQCGVKTA-FGVI-----SIHNMPILDAIGRRGKIRFV 45 (544)
T ss_pred cHHHHHHHHHHHcCCCEE-EeCC-----CCcchHHHHHHhccCCccEE
Confidence 578999999999999998 3322 3567788888865 477653
No 214
>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=33.62 E-value=91 Score=24.23 Aligned_cols=39 Identities=13% Similarity=0.076 Sum_probs=28.6
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~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-LPL---EESGDLVEAAKKHGVKP 143 (256)
T ss_pred HHHHHHHHHcCCCEEEECC-CCh---HHHHHHHHHHHHCCCcE
Confidence 5578888999999887654 332 34677888888888764
No 215
>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=33.61 E-value=52 Score=27.90 Aligned_cols=41 Identities=15% Similarity=0.154 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
.++..|++.+.+.||+.| |-.- ++-+-.|.|++.+ .||+++
T Consensus 2 t~~~~l~~~L~~~Gv~~v-FG~p-----G~~~~~l~dal~~~~~i~~v 43 (539)
T TIGR03393 2 TVGDYLLDRLTDIGIDHL-FGVP-----GDYNLQFLDHVIDSPDICWV 43 (539)
T ss_pred cHHHHHHHHHHHcCCCEE-EECC-----CCchHHHHHHHhhCCCCcEe
Confidence 578999999999999998 4432 3346678888854 488764
No 216
>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=33.61 E-value=1.5e+02 Score=20.04 Aligned_cols=28 Identities=21% Similarity=0.329 Sum_probs=21.7
Q ss_pred EEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033650 84 AVSVFLKREQRYHGKVKAIIDSLREAGVK 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 455553 3556789999999999999985
No 217
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=33.38 E-value=1.8e+02 Score=22.68 Aligned_cols=52 Identities=12% Similarity=0.158 Sum_probs=33.8
Q ss_pred CCHHHHHHHHHHHHHHHh--------hCCCCEEEEe-cCCCcch-hhHHHHHHHHHHHcCcc
Q 033650 61 RDVAAASKIGKLLGERLL--------LKDIPAVSVF-LKREQRY-HGKVKAIIDSLREAGVK 112 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~--------e~gI~~v~~d-~r~~~~y-hGrv~a~~~~lre~Gl~ 112 (114)
.|..+++..|+.+++.+. +.|--.+.+- ....... ..|...|.+++++.|+.
T Consensus 133 D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~ 194 (330)
T PRK15395 133 DSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIK 194 (330)
T ss_pred ChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCC
Confidence 567778888888888765 3454443322 1112222 35899999999999985
No 218
>PRK14318 glmM phosphoglucosamine mutase; Provisional
Probab=33.37 E-value=2.2e+02 Score=23.68 Aligned_cols=58 Identities=21% Similarity=0.155 Sum_probs=38.5
Q ss_pred hhhccCCCCCHHHHHHHHHHHHHHHhhCCC-----CEEE--EecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 53 LRSTIGCTRDVAAASKIGKLLGERLLLKDI-----PAVS--VFLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~AA~~vG~~la~ra~e~gI-----~~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 VRGLANRDLTAELALALGAAAARVLGHAGRPGGRRPVAVVGRDPR----ASGEFLEAAVSAGLASAGVDVL 76 (448)
T ss_pred cceecCCccCHHHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCC----cCHHHHHHHHHHHHHHCCCEEE
Confidence 344334445789999999999998776432 2343 3432 233 36789999999999863
No 219
>PRK12827 short chain dehydrogenase; Provisional
Probab=33.27 E-value=1.4e+02 Score=21.40 Aligned_cols=22 Identities=14% Similarity=0.252 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033650 67 SKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 67 ~~vG~~la~ra~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 4567777777777777655444
No 220
>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=33.10 E-value=92 Score=21.41 Aligned_cols=31 Identities=16% Similarity=0.088 Sum_probs=23.2
Q ss_pred CHHHHHHHHHHHHHHHhhCCC--CEEEEecCCCc
Q 033650 62 DVAAASKIGKLLGERLLLKDI--PAVSVFLKREQ 93 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~e~gI--~~v~~d~r~~~ 93 (114)
+.+.|..++...-+.|.+.|. .-.++| ++++
T Consensus 4 ~~~~A~~l~~~a~~~a~~~g~~v~iaVvd-~~G~ 36 (132)
T PF03928_consen 4 TLEDAWKLGDAAVEEARERGLPVSIAVVD-AGGH 36 (132)
T ss_dssp -HHHHHHHHHHHHHHHHHTT---EEEEEE-TTS-
T ss_pred CHHHHHHHHHHHHHHHHHhCCCeEEEEEE-CCCC
Confidence 567899999999999999994 455677 4554
No 221
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=33.01 E-value=77 Score=25.30 Aligned_cols=38 Identities=8% Similarity=0.061 Sum_probs=24.3
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 73 la~ra~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 67788888888876553 3433443 44555558887754
No 222
>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=32.97 E-value=98 Score=24.97 Aligned_cols=49 Identities=8% Similarity=0.074 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHhhCCCCEE-EE-ecCCCc--chhhHHHHHHHHHHHcCcccC
Q 033650 66 ASKIGKLLGERLLLKDIPAV-SV-FLKREQ--RYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 66 A~~vG~~la~ra~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 45569999999999998864 33 544322 123478888899999999984
No 223
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=32.97 E-value=79 Score=30.19 Aligned_cols=41 Identities=17% Similarity=0.186 Sum_probs=30.9
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 KDLIKRAKELGMDSIAITDH-GVMYG--VVDFYKAAKKQGIKPI 64 (1151)
T ss_pred HHHHHHHHHCCCCEEEEecC-CchHh--HHHHHHHHHhCCCEEE
Confidence 35788899999999988873 33332 5577889999998764
No 224
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=32.82 E-value=56 Score=27.78 Aligned_cols=42 Identities=17% Similarity=0.300 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc-CcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA-GVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~-Gl~~~ 114 (114)
...+..|++.+++.||+.|.--+ ++.+-.+++++.+. ||+++
T Consensus 8 ~~~~~~l~~~L~~~GV~~vFg~p------G~~~~~l~~al~~~~~i~~v 50 (557)
T PRK08199 8 RTGGQILVDALRANGVERVFCVP------GESYLAVLDALHDETDIRVI 50 (557)
T ss_pred CcHHHHHHHHHHHcCCCEEEeCC------CcchhHHHHHhhccCCCcEE
Confidence 45789999999999999983222 45677889998665 47753
No 225
>PRK12474 hypothetical protein; Provisional
Probab=32.79 E-value=61 Score=27.35 Aligned_cols=41 Identities=7% Similarity=0.011 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
.+|..|++++.+.||+.+ |-.- ++-+-.|.|++.+ .||+++
T Consensus 6 ~~~~~l~~~L~~~GV~~v-FGvp-----G~~~~~l~dal~~~~~i~~i 47 (518)
T PRK12474 6 NGADSVVDTLLNCGVEVC-FANP-----GTSEMHFVAALDRVPRMRPV 47 (518)
T ss_pred cHHHHHHHHHHHCCCCEE-EECC-----CcchHHHHHHhhccCCceEE
Confidence 468999999999999998 4422 3447778888854 578764
No 226
>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=32.78 E-value=58 Score=28.11 Aligned_cols=41 Identities=10% Similarity=0.126 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
..++.|++++++.||+.+ |-.- ++-+..|.|++.+ .||+++
T Consensus 4 ~~a~~l~~~L~~~GV~~v-FGvp-----G~~~~~l~dal~~~~~i~~V 45 (588)
T TIGR01504 4 RAVDAAVYVLEKEGITTA-FGVP-----GAAINPFYSALKAHGGIRHI 45 (588)
T ss_pred cHHHHHHHHHHHcCCCEE-EECC-----CCCcHHHHHHHhhcCCCcEE
Confidence 468999999999999998 4432 3446678888855 478764
No 227
>PRK07282 acetolactate synthase catalytic subunit; Reviewed
Probab=32.72 E-value=67 Score=27.50 Aligned_cols=41 Identities=17% Similarity=0.221 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
..++.|++++++.||+.| |=.- ++-+..|.|++.+ .||+++
T Consensus 11 ~~~~~i~~~L~~~Gv~~v-Fgip-----G~~~~~l~dal~~~~~i~~i 52 (566)
T PRK07282 11 SGSDLVLETLRDLGVDTI-FGYP-----GGAVLPLYDAIYNFEGIRHI 52 (566)
T ss_pred cHHHHHHHHHHHcCCCEE-EecC-----CcchHHHHHHHhhcCCceEE
Confidence 468999999999999998 4432 3446778888854 578764
No 228
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=32.69 E-value=72 Score=27.70 Aligned_cols=40 Identities=20% Similarity=0.296 Sum_probs=33.4
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
.+++|++.+++.||+.| |-. .+|.+-.+.|++++.||++|
T Consensus 4 ga~~lv~~L~~~GV~~V-FGi-----PG~~i~~~~dal~~~~i~~I 43 (550)
T COG0028 4 GAEALVEALEANGVDTV-FGI-----PGGSILPLYDALYDSGIRHI 43 (550)
T ss_pred HHHHHHHHHHHcCCcEE-EeC-----CCccHHHHHHHHHhCCCcEE
Confidence 47899999999999998 442 26779999999999998875
No 229
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=32.22 E-value=73 Score=27.16 Aligned_cols=40 Identities=13% Similarity=0.110 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH----cCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE----AGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre----~Gl~~~ 114 (114)
.++.|++++++.||+.|. -.- ++.+..|.|++.+ .|++++
T Consensus 4 ~~~~l~~~L~~~GV~~vF-g~p-----G~~~~~l~dal~~~~~~~~i~~i 47 (572)
T PRK06456 4 GARILVDSLKREGVKVIF-GIP-----GLSNMQIYDAFVEDLANGELRHV 47 (572)
T ss_pred HHHHHHHHHHHcCCCEEE-eCC-----CcchHHHHHHHHhhccCCCCeEE
Confidence 578999999999999983 321 4567888898864 467664
No 230
>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=32.17 E-value=1.8e+02 Score=21.11 Aligned_cols=42 Identities=17% Similarity=0.104 Sum_probs=25.6
Q ss_pred HHHHHHHHHhhC--CCCEEEEecCCC--c-chhhHHHHHHHHHHHcCc
Q 033650 69 IGKLLGERLLLK--DIPAVSVFLKRE--Q-RYHGKVKAIIDSLREAGV 111 (114)
Q Consensus 69 vG~~la~ra~e~--gI~~v~~d~r~~--~-~yhGrv~a~~~~lre~Gl 111 (114)
.|+.+++.+.+. |-.++.+-. +. + ....|.++|.++++++|.
T Consensus 110 ~g~~~~~~l~~~~~g~~~i~~l~-~~~~~~~~~~r~~g~~~~~~~~~~ 156 (275)
T cd06317 110 QGERSAEAMCKALGGKGQIVVIA-GQPGNGTAIERQKGFEDELAEVCP 156 (275)
T ss_pred HHHHHHHHHHHHcCCCceEEEEe-cCCCCchHHHHHHHHHHHHHhhCC
Confidence 444444444443 666765552 21 2 234689999999999974
No 231
>PLN02573 pyruvate decarboxylase
Probab=32.06 E-value=60 Score=28.01 Aligned_cols=42 Identities=21% Similarity=0.370 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
-.++..|++++.+.||+.| |=.- ++-+-.|.|++.+ .||+++
T Consensus 16 ~~~a~~l~~~L~~~Gv~~v-FGvp-----G~~~~~l~dal~~~~~i~~i 58 (578)
T PLN02573 16 ATLGRHLARRLVEIGVTDV-FSVP-----GDFNLTLLDHLIAEPGLNLI 58 (578)
T ss_pred ccHHHHHHHHHHHcCCCEE-EECC-----CCchHHHHHHHhhcCCceEE
Confidence 4578999999999999998 4432 3446778888854 578764
No 232
>PRK01060 endonuclease IV; Provisional
Probab=32.05 E-value=1.4e+02 Score=22.49 Aligned_cols=40 Identities=13% Similarity=0.069 Sum_probs=30.4
Q ss_pred HHHHHhhCCCCEEEEecCCCcc------hhhHHHHHHHHHHHcCcc
Q 033650 73 LGERLLLKDIPAVSVFLKREQR------YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 73 la~ra~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 4578889999999887643332 234688899999999997
No 233
>PLN03231 putative alpha-galactosidase; Provisional
Probab=31.85 E-value=90 Score=25.89 Aligned_cols=53 Identities=17% Similarity=0.140 Sum_probs=38.6
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCC------------------------------cchhh-----HHHHHHHH
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVSVFLKRE------------------------------QRYHG-----KVKAIIDS 105 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 45555566667788999999999999995110 01111 39999999
Q ss_pred HHHcCccc
Q 033650 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 234
>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=31.51 E-value=1.9e+02 Score=21.49 Aligned_cols=45 Identities=13% Similarity=0.206 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC-------------------cc-hhhHHHHHHHHHHHcCcc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE-------------------QR-YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 44566666666667888876541 21 11 246899999999999864
No 235
>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=31.33 E-value=85 Score=23.26 Aligned_cols=40 Identities=13% Similarity=0.134 Sum_probs=29.1
Q ss_pred HHHHHhhCCCCEEEEecCCCcc-hhh-HHHHHHHHHHHcC-ccc
Q 033650 73 LGERLLLKDIPAVSVFLKREQR-YHG-KVKAIIDSLREAG-VKL 113 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~~-yhG-rv~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 66899999999888773 2222 232 7888999999988 544
No 236
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=31.00 E-value=86 Score=27.12 Aligned_cols=42 Identities=12% Similarity=0.146 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
..++..|++++++.||+.| |-.- ++-+..|.|++.+ .|++++
T Consensus 11 ~t~a~~l~~~L~~~GV~~v-FGvp-----G~~~~~l~dal~~~~~i~~I 53 (595)
T PRK09107 11 MTGAEMVVQALKDQGVEHI-FGYP-----GGAVLPIYDEIFQQDDIQHI 53 (595)
T ss_pred hhHHHHHHHHHHHCCCCEE-EEcc-----CcchHHHHHHHhhcCCCeEE
Confidence 4679999999999999998 4432 4557778999855 578764
No 237
>PF01373 Glyco_hydro_14: Glycosyl hydrolase family 14; InterPro: IPR001554 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 14 GH14 from CAZY comprises enzymes with only one known activity; beta-amylase (3.2.1.2 from EC). A Glu residue has been proposed as a catalytic residue, but it is not known if it is the nucleophile or the proton donor. Beta-amylase [, ] is an enzyme that hydrolyses 1,4-alpha-glucosidic linkages in starch-type polysaccharide substrates so as to remove successive maltose units from the non-reducing ends of the chains. Beta-amylase is present in certain bacteria as well as in plants. Three highly conserved sequence regions are found in all known beta-amylases. The first of these regions is located in the N-terminal section of the enzymes and contains an aspartate which is known [] to be involved in the catalytic mechanism. The second, located in a more central location, is centred around a glutamate which is also involved [] in the catalytic mechanism. The 3D structure of a complex of soybean beta-amylase with an inhibitor (alpha-cyclodextrin) has been determined to 3.0A resolution by X-ray diffraction []. The enzyme folds into large and small domains: the large domain has a (beta alpha)8 super-secondary structural core, while the smaller is formed from two long loops extending from the beta-3 and beta-4 strands of the (beta alpha)8 fold []. The interface of the two domains, together with shorter loops from the (beta alpha)8 core, form a deep cleft, in which the inhibitor binds []. Two maltose molecules also bind in the cleft, one sharing a binding site with alpha-cyclodextrin, and the other sitting more deeply in the cleft [].; GO: 0016161 beta-amylase activity, 0000272 polysaccharide catabolic process; PDB: 1FA2_A 2DQX_A 1WDP_A 1UKP_C 1BYC_A 1BYA_A 1Q6C_A 1V3I_A 1BTC_A 1BYB_A ....
Probab=30.76 E-value=82 Score=26.70 Aligned_cols=39 Identities=26% Similarity=0.430 Sum_probs=27.7
Q ss_pred HHHhhCCCCEEEEec-------CCCcchh-hHHHHHHHHHHHcCccc
Q 033650 75 ERLLLKDIPAVSVFL-------KREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 75 ~ra~e~gI~~v~~d~-------r~~~~yh-Grv~a~~~~lre~Gl~~ 113 (114)
++++++|++.|.+|. .++.+|. .--.++++-+|++||++
T Consensus 23 ~~LK~~GV~GVmvdvWWGiVE~~~p~~ydWs~Y~~l~~~vr~~GLk~ 69 (402)
T PF01373_consen 23 RALKSAGVDGVMVDVWWGIVEGEGPQQYDWSGYRELFEMVRDAGLKL 69 (402)
T ss_dssp HHHHHTTEEEEEEEEEHHHHTGSSTTB---HHHHHHHHHHHHTT-EE
T ss_pred HHHHHcCCcEEEEEeEeeeeccCCCCccCcHHHHHHHHHHHHcCCeE
Confidence 567789999998874 2344554 44678999999999986
No 238
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=30.32 E-value=1e+02 Score=29.16 Aligned_cols=41 Identities=20% Similarity=0.168 Sum_probs=30.2
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 EELVERAARLGLRALAITDE-CGLAG--VVRAAEAAKELGLRLV 64 (1046)
T ss_pred HHHHHHHHHcCCCEEEEEeC-Ccchh--HHHHHHHHHHCCCEEE
Confidence 45688899999999988873 22332 4556778899998764
No 239
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=30.30 E-value=80 Score=27.35 Aligned_cols=42 Identities=17% Similarity=0.133 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH----cCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE----AGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~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 4569999999999999998 3322 4557778888864 367764
No 240
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=30.21 E-value=80 Score=26.03 Aligned_cols=39 Identities=26% Similarity=0.570 Sum_probs=27.8
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHH--HHHHHHHHHcCccc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHGKV--KAIIDSLREAGVKL 113 (114)
Q Consensus 73 la~ra~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 77888899999987532 1222 6654 35688899999975
No 241
>TIGR01132 pgm phosphoglucomutase, alpha-D-glucose phosphate-specific. This enzyme interconverts alpha-D-glucose-1-P and alpha-D-glucose-6-P.
Probab=30.15 E-value=1.8e+02 Score=24.96 Aligned_cols=52 Identities=12% Similarity=0.164 Sum_probs=35.4
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCE-EEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPA-VSVFLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 478899999999998887666422 44321 112233 35679999999999863
No 242
>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=29.99 E-value=1.8e+02 Score=21.56 Aligned_cols=49 Identities=6% Similarity=0.196 Sum_probs=29.5
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHcC-cc
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREAG-VK 112 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 34455555555555543 277777554 2321 12358999999999886 54
No 243
>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=29.98 E-value=1.4e+02 Score=21.48 Aligned_cols=39 Identities=15% Similarity=0.181 Sum_probs=28.2
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~ra~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 456888899999988764221 134677888888888865
No 244
>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=29.88 E-value=1.1e+02 Score=19.72 Aligned_cols=37 Identities=30% Similarity=0.451 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 68 ~vG~~la~ra~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 5789999999997777777784 22 2255556666543
No 245
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=29.76 E-value=2.4e+02 Score=22.02 Aligned_cols=52 Identities=8% Similarity=0.054 Sum_probs=34.8
Q ss_pred CCHHHHHHHHHHHHHHHhh-CCCCEEEEecCC--Ccc-hhhHHHHHHHHHHHcCccc
Q 033650 61 RDVAAASKIGKLLGERLLL-KDIPAVSVFLKR--EQR-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 4567777788888777643 356676544 23 222 2358999999999999864
No 246
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=29.52 E-value=1.7e+02 Score=21.97 Aligned_cols=42 Identities=10% Similarity=0.047 Sum_probs=29.3
Q ss_pred HHHHHHhhCCCCEEEEecCCCc------c-hhhHHHHHHHHHHHcCccc
Q 033650 72 LLGERLLLKDIPAVSVFLKREQ------R-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 72 ~la~ra~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 4567788899998876532211 1 2357899999999999975
No 247
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=29.47 E-value=1.3e+02 Score=24.12 Aligned_cols=41 Identities=10% Similarity=0.008 Sum_probs=30.2
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHG---KVKAIIDSLREAGVK 112 (114)
Q Consensus 71 ~~la~ra~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 446678999999999888 46666765 456677777777764
No 248
>PRK14316 glmM phosphoglucosamine mutase; Provisional
Probab=29.46 E-value=2.5e+02 Score=23.20 Aligned_cols=60 Identities=25% Similarity=0.314 Sum_probs=37.5
Q ss_pred hhhccCCCCCHHHHHHHHHHHHHHHhhCC--CCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033650 53 LRSTIGCTRDVAAASKIGKLLGERLLLKD--IPAVSVFLKREQRYHGK--VKAIIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~AA~~vG~~la~ra~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 34444444578899999999998776521 2234332 1 1233443 3488999999998763
No 249
>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=29.41 E-value=1.8e+02 Score=21.17 Aligned_cols=49 Identities=20% Similarity=0.270 Sum_probs=31.1
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCC--cchhhHHHHHHHHHHHc-Ccc
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVSVFLKRE--QRYHGKVKAIIDSLREA-GVK 112 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 34555666666665543 288887666 232 12346889999999988 664
No 250
>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=29.16 E-value=81 Score=27.07 Aligned_cols=39 Identities=10% Similarity=0.147 Sum_probs=28.6
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc--CcccC
Q 033650 70 GKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA--GVKLL 114 (114)
Q Consensus 70 G~~la~ra~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 4421 44577788888653 67764
No 251
>PRK09228 guanine deaminase; Provisional
Probab=28.66 E-value=1.9e+02 Score=23.82 Aligned_cols=49 Identities=14% Similarity=0.231 Sum_probs=36.2
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 62 DVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~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 52 2 222234788899999999864
No 252
>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=28.62 E-value=1.9e+02 Score=21.16 Aligned_cols=45 Identities=13% Similarity=0.311 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhhC---CCCEEEEecCCCcc---hhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLK---DIPAVSVFLKREQR---YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~e~---gI~~v~~d~r~~~~---yhGrv~a~~~~lre~Gl~~ 113 (114)
+..|+.+++.+.+. |.+.+ +.. +... -.-|.++|.+++.+.|+.+
T Consensus 103 ~~~g~~a~~~l~~~~~~g~~~~-~~~-~~~~~~~~~~R~~gf~~~~~~~~~~~ 153 (271)
T cd06314 103 YAAGRTAGEIMKKALPGGGKVA-IFV-GSLGADNAKERIQGIKDAIKDSKIEI 153 (271)
T ss_pred HHHHHHHHHHHHHHcCCCCEEE-EEe-cCCCCCCHHHHHHHHHHHHhcCCcEE
Confidence 33455555555443 55544 442 3322 3469999999999999863
No 253
>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=28.60 E-value=2.8e+02 Score=23.02 Aligned_cols=60 Identities=15% Similarity=0.243 Sum_probs=38.9
Q ss_pred hhhccCCCCCHHHHHHHHHHHHHHHhhC--CCCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033650 53 LRSTIGCTRDVAAASKIGKLLGERLLLK--DIPAVSVFLKREQRYHGK--VKAIIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~AA~~vG~~la~ra~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 WRGIIAEDFTFENVRRVAQAIADYLKEEGGGGRGVVVG--YDTRFLSEEFARAVAEVLAANGIDVY 71 (461)
T ss_pred ccccccCCccHHHHHHHHHHHHHHHHHhCCCCCeEEEE--eCCCcCcHHHHHHHHHHHHHCCCEEE
Confidence 3443334456788999999999988763 22334432 12234443 5789999999999863
No 254
>PLN02803 beta-amylase
Probab=28.52 E-value=1.2e+02 Score=26.82 Aligned_cols=39 Identities=18% Similarity=0.263 Sum_probs=29.0
Q ss_pred HHHhhCCCCEEEEec-------CCCcchh-hHHHHHHHHHHHcCccc
Q 033650 75 ERLLLKDIPAVSVFL-------KREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 75 ~ra~e~gI~~v~~d~-------r~~~~yh-Grv~a~~~~lre~Gl~~ 113 (114)
++++++|++.|.+|. .++.+|. .--..+++-+|++||++
T Consensus 114 ~~LK~~GVdGVmvDVWWGiVE~~~p~~YdWsgY~~l~~mvr~~GLKl 160 (548)
T PLN02803 114 MALRSAGVEGVMVDAWWGLVEKDGPMKYNWEGYAELVQMVQKHGLKL 160 (548)
T ss_pred HHHHHcCCCEEEEEeeeeeeccCCCCcCCcHHHHHHHHHHHHcCCeE
Confidence 356789999997774 1344454 45678999999999986
No 255
>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=28.37 E-value=64 Score=19.55 Aligned_cols=34 Identities=26% Similarity=0.339 Sum_probs=21.5
Q ss_pred CCCEEEEecCCCcc-hhhHHHHHHHHHHHcCcccC
Q 033650 81 DIPAVSVFLKREQR-YHGKVKAIIDSLREAGVKLL 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 34445555222222 57899999999999998763
No 256
>COG2131 ComEB Deoxycytidylate deaminase [Nucleotide transport and metabolism]
Probab=28.31 E-value=1.1e+02 Score=22.81 Aligned_cols=39 Identities=21% Similarity=0.145 Sum_probs=27.4
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 73 la~ra~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 4566677899999755 45544445667778888999864
No 257
>PF02006 DUF137: Protein of unknown function DUF137; InterPro: IPR002855 The archaeal proteins in this family have no known function.
Probab=28.23 E-value=1.4e+02 Score=22.63 Aligned_cols=45 Identities=24% Similarity=0.316 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHhhCCCC-EEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033650 64 AAASKIGKLLGERLLLKDIP-AVSVFLKREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 64 ~AA~~vG~~la~ra~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 35778888899989888866 565563 3468999999999999974
No 258
>TIGR00212 hemC porphobilinogen deaminase. Biosynthesis of cofactors, prosthetic groups, and carriers: Heme and porphyrin
Probab=27.87 E-value=2e+02 Score=23.27 Aligned_cols=41 Identities=20% Similarity=0.228 Sum_probs=26.8
Q ss_pred CceeeEEEECCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCC
Q 033650 28 KYVSAQVVHSPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKD 81 (114)
Q Consensus 28 khi~Aqvi~~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~e~g 81 (114)
=++++.+.++.+.+. +..+. .++.+.| .+|..+|+..++.|
T Consensus 252 l~l~~~v~~~dG~~~-~~~~~-----------~g~~~~a-~lG~~la~~l~~~g 292 (292)
T TIGR00212 252 LTLIAMVADLDGKEV-IREEK-----------EGNIEDA-ELGTEVAEELLKRG 292 (292)
T ss_pred EEEEEEEECCCCCEE-EEEEE-----------ecCHHHH-HHHHHHHHHHHhcC
Confidence 356667776555444 33332 1345667 99999999998876
No 259
>PRK09259 putative oxalyl-CoA decarboxylase; Validated
Probab=27.81 E-value=98 Score=26.45 Aligned_cols=41 Identities=12% Similarity=0.118 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 458999999999999998 44323 346667788888888764
No 260
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=27.57 E-value=91 Score=26.99 Aligned_cols=41 Identities=15% Similarity=0.141 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH-cCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE-AGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre-~Gl~~~ 114 (114)
..+..|++.+.+.||+.| |=.- ++.+..+.|++.+ .||+++
T Consensus 32 ~~a~~l~~~L~~~GV~~v-Fgip-----G~~~~~l~dal~~~~~i~~v 73 (612)
T PRK07789 32 TGAQAVVRSLEELGVDVV-FGIP-----GGAILPVYDPLFDSTKVRHV 73 (612)
T ss_pred cHHHHHHHHHHHCCCCEE-EEcC-----CcchHHHHHHHhccCCceEE
Confidence 468999999999999998 3322 3567778888854 478764
No 261
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=27.53 E-value=1.8e+02 Score=21.83 Aligned_cols=47 Identities=11% Similarity=0.057 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHhhC-CC-CEEEEecCCCc---chhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLK-DI-PAVSVFLKREQ---RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 211 22478999999999999864
No 262
>PRK12595 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed
Probab=27.51 E-value=95 Score=25.56 Aligned_cols=44 Identities=14% Similarity=0.262 Sum_probs=29.1
Q ss_pred HHHHHHHhhCCCCEE---EEecCC-Ccchhh----HHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAV---SVFLKR-EQRYHG----KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~e~gI~~v---~~d~r~-~~~yhG----rv~a~~~~lre~Gl~~~ 114 (114)
...|+.+++.|+..+ .|++|. ++.|.| -.+.+.+.+++.||.|+
T Consensus 135 ~~~A~~lk~~g~~~~r~~~~kpRtsp~~f~g~~~e~l~~L~~~~~~~Gl~~~ 186 (360)
T PRK12595 135 EAVAKALKAKGLKLLRGGAFKPRTSPYDFQGLGVEGLKILKQVADEYGLAVI 186 (360)
T ss_pred HHHHHHHHHcCCcEEEccccCCCCCCccccCCCHHHHHHHHHHHHHcCCCEE
Confidence 344667778887643 445442 333444 57788999999999874
No 263
>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=27.40 E-value=15 Score=24.88 Aligned_cols=26 Identities=31% Similarity=0.423 Sum_probs=17.1
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEE
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVS 86 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 44556667999999999999999873
No 264
>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=27.32 E-value=36 Score=18.19 Aligned_cols=15 Identities=33% Similarity=0.326 Sum_probs=11.1
Q ss_pred HHHHHHHHHHhhCCC
Q 033650 68 KIGKLLGERLLLKDI 82 (114)
Q Consensus 68 ~vG~~la~ra~e~gI 82 (114)
=+|+..++++.+.||
T Consensus 18 GIG~kt~~kL~~~GI 32 (32)
T PF11798_consen 18 GIGKKTAKKLNKLGI 32 (32)
T ss_dssp TS-HHHHHHHHCTT-
T ss_pred CccHHHHHHHHHccC
Confidence 378999999988886
No 265
>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=27.28 E-value=2.5e+02 Score=23.24 Aligned_cols=55 Identities=16% Similarity=0.160 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhCCC-CEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033650 58 GCTRDVAAASKIGKLLGERLLLKDI-PAVSVFLKREQRYHGK--VKAIIDSLREAGVKLL 114 (114)
Q Consensus 58 ~~~~n~~AA~~vG~~la~ra~e~gI-~~v~~d~r~~~~yhGr--v~a~~~~lre~Gl~~~ 114 (114)
+..-|.+.+..+|..+|.-+.+.+. ..|++= .-.++.++ -.+++.+|..+|++++
T Consensus 12 ~~~lt~~~v~~l~~a~~~~l~~~~~~~~Vvvg--~D~R~~s~~l~~a~~~gL~~~G~~V~ 69 (445)
T cd05803 12 GEGLTPEVITRYVAAFATWQPERTKGGKIVVG--RDGRPSGPMLEKIVIGALLACGCDVI 69 (445)
T ss_pred CCCCCHHHHHHHHHHHHHHHHhcCCCCeEEEE--eCCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 3345788899999999998876552 345432 12234443 4689999999999863
No 266
>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=27.26 E-value=1.9e+02 Score=19.07 Aligned_cols=45 Identities=16% Similarity=0.018 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~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 344444456777789988 55683 4444455678888999888653
No 267
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=27.19 E-value=1.5e+02 Score=24.19 Aligned_cols=39 Identities=21% Similarity=0.342 Sum_probs=0.0
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhh----HHHHHHHHHHHcCc
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHG----KVKAIIDSLREAGV 111 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhG----rv~a~~~~lre~Gl 111 (114)
.+.+.+.+.||.-+.+|...... .| ||.||+|.+.+.-|
T Consensus 334 ~lk~~l~e~GIP~L~iE~D~~~~-~gQi~TRlEAFlEml~~~~~ 376 (377)
T TIGR03190 334 DLKRHLEANGIPTLFLEFDITNP-IGPFRIRIEAFLETLSEEEL 376 (377)
T ss_pred HHHHHHHHCCCCEEEEecCCCCc-hHHHHHHHHHHHHHHhhccc
No 268
>PRK13396 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=27.15 E-value=1.2e+02 Score=25.23 Aligned_cols=44 Identities=7% Similarity=0.152 Sum_probs=30.0
Q ss_pred HHHHHHHhhCCCCEE---EEecCC-Ccchhh----HHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAV---SVFLKR-EQRYHG----KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 445666777787643 456552 455555 58888889999999874
No 269
>PLN02801 beta-amylase
Probab=27.06 E-value=1.3e+02 Score=26.34 Aligned_cols=39 Identities=21% Similarity=0.394 Sum_probs=29.0
Q ss_pred HHHhhCCCCEEEEec-------CCCcchh-hHHHHHHHHHHHcCccc
Q 033650 75 ERLLLKDIPAVSVFL-------KREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 75 ~ra~e~gI~~v~~d~-------r~~~~yh-Grv~a~~~~lre~Gl~~ 113 (114)
++++.+|++.|.+|. .++.+|. .--..+++-+|++||++
T Consensus 44 ~~LK~~GVdGVmvDVWWGiVE~~~P~~YdWsgY~~l~~mvr~~GLKl 90 (517)
T PLN02801 44 KRLKEAGVDGVMVDVWWGIVESKGPKQYDWSAYRSLFELVQSFGLKI 90 (517)
T ss_pred HHHHHcCCCEEEEeeeeeeeccCCCCccCcHHHHHHHHHHHHcCCeE
Confidence 456789999987764 2344454 34678999999999986
No 270
>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=26.97 E-value=1.4e+02 Score=22.88 Aligned_cols=50 Identities=10% Similarity=-0.011 Sum_probs=28.1
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecC-CCcchhhHHHHHHHHHHHcCcc
Q 033650 62 DVAAASKIGKLLGERLLLKDIPAVSVFLK-REQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~e~gI~~v~~d~r-~~~~yhGrv~a~~~~lre~Gl~ 112 (114)
+.+.+........+.|++.|+. +.|..- .+..--..+..+++.+.+.|.+
T Consensus 108 ~~~~~~~~~~~~i~~a~~~G~~-v~~~~~~~~~~~~~~~~~~~~~~~~~G~~ 158 (268)
T cd07940 108 TREEVLERAVEAVEYAKSHGLD-VEFSAEDATRTDLDFLIEVVEAAIEAGAT 158 (268)
T ss_pred CHHHHHHHHHHHHHHHHHcCCe-EEEeeecCCCCCHHHHHHHHHHHHHcCCC
Confidence 4444555556667777777754 333321 1212235667777777777764
No 271
>PRK07523 gluconate 5-dehydrogenase; Provisional
Probab=26.57 E-value=1.9e+02 Score=21.17 Aligned_cols=39 Identities=26% Similarity=0.273 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAG 110 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~G 110 (114)
.-+|..+++++.+.|.+-+.++ |.. .+..++.+.+++.|
T Consensus 20 g~iG~~ia~~l~~~G~~V~~~~-r~~----~~~~~~~~~i~~~~ 58 (255)
T PRK07523 20 QGIGYALAEGLAQAGAEVILNG-RDP----AKLAAAAESLKGQG 58 (255)
T ss_pred chHHHHHHHHHHHcCCEEEEEe-CCH----HHHHHHHHHHHhcC
Confidence 4578888888888887544334 432 23344444444433
No 272
>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=26.55 E-value=92 Score=22.39 Aligned_cols=24 Identities=17% Similarity=0.297 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKRE 92 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d~r~~ 92 (114)
.+|+.+|++++..|.+-+.+| |..
T Consensus 46 ~IG~~vA~~l~~fG~~V~~~d-~~~ 69 (178)
T PF02826_consen 46 RIGRAVARRLKAFGMRVIGYD-RSP 69 (178)
T ss_dssp HHHHHHHHHHHHTT-EEEEEE-SSC
T ss_pred CCcCeEeeeeecCCceeEEec-ccC
Confidence 589999999999999777777 443
No 273
>COG2055 Malate/L-lactate dehydrogenases [Energy production and conversion]
Probab=26.46 E-value=2e+02 Score=23.99 Aligned_cols=45 Identities=31% Similarity=0.305 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHhhCCCCEEEEecCCCcchh-hHHHHHHHHHHHcCcc
Q 033650 64 AAASKIGKLLGERLLLKDIPAVSVFLKREQRYH-GKVKAIIDSLREAGVK 112 (114)
Q Consensus 64 ~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yh-Grv~a~~~~lre~Gl~ 112 (114)
.+++.-=+.+.++|++.||--|.+. +.. | |++..+.+.+-+.|+.
T Consensus 91 ~a~~~am~~aie~Ak~~Gia~vav~-ns~---H~g~~g~y~~~aA~~GlI 136 (349)
T COG2055 91 VAAKKAMELAIEKAKQHGIAAVAVR-NSN---HFGALGYYAEQAAEAGLI 136 (349)
T ss_pred HHHHHHHHHHHHHHHHhCeeEEEEe-cCC---ccchHHHHHHHHHHCCCe
Confidence 4566667788999999999999866 333 4 8999999999999973
No 274
>PRK14320 glmM phosphoglucosamine mutase; Provisional
Probab=26.27 E-value=2.9e+02 Score=22.87 Aligned_cols=50 Identities=26% Similarity=0.330 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHHHHHHHhhCCC-CEEEE--ecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLKDI-PAVSV--FLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e~gI-~~v~~--d~r~~~~yhG--rv~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 ITVEFTQKLGNAVGSLINQKNYPKFVIVGQDTR----SSGGFLKFALVSGLNAAGIDVL 73 (443)
T ss_pred CCHHHHHHHHHHHHHhHhhCCCCCeEEEEECCC----cCHHHHHHHHHHHHHHCCCEEE
Confidence 4778999999999988765442 12433 422 233 35678999999999864
No 275
>PRK14315 glmM phosphoglucosamine mutase; Provisional
Probab=26.06 E-value=3.3e+02 Score=22.56 Aligned_cols=50 Identities=18% Similarity=0.261 Sum_probs=34.0
Q ss_pred CCHHHHHHHHHHHHHHHhhCCC-CEEEE--ecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLKDI-PAVSV--FLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e~gI-~~v~~--d~r~~~~yhG--rv~a~~~~lre~Gl~~~ 114 (114)
-|.+-|.++|..+|.-+.+-+- ..|++ |.| ..+ --.+++.+|..+|++++
T Consensus 20 lt~e~~~~lg~a~g~~l~~~~~~~~VvVg~D~R----~ss~~l~~a~~~gL~s~G~~V~ 74 (448)
T PRK14315 20 MTAELALRVGQAAGLYFRRGDHRHRVVIGKDTR----LSGYMIENALVAGFTSVGMDVL 74 (448)
T ss_pred CCHHHHHHHHHHHHHhHhhcCCCceEEEEeCCC----CCHHHHHHHHHHHHHHCCCeEE
Confidence 5788999999999998775321 13433 432 233 35677899999999863
No 276
>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=26.00 E-value=52 Score=27.69 Aligned_cols=49 Identities=20% Similarity=0.272 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHhhCCCCEEEE-----ecCCCcchhh-------HHHHHHHHHHHcCcccC
Q 033650 66 ASKIGKLLGERLLLKDIPAVSV-----FLKREQRYHG-------KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 66 A~~vG~~la~ra~e~gI~~v~~-----d~r~~~~yhG-------rv~a~~~~lre~Gl~~~ 114 (114)
...+-+.|++.+-++|++.+.+ |++-....+| +|.-++|.+.++||++|
T Consensus 199 g~~L~~~lv~eLeeAGLdRiNlSv~aLDpk~Ak~L~G~~dYdv~kvle~aE~i~~a~idvl 259 (414)
T COG2100 199 GVLLSKKLVDELEEAGLDRINLSVDALDPKLAKMLAGRKDYDVKKVLEVAEYIANAGIDVL 259 (414)
T ss_pred ceeccHHHHHHHHHhCCceEEeecccCCHHHHHHhcCccccCHHHHHHHHHHHHhCCCCEE
Confidence 4456677888888899998744 4322223344 78899999999998864
No 277
>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=25.92 E-value=2.5e+02 Score=20.11 Aligned_cols=44 Identities=20% Similarity=0.261 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCC-c--ch-hhHHHHHHHHHHHcCc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKRE-Q--RY-HGKVKAIIDSLREAGV 111 (114)
Q Consensus 67 ~~vG~~la~ra~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 4456666666777888887654 222 1 11 3578999999999987
No 278
>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=25.89 E-value=2.2e+02 Score=21.67 Aligned_cols=46 Identities=9% Similarity=0.075 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcc-hhhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQR-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~-yhGrv~a~~~~lre~Gl~~ 113 (114)
...+..+++-++..|.+++.+-. .... ..+-+.+|.+.+++.|+++
T Consensus 145 ~~~~~a~~~~~~~~~~~~v~~l~-~~~~~g~~~~~~~~~~~~~~gi~v 191 (348)
T cd06350 145 TSQALAIVALLKHFGWTWVGLVY-SDDDYGRSGLSDLEEELEKNGICI 191 (348)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEE-ecchhHHHHHHHHHHHHHHCCCcE
Confidence 34555566666677888764432 1222 3567899999999999875
No 279
>PRK08327 acetolactate synthase catalytic subunit; Validated
Probab=25.87 E-value=94 Score=26.63 Aligned_cols=36 Identities=14% Similarity=0.069 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE 108 (114)
Q Consensus 67 ~~vG~~la~ra~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 33223 446667887754
No 280
>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=25.71 E-value=52 Score=23.22 Aligned_cols=18 Identities=28% Similarity=0.689 Sum_probs=15.6
Q ss_pred hhHHHHHHHHHHHcCccc
Q 033650 96 HGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 96 hGrv~a~~~~lre~Gl~~ 113 (114)
..-|..+.++||++||++
T Consensus 67 ~~EV~pvi~aL~~~GI~v 84 (123)
T PF07485_consen 67 EDEVNPVISALRKNGIEV 84 (123)
T ss_pred HHHHHHHHHHHHHCCceE
Confidence 456999999999999985
No 281
>PF12286 DUF3622: Protein of unknown function (DUF3622); InterPro: IPR022069 This family of proteins is found in bacteria. Proteins in this family are typically between 72 and 107 amino acids in length. There is a conserved VSK sequence motif.
Probab=25.70 E-value=1.9e+02 Score=18.68 Aligned_cols=34 Identities=9% Similarity=0.139 Sum_probs=26.9
Q ss_pred CCCCCcEEEEEEeCCceeeEEEECC-CCeEEEEec
Q 033650 14 QPSEPYVLKMHLTNKYVSAQVVHSP-TATVASSAS 47 (114)
Q Consensus 14 ~~~~~~rL~V~~Snkhi~Aqvi~~~-~~~~l~saS 47 (114)
...++|.+.|..-...+.|+|+... ..+|+||-+
T Consensus 2 sk~kK~~~rv~q~~~~W~aEItR~vTsrkTvVSK~ 36 (71)
T PF12286_consen 2 SKNKKYDFRVTQKRNGWTAEITRRVTSRKTVVSKR 36 (71)
T ss_pred CCCCcccEEEEecCCceeeeeeeeecCceeEEEec
Confidence 4567899999999999999999855 455776643
No 282
>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=25.64 E-value=2e+02 Score=18.81 Aligned_cols=51 Identities=12% Similarity=0.064 Sum_probs=37.7
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecC-CCcchhhHHHHHHHHHHHcCc
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVSVFLK-REQRYHGKVKAIIDSLREAGV 111 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 467889999999999999999999988863 111222678889888876543
No 283
>PRK11024 colicin uptake protein TolR; Provisional
Probab=25.60 E-value=2.4e+02 Score=19.65 Aligned_cols=39 Identities=15% Similarity=0.084 Sum_probs=24.9
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 73 la~ra~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 33333333323344432 2556789999999999999984
No 284
>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=25.50 E-value=2.1e+02 Score=21.01 Aligned_cols=41 Identities=24% Similarity=0.275 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033650 63 VAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 63 ~~AA~~vG~~la~ra~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 45788888888775 65544 3 33 2468899999999998854
No 285
>COG1056 NadR Nicotinamide mononucleotide adenylyltransferase [Coenzyme metabolism]
Probab=25.48 E-value=1.5e+02 Score=22.11 Aligned_cols=39 Identities=28% Similarity=0.390 Sum_probs=29.4
Q ss_pred HHHHHhhCCCCEEEEec---------CCCcchhhHHHHHHHHHHHcCcc
Q 033650 73 LGERLLLKDIPAVSVFL---------KREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 73 la~ra~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 78876532 23557788999999999999986
No 286
>PLN02161 beta-amylase
Probab=25.31 E-value=1.5e+02 Score=26.13 Aligned_cols=39 Identities=21% Similarity=0.332 Sum_probs=28.9
Q ss_pred HHHhhCCCCEEEEec-------CCCcchh-hHHHHHHHHHHHcCccc
Q 033650 75 ERLLLKDIPAVSVFL-------KREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 75 ~ra~e~gI~~v~~d~-------r~~~~yh-Grv~a~~~~lre~Gl~~ 113 (114)
++++.+|++.|.+|. .++.+|. .--+.+++-++++||++
T Consensus 124 ~~LK~~GVdGVmvDVWWGiVE~~~p~~YdWsgY~~l~~mvr~~GLKl 170 (531)
T PLN02161 124 KALKLAGVHGIAVEVWWGIVERFSPLEFKWSLYEELFRLISEAGLKL 170 (531)
T ss_pred HHHHHcCCCEEEEEeeeeeeecCCCCcCCcHHHHHHHHHHHHcCCeE
Confidence 356789999987764 1344454 44678999999999986
No 287
>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=25.21 E-value=1.9e+02 Score=21.87 Aligned_cols=24 Identities=25% Similarity=0.230 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHhhCCCCEEEEec
Q 033650 65 AASKIGKLLGERLLLKDIPAVSVFL 89 (114)
Q Consensus 65 AA~~vG~~la~ra~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 467899999999999999987 473
No 288
>PRK06114 short chain dehydrogenase; Provisional
Probab=25.13 E-value=2.1e+02 Score=20.96 Aligned_cols=22 Identities=18% Similarity=0.058 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033650 67 SKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 67 ~~vG~~la~ra~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 3588888888888887666555
No 289
>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=25.09 E-value=2.2e+02 Score=21.31 Aligned_cols=50 Identities=10% Similarity=-0.013 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHHHHHHHh--hCCCCEEEEec-CCC-cchhhHHHHHHHHHHHcC
Q 033650 61 RDVAAASKIGKLLGERLL--LKDIPAVSVFL-KRE-QRYHGKVKAIIDSLREAG 110 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~--e~gI~~v~~d~-r~~-~~yhGrv~a~~~~lre~G 110 (114)
.|.++++.+++.|.+++. ..|..++.+-- ... ..-..|..+|.+++.++|
T Consensus 102 d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~l~~~~ 155 (288)
T cd01538 102 DNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFNGAMSVLKPLI 155 (288)
T ss_pred ChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHHHHHHHHHhcc
Confidence 345566666666666654 23666765541 111 123468999999999987
No 290
>PF06370 DUF1069: Protein of unknown function (DUF1069); InterPro: IPR009421 This family consists of several Maize streak virus 21.7 kDa proteins. The function of this family is unknown.
Probab=25.09 E-value=33 Score=25.43 Aligned_cols=21 Identities=29% Similarity=0.355 Sum_probs=17.3
Q ss_pred HHhhCCCCEEEEecCCCcchhh
Q 033650 76 RLLLKDIPAVSVFLKREQRYHG 97 (114)
Q Consensus 76 ra~e~gI~~v~~d~r~~~~yhG 97 (114)
|....|++++.+- .|+.+|||
T Consensus 161 rssgigvdevtya-sggdryhg 181 (206)
T PF06370_consen 161 RSSGIGVDEVTYA-SGGDRYHG 181 (206)
T ss_pred eecCccceeEEec-cCCccccC
Confidence 4556789999988 69999997
No 291
>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=24.82 E-value=1.8e+02 Score=23.20 Aligned_cols=39 Identities=8% Similarity=0.024 Sum_probs=28.9
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHG---KVKAIIDSLREAGVK 112 (114)
Q Consensus 73 la~ra~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 46666664 456677777777764
No 292
>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=24.82 E-value=2e+02 Score=18.48 Aligned_cols=41 Identities=17% Similarity=0.212 Sum_probs=26.8
Q ss_pred HHHHHHHHhhCCCCEEEEecCCCc-chhhHHHHHHHHHHHcCccc
Q 033650 70 GKLLGERLLLKDIPAVSVFLKREQ-RYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 70 G~~la~ra~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 4567788888888 55455 232 22345778888888888764
No 293
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=24.71 E-value=77 Score=24.46 Aligned_cols=44 Identities=25% Similarity=0.455 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
-.-|.-|=.++.+.|+.--+++. .| ||-|-...++++.+-++||
T Consensus 60 g~sGlelq~~L~~~~~~~PVIfi-TG---hgDIpmaV~AmK~GAvDFL 103 (202)
T COG4566 60 GMSGLELQDRLAERGIRLPVIFL-TG---HGDIPMAVQAMKAGAVDFL 103 (202)
T ss_pred CCchHHHHHHHHhcCCCCCEEEE-eC---CCChHHHHHHHHcchhhHH
Confidence 34688899999999999877776 56 8999999999999888886
No 294
>PF06792 UPF0261: Uncharacterised protein family (UPF0261); InterPro: IPR008322 The proteins in this entry are functionally uncharacterised.
Probab=24.62 E-value=2.6e+02 Score=23.74 Aligned_cols=47 Identities=23% Similarity=0.286 Sum_probs=31.0
Q ss_pred CCHHHHHHHHHHHHHHHhh-CCCCEEEEecCCCc---------chh-hHHHHHHHHHHH
Q 033650 61 RDVAAASKIGKLLGERLLL-KDIPAVSVFLKREQ---------RYH-GKVKAIIDSLRE 108 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e-~gI~~v~~d~r~~~---------~yh-Grv~a~~~~lre 108 (114)
.+.+-++.+|+.||+|+.+ .|-..+.+ +.+|+ -|. .--+||++++++
T Consensus 312 tt~eE~~~~g~~ia~kLn~~~gpv~v~l-P~~G~S~~d~~G~~f~Dpead~al~~~l~~ 369 (403)
T PF06792_consen 312 TTPEENRQLGEFIAEKLNRAKGPVRVLL-PLGGVSALDRPGGPFYDPEADEALFDALRE 369 (403)
T ss_pred CCHHHHHHHHHHHHHHHhcCCCCEEEEE-CCCCCcccCCCCCcCcChhHHHHHHHHHHH
Confidence 4677899999999999998 44444433 33332 222 235788888876
No 295
>PRK11570 peptidyl-prolyl cis-trans isomerase; Provisional
Probab=24.60 E-value=1.4e+02 Score=22.58 Aligned_cols=23 Identities=22% Similarity=0.345 Sum_probs=19.5
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCE
Q 033650 62 DVAAASKIGKLLGERLLLKDIPA 84 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~e~gI~~ 84 (114)
+...+|.+|..++....+.++..
T Consensus 10 ~~~~sY~~G~~~g~~l~~~~~~~ 32 (206)
T PRK11570 10 EAQASYGIGLQVGQQLSESGLEG 32 (206)
T ss_pred HHHHHHHHHHHHHHHHHhcCCcc
Confidence 45689999999999998888764
No 296
>TIGR02803 ExbD_1 TonB system transport protein ExbD, group 1. Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.
Probab=24.55 E-value=2.3e+02 Score=19.10 Aligned_cols=29 Identities=17% Similarity=0.227 Sum_probs=21.7
Q ss_pred CEEEEecCCCcchhhHHHHHHHHHHHcCcc
Q 033650 83 PAVSVFLKREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 83 ~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~ 112 (114)
..+++.. -....++.+..+.|.++++|+.
T Consensus 86 ~~v~I~a-D~~~~~~~vv~v~d~~~~aG~~ 114 (122)
T TIGR02803 86 TTIFFRA-DKTVDYGDLMKVMNLLRQAGYL 114 (122)
T ss_pred ceEEEEc-CCCCCHHHHHHHHHHHHHcCCC
Confidence 3455552 3555688999999999999985
No 297
>COG1489 SfsA DNA-binding protein, stimulates sugar fermentation [General function prediction only]
Probab=24.42 E-value=1.2e+02 Score=23.88 Aligned_cols=50 Identities=22% Similarity=0.301 Sum_probs=42.2
Q ss_pred CCCCCCCCCCccCCCCCCcEEEEEEeCCceeeEEEE--------CCCCeEEEEecchh
Q 033650 1 MVVPPPRRPLKTYQPSEPYVLKMHLTNKYVSAQVVH--------SPTATVASSASSQE 50 (114)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~rL~V~~Snkhi~Aqvi~--------~~~~~~l~saST~e 50 (114)
|+.+||+.+......-+|+-..|....+-++|.+=| ..+++++++.|..-
T Consensus 1 m~~~~pl~~a~li~R~nRFl~dv~l~G~~~~~H~~ntGrm~~l~~pG~~v~l~~sd~~ 58 (235)
T COG1489 1 MLFLPPLQEATLIKRYNRFLADVELDGEEVTAHCPNTGRMTELLTPGNTVWLSRSDNP 58 (235)
T ss_pred CCCCCCCceeEEEeeecceEEEEEECCeEEEEEcCCCCccccccCCCCEEEEEEecCC
Confidence 788999999999999999999999999999998877 34677777777654
No 298
>PRK08452 flagellar protein FlaG; Provisional
Probab=24.41 E-value=1.3e+02 Score=21.21 Aligned_cols=28 Identities=11% Similarity=-0.037 Sum_probs=23.0
Q ss_pred CCCcEEEEEEeCCceeeEEEECCCCeEE
Q 033650 16 SEPYVLKMHLTNKYVSAQVVHSPTATVA 43 (114)
Q Consensus 16 ~~~~rL~V~~Snkhi~Aqvi~~~~~~~l 43 (114)
....+..+...-.-++.+|+|..+|++|
T Consensus 70 ~~~L~F~~de~~~~~vVkVvD~~T~eVI 97 (124)
T PRK08452 70 DTNIRFGYNDKIKGLVVSVKEANGGKVI 97 (124)
T ss_pred CCceEEEEcCCCCcEEEEEEECCCCcee
Confidence 4456677777778899999999999987
No 299
>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=24.35 E-value=1.7e+02 Score=22.35 Aligned_cols=39 Identities=8% Similarity=0.025 Sum_probs=28.1
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
+-+.+.|.++|++.+++-| =. + .-...+.+.+++.|++.
T Consensus 94 ~~fi~~~~~aG~~giiipD-l~--~-ee~~~~~~~~~~~g~~~ 132 (242)
T cd04724 94 ERFLRDAKEAGVDGLIIPD-LP--P-EEAEEFREAAKEYGLDL 132 (242)
T ss_pred HHHHHHHHHCCCcEEEECC-CC--H-HHHHHHHHHHHHcCCcE
Confidence 3467888999999887743 12 1 35778888899998864
No 300
>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=24.32 E-value=4.1e+02 Score=21.97 Aligned_cols=55 Identities=4% Similarity=-0.107 Sum_probs=40.3
Q ss_pred cCCCCC-----HHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033650 57 IGCTRD-----VAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHG---KVKAIIDSLREAGVK 112 (114)
Q Consensus 57 l~~~~n-----~~AA~~vG~~la~ra~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 334556 78888888888889999999999888 46556654 455666667777764
No 301
>PRK07564 phosphoglucomutase; Validated
Probab=24.23 E-value=2.8e+02 Score=23.82 Aligned_cols=52 Identities=13% Similarity=0.081 Sum_probs=35.8
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCE-EEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPA-VSVFLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 FNENHILAIFQAICEYRGKQGITGPLFVG--GDTHALSEPAIQSALEVLAANGVGVV 108 (543)
T ss_pred cCHHHHHHHHHHHHHHHHhcCCCCeEEEE--ecCCcCCHHHHHHHHHHHHHCCCEEE
Confidence 478899999999999887655422 4332 1122333 35689999999999863
No 302
>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=24.13 E-value=1.8e+02 Score=22.25 Aligned_cols=69 Identities=22% Similarity=0.134 Sum_probs=40.1
Q ss_pred eEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcc-hhhHHHHHHHHHHHcCcc
Q 033650 41 TVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQR-YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 41 ~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~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 344455555555554443 34455555556677888888874 4333212222 246788888888888865
No 303
>PLN00197 beta-amylase; Provisional
Probab=24.11 E-value=1.6e+02 Score=26.19 Aligned_cols=39 Identities=13% Similarity=0.321 Sum_probs=28.9
Q ss_pred HHHhhCCCCEEEEec-------CCCcchh-hHHHHHHHHHHHcCccc
Q 033650 75 ERLLLKDIPAVSVFL-------KREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 75 ~ra~e~gI~~v~~d~-------r~~~~yh-Grv~a~~~~lre~Gl~~ 113 (114)
++++.+|++.|.+|. .++.+|. .--..+++-+|++||++
T Consensus 134 ~~LK~~GVdGVmvDvWWGiVE~~~p~~YdWsgY~~L~~mvr~~GLKl 180 (573)
T PLN00197 134 QALKSAGVEGIMMDVWWGLVERESPGVYNWGGYNELLEMAKRHGLKV 180 (573)
T ss_pred HHHHHcCCCEEEEeeeeeeeccCCCCcCCcHHHHHHHHHHHHcCCeE
Confidence 356789999987774 2344454 44678999999999986
No 304
>PF13880 Acetyltransf_13: ESCO1/2 acetyl-transferase
Probab=24.11 E-value=72 Score=20.42 Aligned_cols=28 Identities=25% Similarity=0.332 Sum_probs=23.1
Q ss_pred CCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033650 80 KDIPAVSVFLKREQRYHGKVKAIIDSLREA 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 488888777 3778889999999999975
No 305
>PLN02692 alpha-galactosidase
Probab=24.10 E-value=1.7e+02 Score=24.76 Aligned_cols=52 Identities=17% Similarity=0.144 Sum_probs=36.8
Q ss_pred CCHHHHHHHHHH-HHHHHhhCCCCEEEEecCCC---------------cchhhHHHHHHHHHHHcCccc
Q 033650 61 RDVAAASKIGKL-LGERLLLKDIPAVSVFLKRE---------------QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~AA~~vG~~-la~ra~e~gI~~v~~d~r~~---------------~~yhGrv~a~~~~lre~Gl~~ 113 (114)
-|-+....+... .+.-++++|.+-+++|| += .++-.-+++++|-+.+.||+|
T Consensus 70 i~E~~i~~~ad~~~~~gl~~~Gy~yv~iDD-gW~~~~rd~~G~~~~d~~kFP~G~k~ladyiH~~GLKf 137 (412)
T PLN02692 70 IDEKMIKETADALVSTGLSKLGYTYVNIDD-CWAEIARDEKGNLVPKKSTFPSGIKALADYVHSKGLKL 137 (412)
T ss_pred cCHHHHHHHHHHHHhccchhcCcEEEEEcC-CcCCCCCCCCCCeeeChhhcCCcHHHHHHHHHHCCCce
Confidence 355555555553 44556789999999997 21 133334999999999999987
No 306
>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=24.06 E-value=2.6e+02 Score=20.53 Aligned_cols=42 Identities=17% Similarity=0.107 Sum_probs=30.4
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
..++-+.+.||+.-+ ..-+.|+-..++..+++.+++.|++++
T Consensus 16 ~a~~~L~~~gi~~dv-~V~SaHRtp~~~~~~~~~a~~~g~~vi 57 (156)
T TIGR01162 16 KAADILEEFGIPYEL-RVVSAHRTPELMLEYAKEAEERGIKVI 57 (156)
T ss_pred HHHHHHHHcCCCeEE-EEECcccCHHHHHHHHHHHHHCCCeEE
Confidence 344445678988422 223788989999999999999988753
No 307
>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=23.73 E-value=3e+02 Score=22.71 Aligned_cols=52 Identities=21% Similarity=0.107 Sum_probs=34.9
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCC--EEEE--ecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLKDIP--AVSV--FLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e~gI~--~v~~--d~r~~~~yhGrv~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 LTAELALLLGAAAGRVLRQGRDTAPRVVIGKDTR--LSGYMLENALAAGLNSAGVDVL 70 (443)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCCCCeEEEEeCCC--cChHHHHHHHHHHHHHCCCeEE
Confidence 47788999999999988765421 2433 322 1112235789999999999863
No 308
>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=23.69 E-value=2.5e+02 Score=20.14 Aligned_cols=45 Identities=18% Similarity=0.156 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhC--CCCEEEEec--CCCcchhhHHHHHHHHHHHc-Cccc
Q 033650 69 IGKLLGERLLLK--DIPAVSVFL--KREQRYHGKVKAIIDSLREA-GVKL 113 (114)
Q Consensus 69 vG~~la~ra~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 666665431 11112346889999999994 8764
No 309
>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=23.67 E-value=1.9e+02 Score=24.27 Aligned_cols=44 Identities=7% Similarity=-0.059 Sum_probs=32.3
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchh-hHHHHHHHHHHHcCccc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yh-Grv~a~~~~lre~Gl~~ 113 (114)
.-.+|.+-+.+-||+.|.+. +....|. -|-+++.+.+.+.||++
T Consensus 75 ~~~~l~~l~~~~~i~~v~~~-~~~~~~~~~rd~~v~~~l~~~gi~~ 119 (475)
T TIGR02766 75 TVAALLDCVRSTGATRLFFN-HLYDPVSLVRDHRAKEVLTAQGISV 119 (475)
T ss_pred HHHHHHHHHHHcCCCEEEEe-cccCHHHHHHHHHHHHHHHHcCCEE
Confidence 34557777788999999877 4443443 46788888899999875
No 310
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=23.56 E-value=1.9e+02 Score=21.52 Aligned_cols=14 Identities=7% Similarity=0.135 Sum_probs=6.6
Q ss_pred HHHHHHhhCCCCEE
Q 033650 72 LLGERLLLKDIPAV 85 (114)
Q Consensus 72 ~la~ra~e~gI~~v 85 (114)
.+.+.|.+.|+.-+
T Consensus 113 ~v~~~~~~~g~~~i 126 (235)
T cd00958 113 RVAAEAHKYGLPLI 126 (235)
T ss_pred HHHHHHHHcCCCEE
Confidence 33344455555543
No 311
>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=23.48 E-value=1.2e+02 Score=23.15 Aligned_cols=47 Identities=11% Similarity=0.039 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhhCCCCEEEE-ecCCCcc---hhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSV-FLKREQR---YHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~-d~r~~~~---yhGrv~a~~~~lre~Gl~~~ 114 (114)
.....+.+.|.+.|+.-++. ..+|.+. --.-+...++.+.+.|.++|
T Consensus 123 ~~~~~i~~~~~~~g~~liv~~~~~Gvh~~~~~~~~~~~~~~~a~~~GADyi 173 (258)
T TIGR01949 123 RDLGMIAEICDDWGVPLLAMMYPRGPHIDDRDPELVAHAARLGAELGADIV 173 (258)
T ss_pred HHHHHHHHHHHHcCCCEEEEEeccCcccccccHHHHHHHHHHHHHHCCCEE
Confidence 45555666777777765431 2122211 01123333455556776653
No 312
>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=23.21 E-value=92 Score=20.51 Aligned_cols=42 Identities=17% Similarity=0.168 Sum_probs=29.3
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~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 457889999999998765 344332245677888899998876
No 313
>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=23.20 E-value=58 Score=23.41 Aligned_cols=33 Identities=15% Similarity=0.229 Sum_probs=24.1
Q ss_pred HhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033650 77 LLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA 109 (114)
Q Consensus 77 a~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 455677888777655556778999999987653
No 314
>COG3894 Uncharacterized metal-binding protein [General function prediction only]
Probab=23.12 E-value=99 Score=27.43 Aligned_cols=66 Identities=17% Similarity=0.230 Sum_probs=47.4
Q ss_pred CCcEEEEEEeCCceeeEEEECCCCeEEEEecchhHhhhhc--c-------------CCCCCHHHHHHHHHHHHHHHhhCC
Q 033650 17 EPYVLKMHLTNKYVSAQVVHSPTATVASSASSQEKALRST--I-------------GCTRDVAAASKIGKLLGERLLLKD 81 (114)
Q Consensus 17 ~~~rL~V~~Snkhi~Aqvi~~~~~~~l~saST~e~~~k~~--l-------------~~~~n~~AA~~vG~~la~ra~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 3455667777778999999999999999999987665421 0 012235666777788888887776
Q ss_pred C
Q 033650 82 I 82 (114)
Q Consensus 82 I 82 (114)
+
T Consensus 243 V 243 (614)
T COG3894 243 V 243 (614)
T ss_pred c
Confidence 3
No 315
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=23.07 E-value=3e+02 Score=20.91 Aligned_cols=44 Identities=16% Similarity=0.228 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchh-hHHHHHHHHHHHcCccc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d~r~~~~yh-Grv~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 345555566677888875532 233343 45788899999999876
No 316
>PF07075 DUF1343: Protein of unknown function (DUF1343); InterPro: IPR008302 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.96 E-value=86 Score=26.08 Aligned_cols=35 Identities=14% Similarity=0.266 Sum_probs=26.7
Q ss_pred CCCCEEEEecC----CCcchhhHHHHHHHHHHHcCcccC
Q 033650 80 KDIPAVSVFLK----REQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 80 ~gI~~v~~d~r----~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
+||+-++||.- .-|.|-.-+.-+++++.++|++|+
T Consensus 77 ~~vDvlvfDiQDvG~R~YTYi~Tl~~~MeAaa~~g~~vv 115 (365)
T PF07075_consen 77 KGVDVLVFDIQDVGVRFYTYISTLYYVMEAAAENGKPVV 115 (365)
T ss_pred hCCCEEEEeCccCCchHHHHHHHHHHHHHHHHHhCCeEE
Confidence 38898888862 144577888888899999998874
No 317
>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=22.76 E-value=2.1e+02 Score=18.01 Aligned_cols=34 Identities=12% Similarity=0.321 Sum_probs=23.1
Q ss_pred hCCCCEEEEecCCCcch------------hhHHHHHHHHHHHcCccc
Q 033650 79 LKDIPAVSVFLKREQRY------------HGKVKAIIDSLREAGVKL 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 5788887766 321111 234889999999999876
No 318
>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional
Probab=22.74 E-value=1.6e+02 Score=24.08 Aligned_cols=41 Identities=20% Similarity=0.225 Sum_probs=27.5
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHH-HHcCcccC
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSL-REAGVKLL 114 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~l-re~Gl~~~ 114 (114)
-..+.|.++||..+++- ..++..++-+. +.+.+ ++.|+.+|
T Consensus 103 dai~Ea~~aGI~~~Vii-teGfpe~d~~~-l~~~~~~~~g~rli 144 (317)
T PTZ00187 103 SAIIEAIEAEIPLVVCI-TEGIPQHDMVK-VKHALLSQNKTRLI 144 (317)
T ss_pred HHHHHHHHcCCCEEEEE-CCCCchhhHHH-HHHHHhhcCCCEEE
Confidence 34556889999999887 47888787333 22443 56787654
No 319
>PLN02705 beta-amylase
Probab=22.70 E-value=1.7e+02 Score=26.45 Aligned_cols=39 Identities=21% Similarity=0.271 Sum_probs=28.8
Q ss_pred HHHhhCCCCEEEEec-------CCCcchh-hHHHHHHHHHHHcCccc
Q 033650 75 ERLLLKDIPAVSVFL-------KREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 75 ~ra~e~gI~~v~~d~-------r~~~~yh-Grv~a~~~~lre~Gl~~ 113 (114)
++++++|++.|.+|. .++.+|. .--+.+++-++++||++
T Consensus 275 ~aLK~aGVdGVmvDVWWGiVE~~~P~~YdWsgY~~L~~mvr~~GLKl 321 (681)
T PLN02705 275 SHMKSLNVDGVVVDCWWGIVEGWNPQKYVWSGYRELFNIIREFKLKL 321 (681)
T ss_pred HHHHHcCCCEEEEeeeeeEeecCCCCcCCcHHHHHHHHHHHHcCCeE
Confidence 356789999987764 1344454 44678999999999986
No 320
>PRK14317 glmM phosphoglucosamine mutase; Provisional
Probab=22.57 E-value=3.7e+02 Score=22.45 Aligned_cols=52 Identities=19% Similarity=0.194 Sum_probs=33.6
Q ss_pred CCHHHHHHHHHHHHHHHhhC--CCCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLK--DIPAVSVFLKREQRYHGK--VKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e~--gI~~v~~d~r~~~~yhGr--v~a~~~~lre~Gl~~~ 114 (114)
-+-+-|.++|..+|.-.++. +-..|++= .-.+..++ -.+++.+|..+|++++
T Consensus 32 ltpe~a~~lg~a~g~~l~~~~~~~~~VvVG--~D~R~ss~~l~~a~~~gL~s~Gv~V~ 87 (465)
T PRK14317 32 LTAPLALQVGFWAGQVLRQTAPGEGPVLIG--QDSRNSSDMLAMALAAGLTAAGREVW 87 (465)
T ss_pred cCHHHHHHHHHHHHHHHHhccCCCCcEEEE--ECCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 46788999999888877542 22334332 12233443 4689999999999863
No 321
>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=22.56 E-value=3e+02 Score=20.03 Aligned_cols=48 Identities=8% Similarity=0.059 Sum_probs=27.8
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc---chhhHHHHHHHHHHHc-Ccc
Q 033650 62 DVAAASKIGKLLGERLLLKDIPAVSVFLKREQ---RYHGKVKAIIDSLREA-GVK 112 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~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 4444555555554443 3777765542 221 2246899999999987 454
No 322
>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=22.53 E-value=1.7e+02 Score=21.71 Aligned_cols=53 Identities=9% Similarity=-0.041 Sum_probs=29.8
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
.+.+.+......+.+.+++.|++-..-...........+..+++.+.+.|.+.
T Consensus 101 ~~~~~~~~~~~~~v~~ak~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 153 (237)
T PF00682_consen 101 KSREEALERIEEAVKYAKELGYEVAFGCEDASRTDPEELLELAEALAEAGADI 153 (237)
T ss_dssp SHHHHHHHHHHHHHHHHHHTTSEEEEEETTTGGSSHHHHHHHHHHHHHHT-SE
T ss_pred CCHHHHHHHHHHHHHHHHhcCCceEeCccccccccHHHHHHHHHHHHHcCCeE
Confidence 34455555666677777777776532221122223466777777777777653
No 323
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=22.52 E-value=2.4e+02 Score=22.62 Aligned_cols=38 Identities=13% Similarity=0.231 Sum_probs=27.5
Q ss_pred HHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033650 74 GERLLLKDIPAVSVFLKREQRYHG---KVKAIIDSLREAGVK 112 (114)
Q Consensus 74 a~ra~e~gI~~v~~d~r~~~~yhG---rv~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 477999999999988 46666664 455666667777764
No 324
>PF02593 dTMP_synthase: Thymidylate synthase; InterPro: IPR003745 This entry describes proteins of unknown function.
Probab=22.38 E-value=2.6e+02 Score=21.62 Aligned_cols=43 Identities=21% Similarity=0.194 Sum_probs=32.1
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~ra~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 456788889999999997652 2212 578888888898988775
No 325
>PHA03003 palmytilated EEV membrane glycoprotein; Provisional
Probab=22.36 E-value=1.1e+02 Score=24.96 Aligned_cols=40 Identities=13% Similarity=0.059 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHhhCCCC-EEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 66 ASKIGKLLGERLLLKDIP-AVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 66 A~~vG~~la~ra~e~gI~-~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
...+-+.|.+++ +.||+ .+.+|. .+. ....+.|+++|+++
T Consensus 62 g~~i~~aL~~aa-~rGV~Vril~D~-~~~------~~~~~~L~~~Gv~v 102 (369)
T PHA03003 62 GRLILDKLKEAA-ESGVKVTILVDE-QSG------DKDEEELQSSNINY 102 (369)
T ss_pred HHHHHHHHHHhc-cCCCeEEEEecC-CCC------CccHHHHHHcCCEE
Confidence 344445555555 36888 566673 221 55678899999875
No 326
>COG0569 TrkA K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
Probab=22.34 E-value=2.7e+02 Score=20.98 Aligned_cols=23 Identities=13% Similarity=0.170 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEec
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFL 89 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d~ 89 (114)
=.+|..+|+.+.+.|.+-+.+|+
T Consensus 9 G~vG~~va~~L~~~g~~Vv~Id~ 31 (225)
T COG0569 9 GRVGRSVARELSEEGHNVVLIDR 31 (225)
T ss_pred cHHHHHHHHHHHhCCCceEEEEc
Confidence 36899999999999999998884
No 327
>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=22.28 E-value=4.1e+02 Score=22.21 Aligned_cols=52 Identities=15% Similarity=0.127 Sum_probs=36.3
Q ss_pred CCHHHHHHHHHHHHHHHhhCC----CCEEEEecCCCcchhhH--HHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLKD----IPAVSVFLKREQRYHGK--VKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 477889999999999887543 1334433 12234554 6799999999999863
No 328
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=22.25 E-value=2.2e+02 Score=22.76 Aligned_cols=40 Identities=10% Similarity=0.081 Sum_probs=28.9
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCccc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHG---KVKAIIDSLREAGVKL 113 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~~yhG---rv~a~~~~lre~Gl~~ 113 (114)
..++|.+.|.++|-+| -+...|.. ..+.+.+-+...|+.+
T Consensus 89 ~i~~ai~~GftSVMiD-gS~lp~eeNi~~T~~vv~~Ah~~gvsV 131 (284)
T PRK12737 89 DIKKKVRAGIRSVMID-GSHLSFEENIAIVKEVVEFCHRYDASV 131 (284)
T ss_pred HHHHHHHcCCCeEEec-CCCCCHHHHHHHHHHHHHHHHHcCCEE
Confidence 5589999999999888 35555654 4566777777777653
No 329
>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=22.22 E-value=3.6e+02 Score=20.54 Aligned_cols=38 Identities=13% Similarity=-0.101 Sum_probs=30.3
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHc
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREA 109 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~ 109 (114)
-+++++.+.|++.+.+-|..|.-+--.+..++..+++.
T Consensus 143 ~~~~~~~~~G~~~i~l~DT~G~~~P~~v~~lv~~l~~~ 180 (259)
T cd07939 143 EFAEVAQEAGADRLRFADTVGILDPFTTYELIRRLRAA 180 (259)
T ss_pred HHHHHHHHCCCCEEEeCCCCCCCCHHHHHHHHHHHHHh
Confidence 45667788999999887777877777888888888764
No 330
>TIGR00587 nfo apurinic endonuclease (APN1). All proteins in this family for which functions are known are 5' AP endonculeases that are used in base excision repair and the repair of abasic sites in DNA.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.17 E-value=2.7e+02 Score=21.35 Aligned_cols=40 Identities=15% Similarity=0.008 Sum_probs=30.9
Q ss_pred HHHHHhhCCCCEEEEecCCCcc------hhhHHHHHHHHHHHcCcc
Q 033650 73 LGERLLLKDIPAVSVFLKREQR------YHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~~------yhGrv~a~~~~lre~Gl~ 112 (114)
..+++.+.|.+.+.++.+++.. .-+.+.+|.+.+.+.|+.
T Consensus 16 a~~~~~~~G~~~~qif~~~P~~w~~~~~~~~~~~~~~~~~~~~~~~ 61 (274)
T TIGR00587 16 AYNRAAEIGATAFMFFLKSPRWWRRPMLEEEVIDWFKAALETNKNL 61 (274)
T ss_pred HHHHHHHhCCCEEEEEecCccccCCCCCCHHHHHHHHHHHHHcCCC
Confidence 4678899999999999765542 245688888888888875
No 331
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=22.02 E-value=2.3e+02 Score=23.17 Aligned_cols=39 Identities=13% Similarity=0.152 Sum_probs=28.6
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHG---KVKAIIDSLREAGVK 112 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~~yhG---rv~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 45555654 455667777777765
No 332
>cd00175 SNc Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
Probab=22.00 E-value=2.5e+02 Score=18.57 Aligned_cols=66 Identities=14% Similarity=0.180 Sum_probs=45.7
Q ss_pred CCceeeEEEE-CCCCeEEEEecchhHhhhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc-chhhHHHHHHH
Q 033650 27 NKYVSAQVVH-SPTATVASSASSQEKALRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQ-RYHGKVKAIID 104 (114)
Q Consensus 27 nkhi~Aqvi~-~~~~~~l~saST~e~~~k~~l~~~~n~~AA~~vG~~la~ra~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 4566666653 66788888775421 4567888889999887533 2222 68888889999
Q ss_pred HHHHcCcc
Q 033650 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 89887653
No 333
>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=21.95 E-value=3e+02 Score=23.46 Aligned_cols=52 Identities=12% Similarity=0.070 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCE-EE--EecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPA-VS--VFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~e~gI~~-v~--~d~r~~~~yhGrv~a~~~~lre~Gl~~~ 114 (114)
-|.+.+..+|..+|+-+++.+... |+ .|.|... .--..+++.+|..+|++++
T Consensus 37 lt~~~v~~i~~a~~~~l~~~~~~~~VvVg~D~R~~S--~~~~~~~~~gL~s~Gi~V~ 91 (522)
T cd05801 37 FNEAHILAISQAICDYRKSQGITGPLFLGKDTHALS--EPAFISALEVLAANGVEVI 91 (522)
T ss_pred hhHHHHHHHHHHHHHHHHhhCCCCeEEEEeCCCcCC--HHHHHHHHHHHHHCCCEEE
Confidence 478889999999999887655422 43 3433211 1234556699999999863
No 334
>PRK08217 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=21.86 E-value=2.8e+02 Score=19.87 Aligned_cols=22 Identities=18% Similarity=0.208 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033650 67 SKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d 88 (114)
.-+|..+++++.+.|..-+.++
T Consensus 15 g~iG~~~a~~l~~~G~~vi~~~ 36 (253)
T PRK08217 15 QGLGRAMAEYLAQKGAKLALID 36 (253)
T ss_pred chHHHHHHHHHHHCCCEEEEEe
Confidence 4578888888888887544444
No 335
>PRK08085 gluconate 5-dehydrogenase; Provisional
Probab=21.70 E-value=2.6e+02 Score=20.37 Aligned_cols=22 Identities=23% Similarity=0.067 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033650 67 SKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d 88 (114)
.-+|..+++++.+.|.+-+..+
T Consensus 19 ~giG~~ia~~L~~~G~~vvl~~ 40 (254)
T PRK08085 19 QGIGFLLATGLAEYGAEIIIND 40 (254)
T ss_pred ChHHHHHHHHHHHcCCEEEEEc
Confidence 3577788888887776544444
No 336
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=21.54 E-value=2.2e+02 Score=22.71 Aligned_cols=40 Identities=13% Similarity=0.035 Sum_probs=28.0
Q ss_pred HHHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCcc
Q 033650 72 LLGERLLLKDIPAVSVFLKREQRYHG---KVKAIIDSLREAGVK 112 (114)
Q Consensus 72 ~la~ra~e~gI~~v~~d~r~~~~yhG---rv~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 45778899999999888 35555654 445666666777764
No 337
>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=21.53 E-value=1.6e+02 Score=20.43 Aligned_cols=42 Identities=21% Similarity=0.143 Sum_probs=29.4
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 69 vG~~la~ra~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 34456777788889888765 5566777777777777777654
No 338
>PRK09701 D-allose transporter subunit; Provisional
Probab=21.53 E-value=3.3e+02 Score=20.78 Aligned_cols=48 Identities=17% Similarity=0.329 Sum_probs=27.7
Q ss_pred CHHHHHHHHHHHHHHHhhCCC--CEEEEecCCC--c-chhhHHHHHHHHHHHcC-ccc
Q 033650 62 DVAAASKIGKLLGERLLLKDI--PAVSVFLKRE--Q-RYHGKVKAIIDSLREAG-VKL 113 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~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 4445555555554443 43 355433 121 1 23568999999999988 753
No 339
>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=21.40 E-value=2.1e+02 Score=23.47 Aligned_cols=42 Identities=12% Similarity=0.158 Sum_probs=29.5
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRY-HGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~e~gI~~v~~d~r~~~~y-hGrv~a~~~~lre~Gl~~ 113 (114)
.+|.+-|.+.+|+.|+++ +....| .-+-..+.+.+.+.|+.+
T Consensus 86 ~vl~~L~~~~~~~~V~~~-~~~~~~~~~rd~~v~~~l~~~~i~~ 128 (429)
T TIGR02765 86 DVLPELIKELGVRTVFLH-QEVGSEEKSVERLLQQALARLGIHV 128 (429)
T ss_pred HHHHHHHHHhCCCEEEEe-ccCCHHHHHHHHHHHHHHHhcCceE
Confidence 345555667799999887 333333 235889999999999875
No 340
>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=21.25 E-value=3.1e+02 Score=19.45 Aligned_cols=46 Identities=24% Similarity=0.297 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhC--CCCEEEEec-CCCc-chhhHHHHHHHHHHHcC-cc
Q 033650 67 SKIGKLLGERLLLK--DIPAVSVFL-KREQ-RYHGKVKAIIDSLREAG-VK 112 (114)
Q Consensus 67 ~~vG~~la~ra~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 44555666666555 777775431 1121 22358899999999984 54
No 341
>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=21.20 E-value=2.8e+02 Score=20.98 Aligned_cols=46 Identities=15% Similarity=0.185 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhhCCCCEEEEecCCCcch-hhHHHHHHHHHHHcCccc
Q 033650 67 SKIGKLLGERLLLKDIPAVSVFLKREQRY-HGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 67 ~~vG~~la~ra~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 34456666777778888876542 22233 245788999999999875
No 342
>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional
Probab=21.20 E-value=1.7e+02 Score=21.66 Aligned_cols=41 Identities=12% Similarity=0.154 Sum_probs=28.3
Q ss_pred HHHHHhhCCCCEEEEecCCCcchh-hHHHHHHHHHHH-cCccc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYH-GKVKAIIDSLRE-AGVKL 113 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~~yh-Grv~a~~~~lre-~Gl~~ 113 (114)
.++.|.++|.+.+++|-.-..... ..+..+++.+++ .|+.+
T Consensus 80 ~v~~a~~aGad~I~~d~~~~~~p~~~~~~~~i~~~~~~~~i~v 122 (221)
T PRK01130 80 EVDALAAAGADIIALDATLRPRPDGETLAELVKRIKEYPGQLL 122 (221)
T ss_pred HHHHHHHcCCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCCCeE
Confidence 468899999998887731111112 467788888888 77765
No 343
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=21.16 E-value=1e+02 Score=20.90 Aligned_cols=38 Identities=26% Similarity=0.240 Sum_probs=26.4
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lre~Gl~~ 113 (114)
..+++-|++.+|+-+++-+ ..+ -+.-++|.+++.||..
T Consensus 52 ~~l~~~a~~~~idlvvvGP---E~p--L~~Gl~D~l~~~gi~v 89 (100)
T PF02844_consen 52 EELADFAKENKIDLVVVGP---EAP--LVAGLADALRAAGIPV 89 (100)
T ss_dssp HHHHHHHHHTTESEEEESS---HHH--HHTTHHHHHHHTT-CE
T ss_pred HHHHHHHHHcCCCEEEECC---hHH--HHHHHHHHHHHCCCcE
Confidence 4577889999999997553 222 2455788888899864
No 344
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=21.12 E-value=2.5e+02 Score=25.78 Aligned_cols=44 Identities=16% Similarity=0.101 Sum_probs=32.7
Q ss_pred HHHHHHHHHhhCCCCEEEEecCCCcchh-hHHHHHHHHHHHcCcccC
Q 033650 69 IGKLLGERLLLKDIPAVSVFLKREQRYH-GKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 69 vG~~la~ra~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 44566667788999999866 554433 346889999999998875
No 345
>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=21.11 E-value=1.9e+02 Score=20.69 Aligned_cols=37 Identities=11% Similarity=0.107 Sum_probs=25.1
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 71 ~~la~ra~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 467889999999998 3321 345777888884 346653
No 346
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=20.99 E-value=2.7e+02 Score=20.19 Aligned_cols=43 Identities=19% Similarity=0.199 Sum_probs=24.5
Q ss_pred HHHHHHHHHhhC--CCCEEEEecCCCc---chhhHHHHHHHHHHHcC-cc
Q 033650 69 IGKLLGERLLLK--DIPAVSVFLKREQ---RYHGKVKAIIDSLREAG-VK 112 (114)
Q Consensus 69 vG~~la~ra~e~--gI~~v~~d~r~~~---~yhGrv~a~~~~lre~G-l~ 112 (114)
.|+.+++.+.+. |-.++.+- .+.. .-.-|...|.+++.+.| ++
T Consensus 108 ~g~~~~~~l~~~~~~~~~i~~i-~~~~~~~~~~~R~~gf~~~l~~~~~~~ 156 (272)
T cd06301 108 AGRLQAEYVADKLGGKGNVAIL-MGPLGQSAQIDRTKGVEEVLAKYPDIK 156 (272)
T ss_pred HHHHHHHHHHHHhCCCccEEEE-ECCCCCccHHHHHHHHHHHHHHCCCcE
Confidence 344444444444 44455443 1221 12468899999999988 54
No 347
>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=20.72 E-value=1.7e+02 Score=20.17 Aligned_cols=44 Identities=20% Similarity=0.187 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhCCCCEEEEe---------cCCCcchhhHHHHHHHHHHHcCcc
Q 033650 69 IGKLLGERLLLKDIPAVSVF---------LKREQRYHGKVKAIIDSLREAGVK 112 (114)
Q Consensus 69 vG~~la~ra~e~gI~~v~~d---------~r~~~~yhGrv~a~~~~lre~Gl~ 112 (114)
|-..+..+|.+.|.+.|.+- ..|.+....|++.+-+.|.+.||+
T Consensus 40 v~~~~il~Af~~GADGV~V~gC~~g~Ch~~~Gn~~a~~Rv~~~k~~L~~~Gi~ 92 (124)
T PF02662_consen 40 VDPEFILRAFEKGADGVLVAGCHPGDCHYREGNYRAEKRVERLKKLLEELGIE 92 (124)
T ss_pred cCHHHHHHHHHcCCCEEEEeCCCCCCCCcchhhHHHHHHHHHHHHHHHHcCCC
Confidence 44455667777777777551 012233445777777777777764
No 348
>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=20.68 E-value=3.2e+02 Score=19.37 Aligned_cols=51 Identities=14% Similarity=0.124 Sum_probs=36.4
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchh----hHHHHHHHHHHHc-Cccc
Q 033650 61 RDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYH----GKVKAIIDSLREA-GVKL 113 (114)
Q Consensus 61 ~n~~AA~~vG~~la~ra~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 45566777888899999999999985 42 222222 3578888888887 7654
No 349
>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=20.63 E-value=1.9e+02 Score=23.86 Aligned_cols=48 Identities=25% Similarity=0.334 Sum_probs=28.8
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCC------CcchhhHHHHHHHHHHHcCccc
Q 033650 62 DVAAASKIGKLLGERLLLKDIPAVSVFLKR------EQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~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 4445554444444 4899999886311 2247789999999999999975
No 350
>PRK12743 oxidoreductase; Provisional
Probab=20.60 E-value=3.2e+02 Score=20.00 Aligned_cols=22 Identities=23% Similarity=0.131 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033650 67 SKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d 88 (114)
.-+|..+++++.+.|.+-+.++
T Consensus 12 ~giG~~~a~~l~~~G~~V~~~~ 33 (256)
T PRK12743 12 SGIGKACALLLAQQGFDIGITW 33 (256)
T ss_pred chHHHHHHHHHHHCCCEEEEEe
Confidence 4577888888888887554444
No 351
>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=20.58 E-value=2.3e+02 Score=21.66 Aligned_cols=33 Identities=15% Similarity=0.055 Sum_probs=13.7
Q ss_pred HHHhhCCCCEEEEecCCCcchhhHHHHHHHHHH
Q 033650 75 ERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLR 107 (114)
Q Consensus 75 ~ra~e~gI~~v~~d~r~~~~yhGrv~a~~~~lr 107 (114)
+++.+.|++.+.+-|..|..+--.+..+.+.++
T Consensus 148 ~~~~~~G~d~i~l~DT~G~~~P~~v~~lv~~l~ 180 (263)
T cd07943 148 KLMESYGADCVYVTDSAGAMLPDDVRERVRALR 180 (263)
T ss_pred HHHHHcCCCEEEEcCCCCCcCHHHHHHHHHHHH
Confidence 334444444444433334333334444444443
No 352
>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=20.58 E-value=2.9e+02 Score=20.80 Aligned_cols=40 Identities=13% Similarity=0.140 Sum_probs=26.6
Q ss_pred HHHHhhCCCCEEEEecCCCc------c-hhhHHHHHHHHHHHcCccc
Q 033650 74 GERLLLKDIPAVSVFLKREQ------R-YHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 74 a~ra~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 34566788888877632211 1 2346888899999999975
No 353
>PRK14319 glmM phosphoglucosamine mutase; Provisional
Probab=20.52 E-value=3.1e+02 Score=22.61 Aligned_cols=56 Identities=21% Similarity=0.296 Sum_probs=35.7
Q ss_pred hhhccCCCCCHHHHHHHHHHHHHHHhhCCCCEEEEecCCCcchhh--HHHHHHHHHHHcCcccC
Q 033650 53 LRSTIGCTRDVAAASKIGKLLGERLLLKDIPAVSVFLKREQRYHG--KVKAIIDSLREAGVKLL 114 (114)
Q Consensus 53 ~k~~l~~~~n~~AA~~vG~~la~ra~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-KKI-FIAKDT----RASGDMLEAALVAGITSAGADVY 66 (430)
T ss_pred cceecCCCcCHHHHHHHHHHHHhccC-CcE-EEEeCC----CCChHHHHHHHHHHHHHCCCeEE
Confidence 34433444578899999998888764 221 122342 2233 35789999999999863
No 354
>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=20.43 E-value=2.4e+02 Score=21.30 Aligned_cols=39 Identities=13% Similarity=0.170 Sum_probs=23.5
Q ss_pred HHHHhhCCCCEEEEecCCCcch------hhHHHHHHHHHHHc-Ccc
Q 033650 74 GERLLLKDIPAVSVFLKREQRY------HGKVKAIIDSLREA-GVK 112 (114)
Q Consensus 74 a~ra~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 3566777877776554332222 25677777777777 554
No 355
>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=20.42 E-value=2.3e+02 Score=23.85 Aligned_cols=42 Identities=21% Similarity=0.241 Sum_probs=30.7
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchh-hHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYH-GKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~e~gI~~v~~d~r~~~~yh-Grv~a~~~~lre~Gl~~ 113 (114)
.+|.+-+.+.||+.|+++ +....|. -+-.++.+.+.+.|+.+
T Consensus 80 ~vl~~l~~~~~~~~V~~~-~~~~~~~~~rd~~v~~~l~~~~i~~ 122 (471)
T TIGR03556 80 QLIPQLAQQLGAKAVYWN-LDVEPYGRKRDRAVAAALKEAGIAV 122 (471)
T ss_pred HHHHHHHHHcCCCEEEEe-cccCHHHHHHHHHHHHHHHHCCCEE
Confidence 356666677899999877 3333343 57888999999999875
No 356
>PRK08868 flagellar protein FlaG; Provisional
Probab=20.35 E-value=95 Score=22.66 Aligned_cols=29 Identities=3% Similarity=0.050 Sum_probs=24.2
Q ss_pred CCCCcEEEEEEeCCceeeEEEECCCCeEE
Q 033650 15 PSEPYVLKMHLTNKYVSAQVVHSPTATVA 43 (114)
Q Consensus 15 ~~~~~rL~V~~Snkhi~Aqvi~~~~~~~l 43 (114)
..+..+..|.....-++++|+|..+|.+|
T Consensus 87 ~n~~L~F~vdeetgr~VVkViD~~T~EVI 115 (144)
T PRK08868 87 INKGLSFRVDEESGRDVVTIYEASTGDII 115 (144)
T ss_pred hcCceEEEEecCCCCEEEEEEECCCCcee
Confidence 34567778888888999999999999987
No 357
>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=20.27 E-value=3.2e+02 Score=19.68 Aligned_cols=22 Identities=27% Similarity=0.267 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033650 67 SKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 67 ~~vG~~la~ra~e~gI~~v~~d 88 (114)
--+|..+++.+.+.|.+-+.++
T Consensus 10 g~iG~~la~~l~~~G~~v~~~~ 31 (254)
T TIGR02415 10 QGIGKGIAERLAKDGFAVAVAD 31 (254)
T ss_pred chHHHHHHHHHHHCCCEEEEEe
Confidence 4578888888888887654444
No 358
>PRK07791 short chain dehydrogenase; Provisional
Probab=20.27 E-value=2.8e+02 Score=21.08 Aligned_cols=22 Identities=14% Similarity=0.027 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHhhCCCCEEEEe
Q 033650 67 SKIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 67 ~~vG~~la~ra~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 4578888888888887665555
No 359
>PLN02229 alpha-galactosidase
Probab=20.26 E-value=3.1e+02 Score=23.43 Aligned_cols=53 Identities=15% Similarity=0.157 Sum_probs=37.9
Q ss_pred CCHHHHHHHHH-HHHHHHhhCCCCEEEEecC------C--C------cchhhHHHHHHHHHHHcCccc
Q 033650 61 RDVAAASKIGK-LLGERLLLKDIPAVSVFLK------R--E------QRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 61 ~n~~AA~~vG~-~la~ra~e~gI~~v~~d~r------~--~------~~yhGrv~a~~~~lre~Gl~~ 113 (114)
-|-+....... +.+.-++++|.+-+++||- . | .++-.-+++++|-+.+.||+|
T Consensus 77 i~E~~i~~~ad~~v~~Gl~~~Gy~yv~iDDgW~~~~rd~~G~l~~d~~rFP~G~k~ladyiH~~GlKf 144 (427)
T PLN02229 77 INETVIKETADALVSTGLADLGYIHVNIDDCWSNLKRDSKGQLVPDPKTFPSGIKLLADYVHSKGLKL 144 (427)
T ss_pred cCHHHHHHHHHHHHHhHHHhCCCEEEEEcCCcCCCCcCCCCCEEEChhhcCCcHHHHHHHHHHCCCce
Confidence 35555556666 4567788999999999971 0 1 123334999999999999987
No 360
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=20.12 E-value=2.8e+02 Score=22.54 Aligned_cols=40 Identities=13% Similarity=0.217 Sum_probs=28.5
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhh---HHHHHHHHHHHcCccc
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHG---KVKAIIDSLREAGVKL 113 (114)
Q Consensus 73 la~ra~e~gI~~v~~d~r~~~~yhG---rv~a~~~~lre~Gl~~ 113 (114)
..++|.++|.++|-|| -+...|.. +-+.+++-+...|+.+
T Consensus 89 ~i~~ai~~GftSVM~D-gS~l~~eeNi~~T~~vve~Ah~~gv~V 131 (307)
T PRK05835 89 SCEKAVKAGFTSVMID-ASHHAFEENLELTSKVVKMAHNAGVSV 131 (307)
T ss_pred HHHHHHHcCCCEEEEe-CCCCCHHHHHHHHHHHHHHHHHcCCEE
Confidence 3567999999999888 35555654 4566777777777653
No 361
>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=20.10 E-value=2.8e+02 Score=21.25 Aligned_cols=42 Identities=14% Similarity=0.131 Sum_probs=27.5
Q ss_pred HHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCccc
Q 033650 71 KLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKL 113 (114)
Q Consensus 71 ~~la~ra~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 5667788888887765332 22223456777788888888765
No 362
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=20.05 E-value=3.6e+02 Score=19.67 Aligned_cols=49 Identities=22% Similarity=0.152 Sum_probs=28.3
Q ss_pred CHHHHHHHHHHHHHHHhhCCCCEEEEecCCCc--ch-hhHHHHHHHHHHHcCcc
Q 033650 62 DVAAASKIGKLLGERLLLKDIPAVSVFLKREQ--RY-HGKVKAIIDSLREAGVK 112 (114)
Q Consensus 62 n~~AA~~vG~~la~ra~e~gI~~v~~d~r~~~--~y-hGrv~a~~~~lre~Gl~ 112 (114)
|.++++..++.|+++. ..|..++.+- -+.. .. ..|.+.|.+++.+.|+.
T Consensus 106 ~~~~g~~~~~~l~~~~-g~~~~~i~~i-~~~~~~~~~~~R~~gf~~a~~~~~~~ 157 (275)
T cd06307 106 NRAAGRTAAWLIGRFL-GRRPGKVAVL-AGSHRFRGHEEREMGFRSVLREEFPG 157 (275)
T ss_pred hHHHHHHHHHHHHHHh-CCCCCeEEEE-ecCCCCcchHHHHHHHHHHHHhhCCC
Confidence 4555565566565542 1123455444 1322 22 46899999999998864
No 363
>COG3185 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]
Probab=20.04 E-value=1.2e+02 Score=25.39 Aligned_cols=39 Identities=33% Similarity=0.485 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHHcCcccC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLREAGVKLL 114 (114)
Q Consensus 68 ~vG~~la~ra~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 55666654 356789988766 2348888999999999885
No 364
>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=20.01 E-value=2e+02 Score=19.55 Aligned_cols=36 Identities=14% Similarity=0.063 Sum_probs=14.7
Q ss_pred HHHHHhhCCCCEEEEecCCCcchhhHHHHHHHHHHH
Q 033650 73 LGERLLLKDIPAVSVFLKREQRYHGKVKAIIDSLRE 108 (114)
Q Consensus 73 la~ra~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 445555555555543332333334455555555544
No 365
>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=20.01 E-value=2.2e+02 Score=20.00 Aligned_cols=23 Identities=9% Similarity=0.118 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEecCC
Q 033650 68 KIGKLLGERLLLKDIPAVSVFLKR 91 (114)
Q Consensus 68 ~vG~~la~ra~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 478999999999999877777 44
No 366
>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=20.01 E-value=2.7e+02 Score=18.21 Aligned_cols=21 Identities=14% Similarity=0.186 Sum_probs=13.9
Q ss_pred HHHHHHHHHHhhCCCCEEEEe
Q 033650 68 KIGKLLGERLLLKDIPAVSVF 88 (114)
Q Consensus 68 ~vG~~la~ra~e~gI~~v~~d 88 (114)
-+|..+++.+.+.|...+++.
T Consensus 11 ~iG~~~~~~l~~~g~~~v~~~ 31 (180)
T smart00822 11 GLGLELARWLAERGARHLVLL 31 (180)
T ss_pred hHHHHHHHHHHHhhCCeEEEE
Confidence 477777777777776655443
Done!