Query 046601
Match_columns 233
No_of_seqs 188 out of 1204
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 02:30:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046601.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046601hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10200 putative racemase; Pr 100.0 2.1E-41 4.7E-46 296.4 14.2 172 42-233 26-220 (230)
2 TIGR00035 asp_race aspartate r 100.0 1.5E-39 3.3E-44 283.5 13.7 174 43-233 27-218 (229)
3 COG1794 RacX Aspartate racemas 100.0 3.7E-38 8.1E-43 273.2 11.5 173 43-232 27-218 (230)
4 TIGR00067 glut_race glutamate 100.0 1.8E-33 3.9E-38 249.4 12.3 151 83-233 38-207 (251)
5 COG0796 MurI Glutamate racemas 100.0 5.2E-30 1.1E-34 228.6 10.7 149 82-231 44-210 (269)
6 PRK00865 glutamate racemase; P 100.0 1.5E-29 3.3E-34 225.0 11.3 150 83-232 45-211 (261)
7 PRK07475 hypothetical protein; 99.9 3.8E-22 8.2E-27 176.4 9.1 135 93-231 66-227 (245)
8 PF01177 Asp_Glu_race: Asp/Glu 99.8 2.2E-20 4.7E-25 158.9 7.1 141 90-232 50-210 (216)
9 COG4126 Hydantoin racemase [Am 98.5 2.1E-07 4.5E-12 81.4 5.2 131 97-231 64-205 (230)
10 PRK10481 hypothetical protein; 97.8 2.4E-05 5.2E-10 68.9 5.1 153 69-231 54-214 (224)
11 TIGR02990 ectoine_eutA ectoine 96.6 0.0019 4.2E-08 57.3 3.5 126 97-232 66-215 (239)
12 COG3473 Maleate cis-trans isom 95.3 0.036 7.8E-07 48.7 5.5 130 97-231 62-212 (238)
13 PF07302 AroM: AroM protein; 94.8 0.13 2.7E-06 45.5 7.7 120 82-215 64-192 (221)
14 TIGR00035 asp_race aspartate r 93.3 0.16 3.4E-06 44.3 5.2 89 141-229 2-104 (229)
15 PRK10200 putative racemase; Pr 91.7 0.41 8.8E-06 42.0 5.7 88 141-228 2-103 (230)
16 PF06506 PrpR_N: Propionate ca 89.9 1.1 2.3E-05 37.5 6.4 101 93-209 25-133 (176)
17 COG0462 PrsA Phosphoribosylpyr 87.6 0.87 1.9E-05 42.3 4.6 133 78-215 96-255 (314)
18 COG1794 RacX Aspartate racemas 87.2 0.65 1.4E-05 41.2 3.5 88 141-228 2-103 (230)
19 TIGR00222 panB 3-methyl-2-oxob 85.4 1.5 3.2E-05 39.7 4.9 32 97-129 168-201 (263)
20 COG2048 HdrB Heterodisulfide r 84.4 1.2 2.6E-05 40.9 3.9 33 97-129 217-259 (293)
21 COG4126 Hydantoin racemase [Am 84.2 1.8 3.8E-05 38.5 4.6 33 97-129 169-203 (230)
22 PLN02424 ketopantoate hydroxym 83.6 2 4.2E-05 40.2 5.0 41 88-129 179-223 (332)
23 PRK15424 propionate catabolism 82.0 9.5 0.00021 37.9 9.4 104 89-208 51-162 (538)
24 cd06557 KPHMT-like Ketopantoat 81.9 2.6 5.6E-05 37.9 4.9 32 97-129 166-199 (254)
25 TIGR01917 gly_red_sel_B glycin 81.2 3.7 8E-05 39.6 5.9 48 90-137 324-378 (431)
26 PRK00311 panB 3-methyl-2-oxobu 81.1 2.8 6.1E-05 37.9 4.9 32 97-129 169-202 (264)
27 TIGR02329 propionate_PrpR prop 79.5 14 0.0003 36.6 9.6 99 93-208 45-152 (526)
28 TIGR01918 various_sel_PB selen 73.3 8 0.00017 37.4 5.8 52 86-137 320-378 (431)
29 PRK10481 hypothetical protein; 72.5 4.8 0.0001 35.6 3.9 34 184-217 73-107 (224)
30 cd06333 PBP1_ABC-type_HAAT_lik 72.1 17 0.00037 31.9 7.4 54 97-150 61-143 (312)
31 PF00532 Peripla_BP_1: Peripla 70.7 9.6 0.00021 33.8 5.4 70 93-162 47-146 (279)
32 PF13344 Hydrolase_6: Haloacid 69.5 9.3 0.0002 29.0 4.4 60 93-152 21-92 (101)
33 PF09587 PGA_cap: Bacterial ca 69.3 16 0.00034 32.0 6.4 117 93-212 66-227 (250)
34 PF01177 Asp_Glu_race: Asp/Glu 68.9 9 0.0002 32.1 4.6 33 97-129 169-207 (216)
35 PTZ00145 phosphoribosylpyropho 67.5 13 0.00028 36.2 5.8 132 79-215 212-376 (439)
36 COG1911 RPL30 Ribosomal protei 67.2 14 0.0003 28.8 4.8 55 93-147 26-88 (100)
37 cd06360 PBP1_alkylbenzenes_lik 63.7 33 0.00071 30.2 7.5 33 97-129 60-95 (336)
38 TIGR02990 ectoine_eutA ectoine 61.7 8.8 0.00019 34.0 3.3 47 82-129 162-212 (239)
39 smart00854 PGA_cap Bacterial c 61.4 27 0.00058 30.3 6.3 118 93-213 64-217 (239)
40 cd06337 PBP1_ABC_ligand_bindin 61.3 42 0.00092 30.4 7.9 42 88-129 55-99 (357)
41 PF02548 Pantoate_transf: Keto 60.6 16 0.00034 33.2 4.8 44 85-129 156-203 (261)
42 PRK07475 hypothetical protein; 59.3 25 0.00053 31.1 5.8 40 97-136 189-233 (245)
43 PF07302 AroM: AroM protein; 59.0 14 0.0003 32.7 4.1 31 185-215 71-102 (221)
44 cd04509 PBP1_ABC_transporter_G 58.9 49 0.0011 27.7 7.4 42 88-129 53-97 (299)
45 PF13458 Peripla_BP_6: Peripla 58.5 28 0.00061 30.6 6.1 12 138-149 133-144 (343)
46 cd06367 PBP1_iGluR_NMDA N-term 58.1 45 0.00097 30.1 7.4 44 86-129 47-96 (362)
47 cd06345 PBP1_ABC_ligand_bindin 57.4 35 0.00075 30.5 6.5 23 189-211 187-209 (344)
48 PRK02269 ribose-phosphate pyro 56.4 28 0.00061 32.1 5.8 130 79-213 98-256 (320)
49 cd06556 ICL_KPHMT Members of t 56.3 21 0.00046 31.7 4.8 32 97-129 164-197 (240)
50 PRK02458 ribose-phosphate pyro 56.0 24 0.00051 32.7 5.3 130 79-213 102-257 (323)
51 PRK01259 ribose-phosphate pyro 55.3 29 0.00062 31.9 5.7 130 79-213 93-247 (309)
52 PF02776 TPP_enzyme_N: Thiamin 54.6 25 0.00055 28.8 4.8 39 91-129 4-45 (172)
53 PRK00865 glutamate racemase; P 54.4 27 0.00059 31.0 5.2 43 93-135 168-216 (261)
54 PF05621 TniB: Bacterial TniB 53.2 1.5E+02 0.0033 27.4 10.0 150 45-205 90-277 (302)
55 cd06326 PBP1_STKc_like Type I 53.1 72 0.0016 28.0 7.8 33 96-128 61-97 (336)
56 cd06342 PBP1_ABC_LIVBP_like Ty 52.6 1.2E+02 0.0026 26.5 9.1 41 88-129 53-96 (334)
57 PRK00553 ribose-phosphate pyro 52.4 23 0.00051 32.9 4.6 131 78-213 101-257 (332)
58 PRK02812 ribose-phosphate pyro 51.6 25 0.00054 32.7 4.7 130 78-212 113-268 (330)
59 TIGR03288 CoB_CoM_SS_B CoB--Co 51.1 27 0.00059 31.2 4.8 42 92-133 212-264 (290)
60 cd06356 PBP1_Amide_Urea_BP_lik 49.2 1.4E+02 0.003 26.7 9.1 43 86-128 51-96 (334)
61 cd06340 PBP1_ABC_ligand_bindin 49.1 1.4E+02 0.0031 26.7 9.2 25 189-213 187-211 (347)
62 cd01575 PBP1_GntR Ligand-bindi 48.8 63 0.0014 27.1 6.4 70 93-162 46-143 (268)
63 cd06341 PBP1_ABC_ligand_bindin 48.7 84 0.0018 27.8 7.5 40 90-129 55-96 (341)
64 cd07381 MPP_CapA CapA and rela 48.5 52 0.0011 28.3 6.0 118 93-213 68-219 (239)
65 cd06338 PBP1_ABC_ligand_bindin 48.1 2E+02 0.0043 25.4 10.6 23 189-211 184-206 (345)
66 COG0821 gcpE 1-hydroxy-2-methy 47.5 36 0.00079 32.1 5.0 32 97-128 44-79 (361)
67 PLN02369 ribose-phosphate pyro 46.8 44 0.00095 30.6 5.4 131 79-214 84-242 (302)
68 PRK06259 succinate dehydrogena 46.7 37 0.00081 32.7 5.2 45 88-132 316-363 (486)
69 PF13911 AhpC-TSA_2: AhpC/TSA 46.7 33 0.00071 26.0 4.0 32 95-127 6-41 (115)
70 PRK05583 ribosomal protein L7A 46.5 64 0.0014 24.9 5.6 42 94-135 25-71 (104)
71 cd06331 PBP1_AmiC_like Type I 46.3 1.1E+02 0.0024 27.1 7.9 32 97-128 62-96 (333)
72 TIGR00612 ispG_gcpE 1-hydroxy- 45.5 45 0.00098 31.4 5.3 32 97-128 42-77 (346)
73 PRK03092 ribose-phosphate pyro 45.3 52 0.0011 30.2 5.7 123 87-213 90-240 (304)
74 COG3010 NanE Putative N-acetyl 45.2 23 0.00049 31.4 3.1 44 83-129 27-72 (229)
75 PRK13602 putative ribosomal pr 44.9 46 0.001 24.5 4.4 43 93-135 18-65 (82)
76 cd06355 PBP1_FmdD_like Peripla 44.5 1.8E+02 0.004 26.1 9.2 29 86-114 51-79 (348)
77 cd06273 PBP1_GntR_like_1 This 44.2 1.5E+02 0.0033 24.8 8.1 55 94-148 47-124 (268)
78 PRK00366 ispG 4-hydroxy-3-meth 43.8 49 0.0011 31.4 5.3 32 97-128 50-85 (360)
79 cd06277 PBP1_LacI_like_1 Ligan 43.6 64 0.0014 27.3 5.7 58 93-150 49-128 (268)
80 PRK11303 DNA-binding transcrip 42.7 1.2E+02 0.0027 26.5 7.6 70 93-162 108-206 (328)
81 cd06298 PBP1_CcpA_like Ligand- 42.4 81 0.0018 26.4 6.2 54 96-149 49-125 (268)
82 cd06336 PBP1_ABC_ligand_bindin 42.3 1.9E+02 0.0041 25.9 8.9 23 189-211 181-203 (347)
83 TIGR00067 glut_race glutamate 41.8 36 0.00078 30.2 4.0 27 184-210 43-70 (251)
84 cd06330 PBP1_Arsenic_SBP_like 41.7 2E+02 0.0044 25.4 8.9 42 88-129 53-97 (346)
85 TIGR00735 hisF imidazoleglycer 41.5 50 0.0011 29.0 4.9 112 93-207 34-174 (254)
86 TIGR01464 hemE uroporphyrinoge 41.5 2.7E+02 0.0059 25.3 10.3 32 181-213 290-321 (338)
87 TIGR01037 pyrD_sub1_fam dihydr 41.2 79 0.0017 28.3 6.2 20 94-114 174-193 (300)
88 cd06312 PBP1_ABC_sugar_binding 40.9 2.2E+02 0.0048 24.0 11.2 56 93-148 48-133 (271)
89 cd06379 PBP1_iGluR_NMDA_NR1 N- 40.5 2.8E+02 0.0061 25.2 9.8 33 76-108 54-86 (377)
90 cd06279 PBP1_LacI_like_3 Ligan 40.2 1.2E+02 0.0027 26.0 7.1 56 94-149 48-125 (283)
91 COG0106 HisA Phosphoribosylfor 40.1 1E+02 0.0023 27.6 6.6 114 94-213 36-170 (241)
92 cd06289 PBP1_MalI_like Ligand- 40.0 1.5E+02 0.0032 24.7 7.4 57 93-149 46-126 (268)
93 PRK01018 50S ribosomal protein 39.9 98 0.0021 23.5 5.6 43 94-136 24-72 (99)
94 PRK13587 1-(5-phosphoribosyl)- 39.6 91 0.002 27.3 6.2 113 94-213 36-171 (234)
95 TIGR01499 folC folylpolyglutam 39.5 39 0.00085 31.5 4.0 85 123-210 17-119 (397)
96 cd06285 PBP1_LacI_like_7 Ligan 39.4 82 0.0018 26.5 5.7 57 93-149 46-123 (265)
97 cd01391 Periplasmic_Binding_Pr 39.4 2E+02 0.0043 23.1 9.1 16 135-150 119-134 (269)
98 cd01537 PBP1_Repressors_Sugar_ 38.8 2.2E+02 0.0047 23.3 10.1 69 94-162 47-145 (264)
99 TIGR02417 fruct_sucro_rep D-fr 38.7 1.5E+02 0.0032 26.0 7.5 69 94-162 108-205 (327)
100 PTZ00106 60S ribosomal protein 38.6 86 0.0019 24.4 5.2 42 94-135 33-80 (108)
101 TIGR03407 urea_ABC_UrtA urea A 38.6 3E+02 0.0065 24.9 10.9 30 86-115 52-81 (359)
102 cd06380 PBP1_iGluR_AMPA N-term 38.4 2E+02 0.0044 26.0 8.5 40 89-129 50-92 (382)
103 cd06350 PBP1_GPCR_family_C_lik 38.1 2.7E+02 0.0058 24.5 9.1 24 188-211 204-227 (348)
104 TIGR03669 urea_ABC_arch urea A 37.6 2.3E+02 0.0049 26.2 8.8 42 86-127 52-96 (374)
105 cd06335 PBP1_ABC_ligand_bindin 37.6 99 0.0022 27.7 6.3 23 189-211 181-203 (347)
106 cd06368 PBP1_iGluR_non_NMDA_li 37.6 2.6E+02 0.0056 24.4 8.8 23 189-211 168-190 (324)
107 COG0413 PanB Ketopantoate hydr 37.6 65 0.0014 29.4 4.9 52 76-129 147-202 (268)
108 KOG1448 Ribose-phosphate pyrop 37.3 57 0.0012 30.4 4.5 132 77-213 94-253 (316)
109 PRK06683 hypothetical protein; 36.5 83 0.0018 23.3 4.6 44 93-136 18-66 (82)
110 PF13714 PEP_mutase: Phosphoen 36.5 92 0.002 27.6 5.7 70 74-144 138-217 (238)
111 cd06346 PBP1_ABC_ligand_bindin 36.3 2.2E+02 0.0049 24.9 8.3 44 86-129 51-98 (312)
112 cd06348 PBP1_ABC_ligand_bindin 35.8 2.2E+02 0.0048 25.2 8.2 23 189-211 180-202 (344)
113 cd06339 PBP1_YraM_LppC_lipopro 35.6 2E+02 0.0044 25.8 7.9 17 134-150 118-134 (336)
114 cd06327 PBP1_SBP_like_1 Peripl 35.0 3.1E+02 0.0068 24.2 9.0 23 189-211 178-200 (334)
115 cd06278 PBP1_LacI_like_2 Ligan 34.9 1.2E+02 0.0027 25.2 6.1 56 94-149 46-124 (266)
116 PRK00115 hemE uroporphyrinogen 34.0 3.7E+02 0.0081 24.6 10.8 27 85-111 50-76 (346)
117 cd07035 TPP_PYR_POX_like Pyrim 34.0 68 0.0015 25.4 4.2 37 93-129 2-40 (155)
118 PRK05473 hypothetical protein; 33.5 72 0.0016 24.2 3.8 42 61-102 42-85 (86)
119 cd06366 PBP1_GABAb_receptor Li 32.7 3.5E+02 0.0077 23.9 9.5 44 86-129 50-96 (350)
120 cd07394 MPP_Vps29 Homo sapiens 32.4 49 0.0011 27.6 3.2 29 199-230 104-132 (178)
121 COG0683 LivK ABC-type branched 32.2 2.5E+02 0.0054 25.7 8.1 46 84-129 60-108 (366)
122 cd06271 PBP1_AglR_RafR_like Li 32.0 1.3E+02 0.0028 25.1 5.7 55 95-149 52-129 (268)
123 COG1609 PurR Transcriptional r 31.8 1.7E+02 0.0036 26.8 6.8 57 93-149 105-184 (333)
124 cd06320 PBP1_allose_binding Pe 31.1 2.9E+02 0.0062 23.3 7.8 56 93-148 48-130 (275)
125 cd01545 PBP1_SalR Ligand-bindi 31.1 2.9E+02 0.0063 23.0 7.8 56 92-147 46-125 (270)
126 cd07039 TPP_PYR_POX Pyrimidine 30.5 1.3E+02 0.0029 24.6 5.4 39 91-129 3-44 (164)
127 KOG2949 Ketopantoate hydroxyme 30.3 92 0.002 28.2 4.6 80 47-129 130-226 (306)
128 TIGR01481 ccpA catabolite cont 30.2 1.4E+02 0.0031 26.2 5.9 54 95-148 108-184 (329)
129 TIGR01251 ribP_PPkin ribose-ph 30.1 1.4E+02 0.003 27.3 5.9 118 89-211 104-247 (308)
130 cd06357 PBP1_AmiC Periplasmic 29.9 3.4E+02 0.0074 24.5 8.5 24 189-212 177-200 (360)
131 cd06294 PBP1_ycjW_transcriptio 29.6 2.1E+02 0.0045 23.9 6.6 57 93-149 51-131 (270)
132 cd06286 PBP1_CcpB_like Ligand- 29.5 1.6E+02 0.0035 24.5 6.0 57 93-149 46-123 (260)
133 cd06334 PBP1_ABC_ligand_bindin 29.0 2.2E+02 0.0047 25.9 7.1 21 190-210 184-204 (351)
134 PRK13601 putative L7Ae-like ri 28.9 1.1E+02 0.0023 22.8 4.1 43 93-135 15-62 (82)
135 COG4472 Uncharacterized protei 28.5 90 0.002 23.6 3.6 45 60-104 41-87 (88)
136 cd00717 URO-D Uroporphyrinogen 28.4 4.5E+02 0.0097 23.8 10.7 26 84-109 40-65 (335)
137 cd06321 PBP1_ABC_sugar_binding 28.0 3.1E+02 0.0067 23.0 7.5 57 93-149 48-130 (271)
138 TIGR01457 HAD-SF-IIA-hyp2 HAD- 27.7 2.1E+02 0.0046 24.9 6.5 59 93-151 24-94 (249)
139 TIGR03884 sel_bind_Methan sele 27.6 86 0.0019 23.2 3.3 23 86-108 26-48 (74)
140 PRK10444 UMP phosphatase; Prov 27.1 1.6E+02 0.0036 25.8 5.7 58 95-152 26-94 (248)
141 PF04412 DUF521: Protein of un 26.9 64 0.0014 31.0 3.3 28 187-214 272-302 (400)
142 COG0796 MurI Glutamate racemas 26.6 87 0.0019 28.6 3.9 30 184-213 50-79 (269)
143 PRK07714 hypothetical protein; 26.5 2E+02 0.0043 21.7 5.4 43 93-135 25-72 (100)
144 PRK02083 imidazole glycerol ph 26.5 1.2E+02 0.0025 26.6 4.6 112 93-207 34-172 (253)
145 PRK14987 gluconate operon tran 26.3 1.8E+02 0.0039 25.6 5.9 56 94-149 111-189 (331)
146 cd04731 HisF The cyclase subun 26.2 2.2E+02 0.0047 24.6 6.3 69 93-162 31-115 (243)
147 COG4408 Uncharacterized protei 26.0 86 0.0019 29.9 3.8 28 135-162 23-50 (431)
148 cd06281 PBP1_LacI_like_5 Ligan 25.8 2E+02 0.0044 24.2 5.9 56 94-149 47-125 (269)
149 PRK12474 hypothetical protein; 25.7 1.1E+02 0.0023 29.8 4.6 73 90-162 7-93 (518)
150 cd01542 PBP1_TreR_like Ligand- 25.6 1.9E+02 0.0041 24.0 5.7 55 94-148 47-122 (259)
151 cd06329 PBP1_SBP_like_3 Peripl 25.6 3.9E+02 0.0085 23.7 8.0 11 140-150 143-153 (342)
152 PRK07710 acetolactate synthase 25.4 1.2E+02 0.0026 29.8 5.0 41 89-129 17-59 (571)
153 cd06280 PBP1_LacI_like_4 Ligan 25.3 4E+02 0.0087 22.2 7.7 56 93-149 46-124 (263)
154 COG0541 Ffh Signal recognition 25.2 1.5E+02 0.0033 29.0 5.4 62 89-151 115-193 (451)
155 cd03412 CbiK_N Anaerobic cobal 25.1 2.8E+02 0.0061 21.8 6.2 61 88-148 16-78 (127)
156 cd06270 PBP1_GalS_like Ligand 25.1 2.5E+02 0.0054 23.6 6.3 57 93-149 46-125 (268)
157 PRK10624 L-1,2-propanediol oxi 24.8 1.5E+02 0.0032 27.7 5.3 65 135-206 25-92 (382)
158 cd00717 URO-D Uroporphyrinogen 24.8 2.6E+02 0.0056 25.3 6.8 45 102-147 230-278 (335)
159 PRK07534 methionine synthase I 24.8 2.2E+02 0.0048 26.5 6.3 32 86-120 43-74 (336)
160 cd06267 PBP1_LacI_sugar_bindin 24.8 2.5E+02 0.0055 22.9 6.2 56 95-150 48-126 (264)
161 PRK07283 hypothetical protein; 24.3 2E+02 0.0044 21.7 5.0 43 93-135 25-72 (98)
162 TIGR03845 sulfopyru_alph sulfo 24.3 2E+02 0.0043 23.6 5.4 35 93-127 3-38 (157)
163 PF02574 S-methyl_trans: Homoc 24.1 3.7E+02 0.0079 24.1 7.5 33 86-121 39-71 (305)
164 PRK13384 delta-aminolevulinic 23.5 5.2E+02 0.011 24.3 8.4 100 83-206 138-247 (322)
165 PRK07107 inosine 5-monophospha 23.4 86 0.0019 30.9 3.5 69 45-116 191-266 (502)
166 cd01543 PBP1_XylR Ligand-bindi 23.1 2.7E+02 0.0058 23.5 6.2 19 133-151 102-120 (265)
167 PRK08155 acetolactate synthase 23.0 1.3E+02 0.0027 29.6 4.6 74 89-162 14-101 (564)
168 PRK00856 pyrB aspartate carbam 22.9 78 0.0017 29.1 2.9 71 86-157 85-176 (305)
169 PRK10014 DNA-binding transcrip 22.6 3.3E+02 0.0072 23.9 6.9 70 93-162 111-209 (342)
170 cd06274 PBP1_FruR Ligand bindi 22.6 2.9E+02 0.0064 23.1 6.3 57 93-149 46-125 (264)
171 PRK11320 prpB 2-methylisocitra 22.1 2.8E+02 0.0061 25.4 6.4 68 76-144 153-232 (292)
172 TIGR01464 hemE uroporphyrinoge 22.0 6E+02 0.013 23.0 10.8 26 85-110 44-69 (338)
173 cd06343 PBP1_ABC_ligand_bindin 22.0 4.5E+02 0.0097 23.4 7.7 22 190-211 188-209 (362)
174 PF02754 CCG: Cysteine-rich do 22.0 1.7E+02 0.0036 20.0 3.9 31 180-210 48-78 (85)
175 cd01025 TOPRIM_recR TOPRIM_rec 21.9 1.2E+02 0.0026 24.0 3.4 34 88-121 42-82 (112)
176 PRK06457 pyruvate dehydrogenas 21.9 1.7E+02 0.0037 28.7 5.2 39 91-129 5-45 (549)
177 TIGR02317 prpB methylisocitrat 21.8 2.3E+02 0.005 25.8 5.8 68 76-144 148-227 (285)
178 cd07364 PCA_45_Dioxygenase_B S 21.8 1.4E+02 0.0031 26.9 4.3 33 186-218 33-66 (277)
179 COG0552 FtsY Signal recognitio 21.8 2.2E+02 0.0047 27.0 5.6 66 89-155 154-236 (340)
180 PRK00115 hemE uroporphyrinogen 21.6 3.1E+02 0.0067 25.1 6.6 51 97-148 232-288 (346)
181 cd06300 PBP1_ABC_sugar_binding 21.6 4.9E+02 0.011 21.8 7.9 55 94-148 52-133 (272)
182 TIGR00615 recR recombination p 21.3 1.2E+02 0.0026 26.3 3.6 49 65-121 105-160 (195)
183 PRK09860 putative alcohol dehy 21.3 1.8E+02 0.0039 27.3 5.1 67 135-206 26-93 (383)
184 cd06292 PBP1_LacI_like_10 Liga 21.3 3.4E+02 0.0073 22.8 6.4 55 93-147 46-129 (273)
185 cd04740 DHOD_1B_like Dihydroor 21.2 3.1E+02 0.0068 24.3 6.4 20 94-114 171-190 (296)
186 PRK00278 trpC indole-3-glycero 21.1 1.3E+02 0.0029 26.7 4.0 57 93-149 74-143 (260)
187 TIGR02482 PFKA_ATP 6-phosphofr 21.1 1.5E+02 0.0032 27.3 4.3 43 87-129 76-121 (301)
188 PRK08617 acetolactate synthase 20.7 2E+02 0.0043 28.1 5.4 40 90-129 7-48 (552)
189 TIGR01859 fruc_bis_ald_ fructo 20.2 1.3E+02 0.0029 27.2 3.8 20 97-116 161-180 (282)
190 PRK07259 dihydroorotate dehydr 20.1 3.4E+02 0.0074 24.2 6.5 21 93-114 173-193 (301)
No 1
>PRK10200 putative racemase; Provisional
Probab=100.00 E-value=2.1e-41 Score=296.44 Aligned_cols=172 Identities=13% Similarity=0.065 Sum_probs=146.1
Q ss_pred ccccCCCCCCceEEeeCchh---hhhhhcC-CCCCCCCCCCcchhhhhhHHHHHHHHHH---HHHHcCCcEEeeccchhh
Q 046601 42 SFLLQTDESGKFLVGSNPVL---SKDLLSH-ERNSLPSLNGRSDLLKLEHALIAENLWS---FLEKLGACYSVIPCHIYR 114 (233)
Q Consensus 42 ~~~~~Dqeh~~~iv~~~p~i---t~~il~~-~~~p~~~~~~~~~~~~~~~~~I~~~l~~---~Le~~Gad~IVIaCNTAH 114 (233)
.....||||+|.+++|+|++ +++++++ +++|+| .+.+ +|+++|||+|||||||||
T Consensus 26 t~a~~d~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~------------------~l~~~~~~L~~~g~~~iviaCNTah 87 (230)
T PRK10200 26 IKQRLGGLHSAQLLLHSVDFHEIEECQRRGEWDKTGD------------------ILAEAALGLQRAGAEGIVLCTNTMH 87 (230)
T ss_pred HHHHhCCCCCCeEEEeCCChHHHHHHHHCCCcchHHH------------------HHHHHHHHHHHcCCCEEEECCchHH
Confidence 35679999999999999998 7778754 567888 6666 999999999999999999
Q ss_pred hhHHhhc--CCCCeech--hchHhHHhhCCCeEEEEcCHHHHhhhhHHHHHcc--------c--cCcchhhhHHHH-HHh
Q 046601 115 IWHDEVS--CFVPFLHV--TKSKPLEVRSPLGIHVLMTNGILTAGVLKLCYQI--------K--ATMEHTLIPAVD-ALN 179 (233)
Q Consensus 115 ~~~del~--~~vPii~i--~tv~~~~~~~~~rVGVLAT~gTi~sglY~~~l~~--------~--~~q~~~v~~~I~-~vk 179 (233)
+|+++++ +++||+|| ++.++++..+.++||||||+||++|++|++.++. + ++|.. +++.|| .++
T Consensus 88 ~~~~~l~~~~~iPii~ii~~~~~~~~~~~~~~VglLaT~~Ti~s~~Y~~~l~~~~g~~~~~p~~~~q~~-v~~~i~~~l~ 166 (230)
T PRK10200 88 KVADAIESRCSLPFLHIADATGRAITGAGMTRVALLGTRYTMEQDFYRGRLTEQFSINCLIPEADERAK-INQIIFEELC 166 (230)
T ss_pred HHHHHHHHhCCCCEeehHHHHHHHHHHcCCCeEEEeccHHHHHHhHHHHHHHHhcCCeEeCCCHHHHHH-HHHHHHHHHH
Confidence 9999999 89999999 5666666667899999999999999999999861 2 24556 899998 588
Q ss_pred cCCc-HHHHHHHHHHHHHHhhCCCCEEEEcCCccccCCCCCCCCCCeEecCcccC
Q 046601 180 RKDV-EGATNLLRRALQVLLARAVNIVILASNDILDLLPPDDPLFNKCIDPMDAL 233 (233)
Q Consensus 180 ~G~~-~~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~~~~~~~v~iIDp~~~L 233 (233)
+|.. +..++.+++++++|.++|+|+|||||||||++.+.. ....++|||+++|
T Consensus 167 ~G~~~~~~~~~l~~~l~~l~~~g~d~vILGCTelpll~~~~-~~~~~~iD~~~~l 220 (230)
T PRK10200 167 LGQFTEASRAYYAQVIARLAEQGAQGVIFGCTEIGLLVPEE-RSVLPVFDTAAIH 220 (230)
T ss_pred cCCCCHHHHHHHHHHHHHHHHCCCCEEEECCcCHHHhCCcc-cCCCCeEchHHHH
Confidence 8875 556789999999999999999999999999999762 2346799998764
No 2
>TIGR00035 asp_race aspartate racemase.
Probab=100.00 E-value=1.5e-39 Score=283.47 Aligned_cols=174 Identities=20% Similarity=0.307 Sum_probs=147.5
Q ss_pred cccCCCCCCceEEeeCchh---hhhhhcCC-CCCCCCCCCcchhhhhhHHHHHHHHHHHHHHcCCcEEeeccchhhhhHH
Q 046601 43 FLLQTDESGKFLVGSNPVL---SKDLLSHE-RNSLPSLNGRSDLLKLEHALIAENLWSFLEKLGACYSVIPCHIYRIWHD 118 (233)
Q Consensus 43 ~~~~Dqeh~~~iv~~~p~i---t~~il~~~-~~p~~~~~~~~~~~~~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~d 118 (233)
....||||+|++++|+|++ ++++++++ ++|.+ .+....++|+++|||+|||||||+|+|++
T Consensus 27 ~a~~d~~~~~~i~~~~~~~~dr~~~~~~~~~~~~~~---------------~l~~~~~~L~~~g~d~iviaCNTah~~~~ 91 (229)
T TIGR00035 27 KAKRDQEHPAEVLFNNPNIPDRTAYILGRGEDRPRP---------------ILIDIAVKLENAGADFIIMPCNTAHKFAE 91 (229)
T ss_pred HHhcCCCCCceeeeeCCCHHHHHHHHhcCCcchHHH---------------HHHHHHHHHHHcCCCEEEECCccHHHHHH
Confidence 4679999999999999998 78888654 44665 33333339999999999999999999999
Q ss_pred hhc--CCCCeech--hchHhHHhhCCCeEEEEcCHHHHhhhhHHHHHc---------cccCcchhhhHHHHH-HhcCCcH
Q 046601 119 EVS--CFVPFLHV--TKSKPLEVRSPLGIHVLMTNGILTAGVLKLCYQ---------IKATMEHTLIPAVDA-LNRKDVE 184 (233)
Q Consensus 119 el~--~~vPii~i--~tv~~~~~~~~~rVGVLAT~gTi~sglY~~~l~---------~~~~q~~~v~~~I~~-vk~G~~~ 184 (233)
+++ +++|++|| +++++++..+.++||||||++|+++++|++.++ +++.|+. ++..|+. +|+|..+
T Consensus 92 ~l~~~~~iPii~i~~~~~~~~~~~~~~~VgvLaT~~T~~s~~y~~~l~~~g~~v~~p~~~~~~~-i~~~i~~~~~~g~~~ 170 (229)
T TIGR00035 92 DIQKAIGIPLISMIEETAEAVKEDGVKKAGLLGTKGTMKDGVYEREMKKHGIEIVTPDKEEQEA-IMSGIYDEVKAGNIE 170 (229)
T ss_pred HHHHhCCCCEechHHHHHHHHHHcCCCEEEEEecHHHHHhHHHHHHHHHCCCEEECCCHHHHHH-HHHHHHHHHhcCCcH
Confidence 999 89999998 788888767789999999999999999999997 2234555 8888884 8999877
Q ss_pred HHHHHHHHHHHHHhhCCCCEEEEcCCccccCCCCCCCCCCeEecCcccC
Q 046601 185 GATNLLRRALQVLLARAVNIVILASNDILDLLPPDDPLFNKCIDPMDAL 233 (233)
Q Consensus 185 ~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~~~~~~~v~iIDp~~~L 233 (233)
..++.+++++++|.++|+|+|||||||||++.+. ...++++|||+++|
T Consensus 171 ~~~~~l~~~~~~l~~~gad~iILgCTelpll~~~-~~~~~pviD~~~~~ 218 (229)
T TIGR00035 171 LGRELLLKIAKELEERGAEGIILGCTELSLILKA-DDLDVPLIDPMDVI 218 (229)
T ss_pred HHHHHHHHHHHHHHhCCCCEEEEeCcchHhhccc-ccCCCCeEchHHHH
Confidence 7888999999999999999999999999999874 34478999998764
No 3
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=3.7e-38 Score=273.21 Aligned_cols=173 Identities=17% Similarity=0.124 Sum_probs=149.5
Q ss_pred cccCCCCCCceEEeeCchh---hhhhh-cCCCCCCCCCCCcchhhhhhHHHHHHHHHHHHHHcCCcEEeeccchhhhhHH
Q 046601 43 FLLQTDESGKFLVGSNPVL---SKDLL-SHERNSLPSLNGRSDLLKLEHALIAENLWSFLEKLGACYSVIPCHIYRIWHD 118 (233)
Q Consensus 43 ~~~~Dqeh~~~iv~~~p~i---t~~il-~~~~~p~~~~~~~~~~~~~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~d 118 (233)
....||+|++.++.++|++ ..+.. ++.++|. +++......|++.|||+|++||||+|.++|
T Consensus 27 ~~~~g~~h~~~i~~~s~~f~~~~~~q~~~~w~~~~---------------~~L~~~a~~Le~~GAd~i~l~~NT~H~~~d 91 (230)
T COG1794 27 RAKLGGLHSAELLLYSVDFPEIETLQRAGEWDEAG---------------EILIDAAKKLERAGADFIVLPTNTMHKVAD 91 (230)
T ss_pred HHHhCCcCcchhheecCCcccHHHHHccCccccHH---------------HHHHHHHHHHHhcCCCEEEEeCCcHHHHHH
Confidence 4567999999999999998 23333 3334444 455566669999999999999999999999
Q ss_pred hhc--CCCCeech--hchHhHHhhCCCeEEEEcCHHHHhhhhHHHHHc---------cccCcchhhhHHHHH-HhcCCcH
Q 046601 119 EVS--CFVPFLHV--TKSKPLEVRSPLGIHVLMTNGILTAGVLKLCYQ---------IKATMEHTLIPAVDA-LNRKDVE 184 (233)
Q Consensus 119 el~--~~vPii~i--~tv~~~~~~~~~rVGVLAT~gTi~sglY~~~l~---------~~~~q~~~v~~~I~~-vk~G~~~ 184 (233)
+++ +++|++|| +|+++++.+|.+|||||||.+|+.+++|++.+. ++++|+. +++.||. +|+|+..
T Consensus 92 ~iq~~~~iPllhIidaTa~~ik~~g~kkvgLLgT~~Tm~~~fY~~~l~~~gievvvPdd~~q~~-v~~iIy~El~~G~~~ 170 (230)
T COG1794 92 DIQKAVGIPLLHIIDATAKAIKAAGAKKVGLLGTRFTMEQGFYRKRLEEKGIEVVVPDDDEQAE-VNRIIYEELCQGIVK 170 (230)
T ss_pred HHHHhcCCCeehHHHHHHHHHHhcCCceeEEeeccchHHhHHHHHHHHHCCceEecCCHHHHHH-HHHHHHHHHhcccch
Confidence 999 99999999 899999998999999999999999999999998 4556666 9999998 9999964
Q ss_pred -HHHHHHHHHHHHHhhCCCCEEEEcCCccccCCCCCCCCCCeEecCccc
Q 046601 185 -GATNLLRRALQVLLARAVNIVILASNDILDLLPPDDPLFNKCIDPMDA 232 (233)
Q Consensus 185 -~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~~~~~~~v~iIDp~~~ 232 (233)
..++.+.+.++++.++|||.|||||||+|++++. ...++|++|++.+
T Consensus 171 ~~sr~~~~~ii~~l~~~Gae~vIlGCTEi~lll~~-~d~~vP~~Dtt~i 218 (230)
T COG1794 171 DASRELYLAVIERLAERGAEGVILGCTEIPLLLSQ-DDSSVPVFDTTAI 218 (230)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEeccchheeecC-CcccCcccccHHH
Confidence 6799999999999999999999999999999988 4467899999865
No 4
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=100.00 E-value=1.8e-33 Score=249.37 Aligned_cols=151 Identities=17% Similarity=0.112 Sum_probs=124.9
Q ss_pred hhhhHHHHHHHHHH---HHH-HcCCcEEeeccchhhh-hHHhhc--CCCCeech--hchHhHHhhC-CCeEEEEcCHHHH
Q 046601 83 LKLEHALIAENLWS---FLE-KLGACYSVIPCHIYRI-WHDEVS--CFVPFLHV--TKSKPLEVRS-PLGIHVLMTNGIL 152 (233)
Q Consensus 83 ~~~~~~~I~~~l~~---~Le-~~Gad~IVIaCNTAH~-~~del~--~~vPii~i--~tv~~~~~~~-~~rVGVLAT~gTi 152 (233)
|.+++++|...+.+ +|+ ++|||+|||||||||+ ++++++ +++||+|| ++++++...+ .++||||||+||+
T Consensus 38 G~ks~~~i~~~~~~~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti 117 (251)
T TIGR00067 38 GEKSPEFILEYVLELLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATI 117 (251)
T ss_pred CCCCHHHHHHHHHHHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHH
Confidence 57888999999888 998 9999999999999995 599999 89999997 8888886543 4799999999999
Q ss_pred hhhhHHHHHccccCcch----hhhHHHHHHhcCCc--HHHHHHHHHHHHHHhhCCCCEEEEcCCccccCCCC-C--CCCC
Q 046601 153 TAGVLKLCYQIKATMEH----TLIPAVDALNRKDV--EGATNLLRRALQVLLARAVNIVILASNDILDLLPP-D--DPLF 223 (233)
Q Consensus 153 ~sglY~~~l~~~~~q~~----~v~~~I~~vk~G~~--~~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~~-~--~~~~ 223 (233)
+|++|++.++....... -.+..++.||+|.. +.+.+.++++++++.++++|++||||||||++.+. . .+.+
T Consensus 118 ~s~~y~~~i~~~~~~~~v~~~~~~~lv~~Ie~g~~~~~~~~~~l~~~l~~l~~~~~d~lILGCTh~P~l~~~i~~~~~~~ 197 (251)
T TIGR00067 118 KSNAYHEALKEIANDLLVEMLACPELVPLAEAGLLGEDYALECLKRYLRPLLDTLPDTVVLGCTHFPLLKEEIEQYLPEH 197 (251)
T ss_pred hhhHHHHHHHHhCCCCEEEecCCHHHHHHHHcCCcCCHHHHHHHHHHHHHHhcCCCCEEEECcCChHHHHHHHHHHcCCC
Confidence 99999999982211111 14666778999976 45778899999999989999999999999999866 2 2346
Q ss_pred CeEecCcccC
Q 046601 224 NKCIDPMDAL 233 (233)
Q Consensus 224 v~iIDp~~~L 233 (233)
+++|||++++
T Consensus 198 v~~IDp~~~l 207 (251)
T TIGR00067 198 VRLVDSGVHT 207 (251)
T ss_pred cEEECCHHHH
Confidence 7999998753
No 5
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=99.96 E-value=5.2e-30 Score=228.58 Aligned_cols=149 Identities=17% Similarity=0.093 Sum_probs=121.9
Q ss_pred hhhhhHHHHHHHHHH---HHHHcCCcEEeeccchhhhh-HHhhc--CCCCeech-hchHhHHhhC-CCeEEEEcCHHHHh
Q 046601 82 LLKLEHALIAENLWS---FLEKLGACYSVIPCHIYRIW-HDEVS--CFVPFLHV-TKSKPLEVRS-PLGIHVLMTNGILT 153 (233)
Q Consensus 82 ~~~~~~~~I~~~l~~---~Le~~Gad~IVIaCNTAH~~-~del~--~~vPii~i-~tv~~~~~~~-~~rVGVLAT~gTi~ 153 (233)
-|++++++|.++..+ +|.+.+++++|||||||++. ++++| +++||+++ |+++++.+.. +++||||||++|++
T Consensus 44 YG~ks~e~I~~~~~~i~~~l~~~~ik~lVIACNTASa~al~~LR~~~~iPVvGviPaik~A~~~t~~~~IgViaT~~Tvk 123 (269)
T COG0796 44 YGEKSEEEIRERTLEIVDFLLERGIKALVIACNTASAVALEDLREKFDIPVVGVIPAIKPAVALTRNGRIGVIATPATVK 123 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHHhCCCCEEEeccchHHHHHhccCCeEEEEeccchhc
Confidence 367889999999988 99999999999999999998 79999 99999999 9999876544 77999999999999
Q ss_pred hhhHHHHHcc--ccCcchhhhH---HHHHHhcCC--cHHHHHHHHHHHHHHhhCCCCEEEEcCCccccCCCC---CCCCC
Q 046601 154 AGVLKLCYQI--KATMEHTLIP---AVDALNRKD--VEGATNLLRRALQVLLARAVNIVILASNDILDLLPP---DDPLF 223 (233)
Q Consensus 154 sglY~~~l~~--~~~q~~~v~~---~I~~vk~G~--~~~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~~---~~~~~ 223 (233)
|..|++.+.. .+.+-+ .+. ..+.+++|. .+.+.+.+++++.++.+.++|++||||||||++.+. ..+.+
T Consensus 124 s~~y~~~i~~~~~~~~V~-~la~p~lV~lvE~g~~~~~~~~~~l~~~l~~~~~~~~DtlVLGCTHyPll~~~i~~~~~~~ 202 (269)
T COG0796 124 SNAYRDLIARFAPDCEVE-SLACPELVPLVEEGIRGGPVALEVLKEYLPPLQEAGPDTLVLGCTHYPLLKPEIQQVLGEH 202 (269)
T ss_pred cHHHHHHHHHhCCCCEEE-EecCcchHHHHhcccccCHHHHHHHHHHhcchhccCCCEEEEeCcCcHHHHHHHHHHhCCC
Confidence 9999999982 222211 111 123366665 345688899999999999999999999999999876 23446
Q ss_pred CeEecCcc
Q 046601 224 NKCIDPMD 231 (233)
Q Consensus 224 v~iIDp~~ 231 (233)
+++|||+.
T Consensus 203 v~lids~~ 210 (269)
T COG0796 203 VALIDSGA 210 (269)
T ss_pred ceEeCCHH
Confidence 89999974
No 6
>PRK00865 glutamate racemase; Provisional
Probab=99.96 E-value=1.5e-29 Score=224.99 Aligned_cols=150 Identities=20% Similarity=0.149 Sum_probs=119.8
Q ss_pred hhhhHHHHHHHHHH---HHHHcCCcEEeeccchhhh-hHHhhc--CCCCeech-hchHhHHh-hCCCeEEEEcCHHHHhh
Q 046601 83 LKLEHALIAENLWS---FLEKLGACYSVIPCHIYRI-WHDEVS--CFVPFLHV-TKSKPLEV-RSPLGIHVLMTNGILTA 154 (233)
Q Consensus 83 ~~~~~~~I~~~l~~---~Le~~Gad~IVIaCNTAH~-~~del~--~~vPii~i-~tv~~~~~-~~~~rVGVLAT~gTi~s 154 (233)
|.+++++|.+++.+ +|++.|||+|||||||||+ +++++| +++||+|| ++++.+.. .+.++||||||++|+++
T Consensus 45 G~ks~~~i~~~~~~~~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvigi~~a~~~a~~~~~~~~igVLaT~~Ti~s 124 (261)
T PRK00865 45 GEKSEEEIRERTLEIVEFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVGIVPAIKPAAALTRNGRIGVLATPGTVKS 124 (261)
T ss_pred CCCCHHHHHHHHHHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEeeHHHHHHHHHhcCCCeEEEEECHHHhhc
Confidence 56788888888888 9999999999999999996 589999 89999999 78777654 35789999999999999
Q ss_pred hhHHHHHccccCcchhh-hH---HHHHHhcCC--cHHHHHHHHHHHHHHhhCCCCEEEEcCCccccCCCCCC---CCCCe
Q 046601 155 GVLKLCYQIKATMEHTL-IP---AVDALNRKD--VEGATNLLRRALQVLLARAVNIVILASNDILDLLPPDD---PLFNK 225 (233)
Q Consensus 155 glY~~~l~~~~~q~~~v-~~---~I~~vk~G~--~~~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~~~~---~~~v~ 225 (233)
+.|++.++......++. .+ ....+++|. .+..++.++++++++.++|+|+|||||||||++.+... +.+++
T Consensus 125 ~~y~~~i~~~~~~~~v~~~~~~~lv~~ie~g~~~~~~~~~~l~~~l~~l~~~g~d~iILGCTh~p~l~~~i~~~~~~~v~ 204 (261)
T PRK00865 125 AAYRDLIARFAPDCQVESLACPELVPLVEAGILGGPVTLEVLREYLAPLLAAGIDTLVLGCTHYPLLKPEIQQVLGEGVT 204 (261)
T ss_pred hHHHHHHHHhCCCCEEEEecCHHHHHHHhCCCcCCHHHHHHHHHHHHHHhcCCCCEEEECCcCHHHHHHHHHHHcCCCCE
Confidence 99999998332111111 11 223367765 35677889999999988899999999999999886621 34589
Q ss_pred EecCccc
Q 046601 226 CIDPMDA 232 (233)
Q Consensus 226 iIDp~~~ 232 (233)
+|||+++
T Consensus 205 vIDp~~~ 211 (261)
T PRK00865 205 LIDSGEA 211 (261)
T ss_pred EECCHHH
Confidence 9999875
No 7
>PRK07475 hypothetical protein; Provisional
Probab=99.87 E-value=3.8e-22 Score=176.37 Aligned_cols=135 Identities=12% Similarity=0.093 Sum_probs=108.0
Q ss_pred HHHH---HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech--hchHhHHhh--CCCeEEEEcCHHHHhhhhHHHHHc-
Q 046601 93 NLWS---FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV--TKSKPLEVR--SPLGIHVLMTNGILTAGVLKLCYQ- 162 (233)
Q Consensus 93 ~l~~---~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i--~tv~~~~~~--~~~rVGVLAT~gTi~sglY~~~l~- 162 (233)
.+.+ .|+++|||+|+++|||+|+|+++++ +++|++++ ..++.+++. +.+|||||+|.+|. +|++.++
T Consensus 66 ~l~~aa~~L~~~G~d~I~~~Cgt~~~~~~~l~~~~~VPv~~ss~~~v~~l~~~~~~~~kIGILtt~~t~---l~~~~l~~ 142 (245)
T PRK07475 66 AFVAAARELEAEGVRAITTSCGFLALFQRELAAALGVPVATSSLLQVPLIQALLPAGQKVGILTADASS---LTPAHLLA 142 (245)
T ss_pred HHHHHHHHHHHcCCCEEEechHHHHHHHHHHHHHcCCCEeccHHHHHHHHHHhccCCCeEEEEeCCchh---hhHHHHHh
Confidence 6766 9999999999999999999999999 89999998 666666654 36899999999984 8999987
Q ss_pred ---c----------ccCcchhhhHHHH-HHhcCCcHHHHHHHHHHHHHHhh--CCCCEEEEcCCccccCCCC-CCCCCCe
Q 046601 163 ---I----------KATMEHTLIPAVD-ALNRKDVEGATNLLRRALQVLLA--RAVNIVILASNDILDLLPP-DDPLFNK 225 (233)
Q Consensus 163 ---~----------~~~q~~~v~~~I~-~vk~G~~~~~~~~l~~~~~~l~~--~gaD~vILGCTElPll~~~-~~~~~v~ 225 (233)
+ .+.|.. +++.|| ..+.++.+++.+.+.+++++|.+ .|+|++||||||+|.+.+. ....+.+
T Consensus 143 ~Gi~~~~~~~~~~g~e~~~~-~~~~I~~~~~~~d~~~~~~~l~~~~~~l~~~~~~~daIvL~CTeLp~~~~~le~~~glP 221 (245)
T PRK07475 143 VGVPPDTSSLPIAGLEEGGE-FRRNILENRGELDNEAAEQEVVAAARALLERHPDIGAIVLECTNMPPYAAAIQRATGLP 221 (245)
T ss_pred CCCCCCCccccccCcccchH-HHHHHhcccccccHHHHHHHHHHHHHHHHhhCCCCCEEEEcCcChHHHHHHHHHhcCCC
Confidence 1 123344 677786 35666667777888889999974 4899999999999987755 2234778
Q ss_pred EecCcc
Q 046601 226 CIDPMD 231 (233)
Q Consensus 226 iIDp~~ 231 (233)
++|+..
T Consensus 222 ViDs~t 227 (245)
T PRK07475 222 VFDIVT 227 (245)
T ss_pred EEeHHH
Confidence 999864
No 8
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=99.81 E-value=2.2e-20 Score=158.90 Aligned_cols=141 Identities=21% Similarity=0.236 Sum_probs=109.9
Q ss_pred HHHHHHH---HHHHcCCcEEeeccchhhhhHHhhc---CCCCeech--hchHhHHhhCCCeEEEEcCHHHHhhhhHHHHH
Q 046601 90 IAENLWS---FLEKLGACYSVIPCHIYRIWHDEVS---CFVPFLHV--TKSKPLEVRSPLGIHVLMTNGILTAGVLKLCY 161 (233)
Q Consensus 90 I~~~l~~---~Le~~Gad~IVIaCNTAH~~~del~---~~vPii~i--~tv~~~~~~~~~rVGVLAT~gTi~sglY~~~l 161 (233)
+.+.+.+ .|++.|+|+|+++|||+|+++++++ +++|++++ ++++++.. +.+|||||+|..|..++.|++.+
T Consensus 50 ~~~~~~~~~~~l~~~g~d~i~i~C~s~~~~~~~~~~~~~~iPv~~~~~a~~~~~~~-~~~ri~vl~t~~~~~~~~~~~~~ 128 (216)
T PF01177_consen 50 ILDRLIEAAEKLEKAGVDAIVIACNSAHPFVDELRKERVGIPVVGIVEAALEAAKA-GGKRIGVLTTYTTEKSPLYEEFI 128 (216)
T ss_dssp HHHHHHHHHHHHHHTTESEEEESSHHHHHHHHHHHHHHHSSEEEESHHHHHHHHHH-TSSEEEEEESHHHHHHTHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCCEEEEcCCchhhhHHHHhhhcCceEEEeccHHHHHHHHh-cCCEEEEEecCcccchHHHHHHH
Confidence 4445554 8999999999999999999987776 79999998 67777777 79999999999999999999999
Q ss_pred ccc-c----CcchhhhHHHHH-HhcCCcH-HHHHHHHHHHHHHh-hCCCCEEEEcCCccccCCCC----CCCCCCeEecC
Q 046601 162 QIK-A----TMEHTLIPAVDA-LNRKDVE-GATNLLRRALQVLL-ARAVNIVILASNDILDLLPP----DDPLFNKCIDP 229 (233)
Q Consensus 162 ~~~-~----~q~~~v~~~I~~-vk~G~~~-~~~~~l~~~~~~l~-~~gaD~vILGCTElPll~~~----~~~~~v~iIDp 229 (233)
+.. . .+.. ++..|+. ++.|..+ ...+.+.+.++++. +.|+|+|||||||+|++.+. ....++++|||
T Consensus 129 ~~~~gi~~~~~~~-i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~~~~~~~l~~~~gipVid~ 207 (216)
T PF01177_consen 129 EEAAGIDDEVVAG-IHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTHLPLLLGAIEALEEELGIPVIDS 207 (216)
T ss_dssp HHCTTEECEEEEE-EEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGGHHHHHHHHHTCSSEEEEH
T ss_pred HHhcCCcHHHHHH-HHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHHHHHHHhhcccCCCEEEcc
Confidence 844 2 2233 4555544 4466643 35678888888885 78999999999999987543 22347899999
Q ss_pred ccc
Q 046601 230 MDA 232 (233)
Q Consensus 230 ~~~ 232 (233)
.++
T Consensus 208 ~~~ 210 (216)
T PF01177_consen 208 NQA 210 (216)
T ss_dssp HHH
T ss_pred HHH
Confidence 764
No 9
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=98.46 E-value=2.1e-07 Score=81.38 Aligned_cols=131 Identities=16% Similarity=0.117 Sum_probs=82.1
Q ss_pred HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech--hchHhHHhhCCCeEEEEcCHHHHhhhh-HHHHHccccCcchhh
Q 046601 97 FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV--TKSKPLEVRSPLGIHVLMTNGILTAGV-LKLCYQIKATMEHTL 171 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i--~tv~~~~~~~~~rVGVLAT~gTi~sgl-Y~~~l~~~~~q~~~v 171 (233)
.-+..|||+++|+|-.= +-++.+| ..+|++|+ +.+..+.. -.+|++|+-|.- ++.. -++.+++.-.+....
T Consensus 64 ~~~~~GvdaiiIaCf~D-Pgl~~~Re~~~~PviGi~eAsv~~A~~-vgrrfsViTtt~--rs~~il~~lv~~~g~s~~~~ 139 (230)
T COG4126 64 DGEEQGVDAIIIACFSD-PGLAAARERAAIPVIGICEASVLAALF-VGRRFSVITTTE--RSRPILEELVRSYGLSRHCR 139 (230)
T ss_pred cccccCCcEEEEEecCC-hHHHHHHHHhCCCceehhHHHHHHHHH-hcceEEEEecCc--ccHHHHHHHHHhcCcccccc
Confidence 44567999999999987 7788888 89999999 44444332 278999998832 2221 122222222121100
Q ss_pred -hHHHHH-H--hcCCcHHHHH-HHHHHHHHHhhCCCCEEEEcCCccccCCCC-CCCCCCeEecCcc
Q 046601 172 -IPAVDA-L--NRKDVEGATN-LLRRALQVLLARAVNIVILASNDILDLLPP-DDPLFNKCIDPMD 231 (233)
Q Consensus 172 -~~~I~~-v--k~G~~~~~~~-~l~~~~~~l~~~gaD~vILGCTElPll~~~-~~~~~v~iIDp~~ 231 (233)
..+... + -.+..++++. ...++.+.+.+.|+|++||||+=++-+.+. ....++|+||+..
T Consensus 140 ~vrstdl~vL~l~~~~~~~~~~l~~~~~~a~~edgAeaIiLGCAGms~la~~Lq~~~gvPVIDgv~ 205 (230)
T COG4126 140 SVRSTDLPVLALEGPPEEAEALLVIEAAEALKEDGAEAIILGCAGMSDLADQLQKAFGVPVIDGVA 205 (230)
T ss_pred ceeeCCCCcccccCChHHHHHHHHHHHHHHhhhcCCCEEEEcCccHHHHHHHHHHHhCCCcccchH
Confidence 001100 1 1233445544 445555667778999999999999988766 3456899999854
No 10
>PRK10481 hypothetical protein; Provisional
Probab=97.83 E-value=2.4e-05 Score=68.94 Aligned_cols=153 Identities=12% Similarity=0.033 Sum_probs=90.4
Q ss_pred CCCCCCCCCCcchhhhhhHHHHHHHHHH---HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech-hchHhHHhhCCCe
Q 046601 69 ERNSLPSLNGRSDLLKLEHALIAENLWS---FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV-TKSKPLEVRSPLG 142 (233)
Q Consensus 69 ~~~p~~~~~~~~~~~~~~~~~I~~~l~~---~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i-~tv~~~~~~~~~r 142 (233)
++.++-|.---.++-..+++.|...+.+ .|++.|+|+|++.|-.--.-++..+ ...|...| +.++.+.. .+|
T Consensus 54 ~~~~lvtrL~dG~~v~~s~~~v~~~lq~~i~~l~~~g~d~ivl~Ctgdfp~l~a~r~~l~~P~~~i~~lv~Al~~--g~r 131 (224)
T PRK10481 54 GEDVLVTRLNDGQQVHVSKQKVERDLQSVIEVLDNQGYDVILLLCTGEFPSLTARNAILLEPSRILPPLVAAIVG--GHQ 131 (224)
T ss_pred CCceeEEEecCCCEEEEEHHHHHHHHHHHHHHHHhCCCCEEEEEecCCCCCccccCccccCchhhHHHHHHHhcC--CCe
Confidence 3444443333334445666666666666 9999999999999975423344444 44577777 66655443 579
Q ss_pred EEEEcCHHHHhhhhHHHHHccccCcchhhhHHHHHHhcCCcHHHHHHHHHHHHHHhhCCCCEEEEcCCccccCCCC--CC
Q 046601 143 IHVLMTNGILTAGVLKLCYQIKATMEHTLIPAVDALNRKDVEGATNLLRRALQVLLARAVNIVILASNDILDLLPP--DD 220 (233)
Q Consensus 143 VGVLAT~gTi~sglY~~~l~~~~~q~~~v~~~I~~vk~G~~~~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~~--~~ 220 (233)
+||+..-..--...-++..+. ..+- .. ...+ ......+.+.+..+.|.+.|+|+++++||=|..-... ..
T Consensus 132 iGVitP~~~qi~~~~~kw~~~--G~~v-~~----~~as-py~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~~~~~~le~ 203 (224)
T PRK10481 132 VGVIVPVEEQLAQQAQKWQVL--QKPP-VF----ALAS-PYHGSEEELIDAGKELLDQGADVIVLDCLGYHQRHRDLLQK 203 (224)
T ss_pred EEEEEeCHHHHHHHHHHHHhc--CCce-eE----eecC-CCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCHHHHHHHHH
Confidence 999977333322222222221 1111 10 0111 0112234677788889889999999999999952221 23
Q ss_pred CCCCeEecCcc
Q 046601 221 PLFNKCIDPMD 231 (233)
Q Consensus 221 ~~~v~iIDp~~ 231 (233)
..++|+|+|..
T Consensus 204 ~lg~PVI~~n~ 214 (224)
T PRK10481 204 ALDVPVLLSNV 214 (224)
T ss_pred HHCcCEEcHHH
Confidence 45788998854
No 11
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=96.59 E-value=0.0019 Score=57.31 Aligned_cols=126 Identities=9% Similarity=0.027 Sum_probs=76.7
Q ss_pred HHHHcCCcEEeeccchhhhhH------Hhhc---CCCCeech--hchHhHHhhCCCeEEEEcCHHHHhhhhHHHHHc---
Q 046601 97 FLEKLGACYSVIPCHIYRIWH------DEVS---CFVPFLHV--TKSKPLEVRSPLGIHVLMTNGILTAGVLKLCYQ--- 162 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~~------del~---~~vPii~i--~tv~~~~~~~~~rVGVLAT~gTi~sglY~~~l~--- 162 (233)
.|..+++|+|+.+|-.++... ++++ ..+|+... +.++.++..+.+||+|+.- |.+.+.
T Consensus 66 ll~~a~~dvi~~~cTsgs~~~G~~~~~~~i~~~~~g~p~tt~~~A~~~AL~alg~~RIalvTP--------Y~~~v~~~~ 137 (239)
T TIGR02990 66 ILPDEELDVVAYSCTSASVVIGDDEVTRAINAAKPGTPVVTPSSAAVDGLAALGVRRISLLTP--------YTPETSRPM 137 (239)
T ss_pred hcCCCCCCEEEEccchhheecCHHHHHHHHHhcCCCCCeeCHHHHHHHHHHHcCCCEEEEECC--------CcHHHHHHH
Confidence 334589999999999998853 2333 46899997 6667778788999998854 333332
Q ss_pred ----cccCcchhhhHHH-HHHhcCC-c-HHHHHHHHHHHHHHhhCCCCEEEEcCCccccCCC--C-CCCCCCeEecCccc
Q 046601 163 ----IKATMEHTLIPAV-DALNRKD-V-EGATNLLRRALQVLLARAVNIVILASNDILDLLP--P-DDPLFNKCIDPMDA 232 (233)
Q Consensus 163 ----~~~~q~~~v~~~I-~~vk~G~-~-~~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~--~-~~~~~v~iIDp~~~ 232 (233)
.+...+. .... ..+..+. . .-..+.+.+.+..+...++|+|++.||-++-+-- . ....++|+|++..+
T Consensus 138 ~~~l~~~G~eV--~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifisCTnLrt~~vi~~lE~~lGkPVlsSNqa 215 (239)
T TIGR02990 138 AQYFAVRGFEI--VNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFLSCTALRAATCAQRIEQAIGKPVVTSNQA 215 (239)
T ss_pred HHHHHhCCcEE--eeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEEeCCCchhHHHHHHHHHHHCCCEEEHHHH
Confidence 1111111 1100 0111111 1 1123456666666667799999999999986432 1 23357788887643
No 12
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=95.31 E-value=0.036 Score=48.73 Aligned_cols=130 Identities=14% Similarity=0.111 Sum_probs=80.3
Q ss_pred HHHHcCCcEEeeccchhhhh----H-Hhh----c--CCCCeech--hchHhHHhhCCCeEEEEcCHHHHhhhhHHHHHcc
Q 046601 97 FLEKLGACYSVIPCHIYRIW----H-DEV----S--CFVPFLHV--TKSKPLEVRSPLGIHVLMTNGILTAGVLKLCYQI 163 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~----~-del----~--~~vPii~i--~tv~~~~~~~~~rVGVLAT~gTi~sglY~~~l~~ 163 (233)
.|-.+|+|.|+-+|-+++.+ | .++ + .++|++-- +.++.+++-+.+||.|+ ||.+....--+..+-.
T Consensus 62 ~Lada~vdvI~Y~CtsgS~i~G~~~d~ei~~~ie~~~~v~vvTts~Avv~aL~al~a~ri~vl-TPY~~evn~~e~ef~~ 140 (238)
T COG3473 62 ELADAGVDVIVYGCTSGSLIGGPGYDKEIAQRIEEAKGVPVVTTSTAVVEALNALGAQRISVL-TPYIDEVNQREIEFLE 140 (238)
T ss_pred hcCccccCEEEEeccceeeecCCchhHHHHHHHHhccCCceeechHHHHHHHHhhCcceEEEe-ccchhhhhhHHHHHHH
Confidence 77889999999999999985 2 233 3 67899887 77777888778888665 6666554322222212
Q ss_pred ccCcchhhhHH----H-HHHhcCCcHHHHHHHHHHHHHHhhCCCCEEEEcCCccccCCCC---CCCCCCeEecCcc
Q 046601 164 KATMEHTLIPA----V-DALNRKDVEGATNLLRRALQVLLARAVNIVILASNDILDLLPP---DDPLFNKCIDPMD 231 (233)
Q Consensus 164 ~~~q~~~v~~~----I-~~vk~G~~~~~~~~l~~~~~~l~~~gaD~vILGCTElPll~~~---~~~~~v~iIDp~~ 231 (233)
....+ +.+. | .+++-|..+. ..+-+....+..-++|++...||-++-+.-- ....++|+|.|..
T Consensus 141 ~~Gfe--iv~~~~Lgi~dn~eigr~~P--~~~y~lAk~~~~~~~DaiFiSCTnlRt~eii~~lE~~~G~PVvsSN~ 212 (238)
T COG3473 141 ANGFE--IVDFKGLGITDNLEIGRQEP--WAVYRLAKEVFTPDADAIFISCTNLRTFEIIEKLERDTGVPVVSSNQ 212 (238)
T ss_pred hCCeE--EEEeeccCCcccchhcccCh--HHHHHHHHHhcCCCCCeEEEEeeccccHHHHHHHHHHhCCceeeccH
Confidence 22222 1111 1 2244454321 2334455556677999999999999754321 2334677887654
No 13
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=94.85 E-value=0.13 Score=45.49 Aligned_cols=120 Identities=14% Similarity=0.097 Sum_probs=71.9
Q ss_pred hhhhhHHHHHHHHHH---HHHHcCCcEEeeccchhhhhHHhhcCCCCeech-----hchHhHHhhCCCeEEEEcCHHHHh
Q 046601 82 LLKLEHALIAENLWS---FLEKLGACYSVIPCHIYRIWHDEVSCFVPFLHV-----TKSKPLEVRSPLGIHVLMTNGILT 153 (233)
Q Consensus 82 ~~~~~~~~I~~~l~~---~Le~~Gad~IVIaCNTAH~~~del~~~vPii~i-----~tv~~~~~~~~~rVGVLAT~gTi~ 153 (233)
+-..+++.+...+.+ .|++.|+|.|++-|--- +..+..+.|+|.= +.++.+.. ..+|||+.=..--.
T Consensus 64 ~V~ls~~~v~~~lq~~i~~le~~G~d~illlCTG~---F~~l~~~~~lleP~ril~~lV~al~~--~~~vGVivP~~eQ~ 138 (221)
T PF07302_consen 64 QVVLSKKKVEPRLQACIAQLEAQGYDVILLLCTGE---FPGLTARNPLLEPDRILPPLVAALVG--GHQVGVIVPLPEQI 138 (221)
T ss_pred EEEEEHHHHHHHHHHHHHHHHHCCCCEEEEeccCC---CCCCCCCcceeehHHhHHHHHHHhcC--CCeEEEEecCHHHH
Confidence 344566667777776 99999999999999532 2234433444442 44444332 47999997655444
Q ss_pred hhhHHHHHcc-ccCcchhhhHHHHHHhcCCcHHHHHHHHHHHHHHhhCCCCEEEEcCCccccC
Q 046601 154 AGVLKLCYQI-KATMEHTLIPAVDALNRKDVEGATNLLRRALQVLLARAVNIVILASNDILDL 215 (233)
Q Consensus 154 sglY~~~l~~-~~~q~~~v~~~I~~vk~G~~~~~~~~l~~~~~~l~~~gaD~vILGCTElPll 215 (233)
...+++.-.- ....- ..+.......+.+.++.+.|.++|+|.|||-|==|.--
T Consensus 139 ~~~~~kW~~l~~~~~~---------a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~ 192 (221)
T PF07302_consen 139 AQQAEKWQPLGNPVVV---------AAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQE 192 (221)
T ss_pred HHHHHHHHhcCCCeEE---------EEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHH
Confidence 4333333220 00000 01111112356788899999999999999999776643
No 14
>TIGR00035 asp_race aspartate racemase.
Probab=93.29 E-value=0.16 Score=44.26 Aligned_cols=89 Identities=16% Similarity=0.160 Sum_probs=52.8
Q ss_pred CeEEEEcCHHHHhhh-hHHHHHc---cccCcch---hh--hHHHHH----HhcCCcHHHHHHHHHHHHHHhhCCCCEEEE
Q 046601 141 LGIHVLMTNGILTAG-VLKLCYQ---IKATMEH---TL--IPAVDA----LNRKDVEGATNLLRRALQVLLARAVNIVIL 207 (233)
Q Consensus 141 ~rVGVLAT~gTi~sg-lY~~~l~---~~~~q~~---~v--~~~I~~----vk~G~~~~~~~~l~~~~~~l~~~gaD~vIL 207 (233)
++|||+|--|...+- +|++..+ ...+|+. ++ .+.+++ +..+..+.....+.+.++.|.+.|+|.+++
T Consensus 2 ~~iGiiGGmgp~at~~~~~~i~~~~~a~~d~~~~~~i~~~~~~~~dr~~~~~~~~~~~~~~~l~~~~~~L~~~g~d~ivi 81 (229)
T TIGR00035 2 NMIGILGGMGPLATAELFRRINEKTKAKRDQEHPAEVLFNNPNIPDRTAYILGRGEDRPRPILIDIAVKLENAGADFIIM 81 (229)
T ss_pred CeEEEecCcCHHHHHHHHHHHHHHhHHhcCCCCCceeeeeCCCHHHHHHHHhcCCcchHHHHHHHHHHHHHHcCCCEEEE
Confidence 468888654444443 5665554 2233333 11 112322 444555567788999999999999999999
Q ss_pred cCCccccCCCC-CCCCCCeEecC
Q 046601 208 ASNDILDLLPP-DDPLFNKCIDP 229 (233)
Q Consensus 208 GCTElPll~~~-~~~~~v~iIDp 229 (233)
+|.=-..+.+. ....++++|..
T Consensus 82 aCNTah~~~~~l~~~~~iPii~i 104 (229)
T TIGR00035 82 PCNTAHKFAEDIQKAIGIPLISM 104 (229)
T ss_pred CCccHHHHHHHHHHhCCCCEech
Confidence 99644443433 22235666653
No 15
>PRK10200 putative racemase; Provisional
Probab=91.74 E-value=0.41 Score=42.05 Aligned_cols=88 Identities=13% Similarity=0.061 Sum_probs=53.1
Q ss_pred CeEEEEcCHHHHhhh-hHHHHHc---cccCcch---hh--hHHHH----HHhcCCcHHHHHHHHHHHHHHhhCCCCEEEE
Q 046601 141 LGIHVLMTNGILTAG-VLKLCYQ---IKATMEH---TL--IPAVD----ALNRKDVEGATNLLRRALQVLLARAVNIVIL 207 (233)
Q Consensus 141 ~rVGVLAT~gTi~sg-lY~~~l~---~~~~q~~---~v--~~~I~----~vk~G~~~~~~~~l~~~~~~l~~~gaD~vIL 207 (233)
++|||||--|...+- +|++..+ ...+|+. ++ ..-+. .+..++.+.....|.+.++.|.+.|||.+|+
T Consensus 2 k~iGilGGmGp~aT~~~~~~i~~~t~a~~d~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~l~~~~~~L~~~g~~~ivi 81 (230)
T PRK10200 2 KTIGLLGGMSWESTIPYYRLINEGIKQRLGGLHSAQLLLHSVDFHEIEECQRRGEWDKTGDILAEAALGLQRAGAEGIVL 81 (230)
T ss_pred CeEEEccCCCHHHHHHHHHHHHHHHHHHhCCCCCCeEEEeCCChHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCEEEE
Confidence 468888555544443 5665554 1122222 11 11122 2555665667789999999999999999999
Q ss_pred cCCccccCCCC-CCCCCCeEec
Q 046601 208 ASNDILDLLPP-DDPLFNKCID 228 (233)
Q Consensus 208 GCTElPll~~~-~~~~~v~iID 228 (233)
+|-=-....+. ....++|+|+
T Consensus 82 aCNTah~~~~~l~~~~~iPii~ 103 (230)
T PRK10200 82 CTNTMHKVADAIESRCSLPFLH 103 (230)
T ss_pred CCchHHHHHHHHHHhCCCCEee
Confidence 99755544444 2223566665
No 16
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=89.88 E-value=1.1 Score=37.52 Aligned_cols=101 Identities=12% Similarity=0.140 Sum_probs=55.2
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhcCCCCeech-hc----hHhHHh--hCCCeEEEEcCHHHHh-hhhHHHHHccc
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVSCFVPFLHV-TK----SKPLEV--RSPLGIHVLMTNGILT-AGVLKLCYQIK 164 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~~~vPii~i-~t----v~~~~~--~~~~rVGVLAT~gTi~-sglY~~~l~~~ 164 (233)
...+.+++.|+|.|+--=-||+..-+. +++|++.| .+ ++.+.. ...++||+++-+..+. ...+.+.+.-
T Consensus 25 ~a~~~~~~~g~dViIsRG~ta~~lr~~--~~iPVV~I~~s~~Dil~al~~a~~~~~~Iavv~~~~~~~~~~~~~~ll~~- 101 (176)
T PF06506_consen 25 EARQLLESEGADVIISRGGTAELLRKH--VSIPVVEIPISGFDILRALAKAKKYGPKIAVVGYPNIIPGLESIEELLGV- 101 (176)
T ss_dssp HHHHHHTTTT-SEEEEEHHHHHHHHCC---SS-EEEE---HHHHHHHHHHCCCCTSEEEEEEESS-SCCHHHHHHHHT--
T ss_pred HHHHhhHhcCCeEEEECCHHHHHHHHh--CCCCEEEECCCHhHHHHHHHHHHhcCCcEEEEecccccHHHHHHHHHhCC-
Confidence 333344889999999888888765433 58999998 22 222222 2367999999877664 3444444431
Q ss_pred cCcchhhhHHHHHHhcCCcHHHHHHHHHHHHHHhhCCCCEEEEcC
Q 046601 165 ATMEHTLIPAVDALNRKDVEGATNLLRRALQVLLARAVNIVILAS 209 (233)
Q Consensus 165 ~~q~~~v~~~I~~vk~G~~~~~~~~l~~~~~~l~~~gaD~vILGC 209 (233)
+ ++.-.. ...+.++..++.+.+.|+|++|=|=
T Consensus 102 ~------------i~~~~~-~~~~e~~~~i~~~~~~G~~viVGg~ 133 (176)
T PF06506_consen 102 D------------IKIYPY-DSEEEIEAAIKQAKAEGVDVIVGGG 133 (176)
T ss_dssp E------------EEEEEE-SSHHHHHHHHHHHHHTT--EEEESH
T ss_pred c------------eEEEEE-CCHHHHHHHHHHHHHcCCcEEECCH
Confidence 0 000000 0124466777788888998777553
No 17
>COG0462 PrsA Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]
Probab=87.55 E-value=0.87 Score=42.25 Aligned_cols=133 Identities=16% Similarity=0.129 Sum_probs=86.4
Q ss_pred CcchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech---hch-HhHHhhC-CCeEEEEc--
Q 046601 78 GRSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV---TKS-KPLEVRS-PLGIHVLM-- 147 (233)
Q Consensus 78 ~~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i---~tv-~~~~~~~-~~rVGVLA-- 147 (233)
.|.+..-++++.|...+.. .|+.+|+|-|+- .-...++++ +++|+-|+ +.+ ++++... ....-|++
T Consensus 96 ARQDk~~~~repIsaklvA~lL~~aG~drv~T----vDlH~~qiqgfFdipvdnl~a~p~l~~~~~~~~~~~d~vVVSPD 171 (314)
T COG0462 96 ARQDKAFKPREPISAKLVANLLETAGADRVLT----VDLHAPQIQGFFDIPVDNLYAAPLLAEYIREKYDLDDPVVVSPD 171 (314)
T ss_pred hccCcccCCCCCEeHHHHHHHHHHcCCCeEEE----EcCCchhhcccCCCccccccchHHHHHHHHHhcCCCCcEEECCC
Confidence 4566333788888888888 999999999973 333456778 89999998 333 3455442 21344444
Q ss_pred CHHHHhhhhHHHHHc------c-----ccCcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcCC
Q 046601 148 TNGILTAGVLKLCYQ------I-----KATMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILASN 210 (233)
Q Consensus 148 T~gTi~sglY~~~l~------~-----~~~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGCT 210 (233)
.-|.-+.+.+.+.+. + .....+ ++..+-+++... .+ ..-..+-++.+.|.++||--|+..||
T Consensus 172 ~Ggv~RAr~~A~~L~~~~a~i~K~R~~~~~~v~-~~~~~gdV~gk~~iiVDDiIdTgGTi~~Aa~~Lk~~GAk~V~a~~t 250 (314)
T COG0462 172 KGGVKRARALADRLGAPLAIIDKRRDSSPNVVE-VMNLIGDVEGKDVVIVDDIIDTGGTIAKAAKALKERGAKKVYAAAT 250 (314)
T ss_pred ccHHHHHHHHHHHhCCCEEEEEEeecCCCCeEE-EeecccccCCCEEEEEeccccccHHHHHHHHHHHHCCCCeEEEEEE
Confidence 235666677777776 1 111222 555555555432 11 12356778889999999999999999
Q ss_pred ccccC
Q 046601 211 DILDL 215 (233)
Q Consensus 211 ElPll 215 (233)
|-=+.
T Consensus 251 H~vfs 255 (314)
T COG0462 251 HGVFS 255 (314)
T ss_pred chhhC
Confidence 96554
No 18
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=87.21 E-value=0.65 Score=41.20 Aligned_cols=88 Identities=14% Similarity=0.117 Sum_probs=55.9
Q ss_pred CeEEEEcCHHHHhhh-hHHHHHc---cccCcch---hhhHH-----H-HHHhcCCcHHHHHHHHHHHHHHhhCCCCEEEE
Q 046601 141 LGIHVLMTNGILTAG-VLKLCYQ---IKATMEH---TLIPA-----V-DALNRKDVEGATNLLRRALQVLLARAVNIVIL 207 (233)
Q Consensus 141 ~rVGVLAT~gTi~sg-lY~~~l~---~~~~q~~---~v~~~-----I-~~vk~G~~~~~~~~l~~~~~~l~~~gaD~vIL 207 (233)
|+||+||--+.-.+- +|++..+ ..-+|.. +++-. + +.-+.|+.+++.+.|.++...|.+.|||.+++
T Consensus 2 k~iGilGGMgpeST~~yyr~ine~~~~~~g~~h~~~i~~~s~~f~~~~~~q~~~~w~~~~~~L~~~a~~Le~~GAd~i~l 81 (230)
T COG1794 2 KTIGILGGMGPESTAPYYRKINEAVRAKLGGLHSAELLLYSVDFPEIETLQRAGEWDEAGEILIDAAKKLERAGADFIVL 81 (230)
T ss_pred ceeEeccCCChHHHHHHHHHHHHHHHHHhCCcCcchhheecCCcccHHHHHccCccccHHHHHHHHHHHHHhcCCCEEEE
Confidence 578888655544444 4555544 1122222 12111 2 23566778888999999999999999999999
Q ss_pred cCCccccCCCC-CCCCCCeEec
Q 046601 208 ASNDILDLLPP-DDPLFNKCID 228 (233)
Q Consensus 208 GCTElPll~~~-~~~~~v~iID 228 (233)
.|-=-..+.+. ....++|+|+
T Consensus 82 ~~NT~H~~~d~iq~~~~iPllh 103 (230)
T COG1794 82 PTNTMHKVADDIQKAVGIPLLH 103 (230)
T ss_pred eCCcHHHHHHHHHHhcCCCeeh
Confidence 99877766665 3334566554
No 19
>TIGR00222 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase. Members of this family are 3-methyl-2-oxobutanoate hydroxymethyltransferase, the first enzyme of the pantothenate biosynthesis pathway. An alternate name is ketopantoate hydroxymethyltransferase.
Probab=85.38 E-value=1.5 Score=39.71 Aligned_cols=32 Identities=22% Similarity=0.347 Sum_probs=28.2
Q ss_pred HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 97 FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
.++++||++++++|-. +....++. +++|+++|
T Consensus 168 a~e~AGA~~ivlE~vp-~~~a~~It~~l~iP~iGI 201 (263)
T TIGR00222 168 ALEEAGAQLLVLECVP-VELAAKITEALAIPVIGI 201 (263)
T ss_pred HHHHcCCCEEEEcCCc-HHHHHHHHHhCCCCEEee
Confidence 8999999999999999 45667776 89999999
No 20
>COG2048 HdrB Heterodisulfide reductase, subunit B [Energy production and conversion]
Probab=84.37 E-value=1.2 Score=40.94 Aligned_cols=33 Identities=27% Similarity=0.427 Sum_probs=28.1
Q ss_pred HHHHcCCcEEeeccchhhhhHHhhc----------CCCCeech
Q 046601 97 FLEKLGACYSVIPCHIYRIWHDEVS----------CFVPFLHV 129 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~~del~----------~~vPii~i 129 (233)
.+.++|+|+||-||-+-|..+|+-| +++|++|.
T Consensus 217 ~~ke~gad~ivt~Cp~Chlq~D~~q~~i~~~~g~~~~~pv~~~ 259 (293)
T COG2048 217 SAKEAGADCIVTPCPLCHLQLDRGQPEIKKKFGIDYDIPVLHL 259 (293)
T ss_pred HHHhcCCCEEEecCccceeehhhccHHHHHhcCCCCCCceeeH
Confidence 5556699999999999999987665 67899998
No 21
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=84.19 E-value=1.8 Score=38.45 Aligned_cols=33 Identities=21% Similarity=0.207 Sum_probs=31.4
Q ss_pred HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 97 FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
.++..|+|+|++-|--.+...++|| +++||++-
T Consensus 169 a~~edgAeaIiLGCAGms~la~~Lq~~~gvPVIDg 203 (230)
T COG4126 169 ALKEDGAEAIILGCAGMSDLADQLQKAFGVPVIDG 203 (230)
T ss_pred HhhhcCCCEEEEcCccHHHHHHHHHHHhCCCcccc
Confidence 8899999999999999999999999 99999995
No 22
>PLN02424 ketopantoate hydroxymethyltransferase
Probab=83.63 E-value=2 Score=40.24 Aligned_cols=41 Identities=12% Similarity=0.173 Sum_probs=32.8
Q ss_pred HHHHHHHHH--HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 88 ALIAENLWS--FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 88 ~~I~~~l~~--~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
+...+.+.+ .|+++||..||++|-... ...++. +++|.|+|
T Consensus 179 ~~a~~li~dA~ale~AGAf~ivLE~Vp~~-la~~It~~l~IPtIGI 223 (332)
T PLN02424 179 ESAVKVVETALALQEAGCFAVVLECVPAP-VAAAITSALQIPTIGI 223 (332)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEcCCcHH-HHHHHHHhCCCCEEee
Confidence 334443333 999999999999999988 667776 89999999
No 23
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=82.01 E-value=9.5 Score=37.86 Aligned_cols=104 Identities=11% Similarity=0.052 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHcCCcEEeeccchhhhhHHhhcCCCCeech-----hchHhHH--hhCCCeEEEEcCHHHHh-hhhHHHH
Q 046601 89 LIAENLWSFLEKLGACYSVIPCHIYRIWHDEVSCFVPFLHV-----TKSKPLE--VRSPLGIHVLMTNGILT-AGVLKLC 160 (233)
Q Consensus 89 ~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del~~~vPii~i-----~tv~~~~--~~~~~rVGVLAT~gTi~-sglY~~~ 160 (233)
+..+...+.++..|+|+|+-.=.||.+.-+. +++|||.| ...+.++ +...++|||++=+.++. ...+++.
T Consensus 51 ~~v~~~~~~~~~~~~dviIsrG~ta~~i~~~--~~iPVv~i~~s~~Dil~al~~a~~~~~~iavv~~~~~~~~~~~~~~~ 128 (538)
T PRK15424 51 KAVTYIRKRLATERCDAIIAAGSNGAYLKSR--LSVPVILIKPSGFDVMQALARARKLTSSIGVVTYQETIPALVAFQKT 128 (538)
T ss_pred HHHHHHHHHHhhCCCcEEEECchHHHHHHhh--CCCCEEEecCCHhHHHHHHHHHHhcCCcEEEEecCcccHHHHHHHHH
Confidence 3333444467778999999999999876543 67899988 2222221 12367999998766542 2234444
Q ss_pred HccccCcchhhhHHHHHHhcCCcHHHHHHHHHHHHHHhhCCCCEEEEc
Q 046601 161 YQIKATMEHTLIPAVDALNRKDVEGATNLLRRALQVLLARAVNIVILA 208 (233)
Q Consensus 161 l~~~~~q~~~v~~~I~~vk~G~~~~~~~~l~~~~~~l~~~gaD~vILG 208 (233)
+.-+-.+.. + ...+..+..+..+.++|+++||-+
T Consensus 129 l~~~i~~~~--------~------~~~~e~~~~v~~lk~~G~~~vvG~ 162 (538)
T PRK15424 129 FNLRIEQRS--------Y------VTEEDARGQINELKANGIEAVVGA 162 (538)
T ss_pred hCCceEEEE--------e------cCHHHHHHHHHHHHHCCCCEEEcC
Confidence 331111111 0 012345566677888899988844
No 24
>cd06557 KPHMT-like Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a precursor to coenzyme A and is required for penicillin biosynthesis.
Probab=81.86 E-value=2.6 Score=37.91 Aligned_cols=32 Identities=25% Similarity=0.343 Sum_probs=27.9
Q ss_pred HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 97 FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
.++++||++++++|-+. ....++. +++|+|+|
T Consensus 166 a~~~AGA~~i~lE~v~~-~~~~~i~~~v~iP~igi 199 (254)
T cd06557 166 ALEEAGAFALVLECVPA-ELAKEITEALSIPTIGI 199 (254)
T ss_pred HHHHCCCCEEEEcCCCH-HHHHHHHHhCCCCEEEe
Confidence 88999999999999975 4566666 89999999
No 25
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=81.20 E-value=3.7 Score=39.65 Aligned_cols=48 Identities=15% Similarity=0.314 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHcCCcEEeec--cchhhhh----HHhhc-CCCCeechhchHhHHh
Q 046601 90 IAENLWSFLEKLGACYSVIP--CHIYRIW----HDEVS-CFVPFLHVTKSKPLEV 137 (233)
Q Consensus 90 I~~~l~~~Le~~Gad~IVIa--CNTAH~~----~del~-~~vPii~i~tv~~~~~ 137 (233)
....+.+.|++.|||++++. |-|-|.. ..++. ..+|++||.++.++..
T Consensus 324 ~g~eIa~~Lk~dgVDAvILtstCgtCtrcga~m~keiE~~GIPvV~i~~~~pI~~ 378 (431)
T TIGR01917 324 FAKEFSKELLAAGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVHICTVTPIAL 378 (431)
T ss_pred HHHHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeechhHHH
Confidence 44456669999999999886 8888885 46777 8999999966666654
No 26
>PRK00311 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed
Probab=81.10 E-value=2.8 Score=37.89 Aligned_cols=32 Identities=25% Similarity=0.343 Sum_probs=28.0
Q ss_pred HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 97 FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
.++++||++|+++|-.. ....++. +++|+|+|
T Consensus 169 a~~eAGA~~i~lE~v~~-~~~~~i~~~l~iP~igi 202 (264)
T PRK00311 169 ALEEAGAFALVLECVPA-ELAKEITEALSIPTIGI 202 (264)
T ss_pred HHHHCCCCEEEEcCCCH-HHHHHHHHhCCCCEEEe
Confidence 88999999999999976 4666666 89999999
No 27
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=79.52 E-value=14 Score=36.55 Aligned_cols=99 Identities=11% Similarity=0.033 Sum_probs=59.2
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhcCCCCeech--------hchHhHHhhCCCeEEEEcCHHHHh-hhhHHHHHcc
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVSCFVPFLHV--------TKSKPLEVRSPLGIHVLMTNGILT-AGVLKLCYQI 163 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~~~vPii~i--------~tv~~~~~~~~~rVGVLAT~gTi~-sglY~~~l~~ 163 (233)
...+.+++.|+|+|+=.=.||...-+. +++||+.| .+++.++. ..++|||++=+.+.. ...+.+.+..
T Consensus 45 ~a~~~~~~~~~dviIsrG~ta~~i~~~--~~iPVv~i~~s~~Dil~al~~a~~-~~~~ia~vg~~~~~~~~~~~~~ll~~ 121 (526)
T TIGR02329 45 EIRQRLGAERCDVVVAGGSNGAYLKSR--LSLPVIVIKPTGFDVMQALARARR-IASSIGVVTHQDTPPALRRFQAAFNL 121 (526)
T ss_pred HHHHHHHhCCCcEEEECchHHHHHHHh--CCCCEEEecCChhhHHHHHHHHHh-cCCcEEEEecCcccHHHHHHHHHhCC
Confidence 333457788999999999999876543 57899888 22222322 367999998766543 2233444331
Q ss_pred ccCcchhhhHHHHHHhcCCcHHHHHHHHHHHHHHhhCCCCEEEEc
Q 046601 164 KATMEHTLIPAVDALNRKDVEGATNLLRRALQVLLARAVNIVILA 208 (233)
Q Consensus 164 ~~~q~~~v~~~I~~vk~G~~~~~~~~l~~~~~~l~~~gaD~vILG 208 (233)
+-.+.. + ...+..+..++.+.++|+++||-+
T Consensus 122 ~i~~~~--------~------~~~~e~~~~~~~l~~~G~~~viG~ 152 (526)
T TIGR02329 122 DIVQRS--------Y------VTEEDARSCVNDLRARGIGAVVGA 152 (526)
T ss_pred ceEEEE--------e------cCHHHHHHHHHHHHHCCCCEEECC
Confidence 111111 0 012345566677888899887733
No 28
>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=73.29 E-value=8 Score=37.42 Aligned_cols=52 Identities=15% Similarity=0.290 Sum_probs=38.9
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeec--cchhhhh----HHhhc-CCCCeechhchHhHHh
Q 046601 86 EHALIAENLWSFLEKLGACYSVIP--CHIYRIW----HDEVS-CFVPFLHVTKSKPLEV 137 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIa--CNTAH~~----~del~-~~vPii~i~tv~~~~~ 137 (233)
..+.....+.+.|.+.|||++++. |-|-|.. ..++. ..+|++||.++-++..
T Consensus 320 ~a~~~g~eIa~~Lk~dgVDAVILTstCgtC~r~~a~m~keiE~~GiPvv~~~~~~pis~ 378 (431)
T TIGR01918 320 ESKQFAKEFVVELKQGGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVHMCTVIPIAL 378 (431)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeecccHhh
Confidence 334555666679999999999886 8888885 46777 8999999955545443
No 29
>PRK10481 hypothetical protein; Provisional
Probab=72.55 E-value=4.8 Score=35.58 Aligned_cols=34 Identities=15% Similarity=0.273 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHhhCCCCEEEEcCCc-cccCCC
Q 046601 184 EGATNLLRRALQVLLARAVNIVILASND-ILDLLP 217 (233)
Q Consensus 184 ~~~~~~l~~~~~~l~~~gaD~vILGCTE-lPll~~ 217 (233)
+.....+++.++.|.+.|+|+++|.||- ||-+..
T Consensus 73 ~~v~~~lq~~i~~l~~~g~d~ivl~Ctgdfp~l~a 107 (224)
T PRK10481 73 QKVERDLQSVIEVLDNQGYDVILLLCTGEFPSLTA 107 (224)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEEecCCCCCccc
Confidence 3456789999999999999999999995 487554
No 30
>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=72.13 E-value=17 Score=31.88 Aligned_cols=54 Identities=7% Similarity=0.010 Sum_probs=32.1
Q ss_pred HHHHcCCcEEeeccchhhh--hHHhhc-CCCCeech-h-------------------------chHhHHhhCCCeEEEEc
Q 046601 97 FLEKLGACYSVIPCHIYRI--WHDEVS-CFVPFLHV-T-------------------------KSKPLEVRSPLGIHVLM 147 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~--~~del~-~~vPii~i-~-------------------------tv~~~~~~~~~rVGVLA 147 (233)
.+.+.+++.++.+..+... ..+.+. .++|+|.+ . .++.+...+.+||+++.
T Consensus 61 li~~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~ 140 (312)
T cd06333 61 LIEEDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIVEPKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIG 140 (312)
T ss_pred HHhhCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCccccCCCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEe
Confidence 4445689999887655432 344444 56666654 1 11234445678999997
Q ss_pred CHH
Q 046601 148 TNG 150 (233)
Q Consensus 148 T~g 150 (233)
.+.
T Consensus 141 ~~~ 143 (312)
T cd06333 141 FSD 143 (312)
T ss_pred cCc
Confidence 654
No 31
>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=70.67 E-value=9.6 Score=33.82 Aligned_cols=70 Identities=6% Similarity=-0.049 Sum_probs=44.3
Q ss_pred HHHHHHHHcCCcEEeeccchhh-hhHHhhc-CCCCe---------------ech-------hchHhHHhhCCCe-EEEEc
Q 046601 93 NLWSFLEKLGACYSVIPCHIYR-IWHDEVS-CFVPF---------------LHV-------TKSKPLEVRSPLG-IHVLM 147 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH-~~~del~-~~vPi---------------i~i-------~tv~~~~~~~~~r-VGVLA 147 (233)
..++.|.+.++|-+++.+.+.+ ..+..+. .++|+ +.+ .+.+++.++|.++ |++++
T Consensus 47 ~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~~~~iPvV~~~~~~~~~~~~~~V~~D~~~a~~~a~~~Li~~Gh~~~I~~i~ 126 (279)
T PF00532_consen 47 EYIELLLQRRVDGIILASSENDDEELRRLIKSGIPVVLIDRYIDNPEGVPSVYIDNYEAGYEATEYLIKKGHRRPIAFIG 126 (279)
T ss_dssp HHHHHHHHTTSSEEEEESSSCTCHHHHHHHHTTSEEEEESS-SCTTCTSCEEEEEHHHHHHHHHHHHHHTTCCSTEEEEE
T ss_pred HHHHHHHhcCCCEEEEecccCChHHHHHHHHcCCCEEEEEeccCCcccCCEEEEcchHHHHHHHHHHHhcccCCeEEEEe
Confidence 4556788899999999977666 2233333 33443 333 2334566678899 99998
Q ss_pred CHH---HHhhhh--HHHHHc
Q 046601 148 TNG---ILTAGV--LKLCYQ 162 (233)
Q Consensus 148 T~g---Ti~sgl--Y~~~l~ 162 (233)
.+. +.+.++ |+++++
T Consensus 127 ~~~~~~~~~~R~~Gy~~Al~ 146 (279)
T PF00532_consen 127 GPEDSSTSRERLQGYRDALK 146 (279)
T ss_dssp ESTTTHHHHHHHHHHHHHHH
T ss_pred cCcchHHHHHHHHHHHHHHH
Confidence 753 333444 777776
No 32
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=69.46 E-value=9.3 Score=29.04 Aligned_cols=60 Identities=13% Similarity=0.187 Sum_probs=38.1
Q ss_pred HHHHHHHHcCCcEEeeccchhhh---hHHhhc-CCCC-----eech--hchHhHHh-hCCCeEEEEcCHHHH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRI---WHDEVS-CFVP-----FLHV--TKSKPLEV-RSPLGIHVLMTNGIL 152 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~---~~del~-~~vP-----ii~i--~tv~~~~~-~~~~rVGVLAT~gTi 152 (233)
..+++|++.|..++++.=|+... +.+.++ .+++ |+.- ++.+.+++ ...++|-++|+++-.
T Consensus 21 e~l~~L~~~g~~~~~lTNns~~s~~~~~~~L~~~Gi~~~~~~i~ts~~~~~~~l~~~~~~~~v~vlG~~~l~ 92 (101)
T PF13344_consen 21 EALDALRERGKPVVFLTNNSSRSREEYAKKLKKLGIPVDEDEIITSGMAAAEYLKEHKGGKKVYVLGSDGLR 92 (101)
T ss_dssp HHHHHHHHTTSEEEEEES-SSS-HHHHHHHHHHTTTT--GGGEEEHHHHHHHHHHHHTTSSEEEEES-HHHH
T ss_pred HHHHHHHHcCCCEEEEeCCCCCCHHHHHHHHHhcCcCCCcCEEEChHHHHHHHHHhcCCCCEEEEEcCHHHH
Confidence 34448899998888887666555 346666 4433 2222 56666766 458899999999743
No 33
>PF09587 PGA_cap: Bacterial capsule synthesis protein PGA_cap; InterPro: IPR019079 CapA is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein [].
Probab=69.30 E-value=16 Score=32.03 Aligned_cols=117 Identities=11% Similarity=0.082 Sum_probs=66.7
Q ss_pred HHHHHHHHcCCcEEeeccchhhhh----------HHhhc-CCCCeech-hchHhH-----HhhCCCeEEEEcCHHHHhhh
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIW----------HDEVS-CFVPFLHV-TKSKPL-----EVRSPLGIHVLMTNGILTAG 155 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~----------~del~-~~vPii~i-~tv~~~-----~~~~~~rVGVLAT~gTi~sg 155 (233)
..++.|+.+|.|++-+|-| |.+ ++.++ .+++.++. ...+.. ...+..|||++|-.......
T Consensus 66 ~~~~~L~~~G~d~vslANN--H~~D~G~~gl~~Tl~~L~~~gi~~~Gag~~~~~a~~p~i~~~~g~kia~l~~t~~~~~~ 143 (250)
T PF09587_consen 66 EILDALKDAGFDVVSLANN--HIFDYGEEGLLDTLEALDKAGIPYVGAGRNLEEARRPAIIEVNGVKIAFLGYTDGENGY 143 (250)
T ss_pred HHHHHHHHcCCCEEEecCC--CCccccHHHHHHHHHHHHHCCCcEeECcCChHHhcCeEEEEECCEEEEEEEEEcCCCCC
Confidence 4466899999999999988 663 22333 67888886 322222 22346799999875544222
Q ss_pred hHHHH------------Hc---cccCcchhhhHHHHHHhcCC-------------cHHHHHHHHHHHHHHhhCCCCEEEE
Q 046601 156 VLKLC------------YQ---IKATMEHTLIPAVDALNRKD-------------VEGATNLLRRALQVLLARAVNIVIL 207 (233)
Q Consensus 156 lY~~~------------l~---~~~~q~~~v~~~I~~vk~G~-------------~~~~~~~l~~~~~~l~~~gaD~vIL 207 (233)
..... .. .....+. +.+.|...|.+. ........++..+.+.+.|||.||=
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-i~~~i~~~r~~~D~vIv~~HwG~e~~~~p~~~q~~~a~~lidaGaDiIiG 222 (250)
T PF09587_consen 144 SSANGNRPYGFSYRPDKAGLNPNRPGIER-IKEDIREARKKADVVIVSLHWGIEYENYPTPEQRELARALIDAGADIIIG 222 (250)
T ss_pred ccccccccccccccccccccccccchHHH-HHHHHHHHhcCCCEEEEEeccCCCCCCCCCHHHHHHHHHHHHcCCCEEEe
Confidence 11110 00 0001122 444454444311 1122456677888899999999996
Q ss_pred cCCcc
Q 046601 208 ASNDI 212 (233)
Q Consensus 208 GCTEl 212 (233)
+=+|.
T Consensus 223 ~HpHv 227 (250)
T PF09587_consen 223 HHPHV 227 (250)
T ss_pred CCCCc
Confidence 66654
No 34
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=68.86 E-value=9 Score=32.06 Aligned_cols=33 Identities=15% Similarity=0.240 Sum_probs=26.5
Q ss_pred HH-HHcCCcEEeeccchhhhh---HHhhc--CCCCeech
Q 046601 97 FL-EKLGACYSVIPCHIYRIW---HDEVS--CFVPFLHV 129 (233)
Q Consensus 97 ~L-e~~Gad~IVIaCNTAH~~---~del~--~~vPii~i 129 (233)
.| +..|+|+|+++|.-.+.+ .++++ .++||++-
T Consensus 169 ~l~~~~~~d~iiLgCt~l~~~~~~~~~l~~~~gipVid~ 207 (216)
T PF01177_consen 169 ELIKEDGADAIILGCTHLPLLLGAIEALEEELGIPVIDS 207 (216)
T ss_dssp HHHHCTTSSEEEEESTTGGGGHHHHHHHHHTCSSEEEEH
T ss_pred HHhccCCCCEEEECCCchHHHHHHHHhhcccCCCEEEcc
Confidence 44 589999999999999965 45555 68999995
No 35
>PTZ00145 phosphoribosylpyrophosphate synthetase; Provisional
Probab=67.51 E-value=13 Score=36.19 Aligned_cols=132 Identities=14% Similarity=0.071 Sum_probs=75.5
Q ss_pred cchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--C--CCCeech-h---chHhHHhhCCCeEEEEcCH
Q 046601 79 RSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--C--FVPFLHV-T---KSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 79 ~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~--~vPii~i-~---tv~~~~~~~~~rVGVLAT~ 149 (233)
|.+-...+.+.|...+.. .|+.+|+|.++.-- .|. ++++ + ++|+.++ + -++.++.......-|++-+
T Consensus 212 RQDR~~~~gepIsak~vA~lL~~~G~d~VitvD--lHs--~~i~~fF~~~iPvdnl~a~~~~a~~i~~~~l~~pVVVsPD 287 (439)
T PTZ00145 212 RQDRKLSSRVPISAADVARMIEAMGVDRVVAID--LHS--GQIQGFFGPRVPVDNLEAQLIGLDYFTKKDLYKPVIVSPD 287 (439)
T ss_pred heecccCCCCChhHHHHHHHHHHcCCCeEEEEe--cCh--HHHHhhcCCCcccccccccHHHHHHHhhcCCCccEEEccC
Confidence 444444445556656666 88888999887542 343 4455 4 3898887 2 2344433223455677766
Q ss_pred H--HHhhhhHHHHHc----------------cccCcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEE
Q 046601 150 G--ILTAGVLKLCYQ----------------IKATMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIV 205 (233)
Q Consensus 150 g--Ti~sglY~~~l~----------------~~~~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~v 205 (233)
. .-+.+.|++.+. +...+.. .+..+.+++... .+ ..-..+.++.+.|.+.|+..|
T Consensus 288 ~Ga~~RAr~~A~~L~~~~~~~~~~avl~K~R~~~~~v~-~~~lvgdV~Gk~vIIVDDIIdTG~Tl~~aa~~Lk~~GA~~V 366 (439)
T PTZ00145 288 AGGVYRARKFQDGLNHRGISDCGIAMLIKQRTKPNEIE-KMDLVGNVYDSDVIIVDDMIDTSGTLCEAAKQLKKHGARRV 366 (439)
T ss_pred cchHHHHHHHHHHhccccccCCCEEEEEeecCCCCceE-EEeccCCCCCCEEEEEcceeCcHHHHHHHHHHHHHcCCCEE
Confidence 2 334455677763 1111211 222222333222 11 134678899999999999999
Q ss_pred EEcCCccccC
Q 046601 206 ILASNDILDL 215 (233)
Q Consensus 206 ILGCTElPll 215 (233)
...|||-=+.
T Consensus 367 ~~~~THglfs 376 (439)
T PTZ00145 367 FAFATHGLFS 376 (439)
T ss_pred EEEEEcccCC
Confidence 9999996444
No 36
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=67.21 E-value=14 Score=28.78 Aligned_cols=55 Identities=15% Similarity=0.129 Sum_probs=38.6
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeech-hchHhHHh-hC-CCeEEEEc
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHV-TKSKPLEV-RS-PLGIHVLM 147 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i-~tv~~~~~-~~-~~rVGVLA 147 (233)
..++.|..-.+++|+||.|+.--.-+++. .++||+.- .+--++-. -| .-+||.||
T Consensus 26 ~tiK~lk~gkaKliiiAsN~P~~~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~v~~la 88 (100)
T COG1911 26 RTIKSLKLGKAKLIIIASNCPKELKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPFRVAALA 88 (100)
T ss_pred HHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCceEEEEE
Confidence 34447777889999999999988778887 48999886 33333321 11 44788876
No 37
>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=63.73 E-value=33 Score=30.21 Aligned_cols=33 Identities=15% Similarity=0.072 Sum_probs=17.8
Q ss_pred HHHHcCCcEEeeccchhhhh--HHhhc-CCCCeech
Q 046601 97 FLEKLGACYSVIPCHIYRIW--HDEVS-CFVPFLHV 129 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~--~del~-~~vPii~i 129 (233)
...+.+++.|+.++.+.... .+.++ .++|+|..
T Consensus 60 lv~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~ 95 (336)
T cd06360 60 LIEQDKVDVVVGPVHSGEALAMVKVLREPGTPLINP 95 (336)
T ss_pred HHHHhCCcEEEccCccHhHHHHHHHHHhcCceEEec
Confidence 44556888877776544322 23333 45555543
No 38
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=61.72 E-value=8.8 Score=34.04 Aligned_cols=47 Identities=13% Similarity=0.116 Sum_probs=37.8
Q ss_pred hhhhhHHHHHHHHHHHHHHcCCcEEeeccchhhhh--HHhhc--CCCCeech
Q 046601 82 LLKLEHALIAENLWSFLEKLGACYSVIPCHIYRIW--HDEVS--CFVPFLHV 129 (233)
Q Consensus 82 ~~~~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~--~del~--~~vPii~i 129 (233)
-+..+++.+.+.+.+. ...++|+|+|.|.-.+.+ .+++. .++||+.-
T Consensus 162 ia~i~p~~i~~~~~~~-~~~~aDAifisCTnLrt~~vi~~lE~~lGkPVlsS 212 (239)
T TIGR02990 162 MARISPDCIVEAALAA-FDPDADALFLSCTALRAATCAQRIEQAIGKPVVTS 212 (239)
T ss_pred eeecCHHHHHHHHHHh-cCCCCCEEEEeCCCchhHHHHHHHHHHHCCCEEEH
Confidence 4457788877766553 467999999999999987 68887 89999997
No 39
>smart00854 PGA_cap Bacterial capsule synthesis protein PGA_cap. This protein is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein.
Probab=61.36 E-value=27 Score=30.30 Aligned_cols=118 Identities=13% Similarity=0.088 Sum_probs=62.1
Q ss_pred HHHHHHHHcCCcEEeeccchhhhh---HHh-------hc-CCCCeech-hchHh-----HHhhCCCeEEEEcCHHHHhhh
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIW---HDE-------VS-CFVPFLHV-TKSKP-----LEVRSPLGIHVLMTNGILTAG 155 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~---~de-------l~-~~vPii~i-~tv~~-----~~~~~~~rVGVLAT~gTi~sg 155 (233)
.+++.|++.|.|++.++-| |.| .+. ++ .++|.++. ...+. +...+..|||++|=......+
T Consensus 64 ~~~~~l~~~G~d~~~laNN--H~fD~G~~gl~~t~~~l~~a~i~~~g~~~~~~~~~~~~i~~~~g~kIg~ig~t~~~~~~ 141 (239)
T smart00854 64 ENAAALKAAGFDVVSLANN--HSLDYGEEGLLDTLAALDAAGIAHVGAGRNLAEARKPAIVEVKGIKIALLAYTYGTNNG 141 (239)
T ss_pred HHHHHHHHhCCCEEEeccC--cccccchHHHHHHHHHHHHCCCCEeeCCCChHHhhCcEEEEECCEEEEEEEEEcCCCCC
Confidence 4566899999999999988 554 222 22 57888886 22221 122346689999732211111
Q ss_pred hHHHH----Hc--cccCcchhhhHHHHHHhcCC----------cH---HHHHHHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 156 VLKLC----YQ--IKATMEHTLIPAVDALNRKD----------VE---GATNLLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 156 lY~~~----l~--~~~~q~~~v~~~I~~vk~G~----------~~---~~~~~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
..... +. .....+. +...+..+|.+. .+ ......++..+.+.+.|+|.||-|=+|.+
T Consensus 142 ~~~~~~~~g~~~~~~~~~~~-i~~~i~~lr~~~D~vIv~~H~G~e~~~~p~~~~~~~A~~l~~~G~DvIiG~H~H~~ 217 (239)
T smart00854 142 WAASKDRPGVALLPDLDREK-ILADIARARKKADVVIVSLHWGVEYQYEPTDEQRELAHALIDAGADVVIGHHPHVL 217 (239)
T ss_pred cccCCCCCCeeecCcCCHHH-HHHHHHHHhccCCEEEEEecCccccCCCCCHHHHHHHHHHHHcCCCEEEcCCCCcC
Confidence 11000 00 0001111 223333333221 00 11233456677787889999998888855
No 40
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=61.34 E-value=42 Score=30.41 Aligned_cols=42 Identities=7% Similarity=-0.171 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHcCCcEEeeccchhhhh-H-Hhhc-CCCCeech
Q 046601 88 ALIAENLWSFLEKLGACYSVIPCHIYRIW-H-DEVS-CFVPFLHV 129 (233)
Q Consensus 88 ~~I~~~l~~~Le~~Gad~IVIaCNTAH~~-~-del~-~~vPii~i 129 (233)
+.-.....+..++-|+++|+-++++.... . +.+. .++|+|..
T Consensus 55 ~~a~~~a~~li~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~ 99 (357)
T cd06337 55 NRAGLVAQELILTDKVDLLLAGGTPDTTNPVSDQCEANGVPCIST 99 (357)
T ss_pred HHHHHHHHHHHhccCccEEEecCCcchhhHHHHHHHHhCCCeEEe
Confidence 33343444455555888888777766654 2 3333 66776664
No 41
>PF02548 Pantoate_transf: Ketopantoate hydroxymethyltransferase; InterPro: IPR003700 The panB gene from Escherichia coli encodes the first enzyme of the pantothenate biosynthesis pathway, ketopantoate hydroxymethyltransferase (KPHMT) 2.1.2.11 from EC. Fungal ketopantoate hydroxymethyltransferase is essential for the biosynthesis of coenzyme A, while the pathway intermediate 4'-phosphopantetheine is required for penicillin production [].; GO: 0003864 3-methyl-2-oxobutanoate hydroxymethyltransferase activity, 0015940 pantothenate biosynthetic process; PDB: 3VAV_G 1M3U_A 3EZ4_J 1O68_C 1O66_A 1OY0_D.
Probab=60.61 E-value=16 Score=33.18 Aligned_cols=44 Identities=18% Similarity=0.192 Sum_probs=30.8
Q ss_pred hhHHHHHHHHHH--HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 85 LEHALIAENLWS--FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 85 ~~~~~I~~~l~~--~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
++.++..+.+.+ .|+++||-++|+=|-.+... .++. ++||.|+|
T Consensus 156 k~~~~a~~l~~~A~ale~AGaf~ivlE~vp~~la-~~It~~l~IPtIGI 203 (261)
T PF02548_consen 156 KTAEEAEKLLEDAKALEEAGAFAIVLECVPAELA-KAITEALSIPTIGI 203 (261)
T ss_dssp TSHHHHHHHHHHHHHHHHHT-SEEEEESBBHHHH-HHHHHHSSS-EEEE
T ss_pred cCHHHHHHHHHHHHHHHHcCccEEeeecCHHHHH-HHHHHhCCCCEEec
Confidence 344555555555 99999999999999776654 4444 89999999
No 42
>PRK07475 hypothetical protein; Provisional
Probab=59.29 E-value=25 Score=31.09 Aligned_cols=40 Identities=15% Similarity=0.130 Sum_probs=31.7
Q ss_pred HHH--HcCCcEEeeccchhhhhHHhhc--CCCCeech-hchHhHH
Q 046601 97 FLE--KLGACYSVIPCHIYRIWHDEVS--CFVPFLHV-TKSKPLE 136 (233)
Q Consensus 97 ~Le--~~Gad~IVIaCNTAH~~~del~--~~vPii~i-~tv~~~~ 136 (233)
.|. ..|+++|++.|--...+.++++ .++|+++. ..+..+.
T Consensus 189 ~l~~~~~~~daIvL~CTeLp~~~~~le~~~glPViDs~t~~~w~~ 233 (245)
T PRK07475 189 ALLERHPDIGAIVLECTNMPPYAAAIQRATGLPVFDIVTLINWLH 233 (245)
T ss_pred HHHhhCCCCCEEEEcCcChHHHHHHHHHhcCCCEEeHHHHHHHHH
Confidence 454 3499999999998888888887 89999998 5555544
No 43
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=58.97 E-value=14 Score=32.69 Aligned_cols=31 Identities=16% Similarity=0.291 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHhhCCCCEEEEcCC-ccccC
Q 046601 185 GATNLLRRALQVLLARAVNIVILASN-DILDL 215 (233)
Q Consensus 185 ~~~~~l~~~~~~l~~~gaD~vILGCT-ElPll 215 (233)
.....+++.++.+.++|+|+++|-|| +||-+
T Consensus 71 ~v~~~lq~~i~~le~~G~d~illlCTG~F~~l 102 (221)
T PF07302_consen 71 KVEPRLQACIAQLEAQGYDVILLLCTGEFPGL 102 (221)
T ss_pred HHHHHHHHHHHHHHHCCCCEEEEeccCCCCCC
Confidence 45678999999999999999999999 56743
No 44
>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=58.87 E-value=49 Score=27.70 Aligned_cols=42 Identities=12% Similarity=-0.031 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHcCCcEEeeccchhhh--hHHhhc-CCCCeech
Q 046601 88 ALIAENLWSFLEKLGACYSVIPCHIYRI--WHDEVS-CFVPFLHV 129 (233)
Q Consensus 88 ~~I~~~l~~~Le~~Gad~IVIaCNTAH~--~~del~-~~vPii~i 129 (233)
+.....+.+..++.|+++|+.+..+... ..+... .++|+|..
T Consensus 53 ~~~~~~~~~l~~~~~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~ 97 (299)
T cd04509 53 ARALAAARRLCQQEGVDALVGPVSSGVALAVAPVAEALKIPLISP 97 (299)
T ss_pred HHHHHHHHHHhcccCceEEEcCCCcHHHHHHHHHHhhCCceEEec
Confidence 3333333334444489988887554222 223233 55665554
No 45
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=58.47 E-value=28 Score=30.61 Aligned_cols=12 Identities=0% Similarity=0.130 Sum_probs=8.5
Q ss_pred hCCCeEEEEcCH
Q 046601 138 RSPLGIHVLMTN 149 (233)
Q Consensus 138 ~~~~rVGVLAT~ 149 (233)
.+.++|++++..
T Consensus 133 ~g~~~v~iv~~~ 144 (343)
T PF13458_consen 133 LGAKKVAIVYPD 144 (343)
T ss_dssp TTTSEEEEEEES
T ss_pred cCCcEEEEEecC
Confidence 346788888755
No 46
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=58.14 E-value=45 Score=30.13 Aligned_cols=44 Identities=11% Similarity=-0.010 Sum_probs=28.2
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhh----hhHHhhc--CCCCeech
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYR----IWHDEVS--CFVPFLHV 129 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH----~~~del~--~~vPii~i 129 (233)
++......+.++|.+.++.+|+-|.++.. .....+. .++|+|+.
T Consensus 47 d~~~~~~~~~~~l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~ 96 (362)
T cd06367 47 DPISLLLSVCDLLVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGI 96 (362)
T ss_pred CHHHHHHHHHHHhcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEe
Confidence 34455556666777778888877766553 2344444 78888876
No 47
>cd06345 PBP1_ABC_ligand_binding_like_10 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=57.37 E-value=35 Score=30.50 Aligned_cols=23 Identities=17% Similarity=0.170 Sum_probs=17.8
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCc
Q 046601 189 LLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.+...+..+.+.++|+|+++++.
T Consensus 187 d~~~~v~~l~~~~~d~v~~~~~~ 209 (344)
T cd06345 187 DFTPILQQIKAADPDVIIAGFSG 209 (344)
T ss_pred chHHHHHHHHhcCCCEEEEeecC
Confidence 35566777778889999998875
No 48
>PRK02269 ribose-phosphate pyrophosphokinase; Provisional
Probab=56.40 E-value=28 Score=32.14 Aligned_cols=130 Identities=15% Similarity=0.143 Sum_probs=70.4
Q ss_pred cchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech---hch-HhHHhhCC--CeEEE--Ec
Q 046601 79 RSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV---TKS-KPLEVRSP--LGIHV--LM 147 (233)
Q Consensus 79 ~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i---~tv-~~~~~~~~--~rVGV--LA 147 (233)
|.+......+.|...+.. .|+.+|+|-++.=- .|. +.++ +++|+.++ +.. ++++.++. ...-| -.
T Consensus 98 RQDr~~~~~e~isak~~a~ll~~~g~d~vit~D--~H~--~~~~~~f~~p~~~l~~~p~l~~~i~~~~~~~~~~vvVsPd 173 (320)
T PRK02269 98 RQDRKARSREPITSKLVANMLEVAGVDRLLTVD--LHA--AQIQGFFDIPVDHLMGAPLIADYFDRRGLVGDDVVVVSPD 173 (320)
T ss_pred hhhcccCCCCCchHHHHHHHHhhcCCCEEEEEC--CCh--HHHhccccCCchhhhhHHHHHHHHHHhCCCCCCcEEEEEC
Confidence 333333334455555555 88888999886432 242 4455 78888777 333 44544321 22222 23
Q ss_pred CHHHHhhhhHHHHHc------cc--c----CcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcC
Q 046601 148 TNGILTAGVLKLCYQ------IK--A----TMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILAS 209 (233)
Q Consensus 148 T~gTi~sglY~~~l~------~~--~----~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGC 209 (233)
+-|......+-+.+. +. . .... ......+++... .+ ..-..+.++.+.|.++|+..|...|
T Consensus 174 ~G~~~~A~~lA~~lg~~~~~~~k~r~~~~~~~~~-~~~~~gdv~Gr~viIVDDIidTG~Tl~~aa~~Lk~~GA~~V~~~~ 252 (320)
T PRK02269 174 HGGVTRARKLAQFLKTPIAIIDKRRSVDKMNTSE-VMNIIGNVKGKKCILIDDMIDTAGTICHAADALAEAGATEVYASC 252 (320)
T ss_pred ccHHHHHHHHHHHhCCCEEEEEecccCCCCceeE-EEEeccccCCCEEEEEeeecCcHHHHHHHHHHHHHCCCCEEEEEE
Confidence 444555555555554 11 0 0011 111222233222 11 2346788999999999999999999
Q ss_pred Cccc
Q 046601 210 NDIL 213 (233)
Q Consensus 210 TElP 213 (233)
||-=
T Consensus 253 tHgl 256 (320)
T PRK02269 253 THPV 256 (320)
T ss_pred ECcc
Confidence 9943
No 49
>cd06556 ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), 2-methylisocitrate lyase (MICL), and ketopantoate hydroxymethyltransferase (KPHMT).
Probab=56.27 E-value=21 Score=31.70 Aligned_cols=32 Identities=16% Similarity=0.228 Sum_probs=24.9
Q ss_pred HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 97 FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
.++++|||+|+++|- -.....++. +++|++.+
T Consensus 164 ay~~AGAd~i~~e~~-~~e~~~~i~~~~~~P~~~~ 197 (240)
T cd06556 164 AYAPAGADLIVMECV-PVELAKQITEALAIPLAGI 197 (240)
T ss_pred HHHHcCCCEEEEcCC-CHHHHHHHHHhCCCCEEEE
Confidence 788999999999987 333345555 78999887
No 50
>PRK02458 ribose-phosphate pyrophosphokinase; Provisional
Probab=56.04 E-value=24 Score=32.73 Aligned_cols=130 Identities=14% Similarity=0.100 Sum_probs=72.0
Q ss_pred cchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech---h-chHhHHhhCC--CeEEEEc--
Q 046601 79 RSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV---T-KSKPLEVRSP--LGIHVLM-- 147 (233)
Q Consensus 79 ~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i---~-tv~~~~~~~~--~rVGVLA-- 147 (233)
|.+....+.+.|...... .|+..|+|.++.-- .| .++++ +++|+-++ + -.++++..+. ..+-|++
T Consensus 102 RQDr~~~~ge~isak~~a~lL~~~g~d~vitvD--~H--~~~i~~~F~~p~~nl~~~p~~~~~l~~~~~~~~~~vvV~pd 177 (323)
T PRK02458 102 RQDRIAKPREPITAKLVANMLVKAGVDRVLTLD--LH--AVQVQGFFDIPVDNLFTVPLFAKHYCKKGLSGSDVVVVSPK 177 (323)
T ss_pred hhhcccCCCCCchHHHHHHHHhhcCCCeEEEEe--cC--cHHhhccccCCceEEEEHHHHHHHHHHhCCCCCceEEEEEC
Confidence 444444444455555555 88888999987542 34 24555 67888777 2 2334444321 3344443
Q ss_pred CHHHHhhhhHHHHHc------c---ccCcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcCCcc
Q 046601 148 TNGILTAGVLKLCYQ------I---KATMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILASNDI 212 (233)
Q Consensus 148 T~gTi~sglY~~~l~------~---~~~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGCTEl 212 (233)
+-+....+.+-+.+. + ...... ......+++... .+ ..-..+.++.+.|+++|+..|...|||-
T Consensus 178 ~Ga~~~A~~la~~L~~~~~~~~~~r~~~~~~-~~~i~gdV~gk~viIVDDIidTG~Tl~~aa~~Lk~~GA~~V~~~~tHg 256 (323)
T PRK02458 178 NSGIKRARSLAEYLDAPIAIIDYAQDDSERE-EGYIIGDVAGKKAILIDDILNTGKTFAEAAKIVEREGATEIYAVASHG 256 (323)
T ss_pred CChHHHHHHHHHHhCCCEEEEEEecCCCcce-eeccccccCCCEEEEEcceeCcHHHHHHHHHHHHhCCCCcEEEEEECh
Confidence 335555555666655 1 000111 111111233222 12 1346788999999999999999999995
Q ss_pred c
Q 046601 213 L 213 (233)
Q Consensus 213 P 213 (233)
=
T Consensus 257 i 257 (323)
T PRK02458 257 L 257 (323)
T ss_pred h
Confidence 3
No 51
>PRK01259 ribose-phosphate pyrophosphokinase; Provisional
Probab=55.27 E-value=29 Score=31.90 Aligned_cols=130 Identities=16% Similarity=0.173 Sum_probs=71.2
Q ss_pred cchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech----hchHhHHhhCCC--eEEEEcCH
Q 046601 79 RSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV----TKSKPLEVRSPL--GIHVLMTN 149 (233)
Q Consensus 79 ~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i----~tv~~~~~~~~~--rVGVLAT~ 149 (233)
|.+-.....+.+...... .|+.+|+|.++.--. |. +.++ +++|+-++ .-.+++++++.. .|.=...-
T Consensus 93 RQDr~~~~ge~isak~~a~lL~~~g~d~vitvD~--H~--~~~~~~f~~p~~~l~~~~~l~~~i~~~~~~~~vvv~pd~G 168 (309)
T PRK01259 93 RQDRKARSRVPITAKLVANLLETAGADRVLTMDL--HA--DQIQGFFDIPVDNLYGSPILLEDIKQKNLENLVVVSPDVG 168 (309)
T ss_pred hhhhhhccCCCchHHHHHHHHhhcCCCEEEEEcC--Ch--HHHcCcCCCCceeeeecHHHHHHHHhcCCCCcEEEEECCC
Confidence 333333333344444444 888999999875433 42 4555 67888777 233445444322 33334555
Q ss_pred HHHhhhhHHHHHc------ccc----CcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 150 GILTAGVLKLCYQ------IKA----TMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 150 gTi~sglY~~~l~------~~~----~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
|......+.+.+. +.. .... .......++... .+ .....+.++++.+++.|+..+.+.|||-=
T Consensus 169 g~~~A~~la~~Lg~~~~~~~k~r~~~~~~~-~~~~~~~~~g~~vliVDDii~TG~T~~~a~~~l~~~Ga~~v~~~~tH~i 247 (309)
T PRK01259 169 GVVRARALAKRLDADLAIIDKRRPRANVSE-VMNIIGDVEGRDCILVDDMIDTAGTLCKAAEALKERGAKSVYAYATHPV 247 (309)
T ss_pred cHHHHHHHHHHhCCCEEEEEeecccceeEE-EEeecccCCCCEEEEEecccCcHHHHHHHHHHHHccCCCEEEEEEEeee
Confidence 6666666666665 110 0000 111111233211 11 12456788889999999999999999853
No 52
>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=54.64 E-value=25 Score=28.78 Aligned_cols=39 Identities=23% Similarity=0.144 Sum_probs=29.8
Q ss_pred HHHHHHHHHHcCCcEE-eeccchhhhhHHhhc-C-CCCeech
Q 046601 91 AENLWSFLEKLGACYS-VIPCHIYRIWHDEVS-C-FVPFLHV 129 (233)
Q Consensus 91 ~~~l~~~Le~~Gad~I-VIaCNTAH~~~del~-~-~vPii~i 129 (233)
.+.+.+.|++.|++.+ -+|+.....+++.++ . .+.++..
T Consensus 4 ~~~l~~~L~~~Gv~~vfgvpG~~~~~l~~al~~~~~i~~i~~ 45 (172)
T PF02776_consen 4 AEALAEALKANGVTHVFGVPGSGNLPLLDALEKSPGIRFIPV 45 (172)
T ss_dssp HHHHHHHHHHTT-SEEEEE--GGGHHHHHHHHHTTTSEEEE-
T ss_pred HHHHHHHHHHCCCeEEEEEeChhHhHHHHHhhhhcceeeecc
Confidence 4577889999999887 899999888999999 6 5888887
No 53
>PRK00865 glutamate racemase; Provisional
Probab=54.41 E-value=27 Score=31.01 Aligned_cols=43 Identities=16% Similarity=0.229 Sum_probs=29.6
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhc--C--CCCeech--hchHhH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVS--C--FVPFLHV--TKSKPL 135 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~--~--~vPii~i--~tv~~~ 135 (233)
..++.|++.|+|.||+.|--...+.++++ + ++|+|+- ..++.+
T Consensus 168 ~~l~~l~~~g~d~iILGCTh~p~l~~~i~~~~~~~v~vIDp~~~~a~~~ 216 (261)
T PRK00865 168 EYLAPLLAAGIDTLVLGCTHYPLLKPEIQQVLGEGVTLIDSGEAIARRV 216 (261)
T ss_pred HHHHHHhcCCCCEEEECCcCHHHHHHHHHHHcCCCCEEECCHHHHHHHH
Confidence 33346677899999999975555567777 3 4899985 444443
No 54
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=53.24 E-value=1.5e+02 Score=27.43 Aligned_cols=150 Identities=11% Similarity=0.076 Sum_probs=78.3
Q ss_pred cCCCCCCceEEeeCchh------hhhhhcCCCCCCCCCCCcchhhhhhHHHHHHHHHHHHHHcCCcEEeeccchhhh---
Q 046601 45 LQTDESGKFLVGSNPVL------SKDLLSHERNSLPSLNGRSDLLKLEHALIAENLWSFLEKLGACYSVIPCHIYRI--- 115 (233)
Q Consensus 45 ~~Dqeh~~~iv~~~p~i------t~~il~~~~~p~~~~~~~~~~~~~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~--- 115 (233)
..|++..|++...-|.- -.+|+..=.-|.. .+ ...+.......+.|...|+.++||== .|.
T Consensus 90 d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~---~~-----~~~~~~~~~~~~llr~~~vrmLIIDE--~H~lLa 159 (302)
T PF05621_consen 90 DEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYR---PR-----DRVAKLEQQVLRLLRRLGVRMLIIDE--FHNLLA 159 (302)
T ss_pred CCCCccccEEEEecCCCCChHHHHHHHHHHhCcccC---CC-----CCHHHHHHHHHHHHHHcCCcEEEeec--hHHHhc
Confidence 46788999999988764 3445553333443 01 11122333344589999999999841 132
Q ss_pred --------hHHhhc-----CCCCeech---hchHhHHhhC--CCeEEEEcCHHHHhhhhHHHHHc-----------cccC
Q 046601 116 --------WHDEVS-----CFVPFLHV---TKSKPLEVRS--PLGIHVLMTNGILTAGVLKLCYQ-----------IKAT 166 (233)
Q Consensus 116 --------~~del~-----~~vPii~i---~tv~~~~~~~--~~rVGVLAT~gTi~sglY~~~l~-----------~~~~ 166 (233)
++..++ ..+|+|.+ .+...+..-. ..|.-.+.=+.=-...-|++.+. +.-.
T Consensus 160 Gs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~ 239 (302)
T PF05621_consen 160 GSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLA 239 (302)
T ss_pred ccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCC
Confidence 344454 67999988 2222221100 11111111111111223444443 1111
Q ss_pred cchhhhHHHHHHhcCCcHHHHHHHHHHHHHHhhCCCCEE
Q 046601 167 MEHTLIPAVDALNRKDVEGATNLLRRALQVLLARAVNIV 205 (233)
Q Consensus 167 q~~~v~~~I~~vk~G~~~~~~~~l~~~~~~l~~~gaD~v 205 (233)
... +...|+..-.|...+....+..+...-...|.+.|
T Consensus 240 ~~~-la~~i~~~s~G~iG~l~~ll~~aA~~AI~sG~E~I 277 (302)
T PF05621_consen 240 SPE-LARRIHERSEGLIGELSRLLNAAAIAAIRSGEERI 277 (302)
T ss_pred CHH-HHHHHHHHcCCchHHHHHHHHHHHHHHHhcCCcee
Confidence 222 55666766667766667777777766666777654
No 55
>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=53.15 E-value=72 Score=28.01 Aligned_cols=33 Identities=9% Similarity=-0.229 Sum_probs=16.9
Q ss_pred HHHHH-cCCcEEeeccchhh--hhHHhhc-CCCCeec
Q 046601 96 SFLEK-LGACYSVIPCHIYR--IWHDEVS-CFVPFLH 128 (233)
Q Consensus 96 ~~Le~-~Gad~IVIaCNTAH--~~~del~-~~vPii~ 128 (233)
+.|.. .++++|+.+.-+.+ ...+.++ .++|+|.
T Consensus 61 ~~l~~~~~v~avig~~~s~~~~~~~~~~~~~~iP~i~ 97 (336)
T cd06326 61 RKLIEDDKVFALFGYVGTPTTAAALPLLEEAGVPLVG 97 (336)
T ss_pred HHHHhhcCcEEEEeCCCchhHHHHHHHHHHcCCeEEE
Confidence 34444 48888887643322 2234444 4555554
No 56
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=52.55 E-value=1.2e+02 Score=26.53 Aligned_cols=41 Identities=5% Similarity=-0.138 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHcCCcEEeeccchhhhh--HHhhc-CCCCeech
Q 046601 88 ALIAENLWSFLEKLGACYSVIPCHIYRIW--HDEVS-CFVPFLHV 129 (233)
Q Consensus 88 ~~I~~~l~~~Le~~Gad~IVIaCNTAH~~--~del~-~~vPii~i 129 (233)
+..++...+..++ +|++|+=|-++.... .+.++ .++|+|+.
T Consensus 53 ~~~~~~~~~li~~-~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~ 96 (334)
T cd06342 53 KQAVAVAQKLVDD-GVVGVVGHLNSGVTIPASPIYADAGIVMISP 96 (334)
T ss_pred HHHHHHHHHHHhC-CceEEECCCccHhHHHhHHHHHhCCCeEEec
Confidence 3333333334455 999888664444432 45555 77888875
No 57
>PRK00553 ribose-phosphate pyrophosphokinase; Provisional
Probab=52.37 E-value=23 Score=32.93 Aligned_cols=131 Identities=16% Similarity=0.159 Sum_probs=73.4
Q ss_pred CcchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech-h---chHhHHhh-CCCeEEEEcC-
Q 046601 78 GRSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV-T---KSKPLEVR-SPLGIHVLMT- 148 (233)
Q Consensus 78 ~~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i-~---tv~~~~~~-~~~rVGVLAT- 148 (233)
.|.+-...+.+.|...+.. .|+.+|+|.++.-- .| -++++ +++|+.++ + -++++... +...+-|+|.
T Consensus 101 aRQDr~~~~~e~isak~vA~ll~~~g~d~vit~D--lH--~~~i~~~F~ipv~~l~a~~~~~~~~~~~~~~~~~vvVsPD 176 (332)
T PRK00553 101 ARQDRKTAGREPITSKLVADLLTKAGVTRVTLTD--IH--SDQTQGFFDIPVDILRTYHVFLSRVLELLGKKDLVVVSPD 176 (332)
T ss_pred chhhcccCCCCCccHHHHHHHHHhcCCCEEEEEe--CC--hHHHHhhcCCCcceeechHHHHHHHHHhcCCCCeEEEEEC
Confidence 3444444445555556666 88889999987643 35 35666 78898776 2 23444332 2334445443
Q ss_pred -HHHHhhhhHHHHHc------ccc----CcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcCCc
Q 046601 149 -NGILTAGVLKLCYQ------IKA----TMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 149 -~gTi~sglY~~~l~------~~~----~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.|.-....|.+.+. ++. .... .+....+++... .+ .....+.++.+.|.+.|+..+...|||
T Consensus 177 ~gg~~rA~~lA~~lg~~~~vi~K~r~~~~~~~-~~~~~gdv~Gk~VIIVDDIi~TG~Tl~~aa~~Lk~~GA~~V~~~atH 255 (332)
T PRK00553 177 YGGVKRARLIAESLELPLAIIDKRRPKHNVAE-SINVLGEVKNKNCLIVDDMIDTGGTVIAAAKLLKKQKAKKVCVMATH 255 (332)
T ss_pred CCcHHHHHHHHHHhCCCEEEEEEecCCcceEe-eEEeeccCCCCEEEEEeccccchHHHHHHHHHHHHcCCcEEEEEEEe
Confidence 34455555666554 110 1111 111112233221 11 124568888888999999999999999
Q ss_pred cc
Q 046601 212 IL 213 (233)
Q Consensus 212 lP 213 (233)
-=
T Consensus 256 gl 257 (332)
T PRK00553 256 GL 257 (332)
T ss_pred ee
Confidence 53
No 58
>PRK02812 ribose-phosphate pyrophosphokinase; Provisional
Probab=51.63 E-value=25 Score=32.73 Aligned_cols=130 Identities=15% Similarity=0.161 Sum_probs=71.6
Q ss_pred CcchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech---h-chHhHHhhCCCeEEEE--cC
Q 046601 78 GRSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV---T-KSKPLEVRSPLGIHVL--MT 148 (233)
Q Consensus 78 ~~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i---~-tv~~~~~~~~~rVGVL--AT 148 (233)
.|.+-..++.+.|...+.. .|+.+|+|-++.=- .|. +.++ +++|+-++ + -.++++.....++-|+ .+
T Consensus 113 aRQDr~~~~~e~isak~vA~lL~~~g~d~vitvD--lH~--~~~~~fF~ipv~nl~~~~~l~~~i~~~~~~~~vvVsPD~ 188 (330)
T PRK02812 113 ARADRKTAGRESITAKLVANLITKAGADRVLAMD--LHS--AQIQGYFDIPCDHVYGSPVLLDYLASKNLEDIVVVSPDV 188 (330)
T ss_pred cccccccCCCCCchHHHHHHHHHhcCCCEEEEEE--CCc--hHHcCccCCCceeeeChHHHHHHHHhcCCCCeEEEEECC
Confidence 3444444444455555555 88888999986532 243 4556 67888777 2 3344443322344444 34
Q ss_pred HHHHhhhhHHHHHc-------ccc----CcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcCCc
Q 046601 149 NGILTAGVLKLCYQ-------IKA----TMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 149 ~gTi~sglY~~~l~-------~~~----~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.|.-....|.+.+. ++. .... .+.....++... .+ .....+.++++.+.+.|+..+...|||
T Consensus 189 gg~~ra~~~A~~L~~~~~~~~~k~R~~~~~~~-~~~~~~~v~g~~viiVDDii~TG~T~~~a~~~L~~~Ga~~v~~~~tH 267 (330)
T PRK02812 189 GGVARARAFAKKLNDAPLAIIDKRRQAHNVAE-VLNVIGDVKGKTAILVDDMIDTGGTICEGARLLRKEGAKQVYACATH 267 (330)
T ss_pred ccHHHHHHHHHHhCCCCEEEEEeeccCCceee-eEeccccCCCCEEEEEccccCcHHHHHHHHHHHhccCCCeEEEEEEc
Confidence 45555556666662 110 0001 111111232221 11 123567888899999999999999999
Q ss_pred c
Q 046601 212 I 212 (233)
Q Consensus 212 l 212 (233)
-
T Consensus 268 ~ 268 (330)
T PRK02812 268 A 268 (330)
T ss_pred c
Confidence 3
No 59
>TIGR03288 CoB_CoM_SS_B CoB--CoM heterodisulfide reductase, subunit B. Members of this protein family are subunit B of the CoB--CoM heterodisulfide reductase, or simply heterodisulfide reductase, found in methanogenic archaea. Some archaea species have two copies, HdrB1 and HdrB2.
Probab=51.13 E-value=27 Score=31.24 Aligned_cols=42 Identities=19% Similarity=0.216 Sum_probs=31.0
Q ss_pred HHHHHHHHHcCCcEEeeccchhhhhHHhhc----------CCCCeech-hchH
Q 046601 92 ENLWSFLEKLGACYSVIPCHIYRIWHDEVS----------CFVPFLHV-TKSK 133 (233)
Q Consensus 92 ~~l~~~Le~~Gad~IVIaCNTAH~~~del~----------~~vPii~i-~tv~ 133 (233)
+..++.+++.|+|.||-+|.+-+..++.-+ .++|++|+ +-+.
T Consensus 212 ~~k~~~~~~~gad~ivt~Cp~C~~~l~~~~~~~~~~~g~~~~~~V~h~~elLa 264 (290)
T TIGR03288 212 KEKLENMKEAGADCIVNVCPFCHLQFDRGQIEIKEKFGEEYNIPVLHYSQLLG 264 (290)
T ss_pred HHHHHHHHHcCCCEEEEeCchHHHHHHHHHHHHHHhcCCCCCcCeeeHHHHHH
Confidence 333347778999999999999999875431 36899998 4443
No 60
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=49.18 E-value=1.4e+02 Score=26.69 Aligned_cols=43 Identities=0% Similarity=-0.292 Sum_probs=28.0
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhhhh--HHhhc-CCCCeec
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYRIW--HDEVS-CFVPFLH 128 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~--~del~-~~vPii~ 128 (233)
+++.......+.+++.||++|+=+.+++... .+-++ .++|++.
T Consensus 51 ~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~ 96 (334)
T cd06356 51 DNERYQQYAQRLALQDKVDVVWGGISSASREAIRPIMDRTKQLYFY 96 (334)
T ss_pred CHHHHHHHHHHHHHhCCCCEEEeCcchHHHHHHHHHHHhcCceEEe
Confidence 4555555555566778999999888877653 23344 6666654
No 61
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. 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 their ligand specificity has not been determined experimentally.
Probab=49.14 E-value=1.4e+02 Score=26.67 Aligned_cols=25 Identities=20% Similarity=0.017 Sum_probs=18.0
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 189 LLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
.+...+.++.+.++|+|++.+.--.
T Consensus 187 d~~~~i~~l~~~~~d~v~~~~~~~~ 211 (347)
T cd06340 187 DLTSEVLKLKAANPDAILPASYTND 211 (347)
T ss_pred chHHHHHHHHhcCCCEEEEcccchh
Confidence 4556667777788998888876533
No 62
>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=48.84 E-value=63 Score=27.05 Aligned_cols=70 Identities=10% Similarity=-0.011 Sum_probs=38.3
Q ss_pred HHHHHHHHcCCcEEee-ccchhhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCH
Q 046601 93 NLWSFLEKLGACYSVI-PCHIYRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVI-aCNTAH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
.+.+.|.+.++|.|++ +++..-..++.++ .++|++.+ .+++.+.+++.++|++++.+
T Consensus 46 ~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ipvv~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd01575 46 ELLRTLLSRRPAGLILTGLEHTERTRQLLRAAGIPVVEIMDLPPDPIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGAR 125 (268)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCHHHHHHHHhcCCCEEEEecCCCCCCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCC
Confidence 4455677788998866 5543222334444 45554432 12234445567899999766
Q ss_pred HH-----HhhhhHHHHHc
Q 046601 150 GI-----LTAGVLKLCYQ 162 (233)
Q Consensus 150 gT-----i~sglY~~~l~ 162 (233)
.. .+..-|++.++
T Consensus 126 ~~~~~~~~r~~gf~~~l~ 143 (268)
T cd01575 126 MDDTRAQQRLEGFRAALR 143 (268)
T ss_pred CCcccHHHHHHHHHHHHH
Confidence 53 22333555555
No 63
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=48.71 E-value=84 Score=27.84 Aligned_cols=40 Identities=10% Similarity=-0.158 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHcCCcEEeeccchhhhh-HHhhc-CCCCeech
Q 046601 90 IAENLWSFLEKLGACYSVIPCHIYRIW-HDEVS-CFVPFLHV 129 (233)
Q Consensus 90 I~~~l~~~Le~~Gad~IVIaCNTAH~~-~del~-~~vPii~i 129 (233)
..+...+...+.++++|+.++-+.... .+.++ .++|+|..
T Consensus 55 ~~~~~~~li~~~~V~~iig~~~s~~~~~~~~~~~~~ip~v~~ 96 (341)
T cd06341 55 AAACARDLVEDDKVVAVVGGSSGAGGSALPYLAGAGIPVIGG 96 (341)
T ss_pred HHHHHHHHHHhcCceEEEecccccchhHHHHHhhcCCceecC
Confidence 333333334444899998876444432 23333 45555543
No 64
>cd07381 MPP_CapA CapA and related proteins, metallophosphatase domain. CapA is one of three membrane-associated enzymes in Bacillus anthracis that is required for synthesis of gamma-polyglutamic acid (PGA), a major component of the bacterial capsule. The YwtB and PgsA proteins of Bacillus subtilis are closely related to CapA and are also included in this alignment model. CapA belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal
Probab=48.50 E-value=52 Score=28.35 Aligned_cols=118 Identities=9% Similarity=0.012 Sum_probs=61.7
Q ss_pred HHHHHHHHcCCcEEeeccchhhhh---HH-------hhc-CCCCeech-hchHh-----HHhhCCCeEEEEcCHHHHhhh
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIW---HD-------EVS-CFVPFLHV-TKSKP-----LEVRSPLGIHVLMTNGILTAG 155 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~---~d-------el~-~~vPii~i-~tv~~-----~~~~~~~rVGVLAT~gTi~sg 155 (233)
.+++.|+..|.|++.++-| |.| .+ .++ .++|.++. ...+. +......|||++|-.......
T Consensus 68 ~~~~~L~~~G~d~~tlaNN--H~fD~G~~gl~~t~~~l~~~~i~~~g~~~~~~~~~~~~i~~~~g~kVg~ig~t~~~~~~ 145 (239)
T cd07381 68 EVADALKAAGFDVVSLANN--HTLDYGEEGLLDTLDALDEAGIAHAGAGRNLEEARRPAILEVNGIKVAFLAYTYGTNGI 145 (239)
T ss_pred HHHHHHHHhCCCEEEcccc--cccccchHHHHHHHHHHHHcCCceeECCCCHHHhcCcEEEEECCEEEEEEEEECCCCCC
Confidence 5667889999999999988 654 12 233 57888876 22111 112236689999754332221
Q ss_pred hHHHHH----ccccCcchhhhHHHHHHhc-----------CCc--HHHHHHHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 156 VLKLCY----QIKATMEHTLIPAVDALNR-----------KDV--EGATNLLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 156 lY~~~l----~~~~~q~~~v~~~I~~vk~-----------G~~--~~~~~~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
.....- ......+. +.+.+..+|+ |.. ......-++..+.+.+.|+|.||-|=+|.+
T Consensus 146 ~~~~~~~~~~~~~~~~~~-~~~~i~~lr~~~D~vIv~~H~G~e~~~~p~~~~~~la~~l~~~G~D~IiG~H~Hv~ 219 (239)
T cd07381 146 PLAAGARPGGVNPLDLER-IAADIAEAKKKADIVIVSLHWGVEYSYYPTPEQRELARALIDAGADLVIGHHPHVL 219 (239)
T ss_pred cCcccCCccccCccCHHH-HHHHHHHHhhcCCEEEEEecCcccCCCCCCHHHHHHHHHHHHCCCCEEEcCCCCcC
Confidence 111000 00001111 2233332222 110 011233446666777889999998888855
No 65
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=48.07 E-value=2e+02 Score=25.45 Aligned_cols=23 Identities=17% Similarity=0.080 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCc
Q 046601 189 LLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.+...+..+.+.++|+||+.++.
T Consensus 184 d~~~~v~~l~~~~~d~i~~~~~~ 206 (345)
T cd06338 184 DLSPLISKAKAAGPDAVVVAGHF 206 (345)
T ss_pred chHHHHHHHHhcCCCEEEECCcc
Confidence 46667777887888988888875
No 66
>COG0821 gcpE 1-hydroxy-2-methyl-2-(e)-butenyl 4-diphosphate synthase [Lipid metabolism]
Probab=47.53 E-value=36 Score=32.13 Aligned_cols=32 Identities=19% Similarity=0.168 Sum_probs=28.0
Q ss_pred HHHHcCCcEEeeccchhhhh--HHhhc--CCCCeec
Q 046601 97 FLEKLGACYSVIPCHIYRIW--HDEVS--CFVPFLH 128 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~--~del~--~~vPii~ 128 (233)
.|+++|||.+=++||+.-.. +.+++ +++|++.
T Consensus 44 ~L~~aG~dIVRvtv~~~e~A~A~~~Ik~~~~vPLVa 79 (361)
T COG0821 44 ALERAGCDIVRVTVPDMEAAEALKEIKQRLNVPLVA 79 (361)
T ss_pred HHHHcCCCEEEEecCCHHHHHHHHHHHHhCCCCEEE
Confidence 89999999999999998775 68887 8899764
No 67
>PLN02369 ribose-phosphate pyrophosphokinase
Probab=46.76 E-value=44 Score=30.62 Aligned_cols=131 Identities=14% Similarity=0.124 Sum_probs=68.5
Q ss_pred cchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech----hchHhHHhhCC--CeEEEEcC-
Q 046601 79 RSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV----TKSKPLEVRSP--LGIHVLMT- 148 (233)
Q Consensus 79 ~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i----~tv~~~~~~~~--~rVGVLAT- 148 (233)
|.+....+.+.|...+.. .|+..|+|-++.- ..|. +.++ +++|+-++ .-++++..... ..+-|++.
T Consensus 84 RQDr~~~~~e~isak~va~lL~~~g~d~vi~v--DlHs--~~i~~~F~ip~~~l~~~~~~~~~i~~~~~~~~~~vvVspd 159 (302)
T PLN02369 84 RADRKTQGRESIAAKLVANLITEAGADRVLAC--DLHS--GQSMGYFDIPVDHVYGQPVILDYLASKTISSPDLVVVSPD 159 (302)
T ss_pred ccccccCCCCCchHHHHHHHHHhcCCCEEEEE--ECCc--hHHhhccCCceecccchHHHHHHHHHhCCCCCceEEEEEC
Confidence 333333333444445555 8888999998765 3453 4445 67888777 23344533211 33434332
Q ss_pred -HHHHhhhhHHHHHc-------c----ccCcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcCC
Q 046601 149 -NGILTAGVLKLCYQ-------I----KATMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILASN 210 (233)
Q Consensus 149 -~gTi~sglY~~~l~-------~----~~~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGCT 210 (233)
.|.-...-|.+.+. + ...... .+....+++... .+ ..-..+.++++.+.+.|+..+...||
T Consensus 160 ~gg~~~a~~~a~~l~~~~~~~l~k~R~~~~~~~-~~~~~~~v~g~~viivDDii~TG~Tl~~a~~~l~~~Ga~~v~~~~t 238 (302)
T PLN02369 160 VGGVARARAFAKKLSDAPLAIVDKRRQGHNVAE-VMNLIGDVKGKVAIMVDDMIDTAGTITKGAALLHQEGAREVYACAT 238 (302)
T ss_pred cChHHHHHHHHHHcCCCCEEEEEEecCCcceee-eEecCCCCCCCEEEEEcCcccchHHHHHHHHHHHhCCCCEEEEEEE
Confidence 23333444555552 0 111111 111111233211 11 12356788888999999999999999
Q ss_pred cccc
Q 046601 211 DILD 214 (233)
Q Consensus 211 ElPl 214 (233)
|-=+
T Consensus 239 H~v~ 242 (302)
T PLN02369 239 HAVF 242 (302)
T ss_pred eeee
Confidence 9543
No 68
>PRK06259 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Provisional
Probab=46.71 E-value=37 Score=32.70 Aligned_cols=45 Identities=9% Similarity=-0.011 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHcCCcEEeeccchhhhhHH-hhc-CCCCeech-hch
Q 046601 88 ALIAENLWSFLEKLGACYSVIPCHIYRIWHD-EVS-CFVPFLHV-TKS 132 (233)
Q Consensus 88 ~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~d-el~-~~vPii~i-~tv 132 (233)
..+.+...+.+++.|++.||.+|.+-...+. +.. .+++++|+ +-+
T Consensus 316 ~~~~~~ni~~~~~~~~~~IVt~c~~C~~~l~~~y~~~~~~v~~i~e~L 363 (486)
T PRK06259 316 EELKKKNLEIFNKLDVDTVVTICAGCGSTLKNDYKEKEFNVMDITEVL 363 (486)
T ss_pred HHHHHHHHHHHHhCCCCEEEECCchHHHHHHHhccccccceeeHHHHH
Confidence 3444555558899999999999998877654 333 46788888 443
No 69
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=46.68 E-value=33 Score=26.03 Aligned_cols=32 Identities=22% Similarity=0.167 Sum_probs=23.9
Q ss_pred HHHHHHcCCcEEeeccchhhhhHHhhc----CCCCee
Q 046601 95 WSFLEKLGACYSVIPCHIYRIWHDEVS----CFVPFL 127 (233)
Q Consensus 95 ~~~Le~~Gad~IVIaCNTAH~~~del~----~~vPii 127 (233)
...|+++|+++++|.|-+.+. .++.. ++.|++
T Consensus 6 ~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~ly 41 (115)
T PF13911_consen 6 KPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFPLY 41 (115)
T ss_pred HHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCcEE
Confidence 448999999999999999966 33333 666644
No 70
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=46.51 E-value=64 Score=24.94 Aligned_cols=42 Identities=12% Similarity=0.127 Sum_probs=31.9
Q ss_pred HHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeechhchHhH
Q 046601 94 LWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHVTKSKPL 135 (233)
Q Consensus 94 l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i~tv~~~ 135 (233)
..+.+.+..+.++++|.|++--..+.+. .++|++...+-+++
T Consensus 25 v~~aik~gk~~lVI~A~D~s~~~kkki~~~~~~~~vp~~~~~t~~eL 71 (104)
T PRK05583 25 CEEAIKKKKVYLIIISNDISENSKNKFKNYCNKYNIPYIEGYSKEEL 71 (104)
T ss_pred HHHHHHcCCceEEEEeCCCCHhHHHHHHHHHHHcCCCEEEecCHHHH
Confidence 4447777789999999999988766665 68999887444444
No 71
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=46.29 E-value=1.1e+02 Score=27.13 Aligned_cols=32 Identities=3% Similarity=-0.350 Sum_probs=17.1
Q ss_pred HHHHcCCcEEeeccchhhhh--HHhhc-CCCCeec
Q 046601 97 FLEKLGACYSVIPCHIYRIW--HDEVS-CFVPFLH 128 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~--~del~-~~vPii~ 128 (233)
..++.||++|+=+.+++... .+.+. .++|+|+
T Consensus 62 Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~ 96 (333)
T cd06331 62 LIRDDKVDAVFGCYTSASRKAVLPVVERGRGLLFY 96 (333)
T ss_pred HHhccCCcEEEecccHHHHHHHHHHHHhcCceEEe
Confidence 33344777777766655432 23333 5555554
No 72
>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=45.46 E-value=45 Score=31.44 Aligned_cols=32 Identities=16% Similarity=0.140 Sum_probs=28.4
Q ss_pred HHHHcCCcEEeeccchhhhh--HHhhc--CCCCeec
Q 046601 97 FLEKLGACYSVIPCHIYRIW--HDEVS--CFVPFLH 128 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~--~del~--~~vPii~ 128 (233)
.|+++||+.+=+++++.... +.+++ +++|++.
T Consensus 42 ~L~~aGceiVRvavp~~~~A~al~~I~~~~~iPlVA 77 (346)
T TIGR00612 42 ALEEAGCDIVRVTVPDRESAAAFEAIKEGTNVPLVA 77 (346)
T ss_pred HHHHcCCCEEEEcCCCHHHHHhHHHHHhCCCCCEEE
Confidence 99999999999999999886 68887 8999874
No 73
>PRK03092 ribose-phosphate pyrophosphokinase; Provisional
Probab=45.32 E-value=52 Score=30.18 Aligned_cols=123 Identities=13% Similarity=0.086 Sum_probs=66.5
Q ss_pred HHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech----hchHhHHhh-CCCeEEEEc--CHHHHhhhh
Q 046601 87 HALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV----TKSKPLEVR-SPLGIHVLM--TNGILTAGV 156 (233)
Q Consensus 87 ~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i----~tv~~~~~~-~~~rVGVLA--T~gTi~sgl 156 (233)
.+.+...+.. .|+.+|+|-++.-- .|. +.++ +++|+.++ .-.+++... ..+..-+++ +-+......
T Consensus 90 ~e~isak~va~lL~~~g~d~vitvD--~H~--~~~~~~f~~p~~~l~~~~~la~~i~~~~~~~~~vvVspd~Ga~~~a~~ 165 (304)
T PRK03092 90 REPISARLVADLFKTAGADRIMTVD--LHT--AQIQGFFDGPVDHLFAMPLLADYVRDKYDLDNVTVVSPDAGRVRVAEQ 165 (304)
T ss_pred CCCccHHHHHHHHHhcCCCeEEEEe--cCh--HHHHhhcCCCeeeEechHHHHHHHHHhcCCCCcEEEEecCchHHHHHH
Confidence 3344444444 88889999997543 343 5566 78898887 234555432 123333333 233334445
Q ss_pred HHHHHc----------cccC--cchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 157 LKLCYQ----------IKAT--MEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 157 Y~~~l~----------~~~~--q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
+.+.+. .... ..........+++... .+ ..-..+.++++.|+++|+..+...|||-=
T Consensus 166 la~~L~~~~~~~i~k~R~~~~~~~~~~~~~~~dv~gr~viIVDDIi~TG~Tl~~aa~~Lk~~Ga~~I~~~~tH~v 240 (304)
T PRK03092 166 WADRLGGAPLAFIHKTRDPTVPNQVVANRVVGDVEGRTCVLVDDMIDTGGTIAGAVRALKEAGAKDVIIAATHGV 240 (304)
T ss_pred HHHHcCCCCEEEEEEEcccCCCCceEEEecCcCCCCCEEEEEccccCcHHHHHHHHHHHHhcCCCeEEEEEEccc
Confidence 555554 0000 0010111111233221 11 12456888889999999999999999953
No 74
>COG3010 NanE Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]
Probab=45.24 E-value=23 Score=31.42 Aligned_cols=44 Identities=18% Similarity=0.089 Sum_probs=30.0
Q ss_pred hhhhHHHHHHHHHHHHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 83 LKLEHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 83 ~~~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
.|.+..+|...|...-++.||- .|=||+.--. .+++ +++|||+|
T Consensus 27 ~pl~~~~iv~~mA~Aa~~gGAv--giR~~gv~dI-kai~~~v~vPIIGI 72 (229)
T COG3010 27 EPLDSPEIVAAMALAAEQGGAV--GIRIEGVEDI-KAIRAVVDVPIIGI 72 (229)
T ss_pred CCCcchhHHHHHHHHHHhCCcc--eEeecchhhH-HHHHhhCCCCeEEE
Confidence 3444557777887777777764 5577865443 4466 89999998
No 75
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=44.88 E-value=46 Score=24.52 Aligned_cols=43 Identities=19% Similarity=0.050 Sum_probs=32.8
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeechhchHhH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHVTKSKPL 135 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i~tv~~~ 135 (233)
...+.+++..+.+++||.|+.....+.+. .++|++.+.+-+++
T Consensus 18 ~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~s~~eL 65 (82)
T PRK13602 18 QTVKALKRGSVKEVVVAEDADPRLTEKVEALANEKGVPVSKVDSMKKL 65 (82)
T ss_pred HHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEEEECCHHHH
Confidence 34446777889999999999998766664 78999888554555
No 76
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=44.53 E-value=1.8e+02 Score=26.09 Aligned_cols=29 Identities=10% Similarity=-0.081 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhh
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYR 114 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH 114 (233)
++++......+..++.++++|+=+-++..
T Consensus 51 ~p~~a~~~a~~Li~~~~V~~iiG~~~S~~ 79 (348)
T cd06355 51 DWPTFAEKARKLLTQDKVAAVFGCWTSAS 79 (348)
T ss_pred CHHHHHHHHHHHHHhCCCcEEEeccchhh
Confidence 45555555555666678888876655543
No 77
>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=44.19 E-value=1.5e+02 Score=24.81 Aligned_cols=55 Identities=13% Similarity=0.000 Sum_probs=32.0
Q ss_pred HHHHHHHcCCcEEee-ccchhhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcC
Q 046601 94 LWSFLEKLGACYSVI-PCHIYRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 94 l~~~Le~~Gad~IVI-aCNTAH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT 148 (233)
..+.|.+.++|.+++ +++..-..++.++ .++|++-+ .+++.+.++|.++|++++.
T Consensus 47 ~~~~l~~~~vdgiii~~~~~~~~~~~~l~~~~iPvv~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 124 (268)
T cd06273 47 QARKLLERGVDGLALIGLDHSPALLDLLARRGVPYVATWNYSPDSPYPCVGFDNREAGRLAARHLIALGHRRIAMIFG 124 (268)
T ss_pred HHHHHHhcCCCEEEEeCCCCCHHHHHHHHhCCCCEEEEcCCCCCCCCCEEEeChHHHHHHHHHHHHHCCCCeEEEEec
Confidence 344566778988766 5543323345555 55665543 1223444557889999964
No 78
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=43.85 E-value=49 Score=31.43 Aligned_cols=32 Identities=16% Similarity=0.105 Sum_probs=28.5
Q ss_pred HHHHcCCcEEeeccchhhhh--HHhhc--CCCCeec
Q 046601 97 FLEKLGACYSVIPCHIYRIW--HDEVS--CFVPFLH 128 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~--~del~--~~vPii~ 128 (233)
.|+++||+.+=+++++.... +.+++ +++|++-
T Consensus 50 ~L~~aGceiVRvav~~~~~a~al~~I~~~~~iPlvA 85 (360)
T PRK00366 50 RLARAGCEIVRVAVPDMEAAAALPEIKKQLPVPLVA 85 (360)
T ss_pred HHHHcCCCEEEEccCCHHHHHhHHHHHHcCCCCEEE
Confidence 99999999999999999886 68887 8899874
No 79
>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=43.62 E-value=64 Score=27.27 Aligned_cols=58 Identities=21% Similarity=0.110 Sum_probs=34.7
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhc-CCCCeech----h-----------------chHhHHhhCCCeEEEEcCHH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVS-CFVPFLHV----T-----------------KSKPLEVRSPLGIHVLMTNG 150 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~-~~vPii~i----~-----------------tv~~~~~~~~~rVGVLAT~g 150 (233)
.+.+.+.+.++|.|++........++.++ .++|++.+ + +++.+.+.|.++|++++.+.
T Consensus 49 ~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~ipvV~~~~~~~~~~~~~V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~ 128 (268)
T cd06277 49 ELPSFLEDGKVDGIILLGGISTEYIKEIKELGIPFVLVDHYIPNEKADCVLTDNYSGAYAATEYLIEKGHRKIGFVGDPL 128 (268)
T ss_pred HHHHHHHHCCCCEEEEeCCCChHHHHHHhhcCCCEEEEccCCCCCCCCEEEecchHHHHHHHHHHHHCCCCcEEEECCCC
Confidence 34446777899999874422222355555 56776655 1 11334445678999997554
No 80
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=42.73 E-value=1.2e+02 Score=26.54 Aligned_cols=70 Identities=7% Similarity=-0.066 Sum_probs=40.6
Q ss_pred HHHHHHHHcCCcEEeec-cch-hhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcC
Q 046601 93 NLWSFLEKLGACYSVIP-CHI-YRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIa-CNT-AH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT 148 (233)
...+.|.+.++|.+++. ++. ...+++++. .++|++-+ ..++++...|.++|++++.
T Consensus 108 ~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~v~~~~~~~~~~~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~ 187 (328)
T PRK11303 108 RCAEHLLQRQVDALIVSTSLPPEHPFYQRLQNDGLPIIALDRALDREHFTSVVSDDQDDAEMLAESLLKFPAESILLLGA 187 (328)
T ss_pred HHHHHHHHcCCCEEEEcCCCCCChHHHHHHHhcCCCEEEECCCCCCCCCCEEEeCCHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 34456777899998874 332 234455555 56666543 1223455567899999975
Q ss_pred HHH-----HhhhhHHHHHc
Q 046601 149 NGI-----LTAGVLKLCYQ 162 (233)
Q Consensus 149 ~gT-----i~sglY~~~l~ 162 (233)
+.. .+..-|.+.++
T Consensus 188 ~~~~~~~~~R~~Gf~~al~ 206 (328)
T PRK11303 188 LPELSVSFEREQGFRQALK 206 (328)
T ss_pred ccccccHHHHHHHHHHHHH
Confidence 432 22233566665
No 81
>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=42.41 E-value=81 Score=26.42 Aligned_cols=54 Identities=11% Similarity=-0.025 Sum_probs=30.8
Q ss_pred HHHHHcCCcEEeec-cchhhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCH
Q 046601 96 SFLEKLGACYSVIP-CHIYRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 96 ~~Le~~Gad~IVIa-CNTAH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
+.+...++|.+++. ++.....++.++ .++|++-+ ..++.+...|.++|++++..
T Consensus 49 ~~l~~~~vdgiii~~~~~~~~~~~~l~~~~ipvV~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~ 125 (268)
T cd06298 49 NNLLAKQVDGIIFMGGKISEEHREEFKRSPTPVVLAGSVDEDNELPSVNIDYKKAAFEATELLIKNGHKKIAFISGP 125 (268)
T ss_pred HHHHHhcCCEEEEeCCCCcHHHHHHHhcCCCCEEEEccccCCCCCCEEEECcHHHHHHHHHHHHHcCCceEEEEeCC
Confidence 34556789988874 544444445554 44444432 12233444567899999743
No 82
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=42.25 E-value=1.9e+02 Score=25.91 Aligned_cols=23 Identities=17% Similarity=0.273 Sum_probs=15.6
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCc
Q 046601 189 LLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.+...+.++.+.++|+|++++..
T Consensus 181 D~s~~i~~i~~~~~d~v~~~~~~ 203 (347)
T cd06336 181 DFSPIVTKLLAEKPDVIFLGGPS 203 (347)
T ss_pred chHHHHHHHHhcCCCEEEEcCCC
Confidence 35566666767777877777763
No 83
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=41.79 E-value=36 Score=30.21 Aligned_cols=27 Identities=19% Similarity=0.266 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHh-hCCCCEEEEcCC
Q 046601 184 EGATNLLRRALQVLL-ARAVNIVILASN 210 (233)
Q Consensus 184 ~~~~~~l~~~~~~l~-~~gaD~vILGCT 210 (233)
++..+.+.+.++.|. +.|+|.+|++|-
T Consensus 43 ~~i~~~~~~~~~~L~~~~g~d~ivIaCN 70 (251)
T TIGR00067 43 EFILEYVLELLTFLKERHNIKLLVVACN 70 (251)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCc
Confidence 456788889999998 899999999997
No 84
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=41.66 E-value=2e+02 Score=25.40 Aligned_cols=42 Identities=10% Similarity=-0.100 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHcCCcEEeeccchhhhh--HHhhc-CCCCeech
Q 046601 88 ALIAENLWSFLEKLGACYSVIPCHIYRIW--HDEVS-CFVPFLHV 129 (233)
Q Consensus 88 ~~I~~~l~~~Le~~Gad~IVIaCNTAH~~--~del~-~~vPii~i 129 (233)
+...+...+.+++.++++|+-++.+.... .+.++ .++|+|..
T Consensus 53 ~~a~~~a~~li~~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~ 97 (346)
T cd06330 53 DEAIREARELVENEGVDMLIGLISSGVALAVAPVAEELKVFFIAT 97 (346)
T ss_pred HHHHHHHHHHHhccCCcEEEcccchHHHHHHHHHHHHcCCeEEEc
Confidence 33333444455556899888776655432 45555 66776653
No 85
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=41.54 E-value=50 Score=29.03 Aligned_cols=112 Identities=12% Similarity=0.018 Sum_probs=62.1
Q ss_pred HHHHHHHHcCCcEEeecc-chh---hh----hHHhhc--CCCCeech------hchHhHHhhCCCeEEEEcCHHHHhhhh
Q 046601 93 NLWSFLEKLGACYSVIPC-HIY---RI----WHDEVS--CFVPFLHV------TKSKPLEVRSPLGIHVLMTNGILTAGV 156 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaC-NTA---H~----~~del~--~~vPii~i------~tv~~~~~~~~~rVGVLAT~gTi~sgl 156 (233)
.+.++++..|++.+.+.- +.+ +. ++.++. +++|+.-- +.++.+...|..+| ++||..--+-.+
T Consensus 34 ~~a~~~~~~G~~~l~v~Dl~~~~~~~~~n~~~i~~i~~~~~~pv~~~GGi~s~~d~~~~~~~Ga~~v-ivgt~~~~~p~~ 112 (254)
T TIGR00735 34 ELAQRYDEEGADELVFLDITASSEGRTTMIDVVERTAETVFIPLTVGGGIKSIEDVDKLLRAGADKV-SINTAAVKNPEL 112 (254)
T ss_pred HHHHHHHHcCCCEEEEEcCCcccccChhhHHHHHHHHHhcCCCEEEECCCCCHHHHHHHHHcCCCEE-EEChhHhhChHH
Confidence 355577789999886642 222 11 245554 77897754 34444444556666 789988777777
Q ss_pred HHHHHccccCcchhhhHHHH------------HHh-cCCcHHHHHHHHHHHHHHhhCCCCEEEE
Q 046601 157 LKLCYQIKATMEHTLIPAVD------------ALN-RKDVEGATNLLRRALQVLLARAVNIVIL 207 (233)
Q Consensus 157 Y~~~l~~~~~q~~~v~~~I~------------~vk-~G~~~~~~~~l~~~~~~l~~~gaD~vIL 207 (233)
.++..+.- ..++ ++-.+. .|+ +|..+.......+.++.+.+.|+|.+++
T Consensus 113 ~~~~~~~~-~~~~-iv~slD~~~g~~~~~~~~~v~i~gw~~~~~~~~~~~~~~l~~~G~~~iiv 174 (254)
T TIGR00735 113 IYELADRF-GSQC-IVVAIDAKRVYVNSYCWYEVYIYGGRESTGLDAVEWAKEVEKLGAGEILL 174 (254)
T ss_pred HHHHHHHc-CCCC-EEEEEEeccCCCCCCccEEEEEeCCcccCCCCHHHHHHHHHHcCCCEEEE
Confidence 76654422 1122 111111 111 1212222334556777788899999886
No 86
>TIGR01464 hemE uroporphyrinogen decarboxylase. This model represents uroporphyrinogen decarboxylase (HemE), which converts uroporphyrinogen III to coproporphyrinogen III. This step takes the pathway toward protoporphyrin IX, a common precursor of both heme and chlorophyll, rather than toward precorrin 2 and its products.
Probab=41.52 E-value=2.7e+02 Score=25.25 Aligned_cols=32 Identities=19% Similarity=0.217 Sum_probs=17.6
Q ss_pred CCcHHHHHHHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 181 KDVEGATNLLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 181 G~~~~~~~~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
|..++.++..+++++.+...+-..+=+|| .+|
T Consensus 290 gt~e~i~~~v~~~l~~~~~~~g~Il~~Gc-~i~ 321 (338)
T TIGR01464 290 APEEALEEKVEKILEAFGGKSRYIFNLGH-GIL 321 (338)
T ss_pred CCHHHHHHHHHHHHHHhccCCCceecCCC-cCC
Confidence 43344555666666665433335666788 444
No 87
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.
Probab=41.18 E-value=79 Score=28.30 Aligned_cols=20 Identities=20% Similarity=0.079 Sum_probs=14.0
Q ss_pred HHHHHHHcCCcEEeeccchhh
Q 046601 94 LWSFLEKLGACYSVIPCHIYR 114 (233)
Q Consensus 94 l~~~Le~~Gad~IVIaCNTAH 114 (233)
+.+.++++|+|+|++- ||.+
T Consensus 174 ~a~~l~~~G~d~i~v~-nt~~ 193 (300)
T TIGR01037 174 IAKAAEEAGADGLTLI-NTLR 193 (300)
T ss_pred HHHHHHHcCCCEEEEE-ccCC
Confidence 3347889999999873 4443
No 88
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=40.85 E-value=2.2e+02 Score=24.03 Aligned_cols=56 Identities=7% Similarity=-0.046 Sum_probs=32.8
Q ss_pred HHHHHHHHcCCcEEee-ccch--hhhhHHhhc-CCCCeech-------------------------hchHhHHh-hCCCe
Q 046601 93 NLWSFLEKLGACYSVI-PCHI--YRIWHDEVS-CFVPFLHV-------------------------TKSKPLEV-RSPLG 142 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVI-aCNT--AH~~~del~-~~vPii~i-------------------------~tv~~~~~-~~~~r 142 (233)
.+.+.|.+.++|.+++ +++. ....++.++ .++|++-+ ...+++.. ++.++
T Consensus 48 ~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~ 127 (271)
T cd06312 48 RLIEAAIAAKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYKELGALAYVGQDEYAAGEAAGERLAELKGGKN 127 (271)
T ss_pred HHHHHHHHhCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCccccccceEEeccChHHHHHHHHHHHHHhcCCCe
Confidence 3444566779998876 4432 233445555 45555544 12244555 67789
Q ss_pred EEEEcC
Q 046601 143 IHVLMT 148 (233)
Q Consensus 143 VGVLAT 148 (233)
|++++.
T Consensus 128 i~~i~g 133 (271)
T cd06312 128 VLCVIH 133 (271)
T ss_pred EEEEec
Confidence 999974
No 89
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=40.52 E-value=2.8e+02 Score=25.16 Aligned_cols=33 Identities=12% Similarity=-0.033 Sum_probs=22.0
Q ss_pred CCCcchhhhhhHHHHHHHHHHHHHHcCCcEEee
Q 046601 76 LNGRSDLLKLEHALIAENLWSFLEKLGACYSVI 108 (233)
Q Consensus 76 ~~~~~~~~~~~~~~I~~~l~~~Le~~Gad~IVI 108 (233)
+||....-..++......+.++|.+.|+-+|+.
T Consensus 54 l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~ 86 (377)
T cd06379 54 LNATTITHDPNPIQTALSVCEQLISNQVYAVIV 86 (377)
T ss_pred eccceEeecCChhhHHHHHHHHHhhcceEEEEE
Confidence 666655555566666666777766678888875
No 90
>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=40.16 E-value=1.2e+02 Score=25.96 Aligned_cols=56 Identities=7% Similarity=-0.130 Sum_probs=33.2
Q ss_pred HHHHHHHcCCcEEee-ccchhhhhHHhhc-CCCCee-------------ch-------hchHhHHhhCCCeEEEEcCH
Q 046601 94 LWSFLEKLGACYSVI-PCHIYRIWHDEVS-CFVPFL-------------HV-------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 94 l~~~Le~~Gad~IVI-aCNTAH~~~del~-~~vPii-------------~i-------~tv~~~~~~~~~rVGVLAT~ 149 (233)
..+.+.+.++|.+++ ++......+++++ .++|++ +. .+++.+.+.|.++|++++++
T Consensus 48 ~~~~~~~~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~~~~~~~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~ 125 (283)
T cd06279 48 DSALVVSALVDGFIVYGVPRDDPLVAALLRRGLPVVVVDQPLPPGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLR 125 (283)
T ss_pred HHHHHHhcCCCEEEEeCCCCChHHHHHHHHcCCCEEEEecCCCCCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCc
Confidence 334667789998776 5433333455555 455544 22 22234555678899999865
No 91
>COG0106 HisA Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]
Probab=40.09 E-value=1e+02 Score=27.63 Aligned_cols=114 Identities=13% Similarity=0.060 Sum_probs=71.7
Q ss_pred HHHHHHHcCCcEE-eeccchhhh-------hHHhhc--CCCCee-c--h---hchHhHHhhCCCeEEEEcCHHHHhhhhH
Q 046601 94 LWSFLEKLGACYS-VIPCHIYRI-------WHDEVS--CFVPFL-H--V---TKSKPLEVRSPLGIHVLMTNGILTAGVL 157 (233)
Q Consensus 94 l~~~Le~~Gad~I-VIaCNTAH~-------~~del~--~~vPii-~--i---~tv~~~~~~~~~rVGVLAT~gTi~sglY 157 (233)
+.+.+++.|++.+ ++==+-|+. ...++. .++|+= + | ..++.+...|..| -+++|.+--+..+.
T Consensus 36 ~a~~~~~~Ga~~lHlVDLdgA~~g~~~n~~~i~~i~~~~~~~vQvGGGIRs~~~v~~ll~~G~~r-ViiGt~av~~p~~v 114 (241)
T COG0106 36 VAKKWSDQGAEWLHLVDLDGAKAGGPRNLEAIKEILEATDVPVQVGGGIRSLEDVEALLDAGVAR-VIIGTAAVKNPDLV 114 (241)
T ss_pred HHHHHHHcCCcEEEEeeccccccCCcccHHHHHHHHHhCCCCEEeeCCcCCHHHHHHHHHCCCCE-EEEecceecCHHHH
Confidence 5557778999988 666666662 344444 666652 2 2 5666666655544 48899998888888
Q ss_pred HHHHccccCcchhhhHHHH----H-HhcCCcHHHHHHHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 158 KLCYQIKATMEHTLIPAVD----A-LNRKDVEGATNLLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 158 ~~~l~~~~~q~~~v~~~I~----~-vk~G~~~~~~~~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
++.++... .+ ++-.+. . .-+|..+...-.+.+..++|.+.|+..+| ||++.
T Consensus 115 ~~~~~~~g--~r-ivv~lD~r~g~vav~GW~e~s~~~~~~l~~~~~~~g~~~ii--~TdI~ 170 (241)
T COG0106 115 KELCEEYG--DR-IVVALDARDGKVAVSGWQEDSGVELEELAKRLEEVGLAHIL--YTDIS 170 (241)
T ss_pred HHHHHHcC--Cc-EEEEEEccCCccccccccccccCCHHHHHHHHHhcCCCeEE--EEecc
Confidence 88877222 22 111111 0 12244344444677888899999999999 99876
No 92
>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=40.05 E-value=1.5e+02 Score=24.73 Aligned_cols=57 Identities=14% Similarity=0.058 Sum_probs=32.6
Q ss_pred HHHHHHHHcCCcEEee-ccchh-hhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcC
Q 046601 93 NLWSFLEKLGACYSVI-PCHIY-RIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVI-aCNTA-H~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT 148 (233)
.+++.+.+.++|.+++ ||+.. ...++++. .++|++-+ ..++.+...+.++|++++.
T Consensus 46 ~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~ 125 (268)
T cd06289 46 QLLSTMLEHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVAREVAGAPFDYVGPDNAAGARLATEHLISLGHRRIAFIGG 125 (268)
T ss_pred HHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEeccCCCCCCCEEeecchHHHHHHHHHHHHCCCCCEEEecC
Confidence 3445566789998866 55432 22345555 55665532 1222344456789999975
Q ss_pred H
Q 046601 149 N 149 (233)
Q Consensus 149 ~ 149 (233)
+
T Consensus 126 ~ 126 (268)
T cd06289 126 L 126 (268)
T ss_pred C
Confidence 3
No 93
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=39.92 E-value=98 Score=23.54 Aligned_cols=43 Identities=9% Similarity=0.056 Sum_probs=31.5
Q ss_pred HHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeech-hchHhHH
Q 046601 94 LWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHV-TKSKPLE 136 (233)
Q Consensus 94 l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i-~tv~~~~ 136 (233)
..+.+++..+++++||.|+.-...+.+. .++|++.. .+-+++-
T Consensus 24 v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Ip~~~~~~tk~eLG 72 (99)
T PRK01018 24 TIKAIKLGKAKLVIVASNCPKDIKEDIEYYAKLSGIPVYEYEGSSVELG 72 (99)
T ss_pred HHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECCCHHHHH
Confidence 4447777889999999997665556554 68998776 5666653
No 94
>PRK13587 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=39.56 E-value=91 Score=27.30 Aligned_cols=113 Identities=13% Similarity=-0.039 Sum_probs=64.4
Q ss_pred HHHHHHH-cCCcEEeeccchhhh--------hHHhhc--CCCCee---ch---hchHhHHhhCCCeEEEEcCHHHHhhhh
Q 046601 94 LWSFLEK-LGACYSVIPCHIYRI--------WHDEVS--CFVPFL---HV---TKSKPLEVRSPLGIHVLMTNGILTAGV 156 (233)
Q Consensus 94 l~~~Le~-~Gad~IVIaCNTAH~--------~~del~--~~vPii---~i---~tv~~~~~~~~~rVGVLAT~gTi~sgl 156 (233)
+.+++++ .|+|.+.|.-=.+-. .+.++. +.+|+- ++ +.++.+...|..|| +++|.+--+.++
T Consensus 36 ~a~~~~~~~Ga~~l~ivDLd~a~~~~~~n~~~I~~i~~~~~~pi~vGGGIrs~e~v~~~l~~Ga~kv-vigt~a~~~~~~ 114 (234)
T PRK13587 36 SIAYYSQFECVNRIHIVDLIGAKAQHAREFDYIKSLRRLTTKDIEVGGGIRTKSQIMDYFAAGINYC-IVGTKGIQDTDW 114 (234)
T ss_pred HHHHHHhccCCCEEEEEECcccccCCcchHHHHHHHHhhcCCeEEEcCCcCCHHHHHHHHHCCCCEE-EECchHhcCHHH
Confidence 5555555 799988654332221 345554 677843 23 44455555667788 889988777778
Q ss_pred HHHHHccccCcchhhhHHHHHHhcC------CcHHHHHHHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 157 LKLCYQIKATMEHTLIPAVDALNRK------DVEGATNLLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 157 Y~~~l~~~~~q~~~v~~~I~~vk~G------~~~~~~~~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
.++..+.-..| - ++. +. ++.| ..+...-.+.+.++.+.+.|+..+| ||++.
T Consensus 115 l~~~~~~fg~~-i-vvs-lD-~~~g~v~~~gw~~~~~~~~~~~~~~~~~~g~~~ii--~tdi~ 171 (234)
T PRK13587 115 LKEMAHTFPGR-I-YLS-VD-AYGEDIKVNGWEEDTELNLFSFVRQLSDIPLGGII--YTDIA 171 (234)
T ss_pred HHHHHHHcCCC-E-EEE-EE-eeCCEEEecCCcccCCCCHHHHHHHHHHcCCCEEE--Eeccc
Confidence 88776632222 1 211 21 2222 2222233456777778888888888 56654
No 95
>TIGR01499 folC folylpolyglutamate synthase/dihydrofolate synthase. A mutation study of the FolC gene of E. coli suggests that both activitities belong to the same active site. Because some examples are monofunctional (and these cannot be separated phylogenetically), the model is treated as subfamily, not equivalog.
Probab=39.48 E-value=39 Score=31.46 Aligned_cols=85 Identities=12% Similarity=0.174 Sum_probs=44.4
Q ss_pred CCCeech-------hchH---hHHhhCCCeEEEEcCHHHHhhhhHHHHHc--cccCcchhhhHHHHHHhcCC-----cHH
Q 046601 123 FVPFLHV-------TKSK---PLEVRSPLGIHVLMTNGILTAGVLKLCYQ--IKATMEHTLIPAVDALNRKD-----VEG 185 (233)
Q Consensus 123 ~vPii~i-------~tv~---~~~~~~~~rVGVLAT~gTi~sglY~~~l~--~~~~q~~~v~~~I~~vk~G~-----~~~ 185 (233)
.+|+||+ .|+. .+.+..+.|+|+.+||..+. |.+.+. .....+..+.+....|+... ...
T Consensus 17 ~~~vI~VtGTNGKgSt~~~l~~iL~~~g~~vg~~tSphl~~---~~eri~i~g~~i~~~~~~~~~~~v~~~~~~~~~~~~ 93 (397)
T TIGR01499 17 LYPVIHVAGTNGKGSTCAFLESILRAAGYKVGLFTSPHLVS---FNERIRINGEPISDEELAQAFEQVRPILEKLSQQPT 93 (397)
T ss_pred hCCEEEEeCCCChHHHHHHHHHHHHHcCCCeeEEeCCCcCc---cceEEEECCEECCHHHHHHHHHHHHHHHHhccCCCC
Confidence 4689998 2222 23333467999999998653 445554 11111111334433333211 112
Q ss_pred HHHHHHH-HHHHHhhCCCCEEEEcCC
Q 046601 186 ATNLLRR-ALQVLLARAVNIVILASN 210 (233)
Q Consensus 186 ~~~~l~~-~~~~l~~~gaD~vILGCT 210 (233)
.-+.+.- ++..+.++++|.+|+=+-
T Consensus 94 ~fe~~t~~A~~~f~~~~~d~~VlEvG 119 (397)
T TIGR01499 94 YFELLTLLAFLYFAQAQVDVAVLEVG 119 (397)
T ss_pred HHHHHHHHHHHHHHHCCCCEEEEeec
Confidence 2222222 256778899999998553
No 96
>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=39.39 E-value=82 Score=26.53 Aligned_cols=57 Identities=19% Similarity=0.098 Sum_probs=34.3
Q ss_pred HHHHHHHHcCCcEEee-ccchhhhhHHhhc-CCCCeech-------------------hchHhHHhhCCCeEEEEcCH
Q 046601 93 NLWSFLEKLGACYSVI-PCHIYRIWHDEVS-CFVPFLHV-------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVI-aCNTAH~~~del~-~~vPii~i-------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
..++.+.+.++|.+++ +|......+++++ .++|++-+ .+++.+..+|.++|++++.+
T Consensus 46 ~~i~~l~~~~~dgiii~~~~~~~~~~~~~~~~~iPvv~~~~~~~~~~~V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~ 123 (265)
T cd06285 46 RAIEMLLDRRVDGLILGDARSDDHFLDELTRRGVPFVLVLRHAGTSPAVTGDDVLGGRLATRHLLDLGHRRIAVLAGP 123 (265)
T ss_pred HHHHHHHHcCCCEEEEecCCCChHHHHHHHHcCCCEEEEccCCCCCCEEEeCcHHHHHHHHHHHHHCCCccEEEEeCC
Confidence 3444677889997765 4443333455555 45565432 23345555678899999653
No 97
>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=39.36 E-value=2e+02 Score=23.06 Aligned_cols=16 Identities=6% Similarity=0.106 Sum_probs=11.6
Q ss_pred HHhhCCCeEEEEcCHH
Q 046601 135 LEVRSPLGIHVLMTNG 150 (233)
Q Consensus 135 ~~~~~~~rVGVLAT~g 150 (233)
+.+.+.++|++++++.
T Consensus 119 l~~~~~~~i~~i~~~~ 134 (269)
T cd01391 119 LAEKGWKRVALIYGDD 134 (269)
T ss_pred HHHhCCceEEEEecCC
Confidence 4445678999998765
No 98
>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=38.82 E-value=2.2e+02 Score=23.27 Aligned_cols=69 Identities=13% Similarity=-0.067 Sum_probs=35.6
Q ss_pred HHHHHHHcCCcEEeeccchhhhh--HHhhc-CCCCeech----------------------hchHhHHhhCCCeEEEEcC
Q 046601 94 LWSFLEKLGACYSVIPCHIYRIW--HDEVS-CFVPFLHV----------------------TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 94 l~~~Le~~Gad~IVIaCNTAH~~--~del~-~~vPii~i----------------------~tv~~~~~~~~~rVGVLAT 148 (233)
..+.+.+.|+|.+|+.--..... ++.+. .++|++.. ..++.+.+.+.++|++++.
T Consensus 47 ~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 126 (264)
T cd01537 47 ALENLIARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDIPDGDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAG 126 (264)
T ss_pred HHHHHHHcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCCCCCcccceEecCcHHHHHHHHHHHHHhcCCcEEEEEC
Confidence 33345556888776633222221 45554 55665533 1223344456789999966
Q ss_pred HHH-----HhhhhHHHHHc
Q 046601 149 NGI-----LTAGVLKLCYQ 162 (233)
Q Consensus 149 ~gT-----i~sglY~~~l~ 162 (233)
... .+..-|++.++
T Consensus 127 ~~~~~~~~~~~~~~~~~~~ 145 (264)
T cd01537 127 PLGSSTARERVAGFKDALK 145 (264)
T ss_pred CCCCCcHHHHHHHHHHHHH
Confidence 432 23344555554
No 99
>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=38.72 E-value=1.5e+02 Score=26.04 Aligned_cols=69 Identities=7% Similarity=-0.024 Sum_probs=38.9
Q ss_pred HHHHHHHcCCcEEeec-cch-hhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCH
Q 046601 94 LWSFLEKLGACYSVIP-CHI-YRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 94 l~~~Le~~Gad~IVIa-CNT-AH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
..+.|...++|.+++. +.. ....+..++ .++|++-+ ..++++...|.++|++++.+
T Consensus 108 ~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~ 187 (327)
T TIGR02417 108 VIENLLARQVDALIVASCMPPEDAYYQKLQNEGLPVVALDRSLDDEHFCSVISDDVDAAAELIERLLSQHADEFWYLGAQ 187 (327)
T ss_pred HHHHHHHcCCCEEEEeCCCCCChHHHHHHHhcCCCEEEEccccCCCCCCEEEeCcHHHHHHHHHHHHHCCCCeEEEEeCc
Confidence 4456777899998764 332 233455555 55665533 11234445678899999743
Q ss_pred HH-----HhhhhHHHHHc
Q 046601 150 GI-----LTAGVLKLCYQ 162 (233)
Q Consensus 150 gT-----i~sglY~~~l~ 162 (233)
.. .+..-|++.++
T Consensus 188 ~~~~~~~~R~~Gf~~al~ 205 (327)
T TIGR02417 188 PELSVSRDRLAGFRQALK 205 (327)
T ss_pred ccchhHHHHHHHHHHHHH
Confidence 32 12233566655
No 100
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=38.64 E-value=86 Score=24.43 Aligned_cols=42 Identities=17% Similarity=0.076 Sum_probs=31.7
Q ss_pred HHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeech-hchHhH
Q 046601 94 LWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHV-TKSKPL 135 (233)
Q Consensus 94 l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i-~tv~~~ 135 (233)
..+.+++..+.+|++|.|......+.+. .+||++.. .+-+++
T Consensus 33 vlkalk~gkaklViiA~D~~~~~kkki~~~~~~~~Vpv~~~~~t~~eL 80 (108)
T PTZ00106 33 TLKALRNGKAKLVIISNNCPPIRRSEIEYYAMLSKTGVHHYAGNNNDL 80 (108)
T ss_pred HHHHHHcCCeeEEEEeCCCCHHHHHHHHHHHhhcCCCEEEeCCCHHHH
Confidence 3446777889999999999888766665 68999864 555555
No 101
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=38.61 E-value=3e+02 Score=24.87 Aligned_cols=30 Identities=7% Similarity=-0.118 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhhh
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYRI 115 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~ 115 (233)
+++.......+..++.|+++|+=+..+...
T Consensus 52 ~p~~a~~~a~~Lv~~~~V~~iiG~~~S~~~ 81 (359)
T TIGR03407 52 DWPTFAEKARKLITQDKVAAVFGCWTSASR 81 (359)
T ss_pred CHHHHHHHHHHHHhhCCCcEEEcCCcHHHH
Confidence 455555555556666788888766555443
No 102
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=38.40 E-value=2e+02 Score=26.02 Aligned_cols=40 Identities=18% Similarity=0.133 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHcCCcEEeeccchhhhh-HHhhc--CCCCeech
Q 046601 89 LIAENLWSFLEKLGACYSVIPCHIYRIW-HDEVS--CFVPFLHV 129 (233)
Q Consensus 89 ~I~~~l~~~Le~~Gad~IVIaCNTAH~~-~del~--~~vPii~i 129 (233)
+....+.+.+ +.|+.+|+=|.++.... ...+- .+||+|..
T Consensus 50 ~~~~~~c~ll-~~~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~ 92 (382)
T cd06380 50 ALTNAICSQL-SRGVFAIFGSYDKSSVNTLTSYSDALHVPFITP 92 (382)
T ss_pred HHHHHHHHHH-hcCcEEEEecCcHHHHHHHHHHHhcCCCCeEec
Confidence 3444555566 45988888775544332 34443 78888876
No 103
>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=38.13 E-value=2.7e+02 Score=24.53 Aligned_cols=24 Identities=13% Similarity=0.390 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhhCCCCEEEEcCCc
Q 046601 188 NLLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 188 ~~l~~~~~~l~~~gaD~vILGCTE 211 (233)
..+..+++.+++.++|+||+.|..
T Consensus 204 ~d~~~~l~~l~~~~~~vvv~~~~~ 227 (348)
T cd06350 204 EDIKRILKKLKSSTARVIVVFGDE 227 (348)
T ss_pred HHHHHHHHHHHhCCCcEEEEEeCc
Confidence 346666777777777877777765
No 104
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=37.63 E-value=2.3e+02 Score=26.23 Aligned_cols=42 Identities=5% Similarity=-0.178 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhhhh--HHhhc-CCCCee
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYRIW--HDEVS-CFVPFL 127 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~--~del~-~~vPii 127 (233)
+++.......+.+++-|+++|+=+.++.... .+..+ ..+|++
T Consensus 52 ~p~~a~~~a~~li~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i 96 (374)
T TIGR03669 52 DNERYQELTRRLLNRDKVDALWAGYSSATREAIRPIIDRNEQLYF 96 (374)
T ss_pred CHHHHHHHHHHHHHhCCCCEEEcCCchHHHHHHHHHHHhcCceEE
Confidence 3444444555566667888888777665553 23333 555554
No 105
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=37.62 E-value=99 Score=27.73 Aligned_cols=23 Identities=17% Similarity=0.190 Sum_probs=15.9
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCc
Q 046601 189 LLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.+...+.++++.++|+|++.+..
T Consensus 181 d~s~~i~~i~~~~~d~v~~~~~~ 203 (347)
T cd06335 181 DMTAQLLRAKAAGADAIIIVGNG 203 (347)
T ss_pred cHHHHHHHHHhCCCCEEEEEecC
Confidence 35566666777778888877755
No 106
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=37.56 E-value=2.6e+02 Score=24.43 Aligned_cols=23 Identities=17% Similarity=0.236 Sum_probs=17.5
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCc
Q 046601 189 LLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.+...+.++.+.++|+||+.|..
T Consensus 168 d~~~~l~~i~~~~~d~Vi~~~~~ 190 (324)
T cd06368 168 MYRPLLKEIKREKERRIILDCSP 190 (324)
T ss_pred HHHHHHHHHhhccCceEEEECCH
Confidence 46677777888888888888853
No 107
>COG0413 PanB Ketopantoate hydroxymethyltransferase [Coenzyme metabolism]
Probab=37.56 E-value=65 Score=29.37 Aligned_cols=52 Identities=23% Similarity=0.242 Sum_probs=35.4
Q ss_pred CCCcchhhhhhHHHHHHHHHH--HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech
Q 046601 76 LNGRSDLLKLEHALIAENLWS--FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 76 ~~~~~~~~~~~~~~I~~~l~~--~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i 129 (233)
+-|-..+|..+ +...+.+.+ .|+++||=++|+=|-.+... .++. +++|.|+|
T Consensus 147 ~GGykvqGr~~-~~a~~l~~dA~ale~AGaf~ivlE~Vp~~lA-~~IT~~lsiPtIGI 202 (268)
T COG0413 147 LGGYKVQGRTE-ESAEKLLEDAKALEEAGAFALVLECVPAELA-KEITEKLSIPTIGI 202 (268)
T ss_pred cCCeeeecCCH-HHHHHHHHHHHHHHhcCceEEEEeccHHHHH-HHHHhcCCCCEEee
Confidence 34444555544 333333333 99999999999999766544 4554 89999999
No 108
>KOG1448 consensus Ribose-phosphate pyrophosphokinase [Nucleotide transport and metabolism; Amino acid transport and metabolism]
Probab=37.33 E-value=57 Score=30.38 Aligned_cols=132 Identities=16% Similarity=0.112 Sum_probs=75.2
Q ss_pred CCcchhhhhhHHHHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech---h-chHhHHhhC--CCeEEEEc
Q 046601 77 NGRSDLLKLEHALIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV---T-KSKPLEVRS--PLGIHVLM 147 (233)
Q Consensus 77 ~~~~~~~~~~~~~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i---~-tv~~~~~~~--~~rVGVLA 147 (233)
-+|.+...+.++.+...++. .|..+|||.++.--- | ..+.+ +++||-+. + ..+.++.+. .+.+ |+.
T Consensus 94 yarq~~k~~~r~~i~aklVanlls~aG~dhvItmDl--H--a~Q~qgfF~ipVdnly~~p~~l~~ir~~~~~~~~~-viv 168 (316)
T KOG1448|consen 94 YARQDKKDKSRAPILAKLVANLLSSAGADHVITMDL--H--ASQIQGFFDIPVDNLYAEPAVLNYIRENIPDSENA-VIV 168 (316)
T ss_pred cccchhhhhhhhhHHHHHHHhhhhccCCceEEEecc--c--chhhCceeeccchhhccchHHHHHHHhhCCCccce-EEE
Confidence 46888888899999999999 999999998875322 2 23445 78999998 3 334455432 2222 332
Q ss_pred CH-------HHHhhhhHHHHHc---cccCcc-h--hhhHHHHHHhcC------CcHHHHHHHHHHHHHHhhCCCCEEEEc
Q 046601 148 TN-------GILTAGVLKLCYQ---IKATME-H--TLIPAVDALNRK------DVEGATNLLRRALQVLLARAVNIVILA 208 (233)
Q Consensus 148 T~-------gTi~sglY~~~l~---~~~~q~-~--~v~~~I~~vk~G------~~~~~~~~l~~~~~~l~~~gaD~vILG 208 (233)
.| .|--...|...+. ++.... + ..|-.+-+++.. +....-..+-++.+.|.+.||+-|.-=
T Consensus 169 SPdaGgaKR~~s~ad~l~~~fali~ker~k~~~v~~~m~LVGDv~gkvailVDDm~dt~GTl~~aa~~L~~~GA~kV~a~ 248 (316)
T KOG1448|consen 169 SPDAGGAKRVTSLADRLNLDFALIHKERRKANEVDIRMVLVGDVKGKVAILVDDMADTCGTLIKAADKLLEHGAKKVYAI 248 (316)
T ss_pred CCCcchhhhhHHHHHhhcchhhhhhhhhhcccccceEEEEEeccCCcEEEEecccccccchHHHHHHHHHhcCCceEEEE
Confidence 22 1211222222222 111110 0 012222223221 112233467778888999999999999
Q ss_pred CCccc
Q 046601 209 SNDIL 213 (233)
Q Consensus 209 CTElP 213 (233)
|||-=
T Consensus 249 ~THgV 253 (316)
T KOG1448|consen 249 VTHGV 253 (316)
T ss_pred Eccee
Confidence 99953
No 109
>PRK06683 hypothetical protein; Provisional
Probab=36.53 E-value=83 Score=23.25 Aligned_cols=44 Identities=11% Similarity=-0.026 Sum_probs=33.7
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeechhchHhHH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHVTKSKPLE 136 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i~tv~~~~ 136 (233)
...+.+++..+++++||-|......+.+. .+||++...+-+++-
T Consensus 18 ~v~kaik~gkaklViiA~Da~~~~~~~i~~~~~~~~Vpv~~~~t~~eLG 66 (82)
T PRK06683 18 RTLEAIKNGIVKEVVIAEDADMRLTHVIIRTALQHNIPITKVESVRKLG 66 (82)
T ss_pred HHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHhcCCCEEEECCHHHHH
Confidence 34446777889999999999988866664 789998886555553
No 110
>PF13714 PEP_mutase: Phosphoenolpyruvate phosphomutase; PDB: 1ZLP_A 3EOO_C 1UJQ_D 1O5Q_A 2DUA_A 2HJP_A 2HRW_A 2QIW_A 3KZ2_B 3IH1_B ....
Probab=36.51 E-value=92 Score=27.58 Aligned_cols=70 Identities=13% Similarity=-0.012 Sum_probs=40.7
Q ss_pred CCCCCcchhhh---hhHHHHHHHHHHHHHHcCCcEEeeccchhhhhHHhhc--CCCCeech-----hchHhHHhhCCCeE
Q 046601 74 PSLNGRSDLLK---LEHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV-----TKSKPLEVRSPLGI 143 (233)
Q Consensus 74 ~~~~~~~~~~~---~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i-----~tv~~~~~~~~~rV 143 (233)
--+|.|.+-.. .+-++.+++...+. ++|||+|.+++-+.---+.++. ++.|+.-+ .+.+++.+.|.++|
T Consensus 138 ~~I~ARTDa~~~~~~~~deaI~R~~aY~-eAGAD~ifi~~~~~~~~i~~~~~~~~~Pl~v~~~~~~~~~~eL~~lGv~~v 216 (238)
T PF13714_consen 138 FVIIARTDAFLRAEEGLDEAIERAKAYA-EAGADMIFIPGLQSEEEIERIVKAVDGPLNVNPGPGTLSAEELAELGVKRV 216 (238)
T ss_dssp SEEEEEECHHCHHHHHHHHHHHHHHHHH-HTT-SEEEETTSSSHHHHHHHHHHHSSEEEEETTSSSS-HHHHHHTTESEE
T ss_pred EEEEEeccccccCCCCHHHHHHHHHHHH-HcCCCEEEeCCCCCHHHHHHHHHhcCCCEEEEcCCCCCCHHHHHHCCCcEE
Confidence 45788888743 34444444444444 5899999999975443344444 67884443 34556666665554
Q ss_pred E
Q 046601 144 H 144 (233)
Q Consensus 144 G 144 (233)
.
T Consensus 217 ~ 217 (238)
T PF13714_consen 217 S 217 (238)
T ss_dssp E
T ss_pred E
Confidence 3
No 111
>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=36.31 E-value=2.2e+02 Score=24.93 Aligned_cols=44 Identities=11% Similarity=-0.153 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhhhh-H-Hhhc--CCCCeech
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYRIW-H-DEVS--CFVPFLHV 129 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~-~-del~--~~vPii~i 129 (233)
+++.......+..++.+|++|+=+..++-.. . .++. .++|++..
T Consensus 51 ~p~~a~~~a~~li~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~ 98 (312)
T cd06346 51 DPAAGVAAATKLVNVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISP 98 (312)
T ss_pred CHHHHHHHHHHHHhhcCCCEEEccccchhhHhhhhhhhccCCcEEEec
Confidence 3444444444455566888888775544332 2 2332 56776653
No 112
>cd06348 PBP1_ABC_ligand_binding_like_13 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=35.85 E-value=2.2e+02 Score=25.18 Aligned_cols=23 Identities=4% Similarity=0.257 Sum_probs=15.1
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCc
Q 046601 189 LLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.+...+..+++.++|+|+++|..
T Consensus 180 d~~~~v~~i~~~~~d~vi~~~~~ 202 (344)
T cd06348 180 DFQAQITAVLNSKPDLIVISALA 202 (344)
T ss_pred CHHHHHHHHHhcCCCEEEECCcc
Confidence 35555666666777777777754
No 113
>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=35.58 E-value=2e+02 Score=25.80 Aligned_cols=17 Identities=18% Similarity=0.087 Sum_probs=10.8
Q ss_pred hHHhhCCCeEEEEcCHH
Q 046601 134 PLEVRSPLGIHVLMTNG 150 (233)
Q Consensus 134 ~~~~~~~~rVGVLAT~g 150 (233)
.+...+.+||++++...
T Consensus 118 ~~~~~g~k~vaii~~~~ 134 (336)
T cd06339 118 YARSQGKRRPLVLAPDG 134 (336)
T ss_pred HHHhcCccceEEEecCC
Confidence 34444678899987543
No 114
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=34.97 E-value=3.1e+02 Score=24.16 Aligned_cols=23 Identities=17% Similarity=0.199 Sum_probs=16.5
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCc
Q 046601 189 LLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.+...+..+.+.++|+|+++.+.
T Consensus 178 d~~~~v~~l~~~~~d~v~~~~~~ 200 (334)
T cd06327 178 DFSSYLLQAQASGADVLVLANAG 200 (334)
T ss_pred cHHHHHHHHHhCCCCEEEEeccc
Confidence 45566677777788888887764
No 115
>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=34.94 E-value=1.2e+02 Score=25.16 Aligned_cols=56 Identities=9% Similarity=0.000 Sum_probs=32.3
Q ss_pred HHHHHHHcCCcEEee-ccchhhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCH
Q 046601 94 LWSFLEKLGACYSVI-PCHIYRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 94 l~~~Le~~Gad~IVI-aCNTAH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
..+.+.+.++|.+++ +|......++.+. .++|++.+ ..++++..++.++|+++..+
T Consensus 46 ~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ipvV~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 124 (266)
T cd06278 46 ALRQLLQYRVDGVIVTSGTLSSELAEECRRNGIPVVLINRYVDGPGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGP 124 (266)
T ss_pred HHHHHHHcCCCEEEEecCCCCHHHHHHHhhcCCCEEEECCccCCCCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCC
Confidence 344566789998877 4543223345554 55665544 11233444567899999653
No 116
>PRK00115 hemE uroporphyrinogen decarboxylase; Validated
Probab=34.03 E-value=3.7e+02 Score=24.59 Aligned_cols=27 Identities=15% Similarity=0.113 Sum_probs=18.1
Q ss_pred hhHHHHHHHHHHHHHHcCCcEEeeccc
Q 046601 85 LEHALIAENLWSFLEKLGACYSVIPCH 111 (233)
Q Consensus 85 ~~~~~I~~~l~~~Le~~Gad~IVIaCN 111 (233)
.+++...+..++..++.|.|++.+...
T Consensus 50 ~~~e~~ae~~~~~~~~~g~D~~~i~~d 76 (346)
T PRK00115 50 KNPELAAEVTLQPVRRYGVDAAILFSD 76 (346)
T ss_pred CCHHHHHHHHHHHHHHhCCCeEEeccc
Confidence 445566666666788888887766543
No 117
>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=34.03 E-value=68 Score=25.40 Aligned_cols=37 Identities=16% Similarity=0.097 Sum_probs=30.0
Q ss_pred HHHHHHHHcCCcEE-eeccchhhhhHHhhc-CCCCeech
Q 046601 93 NLWSFLEKLGACYS-VIPCHIYRIWHDEVS-CFVPFLHV 129 (233)
Q Consensus 93 ~l~~~Le~~Gad~I-VIaCNTAH~~~del~-~~vPii~i 129 (233)
.+.+.|++.|++.+ .+|+.+...+++.+. ..+.++..
T Consensus 2 ~i~~~L~~~Gv~~vfg~pg~~~~~l~~~~~~~~~~~i~~ 40 (155)
T cd07035 2 ALVEALKAEGVDHVFGVPGGAILPLLDALARSGIRYILV 40 (155)
T ss_pred HHHHHHHHcCCCEEEECCCCchHHHHHHhccCCCEEEEe
Confidence 46678999999988 899988777888887 66777776
No 118
>PRK05473 hypothetical protein; Provisional
Probab=33.46 E-value=72 Score=24.23 Aligned_cols=42 Identities=31% Similarity=0.393 Sum_probs=31.7
Q ss_pred hhhhhhcCCCCCCCCC-CCcchhhhhhHHHHHHHHHH-HHHHcC
Q 046601 61 LSKDLLSHERNSLPSL-NGRSDLLKLEHALIAENLWS-FLEKLG 102 (233)
Q Consensus 61 it~~il~~~~~p~~~~-~~~~~~~~~~~~~I~~~l~~-~Le~~G 102 (233)
|.-+|+++++.=.+|- |.|+.-...++++|++.+++ +|+..+
T Consensus 42 iVGYllSGDPaYItsh~nAR~lIrkiERDEilEeLv~~Yl~~~~ 85 (86)
T PRK05473 42 IVGYLLSGDPAYIPRHNDARNLIRKLERDEILEELVKSYLKGNG 85 (86)
T ss_pred HHhhhccCCCCccCCcccHHHHHHHHhHHHHHHHHHHHHHHhcC
Confidence 4667777766545554 46888899999999999999 887643
No 119
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=32.67 E-value=3.5e+02 Score=23.94 Aligned_cols=44 Identities=16% Similarity=0.043 Sum_probs=25.5
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhhhh-H-Hhhc-CCCCeech
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYRIW-H-DEVS-CFVPFLHV 129 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~-~-del~-~~vPii~i 129 (233)
++....+.+.+.+++.|+++++=|..+.... . +-.. .++|+|..
T Consensus 50 ~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~ 96 (350)
T cd06366 50 DPVQAASAALDLLENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSF 96 (350)
T ss_pred CHHHHHHHHHHHhccCCceEEECCCcHHHHHHHHHHhhcCCeeEEec
Confidence 4444455555555666888888776554443 2 3333 67777765
No 120
>cd07394 MPP_Vps29 Homo sapiens Vps29 and related proteins, metallophosphatase domain. Vps29 (vacuolar sorting protein 29), also known as vacuolar membrane protein Pep11, is a subunit of the retromer complex which is responsible for the retrieval of mannose-6-phosphate receptors (MPRs) from the endosomes for retrograde transport back to the Golgi. Vps29 has a phosphoesterase fold that acts as a protein interaction scaffold for retromer complex assembly as well as a phosphatase with specificity for the cytoplasmic tail of the MPR. The retromer includes the following 5 subunits: Vps35, Vps26, Vps29, and a dimer of the sorting nexins Vps5 (Snx1), and Vps17 (Snx2). Vps29 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily incl
Probab=32.40 E-value=49 Score=27.59 Aligned_cols=29 Identities=17% Similarity=0.147 Sum_probs=20.3
Q ss_pred hCCCCEEEEcCCccccCCCCCCCCCCeEecCc
Q 046601 199 ARAVNIVILASNDILDLLPPDDPLFNKCIDPM 230 (233)
Q Consensus 199 ~~gaD~vILGCTElPll~~~~~~~~v~iIDp~ 230 (233)
+.++|.++-|.||.|..... .+..++.|.
T Consensus 104 ~~~~dvii~GHTH~p~~~~~---~g~~viNPG 132 (178)
T cd07394 104 QLDVDILISGHTHKFEAFEH---EGKFFINPG 132 (178)
T ss_pred hcCCCEEEECCCCcceEEEE---CCEEEEECC
Confidence 46889999999999987543 134455554
No 121
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=32.24 E-value=2.5e+02 Score=25.74 Aligned_cols=46 Identities=15% Similarity=0.016 Sum_probs=31.8
Q ss_pred hhhHHHHHHHHHHHHHHcCCcEEeeccchhhhh-H-Hhhc-CCCCeech
Q 046601 84 KLEHALIAENLWSFLEKLGACYSVIPCHIYRIW-H-DEVS-CFVPFLHV 129 (233)
Q Consensus 84 ~~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~-~-del~-~~vPii~i 129 (233)
..|+++-.+...+++.+.|+++|+=++++.... . +... -++|+|+.
T Consensus 60 ~~dp~~a~~~A~~li~~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p 108 (366)
T COG0683 60 ASDPATAAAVARKLITQDGVDAVVGPTTSGVALAASPVAEEAGVPLISP 108 (366)
T ss_pred CCChHHHHHHHHHHHhhcCceEEEEeccCcccccchhhHhhcCceEEee
Confidence 455566666666678889999999888887775 2 3333 56666665
No 122
>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=32.01 E-value=1.3e+02 Score=25.13 Aligned_cols=55 Identities=13% Similarity=-0.043 Sum_probs=29.8
Q ss_pred HHHHHHcCCcEEeec-cchhhhhHHhhc-CCCCe--------------ech-------hchHhHHhhCCCeEEEEcCH
Q 046601 95 WSFLEKLGACYSVIP-CHIYRIWHDEVS-CFVPF--------------LHV-------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 95 ~~~Le~~Gad~IVIa-CNTAH~~~del~-~~vPi--------------i~i-------~tv~~~~~~~~~rVGVLAT~ 149 (233)
.+.+.+.++|.+++. ++.......++. .++|+ +.. .+++++.++|.++|++++.+
T Consensus 52 ~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ipvV~~~~~~~~~~~~~V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~ 129 (268)
T cd06271 52 RRLVESGLVDGVIISRTRPDDPRVALLLERGFPFVTHGRTELGDPHPWVDFDNEAAAYQAVRRLIALGHRRIALLNPP 129 (268)
T ss_pred HHHHHcCCCCEEEEecCCCCChHHHHHHhcCCCEEEECCcCCCCCCCeEeeCcHHHHHHHHHHHHHcCCCcEEEecCc
Confidence 335556679988764 443222333333 33443 322 23344555678899999754
No 123
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=31.78 E-value=1.7e+02 Score=26.78 Aligned_cols=57 Identities=7% Similarity=-0.083 Sum_probs=35.9
Q ss_pred HHHHHHHHcCCcEEeecc-chhhhhHHhhc-CCCC--------------eech-------hchHhHHhhCCCeEEEEcCH
Q 046601 93 NLWSFLEKLGACYSVIPC-HIYRIWHDEVS-CFVP--------------FLHV-------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaC-NTAH~~~del~-~~vP--------------ii~i-------~tv~~~~~~~~~rVGVLAT~ 149 (233)
...+.|.+.++|-+++.. ..-...++.+. ..+| .|++ .+++++.+.|.++||+++.+
T Consensus 105 ~~~~~l~~~~vdGiIi~~~~~~~~~~~~l~~~~~P~V~i~~~~~~~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~ 184 (333)
T COG1609 105 EYLETLLQKRVDGLILLGERPNDSLLELLAAAGIPVVVIDRSPPGLGVPSVGIDNFAGAYLATEHLIELGHRRIAFIGGP 184 (333)
T ss_pred HHHHHHHHcCCCEEEEecCCCCHHHHHHHHhcCCCEEEEeCCCccCCCCEEEEChHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 455588889999999987 22222233433 3344 3443 23455666778999999887
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=31.06 E-value=2.9e+02 Score=23.29 Aligned_cols=56 Identities=5% Similarity=-0.109 Sum_probs=30.9
Q ss_pred HHHHHHHHcCCcEEeeccchh---hhhHHhhc-CCCCeech---------------------hchHhHHhh--CCCeEEE
Q 046601 93 NLWSFLEKLGACYSVIPCHIY---RIWHDEVS-CFVPFLHV---------------------TKSKPLEVR--SPLGIHV 145 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTA---H~~~del~-~~vPii~i---------------------~tv~~~~~~--~~~rVGV 145 (233)
.+++.|...++|.+++..... ...+++++ .++|++.+ ..++++.+. +.++|++
T Consensus 48 ~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~ 127 (275)
T cd06320 48 SIAENMINKGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDKLIPNATAFVGTDNKANGVRGAEWIIDKLAEGGKVAI 127 (275)
T ss_pred HHHHHHHHhCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCCCCCccceEEecCcHHHHHHHHHHHHHHhCCCceEEE
Confidence 345566777999876643211 22345554 55665443 122334444 5679999
Q ss_pred EcC
Q 046601 146 LMT 148 (233)
Q Consensus 146 LAT 148 (233)
+..
T Consensus 128 l~~ 130 (275)
T cd06320 128 IEG 130 (275)
T ss_pred EeC
Confidence 853
No 125
>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=31.06 E-value=2.9e+02 Score=23.01 Aligned_cols=56 Identities=14% Similarity=0.143 Sum_probs=32.6
Q ss_pred HHHHHHHHHcCCcEEee-ccchhh-hhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEc
Q 046601 92 ENLWSFLEKLGACYSVI-PCHIYR-IWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLM 147 (233)
Q Consensus 92 ~~l~~~Le~~Gad~IVI-aCNTAH-~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLA 147 (233)
..+.+.+.+.++|.+++ ++++.. ..++.++ .++|++-+ .+++.+.+.+.++|++++
T Consensus 46 ~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~~~~~~~~~V~~d~~~~g~~a~~~l~~~g~~~i~~i~ 125 (270)
T cd01545 46 ERVRALLQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPGTPDPDSPCVRIDDRAAAREMTRHLIDLGHRRIAFIA 125 (270)
T ss_pred HHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecCCCCCCCCeEEeccHHHHHHHHHHHHHCCCceEEEEe
Confidence 34555777889998865 565422 2345554 55665533 122334445678999985
No 126
>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=30.47 E-value=1.3e+02 Score=24.57 Aligned_cols=39 Identities=23% Similarity=0.223 Sum_probs=31.3
Q ss_pred HHHHHHHHHHcCCcEE-eeccchhhhhHHhhc--CCCCeech
Q 046601 91 AENLWSFLEKLGACYS-VIPCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 91 ~~~l~~~Le~~Gad~I-VIaCNTAH~~~del~--~~vPii~i 129 (233)
.+.+.+.|++.|++.+ .+|=++.-.+++.+. ..++++..
T Consensus 3 ~~~l~~~L~~~Gv~~vFgipG~~~~~l~~al~~~~~i~~v~~ 44 (164)
T cd07039 3 ADVIVETLENWGVKRVYGIPGDSINGLMDALRREGKIEFIQV 44 (164)
T ss_pred HHHHHHHHHHCCCCEEEEcCCCchHHHHHHHhhcCCCeEEEe
Confidence 3577889999999998 778777777788886 46888877
No 127
>KOG2949 consensus Ketopantoate hydroxymethyltransferase [Coenzyme transport and metabolism]
Probab=30.26 E-value=92 Score=28.21 Aligned_cols=80 Identities=20% Similarity=0.208 Sum_probs=49.6
Q ss_pred CCCCCceEEeeCchh--hhhhhcCC----------CCCCCCCCCcchhhhhhHHHHHHHHHH---HHHHcCCcEEeeccc
Q 046601 47 TDESGKFLVGSNPVL--SKDLLSHE----------RNSLPSLNGRSDLLKLEHALIAENLWS---FLEKLGACYSVIPCH 111 (233)
Q Consensus 47 Dqeh~~~iv~~~p~i--t~~il~~~----------~~p~~~~~~~~~~~~~~~~~I~~~l~~---~Le~~Gad~IVIaCN 111 (233)
.-+.+++=..++-.| .+.|.+.+ +..+.++.|-..|| ++-.... .+.| .|++.||-.+|+-|-
T Consensus 130 g~~~vK~EgGs~~~~~~~~~l~ergipV~gHvGLTPQ~v~~lGGyk~QG-r~~~~a~-~l~EtAmqLqk~Gc~svvlECv 207 (306)
T KOG2949|consen 130 GMDAVKLEGGSNSRITAAKRLVERGIPVMGHVGLTPQAVSVLGGYKPQG-RNIASAV-KLVETAMQLQKAGCFSVVLECV 207 (306)
T ss_pred CCceEEEccCcHHHHHHHHHHHHcCCceeeeccCChhhhhhccCcCccc-hhHHHHH-HHHHHHHHHHhcccceEeeecC
Confidence 344455555555544 34444422 23344566777777 3333333 3333 999999999999996
Q ss_pred hhhhhHHhhc--CCCCeech
Q 046601 112 IYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 112 TAH~~~del~--~~vPii~i 129 (233)
- |...+.+. .++|-|+|
T Consensus 208 P-~~~A~~iTs~lsiPTIGI 226 (306)
T KOG2949|consen 208 P-PPVAAAITSALSIPTIGI 226 (306)
T ss_pred C-hHHHHHHHhccCCcceee
Confidence 4 55556665 88999998
No 128
>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=30.21 E-value=1.4e+02 Score=26.18 Aligned_cols=54 Identities=15% Similarity=0.020 Sum_probs=31.2
Q ss_pred HHHHHHcCCcEEee-ccchhhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcC
Q 046601 95 WSFLEKLGACYSVI-PCHIYRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 95 ~~~Le~~Gad~IVI-aCNTAH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT 148 (233)
.+.|.+.++|.+++ ++.......+.++ .++|++-+ ..++++...|.++||+++.
T Consensus 108 ~~~l~~~~vdGiIi~~~~~~~~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g 184 (329)
T TIGR01481 108 LNTLLSKQVDGIIFMGGTITEKLREEFSRSPVPVVLAGTVDKENELPSVNIDYKQATKEAVGELIAKGHKSIAFVGG 184 (329)
T ss_pred HHHHHhCCCCEEEEeCCCCChHHHHHHHhcCCCEEEEecCCCCCCCCEEEECcHHHHHHHHHHHHHCCCCeEEEEec
Confidence 34566789998877 4332222334444 45555432 1234455567889999964
No 129
>TIGR01251 ribP_PPkin ribose-phosphate pyrophosphokinase. In some systems, close homologs lacking enzymatic activity exist and perform regulatory functions. The model is designated subfamily rather than equivalog for this reason.
Probab=30.06 E-value=1.4e+02 Score=27.31 Aligned_cols=118 Identities=18% Similarity=0.156 Sum_probs=65.1
Q ss_pred HHHHHHHH-HHHHcCCcEEeeccchhhhhHHhhc--CCCCeech----hchHhHHhhCCC--eEEEEcCHHHHhhhhHHH
Q 046601 89 LIAENLWS-FLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV----TKSKPLEVRSPL--GIHVLMTNGILTAGVLKL 159 (233)
Q Consensus 89 ~I~~~l~~-~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i----~tv~~~~~~~~~--rVGVLAT~gTi~sglY~~ 159 (233)
.+...... .|+.+|+|.++.--- |. +.++ +++|+.++ .-++++.....+ .|.-..+.+......+.+
T Consensus 104 ~is~~~~a~ll~~~g~d~vit~Dl--Hs--~~~~~~f~ip~~~l~a~~~l~~~i~~~~~~~~viv~pd~g~~~~A~~lA~ 179 (308)
T TIGR01251 104 PISAKLVANLLETAGADRVLTVDL--HS--PQIQGFFDVPVDNLYASPVLAEYLKKKILDNPVVVSPDAGGVERAKKVAD 179 (308)
T ss_pred CchHHHHHHHHHHcCCCEEEEecC--Ch--HHhcCcCCCceecccCHHHHHHHHHhhCCCCCEEEEECCchHHHHHHHHH
Confidence 34444444 888999998864322 42 3455 67888887 233445443222 333345556666666666
Q ss_pred HHc----------c-ccCcchhhhHHHHHHhcCC---cH---HHHHHHHHHHHHHhhCCCCEEEEcCCc
Q 046601 160 CYQ----------I-KATMEHTLIPAVDALNRKD---VE---GATNLLRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 160 ~l~----------~-~~~q~~~v~~~I~~vk~G~---~~---~~~~~l~~~~~~l~~~gaD~vILGCTE 211 (233)
.+. . ...... .......++... .+ .....+..+++.+.+.|+..+.+.|||
T Consensus 180 ~Lg~~~~~i~k~r~~~~~~~~-~~~~~~~v~g~~vliVDDii~tG~Tl~~a~~~l~~~ga~~v~~~~th 247 (308)
T TIGR01251 180 ALGCPLAIIDKRRISATNEVE-VMNLVGDVEGKDVVIVDDIIDTGGTIAKAAEILKSAGAKRVIAAATH 247 (308)
T ss_pred HhCCCEEEEEEEecCCCCEEE-EEecccccCCCEEEEEccccCCHHHHHHHHHHHHhcCCCEEEEEEEe
Confidence 665 1 111111 111111232211 11 123568888888999999999999998
No 130
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=29.85 E-value=3.4e+02 Score=24.51 Aligned_cols=24 Identities=4% Similarity=0.011 Sum_probs=15.3
Q ss_pred HHHHHHHHHhhCCCCEEEEcCCcc
Q 046601 189 LLRRALQVLLARAVNIVILASNDI 212 (233)
Q Consensus 189 ~l~~~~~~l~~~gaD~vILGCTEl 212 (233)
.+...+..+++.++|+|+++++.-
T Consensus 177 d~s~~v~~l~~~~pd~V~~~~~~~ 200 (360)
T cd06357 177 DFARIVEEIREAQPDFIFSTLVGQ 200 (360)
T ss_pred hHHHHHHHHHHcCCCEEEEeCCCC
Confidence 345556666667777777766553
No 131
>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=29.59 E-value=2.1e+02 Score=23.93 Aligned_cols=57 Identities=9% Similarity=-0.022 Sum_probs=30.5
Q ss_pred HHHHHHHHcCCcEEeecc-chhhhhHHhhc-CCCCeech----------------------hchHhHHhhCCCeEEEEcC
Q 046601 93 NLWSFLEKLGACYSVIPC-HIYRIWHDEVS-CFVPFLHV----------------------TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaC-NTAH~~~del~-~~vPii~i----------------------~tv~~~~~~~~~rVGVLAT 148 (233)
.+.+.+.+.++|.|++.. +.....++++. .++|++-+ ..++++.++|.++|++++.
T Consensus 51 ~~~~~~~~~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 130 (270)
T cd06294 51 EVKKMIQQKRVDGFILLYSREDDPIIDYLKEEKFPFVVIGKPEDDKENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGG 130 (270)
T ss_pred HHHHHHHHcCcCEEEEecCcCCcHHHHHHHhcCCCEEEECCCCCCCCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecC
Confidence 333355666789877743 22223344444 44454333 1223344456789999974
Q ss_pred H
Q 046601 149 N 149 (233)
Q Consensus 149 ~ 149 (233)
.
T Consensus 131 ~ 131 (270)
T cd06294 131 D 131 (270)
T ss_pred C
Confidence 3
No 132
>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=29.47 E-value=1.6e+02 Score=24.53 Aligned_cols=57 Identities=7% Similarity=-0.091 Sum_probs=33.3
Q ss_pred HHHHHHHHcCCcEEee-ccchhhhhHHhhc-C------------CCCeech-------hchHhHHhhCCCeEEEEcCH
Q 046601 93 NLWSFLEKLGACYSVI-PCHIYRIWHDEVS-C------------FVPFLHV-------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVI-aCNTAH~~~del~-~------------~vPii~i-------~tv~~~~~~~~~rVGVLAT~ 149 (233)
...+.+.+.++|.+++ +|+.....++.++ . .+|.++. ..++++.+.|.++|++++.+
T Consensus 46 ~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~~~pvv~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 123 (260)
T cd06286 46 EYLELLKTKQVDGLILCSRENDWEVIEPYTKYGPIVLCEEYDSKNISSVYIDHYEAFYEALKYLIQKGYRKIAYCIGR 123 (260)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCHHHHHHHhcCCCEEEEecccCCCCCEEEECChHHHHHHHHHHHHCCCceEEEEcCC
Confidence 3444677889998877 4543223344433 1 2344554 23345555678899999654
No 133
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=29.04 E-value=2.2e+02 Score=25.91 Aligned_cols=21 Identities=14% Similarity=0.020 Sum_probs=11.0
Q ss_pred HHHHHHHHhhCCCCEEEEcCC
Q 046601 190 LRRALQVLLARAVNIVILASN 210 (233)
Q Consensus 190 l~~~~~~l~~~gaD~vILGCT 210 (233)
+...+..+++.++|+|++..+
T Consensus 184 ~~~~v~~i~~~~pd~V~~~~~ 204 (351)
T cd06334 184 QKAQWLQIRRSGPDYVILWGW 204 (351)
T ss_pred HHHHHHHHHHcCCCEEEEecc
Confidence 444455555556666655443
No 134
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=28.87 E-value=1.1e+02 Score=22.81 Aligned_cols=43 Identities=7% Similarity=-0.011 Sum_probs=32.0
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeechhchHhH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHVTKSKPL 135 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i~tv~~~ 135 (233)
...+.+++..+++++||.|......+.+. .+||++.+.+-+++
T Consensus 15 ~vlkaIk~gkakLViiA~Da~~~~~k~i~~~c~~~~Vpv~~~~t~~eL 62 (82)
T PRK13601 15 QTLKAITNCNVLQVYIAKDAEEHVTKKIKELCEEKSIKIVYIDTMKEL 62 (82)
T ss_pred HHHHHHHcCCeeEEEEeCCCCHHHHHHHHHHHHhCCCCEEEeCCHHHH
Confidence 34446677889999999999987766665 68999766554554
No 135
>COG4472 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.51 E-value=90 Score=23.56 Aligned_cols=45 Identities=31% Similarity=0.398 Sum_probs=33.5
Q ss_pred hhhhhhhcCCCCCCCCCCC-cchhhhhhHHHHHHHHHH-HHHHcCCc
Q 046601 60 VLSKDLLSHERNSLPSLNG-RSDLLKLEHALIAENLWS-FLEKLGAC 104 (233)
Q Consensus 60 ~it~~il~~~~~p~~~~~~-~~~~~~~~~~~I~~~l~~-~Le~~Gad 104 (233)
+|.-+++++++.=.|.-|+ |.---..++++|.+.+++ .|...|.+
T Consensus 41 QiVGYllSGDPaYIpr~ndARn~IRk~eRDeIvEElvk~YLk~~~~~ 87 (88)
T COG4472 41 QIVGYLLSGDPAYIPRYNDARNQIRKLERDEIVEELVKYYLKGNGKD 87 (88)
T ss_pred HHHhhhccCCccccCccccHHHHHHHHhHHHHHHHHHHHHHhhcCCC
Confidence 4567788877665565544 455567899999999999 99988876
No 136
>cd00717 URO-D Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction is located at the branching point of the tetrapyrrole biosynthetic pathway, leading to the biosynthesis of heme, chlorophyll or bacteriochlorophyll. URO-D deficiency is responsible for the human genetic diseases familial porphyria cutanea tarda (fPCT) and hepatoerythropoietic porphyria (HEP).
Probab=28.37 E-value=4.5e+02 Score=23.77 Aligned_cols=26 Identities=19% Similarity=0.116 Sum_probs=17.8
Q ss_pred hhhHHHHHHHHHHHHHHcCCcEEeec
Q 046601 84 KLEHALIAENLWSFLEKLGACYSVIP 109 (233)
Q Consensus 84 ~~~~~~I~~~l~~~Le~~Gad~IVIa 109 (233)
-.+++...+..++..++.|.|++.+.
T Consensus 40 ~~d~e~~~e~~~~~~~~~g~D~~~i~ 65 (335)
T cd00717 40 CKNPELAAEVTLQPVRRFGVDAAIIF 65 (335)
T ss_pred hCCHHHHHHHHHHHHHHhCCCEEEec
Confidence 44566666777778888888865443
No 137
>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=27.95 E-value=3.1e+02 Score=23.01 Aligned_cols=57 Identities=7% Similarity=-0.083 Sum_probs=32.5
Q ss_pred HHHHHHHHcCCcEEeeccchhh---hhHHhhc-CCCCeech-h-------------------chHhHHhh--CCCeEEEE
Q 046601 93 NLWSFLEKLGACYSVIPCHIYR---IWHDEVS-CFVPFLHV-T-------------------KSKPLEVR--SPLGIHVL 146 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH---~~~del~-~~vPii~i-~-------------------tv~~~~~~--~~~rVGVL 146 (233)
..++.+...++|.+++-..... ..+++++ .++|++.+ . .++++.+. |.++|+++
T Consensus 48 ~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i 127 (271)
T cd06321 48 SQIDNFIAAKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVAAEGADATVTTDNVQAGEISCQYLADRLGGKGNVAIL 127 (271)
T ss_pred HHHHHHHHhCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCCCCCccceeeechHHHHHHHHHHHHHHhCCCceEEEE
Confidence 3444566788998877432222 2344444 56776665 1 11234444 67899999
Q ss_pred cCH
Q 046601 147 MTN 149 (233)
Q Consensus 147 AT~ 149 (233)
+.+
T Consensus 128 ~g~ 130 (271)
T cd06321 128 NGP 130 (271)
T ss_pred eCC
Confidence 654
No 138
>TIGR01457 HAD-SF-IIA-hyp2 HAD-superfamily subfamily IIA hydrolase, TIGR01457. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram positive (low-GC) bacteria. Sequences found in this model are annotated variously as related to NagD or 4-nitrophenyl phosphatase, and this hypothetical equivalog, of all of those within the Class IIA subfamily, is most closely related to the E. coli NagD enzyme and the PGP_euk equivalog (TIGR01452). However, there is presently no evidence that this hypothetical equivalog has the same function of either those.
Probab=27.68 E-value=2.1e+02 Score=24.87 Aligned_cols=59 Identities=10% Similarity=0.062 Sum_probs=37.0
Q ss_pred HHHHHHHHcCCcEEeeccchhhhh---HHhhc---CCCC---eech--hchHhHHhhC-CCeEEEEcCHHH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIW---HDEVS---CFVP---FLHV--TKSKPLEVRS-PLGIHVLMTNGI 151 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~---~del~---~~vP---ii~i--~tv~~~~~~~-~~rVGVLAT~gT 151 (233)
..++.|++.|..++++.=||.... .+.++ .+++ |+.- +++..++++. .++|-++|+++.
T Consensus 24 ~~l~~l~~~g~~~~~~Tnn~~r~~~~~~~~l~~~g~~~~~~~iit~~~~~~~~l~~~~~~~~v~~lg~~~l 94 (249)
T TIGR01457 24 TFVHELQKRDIPYLFVTNNSTRTPESVAEMLASFDIPATLETVFTASMATADYMNDLKLEKTVYVIGEEGL 94 (249)
T ss_pred HHHHHHHHCCCeEEEEeCCCCCCHHHHHHHHHHcCCCCChhhEeeHHHHHHHHHHhcCCCCEEEEEcChhH
Confidence 444488899988887775564443 34455 3444 3332 5556666543 578999999864
No 139
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=27.61 E-value=86 Score=23.19 Aligned_cols=23 Identities=22% Similarity=0.140 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHHHHHcCCcEEee
Q 046601 86 EHALIAENLWSFLEKLGACYSVI 108 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVI 108 (233)
|+++..+.|.+.-++.|+++||=
T Consensus 26 d~d~Al~eM~e~A~~lGAnAVVG 48 (74)
T TIGR03884 26 NVDEIVENLREKVKAKGGMGLIA 48 (74)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEE
Confidence 77889999999999999999873
No 140
>PRK10444 UMP phosphatase; Provisional
Probab=27.07 E-value=1.6e+02 Score=25.82 Aligned_cols=58 Identities=9% Similarity=-0.012 Sum_probs=35.7
Q ss_pred HHHHHHcCCcEEeeccchhhh---hHHhhc-C--CCCeech-----hchHhHHhhCCCeEEEEcCHHHH
Q 046601 95 WSFLEKLGACYSVIPCHIYRI---WHDEVS-C--FVPFLHV-----TKSKPLEVRSPLGIHVLMTNGIL 152 (233)
Q Consensus 95 ~~~Le~~Gad~IVIaCNTAH~---~~del~-~--~vPii~i-----~tv~~~~~~~~~rVGVLAT~gTi 152 (233)
+++|.+.|..++++.=|+... +.+.++ . +++-=.+ ++...+++.+.++|-++|+++..
T Consensus 26 l~~L~~~g~~~~~~Tn~~~~~~~~~~~~l~~~G~~~~~~~i~ts~~~~~~~L~~~~~~~v~~~g~~~l~ 94 (248)
T PRK10444 26 LHRILDKGLPLVLLTNYPSQTGQDLANRFATAGVDVPDSVFYTSAMATADFLRRQEGKKAYVIGEGALI 94 (248)
T ss_pred HHHHHHCCCeEEEEeCCCCCCHHHHHHHHHHcCCCCCHhhEecHHHHHHHHHHhCCCCEEEEEcCHHHH
Confidence 348888998888776555433 356666 3 3342223 44455655445679999996543
No 141
>PF04412 DUF521: Protein of unknown function (DUF521); InterPro: IPR007506 This is a group of hypothetical proteins.
Probab=26.88 E-value=64 Score=30.97 Aligned_cols=28 Identities=18% Similarity=0.139 Sum_probs=21.7
Q ss_pred HHHHHHHHHHH---hhCCCCEEEEcCCcccc
Q 046601 187 TNLLRRALQVL---LARAVNIVILASNDILD 214 (233)
Q Consensus 187 ~~~l~~~~~~l---~~~gaD~vILGCTElPl 214 (233)
.+.++++.+.+ ....+|.|.|||=|+++
T Consensus 272 ~~dl~~~~~~l~~~~~~~~D~V~lGcPH~S~ 302 (400)
T PF04412_consen 272 DADLEEVYEELNTAGDEKVDLVALGCPHLSL 302 (400)
T ss_pred HHHHHHHHHHhccCCCCCCCEEEECCCCCCH
Confidence 45667777777 33479999999999986
No 142
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=26.57 E-value=87 Score=28.56 Aligned_cols=30 Identities=20% Similarity=0.299 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhhCCCCEEEEcCCccc
Q 046601 184 EGATNLLRRALQVLLARAVNIVILASNDIL 213 (233)
Q Consensus 184 ~~~~~~l~~~~~~l~~~gaD~vILGCTElP 213 (233)
+..++...++++.|.+++++.+|++|-=-+
T Consensus 50 e~I~~~~~~i~~~l~~~~ik~lVIACNTAS 79 (269)
T COG0796 50 EEIRERTLEIVDFLLERGIKALVIACNTAS 79 (269)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEecchHH
Confidence 345788889999999999999999997554
No 143
>PRK07714 hypothetical protein; Provisional
Probab=26.54 E-value=2e+02 Score=21.74 Aligned_cols=43 Identities=12% Similarity=0.031 Sum_probs=31.9
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeechhchHhH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHVTKSKPL 135 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i~tv~~~ 135 (233)
...+.+++..+.++++|.+++-...+.+. .++|++...+-+++
T Consensus 25 ~v~~al~~g~~~lViiA~D~s~~~~~ki~~~~~~~~vp~~~~~sk~eL 72 (100)
T PRK07714 25 LVLKEVRSGKAKLVLLSEDASVNTTKKITDKCTYYNVPMRKVENRQQL 72 (100)
T ss_pred HHHHHHHhCCceEEEEeCCCCHHHHHHHHHHHHhcCCCEEEeCCHHHH
Confidence 34447777889999999999888766665 58999877444444
No 144
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=26.50 E-value=1.2e+02 Score=26.59 Aligned_cols=112 Identities=10% Similarity=0.017 Sum_probs=59.6
Q ss_pred HHHHHHHHcCCcEEeeccchhhh--------hHHhhc--CCCCeech------hchHhHHhhCCCeEEEEcCHHHHhhhh
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRI--------WHDEVS--CFVPFLHV------TKSKPLEVRSPLGIHVLMTNGILTAGV 156 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~--------~~del~--~~vPii~i------~tv~~~~~~~~~rVGVLAT~gTi~sgl 156 (233)
.+.+.++..|++.+.+.-=++.- .+.+++ +++|++-- +.++.+...+..+| +++|..--+-.+
T Consensus 34 ~~a~~~~~~G~~~i~i~dl~~~~~~~~~~~~~i~~i~~~~~ipv~~~GGi~s~~~~~~~l~~Ga~~V-iigt~~l~~p~~ 112 (253)
T PRK02083 34 ELAKRYNEEGADELVFLDITASSEGRDTMLDVVERVAEQVFIPLTVGGGIRSVEDARRLLRAGADKV-SINSAAVANPEL 112 (253)
T ss_pred HHHHHHHHcCCCEEEEEeCCcccccCcchHHHHHHHHHhCCCCEEeeCCCCCHHHHHHHHHcCCCEE-EEChhHhhCcHH
Confidence 35556778999999776555431 234454 77898764 34444444445555 788876666666
Q ss_pred HHHHHccccCcchhhhHHHH----------HHh-cCCcHHHHHHHHHHHHHHhhCCCCEEEE
Q 046601 157 LKLCYQIKATMEHTLIPAVD----------ALN-RKDVEGATNLLRRALQVLLARAVNIVIL 207 (233)
Q Consensus 157 Y~~~l~~~~~q~~~v~~~I~----------~vk-~G~~~~~~~~l~~~~~~l~~~gaD~vIL 207 (233)
+++..+.- ..++ ++..+. .++ +|..+.......+.++.+.+.|++.+++
T Consensus 113 ~~ei~~~~-g~~~-iv~slD~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~g~~~ii~ 172 (253)
T PRK02083 113 ISEAADRF-GSQC-IVVAIDAKRDPEPGRWEVYTHGGRKPTGLDAVEWAKEVEELGAGEILL 172 (253)
T ss_pred HHHHHHHc-CCCC-EEEEEEeccCCCCCCEEEEEcCCceecCCCHHHHHHHHHHcCCCEEEE
Confidence 66654422 1122 111111 111 1111111123445566777789998875
No 145
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=26.33 E-value=1.8e+02 Score=25.63 Aligned_cols=56 Identities=7% Similarity=-0.048 Sum_probs=33.0
Q ss_pred HHHHHHHcCCcEEeec-cchhhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCH
Q 046601 94 LWSFLEKLGACYSVIP-CHIYRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 94 l~~~Le~~Gad~IVIa-CNTAH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
.++.+.+.++|.+++. ++.....++.++ .++|++-+ .+++++...|.++||+++.+
T Consensus 111 ~~~~~~~~~vdgiI~~~~~~~~~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~ 189 (331)
T PRK14987 111 RLESMLSWNIDGLILTERTHTPRTLKMIEVAGIPVVELMDSQSPCLDIAVGFDNFEAARQMTTAIIARGHRHIAYLGAR 189 (331)
T ss_pred HHHHHHhcCCCEEEEcCCCCCHHHHHHHHhCCCCEEEEecCCCCCCCceEEeCcHHHHHHHHHHHHHCCCceEEEEcCC
Confidence 3456677899999874 322222344454 56665532 12234555678899999754
No 146
>cd04731 HisF The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.
Probab=26.25 E-value=2.2e+02 Score=24.56 Aligned_cols=69 Identities=13% Similarity=0.102 Sum_probs=37.4
Q ss_pred HHHHHHHHcCCcEEeec-cchh---hh----hHHhhc--CCCCeech------hchHhHHhhCCCeEEEEcCHHHHhhhh
Q 046601 93 NLWSFLEKLGACYSVIP-CHIY---RI----WHDEVS--CFVPFLHV------TKSKPLEVRSPLGIHVLMTNGILTAGV 156 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIa-CNTA---H~----~~del~--~~vPii~i------~tv~~~~~~~~~rVGVLAT~gTi~sgl 156 (233)
.+.++|+++|++.+.+. .+.. +. .+.+++ +++|++-- +.++.+...+...| +++|..--+...
T Consensus 31 ~~a~~~~~~G~~~i~i~d~~~~~~~~~~~~~~i~~i~~~~~~pv~~~GGI~s~~d~~~~l~~G~~~v-~ig~~~~~~p~~ 109 (243)
T cd04731 31 ELAKRYNEQGADELVFLDITASSEGRETMLDVVERVAEEVFIPLTVGGGIRSLEDARRLLRAGADKV-SINSAAVENPEL 109 (243)
T ss_pred HHHHHHHHCCCCEEEEEcCCcccccCcccHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHcCCceE-EECchhhhChHH
Confidence 35557889999977554 4422 11 245555 77898865 23333333444444 667644434444
Q ss_pred HHHHHc
Q 046601 157 LKLCYQ 162 (233)
Q Consensus 157 Y~~~l~ 162 (233)
+.+..+
T Consensus 110 ~~~i~~ 115 (243)
T cd04731 110 IREIAK 115 (243)
T ss_pred HHHHHH
Confidence 444433
No 147
>COG4408 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.98 E-value=86 Score=29.93 Aligned_cols=28 Identities=4% Similarity=-0.056 Sum_probs=22.6
Q ss_pred HHhhCCCeEEEEcCHHHHhhhhHHHHHc
Q 046601 135 LEVRSPLGIHVLMTNGILTAGVLKLCYQ 162 (233)
Q Consensus 135 ~~~~~~~rVGVLAT~gTi~sglY~~~l~ 162 (233)
+..++..++|+.+-++|...++||-.-.
T Consensus 23 l~~h~d~~lg~~~r~s~rse~l~qala~ 50 (431)
T COG4408 23 LSAHGDARLGLYNRPSTRSERLKQALAL 50 (431)
T ss_pred HHhccCceeeccCCCCchhHHHHHHHhc
Confidence 3456788999999999999998886544
No 148
>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=25.83 E-value=2e+02 Score=24.22 Aligned_cols=56 Identities=13% Similarity=0.019 Sum_probs=31.7
Q ss_pred HHHHHHHcCCcEEee-ccchh-hhhHHhhc-CCCCeech--------------------hchHhHHhhCCCeEEEEcCH
Q 046601 94 LWSFLEKLGACYSVI-PCHIY-RIWHDEVS-CFVPFLHV--------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 94 l~~~Le~~Gad~IVI-aCNTA-H~~~del~-~~vPii~i--------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
..+.|.+.++|.+++ +++.. ..+.+.++ .++|++-+ .+++++...|.++|++++++
T Consensus 47 ~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~~~~~~~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~ 125 (269)
T cd06281 47 ILRSFEQRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRDMGGGADAVLFDHAAGMRQAVEYLISLGHRRIALVGGG 125 (269)
T ss_pred HHHHHHHcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecccCCCCCEEEECcHHHHHHHHHHHHHCCCcEEEEecCc
Confidence 344567778998865 56432 23344444 44444332 12234445578899999774
No 149
>PRK12474 hypothetical protein; Provisional
Probab=25.67 E-value=1.1e+02 Score=29.84 Aligned_cols=73 Identities=12% Similarity=-0.033 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHcCCcEE-eeccchhhhhHHhhc--CCCCeech--hchHh-HH---hhCCCeEEE-EcC--HHHHh--hh
Q 046601 90 IAENLWSFLEKLGACYS-VIPCHIYRIWHDEVS--CFVPFLHV--TKSKP-LE---VRSPLGIHV-LMT--NGILT--AG 155 (233)
Q Consensus 90 I~~~l~~~Le~~Gad~I-VIaCNTAH~~~del~--~~vPii~i--~tv~~-~~---~~~~~rVGV-LAT--~gTi~--sg 155 (233)
..+.+.++|++.|++.+ .+|=.+.-.+++.+. .++.+|.. +.... +. .+-.+++|+ +.| +|..+ ++
T Consensus 7 ~~~~l~~~L~~~GV~~vFGvpG~~~~~l~dal~~~~~i~~i~~rhE~~A~~mAdgYaR~tg~~gv~~~t~GpG~~N~~~g 86 (518)
T PRK12474 7 GADSVVDTLLNCGVEVCFANPGTSEMHFVAALDRVPRMRPVLCLFEGVVTGAADGYGRIAGKPAVTLLHLGPGLANGLAN 86 (518)
T ss_pred HHHHHHHHHHHCCCCEEEECCCcchHHHHHHhhccCCceEEEecchHHHHHHHHHHHHHhCCCEEEEEccchhHhHhHHH
Confidence 34688889999999998 777777777889985 46888887 32221 11 122456775 444 44332 35
Q ss_pred hHHHHHc
Q 046601 156 VLKLCYQ 162 (233)
Q Consensus 156 lY~~~l~ 162 (233)
+++-...
T Consensus 87 l~~A~~d 93 (518)
T PRK12474 87 LHNARRA 93 (518)
T ss_pred HHHHhhc
Confidence 5555444
No 150
>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=25.64 E-value=1.9e+02 Score=24.04 Aligned_cols=55 Identities=11% Similarity=0.041 Sum_probs=32.2
Q ss_pred HHHHHHHcCCcEEeeccchhh-hhHHhhc-CCCCee------------ch-------hchHhHHhhCCCeEEEEcC
Q 046601 94 LWSFLEKLGACYSVIPCHIYR-IWHDEVS-CFVPFL------------HV-------TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 94 l~~~Le~~Gad~IVIaCNTAH-~~~del~-~~vPii------------~i-------~tv~~~~~~~~~rVGVLAT 148 (233)
.++.|.+.++|.+++...... ..++.++ .++|++ +. ..++++.+++.++|++++.
T Consensus 47 ~i~~l~~~~~dgii~~~~~~~~~~~~~~~~~~ipvv~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~ 122 (259)
T cd01542 47 ALELLARQKVDGIILLATTITDEHREAIKKLNVPVVVVGQDYPGISSVVYDDYGAGYELGEYLAQQGHKNIAYLGV 122 (259)
T ss_pred HHHHHHhcCCCEEEEeCCCCCHHHHHHHhcCCCCEEEEeccCCCCCEEEECcHHHHHHHHHHHHHcCCCcEEEEcC
Confidence 334577789999988644322 2334444 444544 22 2334455566889999964
No 151
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=25.56 E-value=3.9e+02 Score=23.71 Aligned_cols=11 Identities=0% Similarity=-0.097 Sum_probs=7.9
Q ss_pred CCeEEEEcCHH
Q 046601 140 PLGIHVLMTNG 150 (233)
Q Consensus 140 ~~rVGVLAT~g 150 (233)
.++|+++..+.
T Consensus 143 ~k~v~i~~~~~ 153 (342)
T cd06329 143 GKKVYLINQDY 153 (342)
T ss_pred CceEEEEeCCh
Confidence 67888887544
No 152
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=25.44 E-value=1.2e+02 Score=29.81 Aligned_cols=41 Identities=24% Similarity=0.148 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHcCCcEE-eeccchhhhhHHhhc-CCCCeech
Q 046601 89 LIAENLWSFLEKLGACYS-VIPCHIYRIWHDEVS-CFVPFLHV 129 (233)
Q Consensus 89 ~I~~~l~~~Le~~Gad~I-VIaCNTAH~~~del~-~~vPii~i 129 (233)
...+.+++.|++.|++.| .+|-.+.-.+++.+. .+++++..
T Consensus 17 ~~~~~i~~~L~~~Gv~~vFg~pG~~~~~l~~al~~~~i~~i~~ 59 (571)
T PRK07710 17 TGAQMLIEALEKEGVEVIFGYPGGAVLPLYDALYDCGIPHILT 59 (571)
T ss_pred hHHHHHHHHHHHcCCCEEEeCCCcchHHHHHHHHhcCCcEEEe
Confidence 356788889999999987 778777777888887 67887776
No 153
>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=25.30 E-value=4e+02 Score=22.25 Aligned_cols=56 Identities=14% Similarity=0.039 Sum_probs=31.5
Q ss_pred HHHHHHHHcCCcEEee-ccchhhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCH
Q 046601 93 NLWSFLEKLGACYSVI-PCHIYRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVI-aCNTAH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
.+.+.|.+.++|.+++ |++.... ..++. .++|+|.+ .+++.+.+.|.++|++++++
T Consensus 46 ~~i~~l~~~~~dgiii~~~~~~~~-~~~~~~~~iPvV~~~~~~~~~~~~~v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~ 124 (263)
T cd06280 46 MYLELMEEERVTGVIFAPTRATLR-RLAELRLSFPVVLIDRAGPAGRVDAVVLDNRAAARTLVEHLVAQGYRRIGGLFGN 124 (263)
T ss_pred HHHHHHHhCCCCEEEEeCCCCCch-HHHHHhcCCCEEEECCCCCCCCCCEEEECcHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 3445677888997766 5543332 22233 45555433 12233455567899998654
No 154
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=25.15 E-value=1.5e+02 Score=28.99 Aligned_cols=62 Identities=21% Similarity=0.270 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHcCCcEEeeccchhhhh-HHhhc-----CCCCeech-----h--chHh----HHhhCCCeEEEEcCHHH
Q 046601 89 LIAENLWSFLEKLGACYSVIPCHIYRIW-HDEVS-----CFVPFLHV-----T--KSKP----LEVRSPLGIHVLMTNGI 151 (233)
Q Consensus 89 ~I~~~l~~~Le~~Gad~IVIaCNTAH~~-~del~-----~~vPii~i-----~--tv~~----~~~~~~~rVGVLAT~gT 151 (233)
+-...+..+|.+.|-+..+++|-|--+. +++|+ +++||++. | .++. ++.. .--|-++=|.|-
T Consensus 115 Tt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~-~~DvvIvDTAGR 193 (451)
T COG0541 115 TTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEE-GYDVVIVDTAGR 193 (451)
T ss_pred hHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHc-CCCEEEEeCCCc
Confidence 4445677799999999999999999997 78888 78999997 1 1122 2221 235778888773
No 155
>cd03412 CbiK_N Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=25.08 E-value=2.8e+02 Score=21.75 Aligned_cols=61 Identities=8% Similarity=-0.089 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHcCCcEEeeccchhhhhHHhhc-CCCCeech-hchHhHHhhCCCeEEEEcC
Q 046601 88 ALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVS-CFVPFLHV-TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 88 ~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del~-~~vPii~i-~tv~~~~~~~~~rVGVLAT 148 (233)
+.-...+.+.+.+.-.+.-|-.|-|+......++ -...+-++ .+++.+...|.++|.|.-+
T Consensus 16 ~~~~~~i~~~l~~~~p~~~V~~afts~~i~~~l~~~~~~~p~~~eaL~~l~~~G~~~V~V~Pl 78 (127)
T cd03412 16 EKTIDAIEDKVRAAFPDYEVRWAFTSRMIRKKLKKRGIEVDTPEEALAKLAADGYTEVIVQSL 78 (127)
T ss_pred HHHHHHHHHHHHHHCCCCeEEEEecHHHHHHHHHhcCCCCCCHHHHHHHHHHCCCCEEEEEeC
Confidence 3455566667777788999999999998888887 33333345 7888888888899999765
No 156
>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=25.07 E-value=2.5e+02 Score=23.59 Aligned_cols=57 Identities=11% Similarity=-0.006 Sum_probs=33.7
Q ss_pred HHHHHHHHcCCcEEeeccchhhhh-HHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIW-HDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~-~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
.+++.|.+.++|.|++..+..... ++++. .++|++-+ .+++.+...+.++|++++..
T Consensus 46 ~~i~~~~~~~vdgii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd06270 46 EAIEFLLERRCDALILHSKALSDDELIELAAQVPPLVLINRHIPGLADRCIWLDNEQGGYLATEHLIELGHRKIACITGP 125 (268)
T ss_pred HHHHHHHHcCCCEEEEecCCCCHHHHHHHhhCCCCEEEEeccCCCCCCCeEEECcHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 455567778999888755432322 45554 45565444 11234445578899998653
No 157
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=24.82 E-value=1.5e+02 Score=27.74 Aligned_cols=65 Identities=11% Similarity=0.234 Sum_probs=36.9
Q ss_pred HHhhCCCeEEEEcCHHHHhhhhHHHHHcc--ccCcchhhhHHHH-HHhcCCcHHHHHHHHHHHHHHhhCCCCEEE
Q 046601 135 LEVRSPLGIHVLMTNGILTAGVLKLCYQI--KATMEHTLIPAVD-ALNRKDVEGATNLLRRALQVLLARAVNIVI 206 (233)
Q Consensus 135 ~~~~~~~rVGVLAT~gTi~sglY~~~l~~--~~~q~~~v~~~I~-~vk~G~~~~~~~~l~~~~~~l~~~gaD~vI 206 (233)
++..+.+|+.|+..+...+.+++++.... ....+- .++ .++.. ...+.+.+.++.+.+.++|.||
T Consensus 25 ~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~----~~~~~v~~~---p~~~~v~~~~~~~~~~~~D~II 92 (382)
T PRK10624 25 VKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAY----EIYDGVKPN---PTIEVVKEGVEVFKASGADYLI 92 (382)
T ss_pred HHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeE----EEeCCCCCC---cCHHHHHHHHHHHHhcCCCEEE
Confidence 34445689999988888888888765541 111100 011 12221 2245566666777777888777
No 158
>cd00717 URO-D Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction is located at the branching point of the tetrapyrrole biosynthetic pathway, leading to the biosynthesis of heme, chlorophyll or bacteriochlorophyll. URO-D deficiency is responsible for the human genetic diseases familial porphyria cutanea tarda (fPCT) and hepatoerythropoietic porphyria (HEP).
Probab=24.82 E-value=2.6e+02 Score=25.33 Aligned_cols=45 Identities=4% Similarity=-0.119 Sum_probs=22.7
Q ss_pred CCcEEeeccchhhhhHHhhc-CCCCeech---hchHhHHhhCCCeEEEEc
Q 046601 102 GACYSVIPCHIYRIWHDEVS-CFVPFLHV---TKSKPLEVRSPLGIHVLM 147 (233)
Q Consensus 102 Gad~IVIaCNTAH~~~del~-~~vPii~i---~tv~~~~~~~~~rVGVLA 147 (233)
|+..+-++|||. ..++.+. .++-++++ ...+++++.-..++.+.|
T Consensus 230 ~~~ilh~cg~~~-~~~~~~~~~~~~~~s~d~~~dl~e~k~~~g~~~~i~G 278 (335)
T cd00717 230 GVPVILFAKGAG-GLLEDLAQLGADVVGLDWRVDLDEARKRLGPKVALQG 278 (335)
T ss_pred CCCEEEEcCCCH-HHHHHHHhcCCCEEEeCCCCCHHHHHHHhCCCeEEEe
Confidence 455666666665 3445555 55555555 223333333344555555
No 159
>PRK07534 methionine synthase I; Validated
Probab=24.78 E-value=2.2e+02 Score=26.48 Aligned_cols=32 Identities=9% Similarity=0.017 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhhhhHHhh
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEV 120 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del 120 (233)
.|+.|.+.=.+++ ++|+|+|. +||..+..+.+
T Consensus 43 ~Pe~V~~vH~~Yl-~AGAdiI~--TnTy~as~~~l 74 (336)
T PRK07534 43 HPDNITALHQGFV-DAGSDIIL--TNSFGGTAARL 74 (336)
T ss_pred CHHHHHHHHHHHH-HhcCCEEE--ecCcccCHHHH
Confidence 4444444333366 58999998 77765544443
No 160
>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=24.78 E-value=2.5e+02 Score=22.92 Aligned_cols=56 Identities=11% Similarity=-0.073 Sum_probs=32.0
Q ss_pred HHHHHHcCCcEEeeccchhhhh-HHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCHH
Q 046601 95 WSFLEKLGACYSVIPCHIYRIW-HDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTNG 150 (233)
Q Consensus 95 ~~~Le~~Gad~IVIaCNTAH~~-~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~g 150 (233)
.+.+.+.|+|.+++........ ++.+. .++|++.+ ..++.+...+.++|+++..+.
T Consensus 48 ~~~~~~~~~d~iii~~~~~~~~~~~~~~~~~ipvv~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~ 126 (264)
T cd06267 48 LELLLSRRVDGIILAPSRLDDELLEELAALGIPVVLVDRPLDGLGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPP 126 (264)
T ss_pred HHHHHHcCcCEEEEecCCcchHHHHHHHHcCCCEEEecccccCCCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCC
Confidence 3356677999888754433322 44444 55665444 122334445678999996553
No 161
>PRK07283 hypothetical protein; Provisional
Probab=24.31 E-value=2e+02 Score=21.70 Aligned_cols=43 Identities=12% Similarity=-0.056 Sum_probs=30.9
Q ss_pred HHHHHHHHcCCcEEeeccchhhhhHHhhc-----CCCCeechhchHhH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIWHDEVS-----CFVPFLHVTKSKPL 135 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~~del~-----~~vPii~i~tv~~~ 135 (233)
...+.+.+..+.++++|.+.+-...+.+. .++|++...+-+++
T Consensus 25 ~v~~aik~gk~~lVi~A~Das~~~~kk~~~~~~~~~Vp~~~~~t~~eL 72 (98)
T PRK07283 25 LVVKAIQSGQAKLVFLANDAGPNLTKKVTDKSNYYQVEVSTVFSTLEL 72 (98)
T ss_pred HHHHHHHcCCccEEEEeCCCCHHHHHHHHHHHHHcCCCEEEeCCHHHH
Confidence 34447777789999999998877654443 68999887444454
No 162
>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=24.31 E-value=2e+02 Score=23.58 Aligned_cols=35 Identities=11% Similarity=0.231 Sum_probs=29.2
Q ss_pred HHHHHHHHcCCcEE-eeccchhhhhHHhhcCCCCee
Q 046601 93 NLWSFLEKLGACYS-VIPCHIYRIWHDEVSCFVPFL 127 (233)
Q Consensus 93 ~l~~~Le~~Gad~I-VIaCNTAH~~~del~~~vPii 127 (233)
.+.+.|++.|++.+ -+||.+.-.+++.+..++.++
T Consensus 3 ~~v~~L~~~Gv~~vfGvPg~~~~~l~dal~~~i~~i 38 (157)
T TIGR03845 3 AVYNILKDAGIDLVASVPCDNLKNLLPLIEKDFRHI 38 (157)
T ss_pred HHHHHHHHCCCeEEEecCcHhHHHHHHHHHhCCcEE
Confidence 67779999999998 899999988889886336677
No 163
>PF02574 S-methyl_trans: Homocysteine S-methyltransferase; InterPro: IPR003726 S-methylmethionine: homocysteine methyltransferase 2.1.1.10 from EC from Escherichia coli accepts selenohomocysteine as a substrate. S-methylmethionine is an abundant plant product that can be utilised for methionine biosynthesis []. Human methionine synthase (5-methyltetrahydrofolate:L-homocysteine S-transmethylase; 2.1.1.13 from EC) shares 53 and 63% identity with the E. coli and the presumptive Caenorhabditis elegans proteins, respectively, and contains all residues implicated in B12 binding to the E. coli protein []. Betaine--homocysteine S-methyltransferase (2.1.1.5 from EC) converts betaine and homocysteine to dimethylglycine and methionine, respectively. This reaction is also required for the irreversible oxidation of choline [].; GO: 0008898 homocysteine S-methyltransferase activity; PDB: 1UMY_A 1LT8_B 1LT7_B 3BOF_B 1Q7Q_B 1Q85_B 1Q7Z_A 1Q7M_A 1Q8A_B 1Q8J_B ....
Probab=24.10 E-value=3.7e+02 Score=24.12 Aligned_cols=33 Identities=18% Similarity=0.284 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhhhhHHhhc
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVS 121 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del~ 121 (233)
+|+.|.+.=.++|+ +|||.| -+||...-...+.
T Consensus 39 ~p~~v~~iH~~yl~-AGAdiI--~TnTy~a~~~~l~ 71 (305)
T PF02574_consen 39 NPELVRQIHRDYLE-AGADII--TTNTYQASRERLK 71 (305)
T ss_dssp -HHHHHHHHHHHHH-HT-SEE--EEC-TT-SHHHHG
T ss_pred CHHHHHHHHHHHHH-CCCCeE--EecCCcCchhhhh
Confidence 44444444444664 799955 4787777655554
No 164
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=23.47 E-value=5.2e+02 Score=24.26 Aligned_cols=100 Identities=13% Similarity=0.113 Sum_probs=56.5
Q ss_pred hhhhHHHHHHHHHH---HHHHcCCcEEeeccchhhhhHHhhcCCCCeech-hchHh-HHhhCCCeEEEEcCHHHHhhhhH
Q 046601 83 LKLEHALIAENLWS---FLEKLGACYSVIPCHIYRIWHDEVSCFVPFLHV-TKSKP-LEVRSPLGIHVLMTNGILTAGVL 157 (233)
Q Consensus 83 ~~~~~~~I~~~l~~---~Le~~Gad~IVIaCNTAH~~~del~~~vPii~i-~tv~~-~~~~~~~rVGVLAT~gTi~sglY 157 (233)
+..+-++-++.+.+ .+.++|||+|+ |+...- |. .+++. +...|...|+||+=.+-..|.+|
T Consensus 138 g~i~ND~Tl~~L~~~Als~A~AGADiVA-PSdMMD-------------GrV~aIR~aLd~~g~~~v~ImSYsaKyaS~fY 203 (322)
T PRK13384 138 DEVDNDATVENLVKQSVTAAKAGADMLA-PSAMMD-------------GQVKAIRQGLDAAGFEHVAILAHSAKFASSFY 203 (322)
T ss_pred CcCccHHHHHHHHHHHHHHHHcCCCeEe-cccccc-------------cHHHHHHHHHHHCCCCCCceeehhHhhhhhhc
Confidence 34555666666666 77889999876 332211 11 33333 33455667999999888888887
Q ss_pred HH---HHccccCcchhhhHHHHHHhcCC--cHHHHHHHHHHHHHHhhCCCCEEE
Q 046601 158 KL---CYQIKATMEHTLIPAVDALNRKD--VEGATNLLRRALQVLLARAVNIVI 206 (233)
Q Consensus 158 ~~---~l~~~~~q~~~v~~~I~~vk~G~--~~~~~~~l~~~~~~l~~~gaD~vI 206 (233)
.- +..+....+ -|..+ ....++.++++..... .|||.|.
T Consensus 204 GPFRdAa~Sap~gD---------rksYQmdp~n~~eAlre~~~D~~-EGAD~lM 247 (322)
T PRK13384 204 GPFRAAVDCELSGD---------RKSYQLDYANGRQALLEALLDEA-EGADILM 247 (322)
T ss_pred chHHHHhcCCCCCC---------cccccCCCCCHHHHHHHHHhhHh-hCCCEEE
Confidence 53 332211111 22333 2234566666655554 4888765
No 165
>PRK07107 inosine 5-monophosphate dehydrogenase; Validated
Probab=23.40 E-value=86 Score=30.93 Aligned_cols=69 Identities=19% Similarity=0.074 Sum_probs=34.4
Q ss_pred cCCCCCCceEEeeCchh----hhhhhcCCCCCCCCC--CCcchh-hhhhHHHHHHHHHHHHHHcCCcEEeeccchhhhh
Q 046601 45 LQTDESGKFLVGSNPVL----SKDLLSHERNSLPSL--NGRSDL-LKLEHALIAENLWSFLEKLGACYSVIPCHIYRIW 116 (233)
Q Consensus 45 ~~Dqeh~~~iv~~~p~i----t~~il~~~~~p~~~~--~~~~~~-~~~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~ 116 (233)
+..-+++|++=.++--+ .+.++.....|.++. +||-.- .-.+.++.. ...+.|.++|+|+|+|. +||-+
T Consensus 191 e~~i~~LPVVD~~g~LvGIIT~~Dilk~~~~P~a~~d~~grL~V~~av~~~~~~-~ra~~Lv~aGvd~i~vd--~a~g~ 266 (502)
T PRK07107 191 DHKLNTLPIVDKNGNLVYLVFRKDYDSHKENPLELLDSSKRYVVGAGINTRDYA-ERVPALVEAGADVLCID--SSEGY 266 (502)
T ss_pred HcCCCEEEEEcCCCeEEEEEEhHHHHhcccChhhhhhhccCeeeeeccChhhHH-HHHHHHHHhCCCeEeec--Ccccc
Confidence 34556666653222212 355665555554422 233200 111222222 23336888999999999 55554
No 166
>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=23.05 E-value=2.7e+02 Score=23.45 Aligned_cols=19 Identities=11% Similarity=-0.076 Sum_probs=12.8
Q ss_pred HhHHhhCCCeEEEEcCHHH
Q 046601 133 KPLEVRSPLGIHVLMTNGI 151 (233)
Q Consensus 133 ~~~~~~~~~rVGVLAT~gT 151 (233)
+.+.++|.++|++++.+..
T Consensus 102 ~~l~~~g~~~i~~i~~~~~ 120 (265)
T cd01543 102 EHFLERGFRHFAFYGLPGA 120 (265)
T ss_pred HHHHHCCCcEEEEEcCCCC
Confidence 3455567889999975543
No 167
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=22.98 E-value=1.3e+02 Score=29.61 Aligned_cols=74 Identities=18% Similarity=0.117 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHcCCcEE-eeccchhhhhHHhhc-C-CCCeech--hchH-hH---HhhCCCeEEE-EcC--HHH--Hhh
Q 046601 89 LIAENLWSFLEKLGACYS-VIPCHIYRIWHDEVS-C-FVPFLHV--TKSK-PL---EVRSPLGIHV-LMT--NGI--LTA 154 (233)
Q Consensus 89 ~I~~~l~~~Le~~Gad~I-VIaCNTAH~~~del~-~-~vPii~i--~tv~-~~---~~~~~~rVGV-LAT--~gT--i~s 154 (233)
...+.+.+.|++.|++.+ .+|-.+...+++.+. . ++.++.. +... .+ -.+..+++|+ +.| +|. .-+
T Consensus 14 ~~~~~l~~~L~~~GV~~vFgvpG~~~~~l~dal~~~~~i~~i~~~hE~~A~~~Adgyar~tg~~gv~~~t~GpG~~N~l~ 93 (564)
T PRK08155 14 TGAELIVRLLERQGIRIVTGIPGGAILPLYDALSQSTQIRHILARHEQGAGFIAQGMARTTGKPAVCMACSGPGATNLVT 93 (564)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCCcccHHHHHHHhccCCceEEEeccHHHHHHHHHHHHHHcCCCeEEEECCCCcHHHHHH
Confidence 456788889999999998 778887888899996 4 6777777 2221 11 1122456664 555 343 334
Q ss_pred hhHHHHHc
Q 046601 155 GVLKLCYQ 162 (233)
Q Consensus 155 glY~~~l~ 162 (233)
++++-...
T Consensus 94 gl~~A~~~ 101 (564)
T PRK08155 94 AIADARLD 101 (564)
T ss_pred HHHHHHhc
Confidence 55654444
No 168
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=22.90 E-value=78 Score=29.09 Aligned_cols=71 Identities=13% Similarity=0.105 Sum_probs=46.4
Q ss_pred hHHHHHHHHHHHHHHcCCcEEeeccchhhhhHHhhc--CCCCeech-h-ch-Hh---------HHh-hC---CCeEEEEc
Q 046601 86 EHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVS--CFVPFLHV-T-KS-KP---------LEV-RS---PLGIHVLM 147 (233)
Q Consensus 86 ~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del~--~~vPii~i-~-tv-~~---------~~~-~~---~~rVGVLA 147 (233)
...|-++.....|.+.|+|+||+=.. .|.++.++. .++||||. . .. .+ +.+ .| +.+|+++|
T Consensus 85 ~kgEs~~Dta~vls~y~~D~iv~R~~-~~~~~~~~a~~~~vPVINa~~g~~~HPtQ~LaDl~Ti~e~~G~l~g~kv~~vG 163 (305)
T PRK00856 85 SKGETLADTIRTLSAMGADAIVIRHP-QSGAARLLAESSDVPVINAGDGSHQHPTQALLDLLTIREEFGRLEGLKVAIVG 163 (305)
T ss_pred CCCcCHHHHHHHHHhcCCCEEEEeCC-ChHHHHHHHHHCCCCEEECCCCCCCCcHHHHHHHHHHHHHhCCCCCCEEEEEC
Confidence 33455566677899999999999965 455666666 89999998 2 11 11 121 22 46999997
Q ss_pred C---HHHHhhhhH
Q 046601 148 T---NGILTAGVL 157 (233)
Q Consensus 148 T---~gTi~sglY 157 (233)
= ..|.+|-..
T Consensus 164 D~~~~~v~~Sl~~ 176 (305)
T PRK00856 164 DIKHSRVARSNIQ 176 (305)
T ss_pred CCCCCcHHHHHHH
Confidence 5 356666443
No 169
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=22.63 E-value=3.3e+02 Score=23.91 Aligned_cols=70 Identities=14% Similarity=-0.038 Sum_probs=38.9
Q ss_pred HHHHHHHHcCCcEEeeccchhh--hhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcC
Q 046601 93 NLWSFLEKLGACYSVIPCHIYR--IWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH--~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT 148 (233)
..++.|.+.++|.|++.-.+.. ..++.++ .++|++-+ ..++++...|.++|++++.
T Consensus 111 ~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g 190 (342)
T PRK10014 111 QRFSTLLNQGVDGVVIAGAAGSSDDLREMAEEKGIPVVFASRASYLDDVDTVRPDNMQAAQLLTEHLIRNGHQRIAWLGG 190 (342)
T ss_pred HHHHHHHhCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEEEecCCCCCCCCEEEeCCHHHHHHHHHHHHHCCCCEEEEEcC
Confidence 4444567788998877433322 2345555 55565432 1224455567889999975
Q ss_pred HHHH-----hhhhHHHHHc
Q 046601 149 NGIL-----TAGVLKLCYQ 162 (233)
Q Consensus 149 ~gTi-----~sglY~~~l~ 162 (233)
+.+. +..-|.+.++
T Consensus 191 ~~~~~~~~~R~~Gf~~al~ 209 (342)
T PRK10014 191 QSSSLTRAERVGGYCATLL 209 (342)
T ss_pred CcccccHHHHHHHHHHHHH
Confidence 4321 2223666665
No 170
>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=22.60 E-value=2.9e+02 Score=23.07 Aligned_cols=57 Identities=9% Similarity=-0.128 Sum_probs=31.0
Q ss_pred HHHHHHHHcCCcEEee-ccchhhhhHHhhc-CCCCeech---------------------hchHhHHhhCCCeEEEEcCH
Q 046601 93 NLWSFLEKLGACYSVI-PCHIYRIWHDEVS-CFVPFLHV---------------------TKSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVI-aCNTAH~~~del~-~~vPii~i---------------------~tv~~~~~~~~~rVGVLAT~ 149 (233)
.+++.|...++|.+++ +++.....+.+++ .++|++-+ ..++++.++|.++|++++.+
T Consensus 46 ~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ipvV~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 125 (264)
T cd06274 46 ETVETLIARQVDALIVAGSLPPDDPYYLCQKAGLPVVALDRPGDPSRFPSVVSDNRDGAAELTRELLAAPPEEVLFLGGL 125 (264)
T ss_pred HHHHHHHHcCCCEEEEcCCCCchHHHHHHHhcCCCEEEecCccCCCCCCEEEEccHHHHHHHHHHHHHCCCCcEEEEeCC
Confidence 4445667788997764 4543222244444 34444332 12233445678899999543
No 171
>PRK11320 prpB 2-methylisocitrate lyase; Provisional
Probab=22.12 E-value=2.8e+02 Score=25.41 Aligned_cols=68 Identities=15% Similarity=0.038 Sum_probs=37.7
Q ss_pred CCCcchhhh-hhHHHHHHHHHHHHHHcCCcEEeeccchhhhhHHhhc--CCCCee-ch---h-----chHhHHhhCCCeE
Q 046601 76 LNGRSDLLK-LEHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVS--CFVPFL-HV---T-----KSKPLEVRSPLGI 143 (233)
Q Consensus 76 ~~~~~~~~~-~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del~--~~vPii-~i---~-----tv~~~~~~~~~rV 143 (233)
+|.|.+-.. .+-++.+++.. ...++|||+|.+++-+.--.+.++. +++|++ +| . +.+++.+.|.++|
T Consensus 153 IiARTDa~~~~g~deAI~Ra~-aY~eAGAD~ifi~~~~~~~~i~~~~~~~~~Pl~~n~~~~~~~p~~s~~~L~~lGv~~v 231 (292)
T PRK11320 153 IMARTDALAVEGLDAAIERAQ-AYVEAGADMIFPEAMTELEMYRRFADAVKVPILANITEFGATPLFTTEELASAGVAMV 231 (292)
T ss_pred EEEecCcccccCHHHHHHHHH-HHHHcCCCEEEecCCCCHHHHHHHHHhcCCCEEEEeccCCCCCCCCHHHHHHcCCcEE
Confidence 455554321 22333333322 4455899999999866433344443 678874 34 1 4566777666554
Q ss_pred E
Q 046601 144 H 144 (233)
Q Consensus 144 G 144 (233)
-
T Consensus 232 ~ 232 (292)
T PRK11320 232 L 232 (292)
T ss_pred E
Confidence 3
No 172
>TIGR01464 hemE uroporphyrinogen decarboxylase. This model represents uroporphyrinogen decarboxylase (HemE), which converts uroporphyrinogen III to coproporphyrinogen III. This step takes the pathway toward protoporphyrin IX, a common precursor of both heme and chlorophyll, rather than toward precorrin 2 and its products.
Probab=22.00 E-value=6e+02 Score=23.01 Aligned_cols=26 Identities=12% Similarity=0.116 Sum_probs=16.9
Q ss_pred hhHHHHHHHHHHHHHHcCCcEEeecc
Q 046601 85 LEHALIAENLWSFLEKLGACYSVIPC 110 (233)
Q Consensus 85 ~~~~~I~~~l~~~Le~~Gad~IVIaC 110 (233)
.+++...+..++..++.|.|++.+..
T Consensus 44 ~~~e~~ae~~~~~~~~~~~D~~~i~~ 69 (338)
T TIGR01464 44 RNPDLAVEVTLQPIRRFGVDAAILFS 69 (338)
T ss_pred CCHHHHHHHHHHHHHHhCCCeEEecc
Confidence 44566666666677888888664443
No 173
>cd06343 PBP1_ABC_ligand_binding_like_8 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=22.00 E-value=4.5e+02 Score=23.40 Aligned_cols=22 Identities=23% Similarity=0.380 Sum_probs=13.7
Q ss_pred HHHHHHHHhhCCCCEEEEcCCc
Q 046601 190 LRRALQVLLARAVNIVILASND 211 (233)
Q Consensus 190 l~~~~~~l~~~gaD~vILGCTE 211 (233)
+...+..+.+.++|+|++.+..
T Consensus 188 ~~~~v~~i~~~~~d~v~~~~~~ 209 (362)
T cd06343 188 FDSQVAKLKAAGADVVVLATTP 209 (362)
T ss_pred HHHHHHHHHhcCCCEEEEEcCc
Confidence 4455556666677777766654
No 174
>PF02754 CCG: Cysteine-rich domain; InterPro: IPR004017 This domain is usually found in two copies per protein. It contains up to four conserved cysteines. The group includes proteins characterised as: heterodisulphide reductase, subunit B (HrdB); succinate dehydrogenase, subunit C (SdhC, 1.3.99.1 from EC); Fe-S oxidoreductase; glycerol-3-phosphate dehydrogenase subunit C (Anaerobic GlpC, 1.1.99.5 from EC); and glycolate oxidase iron-sulphur subunit (GlcF) [].
Probab=21.99 E-value=1.7e+02 Score=20.00 Aligned_cols=31 Identities=16% Similarity=0.232 Sum_probs=22.5
Q ss_pred cCCcHHHHHHHHHHHHHHhhCCCCEEEEcCC
Q 046601 180 RKDVEGATNLLRRALQVLLARAVNIVILASN 210 (233)
Q Consensus 180 ~G~~~~~~~~l~~~~~~l~~~gaD~vILGCT 210 (233)
.|..+.+.+..++.++.+.+.++|.||-.|.
T Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~~iv~~c~ 78 (85)
T PF02754_consen 48 AGDEELAEKVAKRNLKEIKEAGADTIVTPCP 78 (85)
T ss_pred cCchhhHHHHHHHHHHHHHHcCCCEEEEeCh
Confidence 3433345566777777788889999999985
No 175
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=21.91 E-value=1.2e+02 Score=24.01 Aligned_cols=34 Identities=9% Similarity=-0.034 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHcCCcEEeeccc-------hhhhhHHhhc
Q 046601 88 ALIAENLWSFLEKLGACYSVIPCH-------IYRIWHDEVS 121 (233)
Q Consensus 88 ~~I~~~l~~~Le~~Gad~IVIaCN-------TAH~~~del~ 121 (233)
+.-...+.+++++.+++=|++|.| |||+..+.++
T Consensus 42 ~l~i~~L~~ri~~~~i~EVIlA~~pt~EGe~Ta~yi~~~l~ 82 (112)
T cd01025 42 DLNIDKLLERIAKGQVKEVILATNPTVEGEATALYIAKLLK 82 (112)
T ss_pred ccCHHHHHHHHhcCCCcEEEEecCCCchHHHHHHHHHHHHh
Confidence 455667777999999999999998 6777666665
No 176
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=21.91 E-value=1.7e+02 Score=28.65 Aligned_cols=39 Identities=26% Similarity=0.232 Sum_probs=32.2
Q ss_pred HHHHHHHHHHcCCcEE-eeccchhhhhHHhhc-CCCCeech
Q 046601 91 AENLWSFLEKLGACYS-VIPCHIYRIWHDEVS-CFVPFLHV 129 (233)
Q Consensus 91 ~~~l~~~Le~~Gad~I-VIaCNTAH~~~del~-~~vPii~i 129 (233)
.+.+.+.|++.|++.+ .+|=.+.-.+++.+. .+++++..
T Consensus 5 a~~l~~~L~~~GV~~vFg~pG~~~~~l~dal~~~~i~~v~~ 45 (549)
T PRK06457 5 AEVIIRVLEDNGIQRIYGIPGDSIDPLVDAIRKSKVKYVQV 45 (549)
T ss_pred HHHHHHHHHHcCCCEEEEcCCcchHHHHHHHHhcCCeEEEe
Confidence 4578889999999998 677777778899998 67888777
No 177
>TIGR02317 prpB methylisocitrate lyase. Members of this family are methylisocitrate lyase, also called (2S,3R)-3-hydroxybutane-1,2,3-tricarboxylate pyruvate-lyase. This enzyme acts in propionate metabolism. It cleaves a carbon-carbon bond to convert 2-methylisocitrate to pyruvate plus succinate. Some members of this family have been annotated, incorrectly it seems, as the related protein carboxyphosphoenolpyruvate phosphomutase, which is involved in synthesizing the antibiotic bialaphos in Streptomyces hygroscopicus.
Probab=21.85 E-value=2.3e+02 Score=25.83 Aligned_cols=68 Identities=13% Similarity=-0.020 Sum_probs=39.1
Q ss_pred CCCcchhhh-hhHHHHHHHHHHHHHHcCCcEEeeccchhhhhHHhhc--CCCCee-ch---h-----chHhHHhhCCCeE
Q 046601 76 LNGRSDLLK-LEHALIAENLWSFLEKLGACYSVIPCHIYRIWHDEVS--CFVPFL-HV---T-----KSKPLEVRSPLGI 143 (233)
Q Consensus 76 ~~~~~~~~~-~~~~~I~~~l~~~Le~~Gad~IVIaCNTAH~~~del~--~~vPii-~i---~-----tv~~~~~~~~~rV 143 (233)
+|.|.+-.. .+-++.+++.. ...++|||+|.+++-+.-....++. +++|++ +| . +.+++.+.|.++|
T Consensus 148 IiARTDa~~~~g~deAI~Ra~-ay~~AGAD~vfi~g~~~~e~i~~~~~~i~~Pl~~n~~~~~~~p~~s~~eL~~lGv~~v 226 (285)
T TIGR02317 148 IIARTDARAVEGLDAAIERAK-AYVEAGADMIFPEALTSLEEFRQFAKAVKVPLLANMTEFGKTPLFTADELREAGYKMV 226 (285)
T ss_pred EEEEcCcccccCHHHHHHHHH-HHHHcCCCEEEeCCCCCHHHHHHHHHhcCCCEEEEeccCCCCCCCCHHHHHHcCCcEE
Confidence 566655432 22233333322 4456899999999866544455554 678874 44 1 4566777666554
Q ss_pred E
Q 046601 144 H 144 (233)
Q Consensus 144 G 144 (233)
-
T Consensus 227 ~ 227 (285)
T TIGR02317 227 I 227 (285)
T ss_pred E
Confidence 3
No 178
>cd07364 PCA_45_Dioxygenase_B Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate. Protocatechuate 4,5-dioxygenase (LigAB) catalyzes the oxidization and subsequent ring-opening of protocatechuate (or 3,4-dihydroxybenzoic acid, PCA), an intermediate in the breakdown of lignin and other compounds. Protocatechuate 4,5-dioxygenase is an aromatic ring opening dioxygenase belonging to the class III extradiol enzyme family, a group of enyzmes that cleaves aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon using a non-heme Fe(II). LigAB is composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. The B subunit (LigB) is the catalytic subunit of LigAB.
Probab=21.82 E-value=1.4e+02 Score=26.95 Aligned_cols=33 Identities=6% Similarity=-0.040 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHhhCCCCEEEE-cCCccccCCCC
Q 046601 186 ATNLLRRALQVLLARAVNIVIL-ASNDILDLLPP 218 (233)
Q Consensus 186 ~~~~l~~~~~~l~~~gaD~vIL-GCTElPll~~~ 218 (233)
..+.++++-+++.+.+.|+||+ |..|++.....
T Consensus 33 ~~~a~~~~~~~~~~~~pD~vVvi~~dH~~~f~~~ 66 (277)
T cd07364 33 LFKGYQPARDWIKKNKPDVAIIVYNDHASAFDLD 66 (277)
T ss_pred HHHHHHHHHHHHHHhCCCEEEEEcCchHHhhccc
Confidence 3456777777788889999988 89999977654
No 179
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=21.80 E-value=2.2e+02 Score=26.96 Aligned_cols=66 Identities=15% Similarity=0.211 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHcCCcEEeeccchhhhh-HHhhc-----CCCCeech-----------hchHhHHhhCCCeEEEEcCHHH
Q 046601 89 LIAENLWSFLEKLGACYSVIPCHIYRIW-HDEVS-----CFVPFLHV-----------TKSKPLEVRSPLGIHVLMTNGI 151 (233)
Q Consensus 89 ~I~~~l~~~Le~~Gad~IVIaCNTAH~~-~del~-----~~vPii~i-----------~tv~~~~~~~~~rVGVLAT~gT 151 (233)
+-+..+..+|.+.|-+.++.||-|.-+. .++|+ .++|+|.- .++++++++ +--|-++=|.|-
T Consensus 154 TTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~Akar-~~DvvliDTAGR 232 (340)
T COG0552 154 TTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQAAKAR-GIDVVLIDTAGR 232 (340)
T ss_pred hHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHHHHc-CCCEEEEeCccc
Confidence 3445677799999999999999999997 68888 78999983 233444444 445788889886
Q ss_pred Hhhh
Q 046601 152 LTAG 155 (233)
Q Consensus 152 i~sg 155 (233)
++..
T Consensus 233 Lhnk 236 (340)
T COG0552 233 LHNK 236 (340)
T ss_pred ccCc
Confidence 5543
No 180
>PRK00115 hemE uroporphyrinogen decarboxylase; Validated
Probab=21.61 E-value=3.1e+02 Score=25.13 Aligned_cols=51 Identities=4% Similarity=-0.144 Sum_probs=27.5
Q ss_pred HHHHc--CCcEEeeccchhhhhHHhhc-CCCCeech---hchHhHHhhCCCeEEEEcC
Q 046601 97 FLEKL--GACYSVIPCHIYRIWHDEVS-CFVPFLHV---TKSKPLEVRSPLGIHVLMT 148 (233)
Q Consensus 97 ~Le~~--Gad~IVIaCNTAH~~~del~-~~vPii~i---~tv~~~~~~~~~rVGVLAT 148 (233)
.+.+. +...+.++|||.+.+ +.+. +++-++++ ...+++++.-.+++.++|-
T Consensus 232 ~i~~~~~~~~ilh~cg~~~~~~-~~~~~~~~~~is~d~~~dl~~~k~~~g~~~~i~Gn 288 (346)
T PRK00115 232 ELKREHPDVPVILFGKGAGELL-EAMAETGADVVGLDWTVDLAEARRRVGDKKALQGN 288 (346)
T ss_pred HHHHhCCCCCEEEEcCCcHHHH-HHHHhcCCCEEeeCCCCCHHHHHHHcCCCeEEEeC
Confidence 44444 355667777777653 4455 66666666 2333344333444556554
No 181
>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=21.58 E-value=4.9e+02 Score=21.81 Aligned_cols=55 Identities=13% Similarity=-0.057 Sum_probs=30.3
Q ss_pred HHHHHHHcCCcEEeeccchhh---hhHHhhc-CCCCeech---------------------hchHhHHhh--CCCeEEEE
Q 046601 94 LWSFLEKLGACYSVIPCHIYR---IWHDEVS-CFVPFLHV---------------------TKSKPLEVR--SPLGIHVL 146 (233)
Q Consensus 94 l~~~Le~~Gad~IVIaCNTAH---~~~del~-~~vPii~i---------------------~tv~~~~~~--~~~rVGVL 146 (233)
..+.+...++|.|++.....+ ..++.++ .++|++.+ ..++++.++ +.++|+++
T Consensus 52 ~~~~~~~~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i 131 (272)
T cd06300 52 DIRNLIAQGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGTVTTPCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVV 131 (272)
T ss_pred HHHHHHHcCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecCCCCCceeEecCCHHHHHHHHHHHHHHHcCCCceEEEE
Confidence 333455669999988543222 2344544 55665543 122334444 57789999
Q ss_pred cC
Q 046601 147 MT 148 (233)
Q Consensus 147 AT 148 (233)
++
T Consensus 132 ~~ 133 (272)
T cd06300 132 RG 133 (272)
T ss_pred EC
Confidence 63
No 182
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.34 E-value=1.2e+02 Score=26.32 Aligned_cols=49 Identities=10% Similarity=-0.037 Sum_probs=33.5
Q ss_pred hhcCCCCCCCCCCCcchhhhhhHHHHHHHHHHHHHHcCCcEEeeccc-------hhhhhHHhhc
Q 046601 65 LLSHERNSLPSLNGRSDLLKLEHALIAENLWSFLEKLGACYSVIPCH-------IYRIWHDEVS 121 (233)
Q Consensus 65 il~~~~~p~~~~~~~~~~~~~~~~~I~~~l~~~Le~~Gad~IVIaCN-------TAH~~~del~ 121 (233)
++++.-||+. +--..+.-...+.+++++.+++=|++|.| ||||..+.++
T Consensus 105 VL~G~iSPld--------gigp~~l~i~~L~~Ri~~~~v~EVIlAt~~tvEGe~Ta~yi~~~lk 160 (195)
T TIGR00615 105 VLGGHISPLD--------GIGPEDLTIAALLKRLQEESVKEVILATNPTVEGEATALYIARLLQ 160 (195)
T ss_pred EccCccCccC--------CCChhhcCHHHHHHHHhcCCCcEEEEeCCCCchHHHHHHHHHHHhh
Confidence 4444457765 32223334556667998889999999999 7888766665
No 183
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=21.31 E-value=1.8e+02 Score=27.31 Aligned_cols=67 Identities=10% Similarity=0.072 Sum_probs=34.8
Q ss_pred HHhhCCCeEEEEcCHHHHhhhhHHHHHccccCcchhhhHHHHH-HhcCCcHHHHHHHHHHHHHHhhCCCCEEE
Q 046601 135 LEVRSPLGIHVLMTNGILTAGVLKLCYQIKATMEHTLIPAVDA-LNRKDVEGATNLLRRALQVLLARAVNIVI 206 (233)
Q Consensus 135 ~~~~~~~rVGVLAT~gTi~sglY~~~l~~~~~q~~~v~~~I~~-vk~G~~~~~~~~l~~~~~~l~~~gaD~vI 206 (233)
++..+.+|+.|+..++-.+++++++..+.-+... +.-.++. ++. +...+.+++.++...+.++|.||
T Consensus 26 ~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~--i~~~~f~~v~~---np~~~~v~~~~~~~~~~~~D~Ii 93 (383)
T PRK09860 26 MADYGFTRTLIVTDNMLTKLGMAGDVQKALEERN--IFSVIYDGTQP---NPTTENVAAGLKLLKENNCDSVI 93 (383)
T ss_pred HHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcC--CeEEEeCCCCC---CcCHHHHHHHHHHHHHcCCCEEE
Confidence 4444567888887776667788876544111000 0000111 111 12234556666666667777776
No 184
>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=21.28 E-value=3.4e+02 Score=22.75 Aligned_cols=55 Identities=13% Similarity=-0.040 Sum_probs=31.6
Q ss_pred HHHHHHHHcCCcEEee-ccc--hhh---hhHHhhc-CCCCeech----------------------hchHhHHhhCCCeE
Q 046601 93 NLWSFLEKLGACYSVI-PCH--IYR---IWHDEVS-CFVPFLHV----------------------TKSKPLEVRSPLGI 143 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVI-aCN--TAH---~~~del~-~~vPii~i----------------------~tv~~~~~~~~~rV 143 (233)
.+++.|.+.++|.+++ +++ ..+ ..+++++ .++|++-+ .+++.+.+.|.++|
T Consensus 46 ~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~~~~~~~~~~~V~~d~~~~~~~~~~~l~~~g~~~i 125 (273)
T cd06292 46 DYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNGRAPPPLKVPHVSTDDALAMRLAVRHLVALGHRRI 125 (273)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcCCCCCCCCCCEEEECcHHHHHHHHHHHHHCCCceE
Confidence 4456777789998876 443 222 1244444 45555444 11234455678899
Q ss_pred EEEc
Q 046601 144 HVLM 147 (233)
Q Consensus 144 GVLA 147 (233)
++++
T Consensus 126 ~~i~ 129 (273)
T cd06292 126 GFAS 129 (273)
T ss_pred EEEe
Confidence 9985
No 185
>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=21.16 E-value=3.1e+02 Score=24.32 Aligned_cols=20 Identities=15% Similarity=0.066 Sum_probs=13.7
Q ss_pred HHHHHHHcCCcEEeeccchhh
Q 046601 94 LWSFLEKLGACYSVIPCHIYR 114 (233)
Q Consensus 94 l~~~Le~~Gad~IVIaCNTAH 114 (233)
+.+.++++|+|.|++ .||.+
T Consensus 171 ~a~~~~~~G~d~i~~-~nt~~ 190 (296)
T cd04740 171 IARAAEEAGADGLTL-INTLK 190 (296)
T ss_pred HHHHHHHcCCCEEEE-ECCCc
Confidence 344788999999865 45543
No 186
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=21.08 E-value=1.3e+02 Score=26.70 Aligned_cols=57 Identities=11% Similarity=0.030 Sum_probs=39.1
Q ss_pred HHHHHHHHcCCcEEeeccchhhhh--HHhhc-----CCCCeech----h--chHhHHhhCCCeEEEEcCH
Q 046601 93 NLWSFLEKLGACYSVIPCHIYRIW--HDEVS-----CFVPFLHV----T--KSKPLEVRSPLGIHVLMTN 149 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH~~--~del~-----~~vPii~i----~--tv~~~~~~~~~rVGVLAT~ 149 (233)
.+.+..+..||++|-+.|..-++- ++.++ +++||+.- . -+..+...|..-|.+++|.
T Consensus 74 ~~A~~~~~~GA~aisvlte~~~f~g~~~~l~~v~~~v~iPvl~kdfi~~~~qi~~a~~~GAD~VlLi~~~ 143 (260)
T PRK00278 74 EIAKAYEAGGAACLSVLTDERFFQGSLEYLRAARAAVSLPVLRKDFIIDPYQIYEARAAGADAILLIVAA 143 (260)
T ss_pred HHHHHHHhCCCeEEEEecccccCCCCHHHHHHHHHhcCCCEEeeeecCCHHHHHHHHHcCCCEEEEEecc
Confidence 566677889999998877665542 44444 78999964 2 2233445567789999876
No 187
>TIGR02482 PFKA_ATP 6-phosphofructokinase. 6-phosphofructokinase (EC 2.7.1.11) catalyzes the addition of phosphate from ATP to fructose 6-phosphate to give fructose 1,6-bisphosphate. This represents a key control step in glycolysis. This model hits bacterial ATP-dependent 6-phosphofructokinases which lack a beta-hairpin loop present in TIGR02483 family members. TIGR02483 contains members that are ATP-dependent as well as members that are pyrophosphate-dependent. TIGR02477 represents the pyrophosphate-dependent phosphofructokinase, diphosphate--fructose-6-phosphate 1-phosphotransferase (EC 2.7.1.90).
Probab=21.07 E-value=1.5e+02 Score=27.32 Aligned_cols=43 Identities=14% Similarity=-0.035 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHcCCcEEee-ccchhhhhHHhhc--CCCCeech
Q 046601 87 HALIAENLWSFLEKLGACYSVI-PCHIYRIWHDEVS--CFVPFLHV 129 (233)
Q Consensus 87 ~~~I~~~l~~~Le~~Gad~IVI-aCNTAH~~~del~--~~vPii~i 129 (233)
..+..+.+.+.|++.|.|.+++ -=|-+......|. .++|++++
T Consensus 76 ~~~~~~~~~~~l~~~~Id~Li~IGGdgs~~~a~~L~e~~~i~vigi 121 (301)
T TIGR02482 76 TEEGRQKAVENLKKLGIEGLVVIGGDGSYTGAQKLYEEGGIPVIGL 121 (301)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHhhCCCEEee
Confidence 3566778888999999999855 4454444444443 56777776
No 188
>PRK08617 acetolactate synthase; Reviewed
Probab=20.72 E-value=2e+02 Score=28.12 Aligned_cols=40 Identities=18% Similarity=0.045 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHcCCcEE-eeccchhhhhHHhhc-CCCCeech
Q 046601 90 IAENLWSFLEKLGACYS-VIPCHIYRIWHDEVS-CFVPFLHV 129 (233)
Q Consensus 90 I~~~l~~~Le~~Gad~I-VIaCNTAH~~~del~-~~vPii~i 129 (233)
..+.+.+.|+++|++.| .+|=.+...+++.+. ..+.++..
T Consensus 7 ~~~~l~~~L~~~GV~~vFg~pG~~~~~l~~al~~~~i~~i~~ 48 (552)
T PRK08617 7 GADLVVDSLINQGVKYVFGIPGAKIDRVFDALEDSGPELIVT 48 (552)
T ss_pred HHHHHHHHHHHcCCCEEEeCCCccHHHHHHHHhhCCCCEEEe
Confidence 35678889999999999 556666777789887 67888887
No 189
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=20.21 E-value=1.3e+02 Score=27.20 Aligned_cols=20 Identities=15% Similarity=0.107 Sum_probs=16.5
Q ss_pred HHHHcCCcEEeeccchhhhh
Q 046601 97 FLEKLGACYSVIPCHIYRIW 116 (233)
Q Consensus 97 ~Le~~Gad~IVIaCNTAH~~ 116 (233)
+.++.|+|++++++=|+|..
T Consensus 161 f~~~tgvD~Lavs~Gt~hg~ 180 (282)
T TIGR01859 161 FVKETGVDYLAAAIGTSHGK 180 (282)
T ss_pred HHHHHCcCEEeeccCccccc
Confidence 55567999999999999953
No 190
>PRK07259 dihydroorotate dehydrogenase 1B; Reviewed
Probab=20.11 E-value=3.4e+02 Score=24.20 Aligned_cols=21 Identities=14% Similarity=0.042 Sum_probs=14.8
Q ss_pred HHHHHHHHcCCcEEeeccchhh
Q 046601 93 NLWSFLEKLGACYSVIPCHIYR 114 (233)
Q Consensus 93 ~l~~~Le~~Gad~IVIaCNTAH 114 (233)
.+.+.|+++|+|.|++- ||.+
T Consensus 173 ~~a~~l~~~G~d~i~~~-nt~~ 193 (301)
T PRK07259 173 EIAKAAEEAGADGLSLI-NTLK 193 (301)
T ss_pred HHHHHHHHcCCCEEEEE-cccc
Confidence 44558999999998653 5544
Done!