Query 023366
Match_columns 283
No_of_seqs 215 out of 1541
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 03:28:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023366.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023366hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06167 LabA_like LabA_like pr 98.8 1.6E-08 3.6E-13 83.8 7.5 83 112-194 55-144 (149)
2 PF01936 NYN: NYN domain; Int 98.7 2.8E-08 6.1E-13 81.1 6.5 84 114-197 52-143 (146)
3 KOG2462 C2H2-type Zn-finger pr 98.5 6.4E-08 1.4E-12 90.8 2.7 58 32-92 180-244 (279)
4 KOG2462 C2H2-type Zn-finger pr 98.4 7.4E-08 1.6E-12 90.3 1.8 52 31-83 205-263 (279)
5 TIGR00288 conserved hypothetic 98.2 2.7E-06 5.8E-11 74.5 7.1 82 113-197 70-153 (160)
6 KOG3623 Homeobox transcription 98.0 2.9E-06 6.3E-11 88.3 2.0 62 24-86 905-973 (1007)
7 PF13465 zf-H2C2_2: Zinc-finge 97.8 5.2E-06 1.1E-10 51.7 0.5 25 29-53 2-26 (26)
8 KOG1074 Transcriptional repres 97.6 2.2E-05 4.8E-10 82.8 0.9 59 32-91 624-696 (958)
9 COG1432 Uncharacterized conser 97.3 0.00055 1.2E-08 60.4 5.8 63 136-198 95-159 (181)
10 PHA00616 hypothetical protein 97.1 0.00015 3.2E-09 51.2 0.3 32 41-73 1-32 (44)
11 KOG3576 Ovo and related transc 97.0 0.00017 3.6E-09 66.3 0.3 48 29-77 133-180 (267)
12 PHA00733 hypothetical protein 96.9 0.001 2.3E-08 56.0 4.3 49 37-86 69-122 (128)
13 KOG3623 Homeobox transcription 96.9 0.00024 5.1E-09 74.5 0.4 56 37-93 890-952 (1007)
14 PHA02768 hypothetical protein; 96.9 0.00043 9.2E-09 51.0 1.3 25 41-66 5-29 (55)
15 KOG3576 Ovo and related transc 96.7 0.00049 1.1E-08 63.2 0.4 88 37-126 113-215 (267)
16 KOG1074 Transcriptional repres 96.5 0.00077 1.7E-08 71.5 0.8 37 30-67 370-406 (958)
17 PF00096 zf-C2H2: Zinc finger, 96.1 0.0015 3.4E-08 38.5 0.1 23 42-65 1-23 (23)
18 PF13912 zf-C2H2_6: C2H2-type 95.5 0.0058 1.3E-07 37.4 0.9 25 41-66 1-25 (27)
19 PHA00732 hypothetical protein 95.3 0.011 2.4E-07 46.1 2.2 27 41-68 1-28 (79)
20 PF13894 zf-C2H2_4: C2H2-type 95.0 0.0091 2E-07 34.5 0.6 23 42-65 1-23 (24)
21 cd05013 SIS_RpiR RpiR-like pro 94.7 0.18 3.9E-06 39.9 7.7 77 114-198 31-110 (139)
22 cd05014 SIS_Kpsf KpsF-like pro 94.7 0.054 1.2E-06 43.4 4.6 78 114-199 18-98 (128)
23 smart00355 ZnF_C2H2 zinc finge 94.1 0.027 5.8E-07 32.6 1.3 24 42-66 1-24 (26)
24 PHA02768 hypothetical protein; 94.1 0.021 4.5E-07 42.1 0.9 30 28-59 20-49 (55)
25 PRK15482 transcriptional regul 93.5 0.23 5.1E-06 45.8 6.9 96 95-198 122-232 (285)
26 PF09237 GAGA: GAGA factor; I 93.2 0.043 9.3E-07 40.2 1.2 34 36-70 19-52 (54)
27 PF01380 SIS: SIS domain SIS d 92.5 0.19 4.2E-06 39.9 4.2 48 151-198 53-103 (131)
28 TIGR00441 gmhA phosphoheptose 92.4 0.56 1.2E-05 39.8 7.2 83 117-199 38-130 (154)
29 cd05008 SIS_GlmS_GlmD_1 SIS (S 91.8 0.27 5.9E-06 39.2 4.4 76 114-198 17-96 (126)
30 cd05005 SIS_PHI Hexulose-6-pho 91.5 0.28 6.1E-06 42.2 4.4 73 114-199 51-126 (179)
31 KOG3608 Zn finger proteins [Ge 91.4 0.064 1.4E-06 53.0 0.3 102 26-144 192-313 (467)
32 PRK11557 putative DNA-binding 91.4 0.65 1.4E-05 42.5 6.9 96 95-198 115-225 (278)
33 cd05710 SIS_1 A subgroup of th 91.0 0.39 8.5E-06 39.0 4.5 47 152-198 48-97 (120)
34 cd01545 PBP1_SalR Ligand-bindi 91.0 0.79 1.7E-05 40.0 6.8 71 112-184 19-89 (270)
35 TIGR03127 RuMP_HxlB 6-phospho 90.8 0.37 8.1E-06 41.3 4.5 71 115-198 49-122 (179)
36 PRK00414 gmhA phosphoheptose i 90.6 1 2.3E-05 39.9 7.3 79 119-197 73-160 (192)
37 PRK11337 DNA-binding transcrip 90.5 0.85 1.8E-05 42.1 6.9 95 96-198 128-237 (292)
38 PRK13937 phosphoheptose isomer 90.5 1.3 2.9E-05 38.8 7.7 49 151-199 106-157 (188)
39 cd05006 SIS_GmhA Phosphoheptos 90.0 0.5 1.1E-05 40.6 4.6 50 151-200 101-153 (177)
40 cd06295 PBP1_CelR Ligand bindi 89.8 1.4 3E-05 38.9 7.4 66 113-184 31-96 (275)
41 PHA00733 hypothetical protein 89.8 0.24 5.2E-06 41.7 2.4 32 30-63 90-121 (128)
42 PF04123 DUF373: Domain of unk 88.9 1.8 4E-05 42.4 8.1 91 91-181 23-132 (344)
43 cd06312 PBP1_ABC_sugar_binding 88.8 1.6 3.4E-05 38.6 7.0 70 112-184 20-91 (271)
44 cd06282 PBP1_GntR_like_2 Ligan 88.7 2.2 4.8E-05 37.0 7.7 70 112-184 19-88 (266)
45 PF12874 zf-met: Zinc-finger o 88.4 0.17 3.6E-06 30.2 0.4 20 42-61 1-20 (25)
46 PRK13936 phosphoheptose isomer 88.3 1.8 3.8E-05 38.4 6.9 50 150-199 110-165 (197)
47 PF13407 Peripla_BP_4: Peripla 87.9 2.1 4.5E-05 37.4 7.1 92 112-208 18-111 (257)
48 COG1737 RpiR Transcriptional r 87.8 1.6 3.4E-05 40.8 6.6 97 94-199 116-228 (281)
49 TIGR01664 DNA-3'-Pase DNA 3'-p 87.4 2.3 4.9E-05 36.8 6.9 87 114-200 50-161 (166)
50 cd06305 PBP1_methylthioribose_ 87.2 2.8 6.1E-05 36.7 7.5 70 112-184 19-89 (273)
51 cd06281 PBP1_LacI_like_5 Ligan 86.9 3 6.4E-05 36.7 7.5 71 112-185 19-89 (269)
52 cd01542 PBP1_TreR_like Ligand- 86.5 3.2 6.9E-05 36.0 7.4 69 112-184 19-87 (259)
53 PF12171 zf-C2H2_jaz: Zinc-fin 86.2 0.39 8.5E-06 29.5 1.1 20 42-61 2-21 (27)
54 PRK11302 DNA-binding transcrip 85.6 7 0.00015 35.6 9.5 95 95-198 115-224 (284)
55 cd06324 PBP1_ABC_sugar_binding 85.5 3 6.4E-05 38.1 7.0 70 112-184 20-91 (305)
56 cd06294 PBP1_ycjW_transcriptio 85.2 3.8 8.3E-05 35.7 7.3 69 112-184 24-92 (270)
57 TIGR00393 kpsF KpsF/GutQ famil 85.1 1.4 3.1E-05 39.7 4.7 76 114-199 18-98 (268)
58 PLN03086 PRLI-interacting fact 85.1 0.78 1.7E-05 47.7 3.3 39 31-74 470-508 (567)
59 KOG3608 Zn finger proteins [Ge 85.0 0.38 8.3E-06 47.7 1.0 49 36-86 287-344 (467)
60 PRK13938 phosphoheptose isomer 84.9 1.1 2.3E-05 40.3 3.8 57 151-207 113-172 (196)
61 cd06318 PBP1_ABC_sugar_binding 84.9 4.7 0.0001 35.5 7.8 70 112-184 19-89 (282)
62 PRK10892 D-arabinose 5-phospha 84.6 1.5 3.2E-05 41.2 4.7 76 114-197 65-143 (326)
63 TIGR02634 xylF D-xylose ABC tr 84.5 4.3 9.3E-05 37.2 7.6 69 113-184 19-88 (302)
64 cd06306 PBP1_TorT-like TorT-li 84.1 4.3 9.4E-05 36.0 7.3 70 112-184 19-90 (268)
65 cd01540 PBP1_arabinose_binding 83.7 5 0.00011 35.6 7.5 68 113-184 20-88 (289)
66 PRK15408 autoinducer 2-binding 83.7 2.9 6.4E-05 39.7 6.3 70 112-184 43-114 (336)
67 cd06303 PBP1_LuxPQ_Quorum_Sens 82.4 3.8 8.3E-05 36.6 6.3 70 112-183 20-92 (280)
68 PRK02947 hypothetical protein; 82.0 2.1 4.5E-05 39.4 4.5 49 150-198 105-167 (246)
69 PRK11543 gutQ D-arabinose 5-ph 81.7 2.1 4.6E-05 39.9 4.5 77 113-197 59-138 (321)
70 PF13913 zf-C2HC_2: zinc-finge 81.6 0.81 1.8E-05 28.3 1.1 19 42-61 3-21 (25)
71 cd06271 PBP1_AglR_RafR_like Li 81.3 6.6 0.00014 34.0 7.2 69 112-184 23-91 (268)
72 cd06289 PBP1_MalI_like Ligand- 81.3 7.9 0.00017 33.5 7.7 70 112-184 19-88 (268)
73 cd06313 PBP1_ABC_sugar_binding 81.2 6.1 0.00013 35.2 7.1 70 112-184 19-89 (272)
74 cd06302 PBP1_LsrB_Quorum_Sensi 81.0 5.7 0.00012 36.1 6.9 70 112-184 19-90 (298)
75 PLN03086 PRLI-interacting fact 80.9 1.1 2.3E-05 46.8 2.4 47 28-76 491-547 (567)
76 TIGR00274 N-acetylmuramic acid 80.7 2.3 5E-05 40.4 4.4 49 151-199 126-177 (291)
77 PRK14101 bifunctional glucokin 80.6 4.5 9.7E-05 42.0 6.8 95 95-198 455-564 (638)
78 cd01541 PBP1_AraR Ligand-bindi 80.5 8.2 0.00018 33.9 7.6 70 112-184 19-92 (273)
79 cd06322 PBP1_ABC_sugar_binding 80.5 8.1 0.00017 33.7 7.5 69 112-184 19-89 (267)
80 PRK12342 hypothetical protein; 80.4 7.3 0.00016 36.6 7.5 67 115-185 44-119 (254)
81 cd06270 PBP1_GalS_like Ligand 80.3 7.9 0.00017 33.9 7.4 69 112-184 19-87 (268)
82 cd06308 PBP1_sensor_kinase_lik 79.9 8.7 0.00019 33.8 7.6 70 112-184 19-90 (270)
83 cd06316 PBP1_ABC_sugar_binding 79.9 7.9 0.00017 34.7 7.4 71 112-184 19-90 (294)
84 cd06299 PBP1_LacI_like_13 Liga 79.9 6.6 0.00014 34.2 6.7 69 112-184 19-87 (265)
85 PRK05441 murQ N-acetylmuramic 79.7 2.6 5.6E-05 40.1 4.4 49 151-199 131-182 (299)
86 TIGR02637 RhaS rhamnose ABC tr 79.7 6.1 0.00013 35.7 6.7 70 112-184 18-90 (302)
87 PRK10653 D-ribose transporter 79.5 8.1 0.00018 34.9 7.4 70 112-184 46-116 (295)
88 PF13909 zf-H2C2_5: C2H2-type 79.3 0.71 1.5E-05 27.4 0.3 22 42-65 1-22 (24)
89 cd06361 PBP1_GPC6A_like Ligand 79.1 8.4 0.00018 37.5 7.8 71 114-184 192-267 (403)
90 PF07279 DUF1442: Protein of u 79.0 2.7 5.9E-05 38.9 4.1 51 151-205 115-166 (218)
91 cd06320 PBP1_allose_binding Pe 79.0 7.3 0.00016 34.2 6.8 71 112-184 19-91 (275)
92 cd06319 PBP1_ABC_sugar_binding 78.9 9.4 0.0002 33.4 7.4 70 112-184 19-89 (277)
93 cd06315 PBP1_ABC_sugar_binding 78.7 9.1 0.0002 34.3 7.4 70 112-184 20-90 (280)
94 cd06297 PBP1_LacI_like_12 Liga 78.4 9.1 0.0002 33.9 7.2 69 112-184 19-87 (269)
95 cd01538 PBP1_ABC_xylose_bindin 78.2 11 0.00024 33.9 7.8 70 112-184 19-89 (288)
96 PF13465 zf-H2C2_2: Zinc-finge 78.2 0.91 2E-05 28.0 0.6 21 56-77 1-21 (26)
97 smart00451 ZnF_U1 U1-like zinc 78.0 1.3 2.8E-05 28.2 1.3 21 41-61 3-23 (35)
98 PRK10886 DnaA initiator-associ 77.8 3.6 7.8E-05 37.0 4.5 78 120-199 71-163 (196)
99 PRK04860 hypothetical protein; 77.6 1.1 2.4E-05 39.4 1.1 33 41-78 119-151 (160)
100 PRK10936 TMAO reductase system 77.6 7.8 0.00017 36.4 6.9 69 112-184 66-137 (343)
101 cd06317 PBP1_ABC_sugar_binding 77.3 13 0.00028 32.5 7.8 70 112-184 20-90 (275)
102 cd06277 PBP1_LacI_like_1 Ligan 77.3 10 0.00022 33.2 7.2 68 112-184 22-89 (268)
103 cd01537 PBP1_Repressors_Sugar_ 77.2 13 0.00027 31.6 7.5 71 112-185 19-89 (264)
104 cd06323 PBP1_ribose_binding Pe 77.0 14 0.0003 32.0 7.9 71 112-185 19-90 (268)
105 cd06314 PBP1_tmGBP Periplasmic 77.0 7.4 0.00016 34.3 6.2 69 112-184 18-88 (271)
106 cd06278 PBP1_LacI_like_2 Ligan 76.7 13 0.00028 32.2 7.6 68 112-184 19-86 (266)
107 PLN02770 haloacid dehalogenase 76.7 16 0.00035 32.9 8.5 81 98-185 99-191 (248)
108 cd06347 PBP1_ABC_ligand_bindin 76.6 4.7 0.0001 36.4 5.0 67 114-183 156-223 (334)
109 cd06292 PBP1_LacI_like_10 Liga 76.5 11 0.00025 32.9 7.3 70 112-184 19-92 (273)
110 cd01536 PBP1_ABC_sugar_binding 76.3 15 0.00032 31.6 7.7 70 113-185 20-90 (267)
111 cd06309 PBP1_YtfQ_like Peripla 76.2 11 0.00024 33.1 7.2 70 112-184 19-89 (273)
112 cd01539 PBP1_GGBP Periplasmic 75.8 13 0.00029 33.8 7.8 69 112-184 19-91 (303)
113 cd06342 PBP1_ABC_LIVBP_like Ty 75.6 5.4 0.00012 36.1 5.1 67 115-184 156-223 (334)
114 PRK10014 DNA-binding transcrip 75.5 12 0.00027 34.2 7.5 70 112-184 84-153 (342)
115 TIGR01512 ATPase-IB2_Cd heavy 75.4 3.7 8E-05 41.8 4.3 80 114-200 370-451 (536)
116 cd06310 PBP1_ABC_sugar_binding 75.3 11 0.00024 33.0 6.9 72 112-184 19-91 (273)
117 cd06311 PBP1_ABC_sugar_binding 75.2 14 0.00031 32.5 7.6 60 122-184 34-94 (274)
118 COG5189 SFP1 Putative transcri 75.1 1.2 2.5E-05 43.8 0.6 24 38-61 395-418 (423)
119 cd05007 SIS_Etherase N-acetylm 74.9 4.3 9.4E-05 37.7 4.4 48 151-198 118-168 (257)
120 cd04509 PBP1_ABC_transporter_G 74.8 6.7 0.00015 33.9 5.3 69 113-184 155-226 (299)
121 cd06273 PBP1_GntR_like_1 This 74.7 17 0.00036 31.7 7.8 69 112-184 19-87 (268)
122 cd06301 PBP1_rhizopine_binding 74.6 17 0.00036 31.9 7.8 70 112-184 19-90 (272)
123 TIGR01422 phosphonatase phosph 74.6 24 0.00052 31.5 9.0 77 105-185 97-184 (253)
124 TIGR02417 fruct_sucro_rep D-fr 74.5 14 0.00031 33.6 7.6 70 112-184 80-149 (327)
125 cd06268 PBP1_ABC_transporter_L 74.4 7 0.00015 33.8 5.3 70 112-184 153-223 (298)
126 cd06296 PBP1_CatR_like Ligand- 74.2 15 0.00033 32.0 7.4 69 112-184 19-87 (270)
127 cd06298 PBP1_CcpA_like Ligand- 73.9 15 0.00032 31.9 7.3 68 113-184 20-87 (268)
128 cd01987 USP_OKCHK USP domain i 73.8 29 0.00062 27.1 8.3 50 141-191 52-101 (124)
129 PRK10355 xylF D-xylose transpo 73.5 15 0.00033 34.5 7.7 69 112-183 45-114 (330)
130 PRK11382 frlB fructoselysine-6 73.4 4.6 0.0001 38.7 4.3 48 153-200 94-144 (340)
131 COG0546 Gph Predicted phosphat 72.9 14 0.0003 32.8 6.9 71 107-185 89-172 (220)
132 cd06293 PBP1_LacI_like_11 Liga 72.9 19 0.00041 31.5 7.7 69 112-184 19-87 (269)
133 TIGR01491 HAD-SF-IB-PSPlk HAD- 72.7 23 0.00049 29.9 8.0 85 106-197 79-186 (201)
134 PF02310 B12-binding: B12 bind 71.6 18 0.00038 28.4 6.6 67 112-184 18-89 (121)
135 cd06267 PBP1_LacI_sugar_bindin 70.7 24 0.00051 30.0 7.6 70 112-185 19-88 (264)
136 cd06363 PBP1_Taste_receptor Li 70.1 11 0.00025 36.1 6.1 70 113-183 195-267 (410)
137 PRK04860 hypothetical protein; 70.0 2.2 4.9E-05 37.4 1.2 24 29-52 131-154 (160)
138 cd05017 SIS_PGI_PMI_1 The memb 69.8 6.6 0.00014 31.6 3.8 42 151-194 43-87 (119)
139 cd06350 PBP1_GPCR_family_C_lik 69.7 14 0.0003 33.9 6.4 68 114-182 180-249 (348)
140 cd06360 PBP1_alkylbenzenes_lik 69.7 11 0.00023 34.3 5.6 69 113-184 153-224 (336)
141 PF00532 Peripla_BP_1: Peripla 69.6 16 0.00035 33.6 6.8 69 112-185 21-89 (279)
142 cd06330 PBP1_Arsenic_SBP_like 69.6 8.6 0.00019 35.4 5.0 69 113-182 157-228 (346)
143 cd01574 PBP1_LacI Ligand-bindi 69.3 22 0.00048 30.8 7.3 70 112-184 19-88 (264)
144 cd06340 PBP1_ABC_ligand_bindin 68.9 10 0.00022 35.3 5.4 64 114-179 164-227 (347)
145 cd06274 PBP1_FruR Ligand bindi 68.2 21 0.00045 31.1 7.0 69 112-184 19-87 (264)
146 TIGR00147 lipid kinase, YegS/R 68.2 16 0.00034 33.7 6.5 54 114-173 24-79 (293)
147 cd06321 PBP1_ABC_sugar_binding 68.0 27 0.00059 30.6 7.6 71 112-185 19-92 (271)
148 cd06285 PBP1_LacI_like_7 Ligan 67.7 25 0.00054 30.7 7.3 69 112-184 19-87 (265)
149 PRK09701 D-allose transporter 67.7 19 0.0004 33.2 6.8 70 112-184 44-116 (311)
150 cd06375 PBP1_mGluR_groupII Lig 67.5 14 0.00031 36.5 6.4 67 116-184 196-265 (458)
151 PRK12570 N-acetylmuramic acid- 67.3 8.2 0.00018 36.8 4.5 49 151-199 127-178 (296)
152 PRK13478 phosphonoacetaldehyde 67.2 46 0.001 30.2 9.2 76 106-185 100-186 (267)
153 PRK11303 DNA-binding transcrip 67.2 22 0.00047 32.4 7.1 70 112-184 81-150 (328)
154 PF12756 zf-C2H2_2: C2H2 type 66.8 2.9 6.3E-05 31.5 1.1 21 41-61 50-70 (100)
155 PF05368 NmrA: NmrA-like famil 66.8 19 0.00042 31.5 6.4 42 141-184 56-103 (233)
156 cd06334 PBP1_ABC_ligand_bindin 66.5 15 0.00033 34.7 6.1 70 113-184 159-228 (351)
157 cd06348 PBP1_ABC_ligand_bindin 66.5 9.3 0.0002 35.2 4.6 70 113-184 156-225 (344)
158 cd06335 PBP1_ABC_ligand_bindin 66.4 11 0.00024 35.0 5.1 67 113-182 157-224 (347)
159 TIGR02955 TMAO_TorT TMAO reduc 66.1 22 0.00048 32.2 6.9 68 112-183 19-89 (295)
160 TIGR01525 ATPase-IB_hvy heavy 66.1 9.4 0.0002 38.9 4.9 80 114-200 392-473 (556)
161 cd06333 PBP1_ABC-type_HAAT_lik 66.1 11 0.00024 34.1 4.9 68 113-183 152-220 (312)
162 PF14258 DUF4350: Domain of un 66.1 12 0.00026 27.4 4.2 56 112-181 8-68 (70)
163 cd01575 PBP1_GntR Ligand-bindi 65.1 32 0.00069 29.7 7.4 69 112-184 19-87 (268)
164 PLN03243 haloacid dehalogenase 65.0 28 0.00061 32.1 7.4 74 105-185 107-192 (260)
165 cd06336 PBP1_ABC_ligand_bindin 64.8 13 0.00027 34.7 5.2 66 114-182 158-225 (347)
166 COG2237 Predicted membrane pro 64.8 28 0.00061 34.6 7.7 90 94-183 26-134 (364)
167 cd06291 PBP1_Qymf_like Ligand 64.7 25 0.00054 30.6 6.7 66 112-184 19-84 (265)
168 cd01391 Periplasmic_Binding_Pr 64.2 40 0.00086 28.0 7.6 70 113-185 21-92 (269)
169 KOG3993 Transcription factor ( 64.0 3.4 7.4E-05 41.9 1.3 25 41-66 295-319 (500)
170 TIGR01548 HAD-SF-IA-hyp1 haloa 64.0 28 0.00062 29.8 6.9 67 112-185 112-188 (197)
171 cd06300 PBP1_ABC_sugar_binding 63.6 70 0.0015 28.0 9.4 85 112-201 19-109 (272)
172 cd06331 PBP1_AmiC_like Type I 63.0 17 0.00036 33.4 5.6 61 114-177 152-213 (333)
173 TIGR01691 enolase-ppase 2,3-di 62.9 33 0.00071 31.2 7.3 27 153-182 170-196 (220)
174 TIGR03649 ergot_EASG ergot alk 62.7 12 0.00025 33.8 4.4 75 110-184 11-105 (285)
175 TIGR03590 PseG pseudaminic aci 62.6 44 0.00095 30.9 8.3 79 114-199 45-125 (279)
176 PRK14987 gluconate operon tran 62.4 38 0.00082 31.0 7.7 69 112-184 83-151 (331)
177 cd06362 PBP1_mGluR Ligand bind 62.4 21 0.00046 34.6 6.4 68 114-183 192-264 (452)
178 cd06283 PBP1_RegR_EndR_KdgR_li 62.2 39 0.00085 29.1 7.5 69 112-184 19-87 (267)
179 TIGR02482 PFKA_ATP 6-phosphofr 62.0 24 0.00051 33.9 6.5 66 117-183 58-123 (301)
180 TIGR01511 ATPase-IB1_Cu copper 62.0 16 0.00035 37.5 5.7 78 115-200 414-492 (562)
181 COG1609 PurR Transcriptional r 61.9 31 0.00068 32.7 7.3 70 112-185 78-147 (333)
182 cd06326 PBP1_STKc_like Type I 61.7 15 0.00032 33.5 4.9 68 113-183 155-223 (336)
183 cd06355 PBP1_FmdD_like Peripla 61.6 25 0.00053 32.9 6.5 61 114-177 153-214 (348)
184 cd04795 SIS SIS domain. SIS (S 61.5 48 0.001 24.1 6.9 62 114-182 16-81 (87)
185 cd06272 PBP1_hexuronate_repres 61.3 35 0.00076 29.7 7.0 65 112-184 19-83 (261)
186 cd06345 PBP1_ABC_ligand_bindin 61.3 16 0.00034 33.8 5.1 66 114-182 164-230 (344)
187 PF13242 Hydrolase_like: HAD-h 60.8 33 0.00071 25.2 5.8 50 130-185 3-52 (75)
188 PRK09552 mtnX 2-hydroxy-3-keto 60.7 15 0.00033 32.3 4.7 36 98-133 65-101 (219)
189 TIGR01261 hisB_Nterm histidino 60.7 36 0.00079 29.2 6.9 78 106-184 28-129 (161)
190 cd06338 PBP1_ABC_ligand_bindin 60.6 21 0.00045 32.7 5.7 64 115-181 162-226 (345)
191 PRK13288 pyrophosphatase PpaX; 60.3 50 0.0011 28.6 7.8 74 105-185 80-165 (214)
192 cd06343 PBP1_ABC_ligand_bindin 60.2 18 0.00039 33.5 5.3 65 114-181 164-229 (362)
193 PRK15395 methyl-galactoside AB 60.0 36 0.00077 31.8 7.2 70 112-184 44-115 (330)
194 PHA00732 hypothetical protein 60.0 6.1 0.00013 30.8 1.8 30 29-65 17-47 (79)
195 PF13580 SIS_2: SIS domain; PD 60.0 12 0.00027 31.0 3.8 33 150-182 102-137 (138)
196 PF05605 zf-Di19: Drought indu 59.7 6.5 0.00014 27.9 1.8 28 41-69 2-29 (54)
197 TIGR02137 HSK-PSP phosphoserin 59.2 22 0.00047 31.7 5.4 111 107-227 68-195 (203)
198 cd06307 PBP1_uncharacterized_s 59.1 18 0.00039 31.8 4.9 70 112-183 19-91 (275)
199 cd06329 PBP1_SBP_like_3 Peripl 59.1 19 0.00042 33.3 5.3 67 114-183 163-233 (342)
200 PRK00331 glucosamine--fructose 58.1 13 0.00029 38.2 4.3 46 153-198 338-386 (604)
201 cd08185 Fe-ADH1 Iron-containin 58.1 43 0.00092 32.5 7.6 74 114-187 17-96 (380)
202 cd06279 PBP1_LacI_like_3 Ligan 57.8 44 0.00094 29.8 7.1 65 112-184 24-88 (283)
203 cd06346 PBP1_ABC_ligand_bindin 57.0 18 0.00039 33.1 4.6 67 114-183 157-224 (312)
204 cd01988 Na_H_Antiporter_C The 57.0 50 0.0011 25.5 6.6 47 140-187 58-106 (132)
205 PRK13226 phosphoglycolate phos 56.8 45 0.00097 29.6 7.0 28 106-133 94-122 (229)
206 PRK15404 leucine ABC transport 56.6 19 0.0004 34.3 4.8 68 114-184 181-249 (369)
207 cd06269 PBP1_glutamate_recepto 56.5 48 0.001 28.6 7.0 68 114-183 160-230 (298)
208 TIGR02726 phenyl_P_delta pheny 56.1 44 0.00096 29.2 6.7 60 117-184 45-107 (169)
209 COG0074 SucD Succinyl-CoA synt 56.1 30 0.00064 33.5 6.0 63 121-190 66-129 (293)
210 TIGR01135 glmS glucosamine--fr 56.0 16 0.00034 37.7 4.5 46 153-198 340-388 (607)
211 cd01391 Periplasmic_Binding_Pr 55.7 30 0.00066 28.7 5.5 70 112-183 143-216 (269)
212 TIGR02253 CTE7 HAD superfamily 55.3 84 0.0018 27.0 8.3 72 106-185 93-177 (221)
213 cd06368 PBP1_iGluR_non_NMDA_li 55.3 34 0.00075 31.0 6.2 57 118-177 150-206 (324)
214 cd06327 PBP1_SBP_like_1 Peripl 55.1 24 0.00052 32.4 5.2 66 114-182 155-223 (334)
215 PF13419 HAD_2: Haloacid dehal 54.9 29 0.00063 27.7 5.1 30 104-133 74-104 (176)
216 TIGR03351 PhnX-like phosphonat 54.8 44 0.00096 28.9 6.5 76 107-185 87-173 (220)
217 PLN02981 glucosamine:fructose- 54.7 17 0.00036 38.5 4.5 47 152-198 411-460 (680)
218 PRK14072 6-phosphofructokinase 54.6 31 0.00068 34.6 6.2 66 117-182 67-137 (416)
219 PLN02575 haloacid dehalogenase 54.6 68 0.0015 31.9 8.5 29 105-133 214-243 (381)
220 COG1597 LCB5 Sphingosine kinas 54.5 30 0.00065 32.9 5.8 56 138-194 20-76 (301)
221 cd06284 PBP1_LacI_like_6 Ligan 54.2 74 0.0016 27.4 7.8 68 112-184 19-86 (267)
222 COG4049 Uncharacterized protei 54.1 4.2 9.1E-05 30.6 -0.0 31 35-65 11-41 (65)
223 cd01989 STK_N The N-terminal d 53.5 60 0.0013 26.0 6.7 42 149-190 76-118 (146)
224 TIGR01489 DKMTPPase-SF 2,3-dik 53.3 33 0.00071 28.5 5.3 84 107-197 72-185 (188)
225 cd02755 MopB_Thiosulfate-R-lik 53.1 34 0.00073 33.8 6.1 71 151-225 156-237 (454)
226 PRK09484 3-deoxy-D-manno-octul 52.7 47 0.001 28.7 6.3 16 118-133 60-75 (183)
227 TIGR01449 PGP_bact 2-phosphogl 52.2 83 0.0018 26.8 7.7 28 106-133 84-112 (213)
228 cd06409 PB1_MUG70 The MUG70 pr 51.7 24 0.00051 28.2 3.9 27 155-181 55-81 (86)
229 cd06337 PBP1_ABC_ligand_bindin 51.0 25 0.00055 32.9 4.7 63 117-182 171-234 (357)
230 PRK09449 dUMP phosphatase; Pro 51.0 75 0.0016 27.5 7.4 27 106-133 94-121 (224)
231 TIGR01481 ccpA catabolite cont 50.9 74 0.0016 28.9 7.6 69 112-184 79-147 (329)
232 cd01473 vWA_CTRP CTRP for CS 50.1 55 0.0012 28.7 6.4 33 153-185 110-149 (192)
233 PRK10490 sensor protein KdpD; 49.9 54 0.0012 35.8 7.5 50 134-185 297-346 (895)
234 PRK10703 DNA-binding transcrip 49.7 75 0.0016 29.1 7.5 69 112-184 79-148 (341)
235 PTZ00287 6-phosphofructokinase 49.6 37 0.0008 39.3 6.3 68 115-183 892-963 (1419)
236 COG0279 GmhA Phosphoheptose is 49.5 18 0.00039 32.6 3.2 46 153-198 111-159 (176)
237 cd06290 PBP1_LacI_like_9 Ligan 49.5 77 0.0017 27.5 7.2 68 112-184 19-86 (265)
238 cd06366 PBP1_GABAb_receptor Li 49.3 55 0.0012 30.2 6.6 64 113-177 154-218 (350)
239 TIGR01549 HAD-SF-IA-v1 haloaci 49.3 1.1E+02 0.0023 24.8 7.6 68 112-185 70-144 (154)
240 cd06352 PBP1_NPR_GC_like Ligan 49.2 36 0.00078 31.9 5.4 67 113-183 157-229 (389)
241 TIGR02252 DREG-2 REG-2-like, H 48.9 73 0.0016 27.1 6.9 66 112-185 111-187 (203)
242 TIGR01656 Histidinol-ppas hist 48.5 65 0.0014 26.6 6.3 14 168-181 131-144 (147)
243 cd06332 PBP1_aromatic_compound 48.1 45 0.00097 30.1 5.7 59 122-183 160-220 (333)
244 PF15608 PELOTA_1: PELOTA RNA 47.4 52 0.0011 27.1 5.3 44 141-185 45-90 (100)
245 cd06358 PBP1_NHase Type I peri 47.2 46 0.001 30.6 5.7 62 114-178 152-214 (333)
246 cd01536 PBP1_ABC_sugar_binding 46.9 96 0.0021 26.5 7.3 72 112-184 141-215 (267)
247 cd06276 PBP1_FucR_like Ligand- 46.7 74 0.0016 28.2 6.8 67 112-184 18-85 (247)
248 cd06280 PBP1_LacI_like_4 Ligan 46.6 95 0.0021 27.0 7.4 68 112-184 19-86 (263)
249 cd06286 PBP1_CcpB_like Ligand- 46.4 93 0.002 26.9 7.2 68 112-184 19-86 (260)
250 KOG2071 mRNA cleavage and poly 46.3 11 0.00024 39.6 1.5 28 39-67 416-443 (579)
251 PF04244 DPRP: Deoxyribodipyri 46.2 31 0.00067 31.8 4.3 72 113-184 53-126 (224)
252 PTZ00394 glucosamine-fructose- 46.2 29 0.00064 36.7 4.7 47 152-198 402-451 (670)
253 PRK09860 putative alcohol dehy 45.9 54 0.0012 32.0 6.2 71 114-185 22-99 (383)
254 TIGR01662 HAD-SF-IIIA HAD-supe 45.6 60 0.0013 25.8 5.5 13 169-181 118-130 (132)
255 PRK00075 cbiD cobalt-precorrin 45.6 54 0.0012 32.5 6.2 87 99-193 151-262 (361)
256 TIGR02483 PFK_mixed phosphofru 45.3 60 0.0013 31.5 6.3 65 117-182 60-124 (324)
257 cd06380 PBP1_iGluR_AMPA N-term 44.9 47 0.001 31.3 5.5 67 116-183 147-219 (382)
258 cd06275 PBP1_PurR Ligand-bindi 44.8 1E+02 0.0022 26.7 7.3 70 112-184 19-88 (269)
259 COG1879 RbsB ABC-type sugar tr 44.8 71 0.0015 29.4 6.5 71 112-185 53-126 (322)
260 COG5048 FOG: Zn-finger [Genera 44.6 12 0.00027 34.2 1.5 34 35-69 313-350 (467)
261 cd06304 PBP1_BmpA_like Peripla 44.6 83 0.0018 27.7 6.7 68 112-184 21-89 (260)
262 COG4213 XylF ABC-type xylose t 44.5 56 0.0012 32.3 6.0 69 138-212 69-140 (341)
263 TIGR00522 dph5 diphthine synth 44.4 49 0.0011 30.6 5.4 80 104-185 77-168 (257)
264 TIGR01509 HAD-SF-IA-v3 haloaci 44.1 58 0.0013 26.8 5.4 21 114-134 93-113 (183)
265 PRK01642 cls cardiolipin synth 44.0 59 0.0013 32.8 6.3 59 122-181 302-364 (483)
266 PTZ00295 glucosamine-fructose- 44.0 33 0.00071 35.8 4.6 48 152-199 370-420 (640)
267 PRK08674 bifunctional phosphog 43.9 27 0.00058 33.3 3.7 43 151-195 78-123 (337)
268 COG0683 LivK ABC-type branched 43.5 29 0.00062 33.1 3.8 67 116-185 170-237 (366)
269 KOG3993 Transcription factor ( 43.4 8 0.00017 39.4 0.1 30 36-66 351-380 (500)
270 PRK11133 serB phosphoserine ph 43.0 53 0.0011 31.7 5.6 87 106-199 180-289 (322)
271 PRK03202 6-phosphofructokinase 43.0 60 0.0013 31.4 6.0 63 118-182 61-123 (320)
272 COG0794 GutQ Predicted sugar p 42.9 39 0.00085 31.0 4.4 80 112-199 55-137 (202)
273 COG0560 SerB Phosphoserine pho 42.8 83 0.0018 28.3 6.5 96 97-199 67-185 (212)
274 PF00781 DAGK_cat: Diacylglyce 42.8 65 0.0014 26.0 5.4 69 124-197 5-75 (130)
275 cd00293 USP_Like Usp: Universa 42.6 1.4E+02 0.003 22.2 7.4 40 149-188 67-106 (130)
276 PRK11914 diacylglycerol kinase 42.5 62 0.0013 30.2 5.8 87 105-195 14-108 (306)
277 cd06365 PBP1_Pheromone_recepto 42.5 1.1E+02 0.0024 30.4 7.9 71 113-184 191-265 (469)
278 PRK13225 phosphoglycolate phos 42.1 1.8E+02 0.004 27.0 8.9 72 106-185 141-222 (273)
279 cd01465 vWA_subgroup VWA subgr 42.0 55 0.0012 26.8 4.9 36 150-185 95-139 (170)
280 PF13419 HAD_2: Haloacid dehal 41.6 98 0.0021 24.6 6.2 63 115-181 108-176 (176)
281 cd06354 PBP1_BmpA_PnrA_like Pe 41.5 94 0.002 27.7 6.7 68 112-184 22-90 (265)
282 PF13380 CoA_binding_2: CoA bi 41.4 69 0.0015 26.0 5.3 43 139-185 68-110 (116)
283 PF00365 PFK: Phosphofructokin 41.2 51 0.0011 31.2 5.1 65 118-183 60-124 (282)
284 PRK15454 ethanol dehydrogenase 41.1 67 0.0015 31.6 6.1 71 114-185 40-117 (395)
285 TIGR01663 PNK-3'Pase polynucle 41.0 91 0.002 32.4 7.2 71 115-185 206-294 (526)
286 cd05009 SIS_GlmS_GlmD_2 SIS (S 40.8 53 0.0011 26.5 4.5 44 152-197 62-109 (153)
287 cd08769 DAP_dppA_2 Peptidase M 40.2 41 0.0009 32.0 4.3 59 149-216 145-205 (270)
288 cd00532 MGS-like MGS-like doma 40.1 68 0.0015 25.7 5.0 63 113-179 33-103 (112)
289 PF12683 DUF3798: Protein of u 40.0 57 0.0012 31.4 5.2 95 123-217 34-131 (275)
290 PF13458 Peripla_BP_6: Peripla 39.9 62 0.0013 29.3 5.3 63 113-178 154-217 (343)
291 PRK13337 putative lipid kinase 39.9 75 0.0016 29.7 5.9 91 105-201 7-109 (304)
292 cd06311 PBP1_ABC_sugar_binding 39.7 1.3E+02 0.0028 26.3 7.2 72 112-185 146-221 (274)
293 PRK10671 copA copper exporting 39.2 46 0.001 35.8 4.9 77 117-200 661-738 (834)
294 PRK11587 putative phosphatase; 39.1 1.1E+02 0.0025 26.6 6.7 29 106-134 82-111 (218)
295 TIGR03333 salvage_mtnX 2-hydro 38.9 1.4E+02 0.003 26.2 7.2 37 97-133 60-97 (214)
296 cd06287 PBP1_LacI_like_8 Ligan 38.9 82 0.0018 28.2 5.9 62 112-184 27-88 (269)
297 PRK10826 2-deoxyglucose-6-phos 38.7 1.9E+02 0.0042 25.1 8.1 18 116-133 102-119 (222)
298 cd01450 vWFA_subfamily_ECM Von 38.6 83 0.0018 25.0 5.3 31 154-184 106-141 (161)
299 cd06341 PBP1_ABC_ligand_bindin 38.6 41 0.00088 30.9 3.9 63 113-178 152-215 (341)
300 cd06301 PBP1_rhizopine_binding 38.6 1.5E+02 0.0032 25.8 7.3 70 112-183 143-217 (272)
301 PRK10423 transcriptional repre 38.6 1.3E+02 0.0029 27.2 7.2 67 112-183 76-144 (327)
302 TIGR00312 cbiD cobalamin biosy 38.5 78 0.0017 31.2 6.0 122 99-228 138-298 (347)
303 PRK03359 putative electron tra 38.1 1.1E+02 0.0025 28.7 6.8 58 122-185 54-122 (256)
304 cd06320 PBP1_allose_binding Pe 38.0 1.6E+02 0.0034 25.8 7.4 71 112-184 142-216 (275)
305 TIGR03702 lip_kinase_YegS lipi 38.0 79 0.0017 29.4 5.8 78 116-199 21-104 (293)
306 COG2086 FixA Electron transfer 38.0 47 0.001 31.5 4.3 58 121-184 54-120 (260)
307 COG5189 SFP1 Putative transcri 37.7 18 0.00039 35.8 1.5 24 38-61 346-371 (423)
308 PF04951 Peptidase_M55: D-amin 37.4 20 0.00043 34.1 1.7 67 150-225 146-214 (265)
309 COG2103 Predicted sugar phosph 37.3 28 0.00061 33.6 2.7 54 152-205 130-189 (298)
310 PRK06769 hypothetical protein; 36.8 1E+02 0.0022 26.5 5.8 16 117-132 39-54 (173)
311 cd06328 PBP1_SBP_like_2 Peripl 36.8 85 0.0018 29.1 5.8 67 113-182 155-224 (333)
312 PRK13059 putative lipid kinase 36.7 96 0.0021 28.9 6.1 56 114-175 24-80 (295)
313 TIGR01454 AHBA_synth_RP 3-amin 36.7 1.7E+02 0.0037 25.1 7.3 28 106-133 74-102 (205)
314 cd06388 PBP1_iGluR_AMPA_GluR4 36.6 60 0.0013 31.3 4.9 63 118-184 147-215 (371)
315 PF00072 Response_reg: Respons 36.6 1.8E+02 0.0038 21.6 6.9 64 113-185 13-81 (112)
316 PF13377 Peripla_BP_3: Peripla 36.6 53 0.0012 26.3 3.9 64 112-176 29-92 (160)
317 cd06364 PBP1_CaSR Ligand-bindi 36.5 69 0.0015 32.4 5.5 66 115-183 208-277 (510)
318 cd00763 Bacterial_PFK Phosphof 36.5 1.1E+02 0.0023 29.7 6.5 64 116-181 58-121 (317)
319 cd01451 vWA_Magnesium_chelatas 36.4 56 0.0012 27.8 4.2 34 152-185 99-142 (178)
320 PRK13055 putative lipid kinase 36.2 1E+02 0.0022 29.4 6.3 88 105-197 8-107 (334)
321 PF12756 zf-C2H2_2: C2H2 type 35.6 12 0.00027 28.0 0.0 24 43-66 1-24 (100)
322 PRK10624 L-1,2-propanediol oxi 35.6 1.1E+02 0.0023 29.8 6.5 77 114-191 21-104 (382)
323 cd06356 PBP1_Amide_Urea_BP_lik 35.4 96 0.0021 28.7 5.9 61 113-176 151-212 (334)
324 cd01454 vWA_norD_type norD typ 35.2 60 0.0013 27.3 4.2 36 151-186 103-153 (174)
325 TIGR01460 HAD-SF-IIA Haloacid 35.1 1.2E+02 0.0026 27.3 6.3 62 116-182 173-234 (236)
326 PRK13054 lipid kinase; Reviewe 35.0 1E+02 0.0022 28.7 6.0 81 114-200 23-109 (300)
327 TIGR00213 GmhB_yaeD D,D-heptos 34.7 1.5E+02 0.0032 25.2 6.5 10 169-178 137-146 (176)
328 TIGR01672 AphA HAD superfamily 34.5 92 0.002 28.8 5.6 84 97-185 104-194 (237)
329 PF02892 zf-BED: BED zinc fing 34.5 19 0.00041 24.1 0.8 26 38-63 13-42 (45)
330 cd08186 Fe-ADH8 Iron-containin 34.5 1.1E+02 0.0024 29.7 6.4 69 124-192 28-102 (383)
331 TIGR01490 HAD-SF-IB-hyp1 HAD-s 34.1 1.1E+02 0.0025 25.8 5.8 64 115-185 96-181 (202)
332 PF05443 ROS_MUCR: ROS/MUCR tr 34.1 17 0.00036 31.2 0.6 25 41-69 72-96 (132)
333 TIGR01459 HAD-SF-IIA-hyp4 HAD- 33.9 65 0.0014 28.9 4.4 67 114-185 32-105 (242)
334 TIGR00868 hCaCC calcium-activa 33.8 71 0.0015 35.3 5.3 43 152-194 405-451 (863)
335 PRK10725 fructose-1-P/6-phosph 33.8 2.3E+02 0.005 23.6 7.5 20 166-185 147-169 (188)
336 TIGR01522 ATPase-IIA2_Ca golgi 33.7 91 0.002 34.0 6.2 38 163-200 605-643 (884)
337 cd02750 MopB_Nitrate-R-NarG-li 33.6 67 0.0015 31.9 4.8 72 151-226 170-251 (461)
338 cd06303 PBP1_LuxPQ_Quorum_Sens 33.6 1.5E+02 0.0033 26.3 6.7 69 113-183 151-223 (280)
339 PRK05234 mgsA methylglyoxal sy 33.6 59 0.0013 27.8 3.9 65 112-180 39-111 (142)
340 PLN02564 6-phosphofructokinase 33.5 1.1E+02 0.0023 31.8 6.2 60 118-183 149-211 (484)
341 smart00614 ZnF_BED BED zinc fi 33.5 25 0.00054 24.6 1.3 26 41-66 18-48 (50)
342 PRK05576 cobalt-precorrin-2 C( 33.4 95 0.0021 27.8 5.4 58 141-200 81-142 (229)
343 TIGR02638 lactal_redase lactal 33.3 1.1E+02 0.0023 29.8 6.1 72 114-186 20-98 (379)
344 cd06379 PBP1_iGluR_NMDA_NR1 N- 32.9 89 0.0019 29.5 5.3 61 114-177 174-239 (377)
345 PRK07239 bifunctional uroporph 32.5 63 0.0014 31.1 4.3 84 107-192 18-115 (381)
346 PRK11009 aphA acid phosphatase 32.4 1.1E+02 0.0023 28.4 5.6 75 106-184 113-193 (237)
347 cd08182 HEPD Hydroxyethylphosp 32.1 1.8E+02 0.0039 28.0 7.3 72 116-191 16-94 (367)
348 cd06371 PBP1_sensory_GC_DEF_li 32.1 1.2E+02 0.0027 28.9 6.2 70 112-183 150-228 (382)
349 cd06349 PBP1_ABC_ligand_bindin 32.1 83 0.0018 28.9 4.9 68 114-184 155-223 (340)
350 PRK09456 ?-D-glucose-1-phospha 32.0 1.1E+02 0.0023 26.3 5.3 23 160-184 165-187 (199)
351 cd01477 vWA_F09G8-8_type VWA F 32.0 76 0.0017 28.1 4.4 34 152-185 131-171 (193)
352 COG5048 FOG: Zn-finger [Genera 31.9 23 0.00051 32.4 1.2 52 40-92 288-352 (467)
353 cd08176 LPO Lactadehyde:propan 31.8 1.3E+02 0.0028 29.1 6.3 72 114-186 19-97 (377)
354 cd06374 PBP1_mGluR_groupI Liga 31.7 1.2E+02 0.0027 29.8 6.3 67 114-183 206-279 (472)
355 PRK13222 phosphoglycolate phos 31.7 2.8E+02 0.0061 23.7 7.9 28 106-133 92-120 (226)
356 smart00851 MGS MGS-like domain 31.7 1E+02 0.0023 23.4 4.7 61 113-177 21-87 (90)
357 cd06357 PBP1_AmiC Periplasmic 31.6 1.6E+02 0.0034 27.7 6.7 62 114-178 152-216 (360)
358 TIGR02477 PFKA_PPi diphosphate 31.5 1.1E+02 0.0023 32.0 6.0 63 119-183 130-196 (539)
359 PRK13226 phosphoglycolate phos 31.5 1.7E+02 0.0037 25.9 6.6 44 137-184 154-197 (229)
360 PF00765 Autoind_synth: Autoin 31.5 1.1E+02 0.0024 27.1 5.3 44 137-184 115-158 (182)
361 cd06288 PBP1_sucrose_transcrip 31.4 2.3E+02 0.0049 24.5 7.3 67 113-184 21-87 (269)
362 TIGR03679 arCOG00187 arCOG0018 31.4 1.4E+02 0.0031 26.9 6.1 39 147-185 52-96 (218)
363 PF14871 GHL6: Hypothetical gl 31.1 1.2E+02 0.0026 25.6 5.3 40 142-181 4-63 (132)
364 cd06281 PBP1_LacI_like_5 Ligan 30.9 1.9E+02 0.004 25.3 6.7 49 135-183 13-63 (269)
365 cd00765 Pyrophosphate_PFK Phos 30.7 1.2E+02 0.0025 31.9 6.1 64 118-183 134-201 (550)
366 PRK14988 GMP/IMP nucleotidase; 30.7 1.9E+02 0.0041 25.7 6.8 28 106-133 92-120 (224)
367 smart00115 CASc Caspase, inter 30.6 96 0.0021 28.3 5.0 44 112-158 33-79 (241)
368 PLN02884 6-phosphofructokinase 30.4 1.4E+02 0.003 30.2 6.4 61 116-182 114-177 (411)
369 TIGR01670 YrbI-phosphatas 3-de 30.4 2E+02 0.0044 24.1 6.6 62 115-185 37-102 (154)
370 PF08821 CGGC: CGGC domain; I 30.3 1.4E+02 0.003 24.6 5.3 45 136-182 51-105 (107)
371 PF04959 ARS2: Arsenite-resist 30.1 29 0.00062 32.1 1.4 29 38-66 74-102 (214)
372 cd01480 vWA_collagen_alpha_1-V 29.6 2.1E+02 0.0047 24.4 6.8 51 134-184 89-149 (186)
373 cd01476 VWA_integrin_invertebr 29.6 79 0.0017 25.9 3.9 34 153-186 105-142 (163)
374 PRK00046 murB UDP-N-acetylenol 29.5 48 0.001 32.4 3.0 32 154-185 23-54 (334)
375 PHA02597 30.2 hypothetical pro 29.5 1.2E+02 0.0025 25.9 5.1 53 147-204 140-196 (197)
376 cd06376 PBP1_mGluR_groupIII Li 29.4 1.4E+02 0.0031 29.2 6.3 66 116-183 194-265 (463)
377 cd02064 FAD_synthetase_N FAD s 29.4 64 0.0014 28.0 3.5 41 145-185 63-109 (180)
378 cd08189 Fe-ADH5 Iron-containin 29.4 1.6E+02 0.0034 28.5 6.5 78 114-192 17-101 (374)
379 cd08551 Fe-ADH iron-containing 29.3 96 0.0021 29.8 4.9 78 114-192 14-98 (370)
380 cd00858 GlyRS_anticodon GlyRS 29.3 2.5E+02 0.0055 22.5 6.8 41 142-184 46-87 (121)
381 PRK11587 putative phosphatase; 29.2 66 0.0014 28.1 3.5 34 149-185 150-185 (218)
382 PF00564 PB1: PB1 domain; Int 29.2 51 0.0011 24.4 2.5 26 154-179 52-77 (84)
383 TIGR02247 HAD-1A3-hyp Epoxide 29.2 99 0.0021 26.6 4.6 17 168-184 182-198 (211)
384 PRK13582 thrH phosphoserine ph 28.9 1.5E+02 0.0033 25.1 5.7 85 106-198 67-168 (205)
385 PF10686 DUF2493: Protein of u 28.6 1.4E+02 0.0031 22.6 4.8 54 129-183 9-65 (71)
386 TIGR02815 agaS_fam putative su 28.5 67 0.0014 31.3 3.7 42 153-194 94-140 (372)
387 PRK13057 putative lipid kinase 28.4 1.1E+02 0.0023 28.3 4.9 56 138-194 13-68 (287)
388 cd06302 PBP1_LsrB_Quorum_Sensi 28.4 2.7E+02 0.0059 25.1 7.5 71 112-184 143-219 (298)
389 COG2241 CobL Precorrin-6B meth 28.4 1.2E+02 0.0026 27.9 5.2 97 103-203 21-121 (210)
390 cd02751 MopB_DMSOR-like The Mo 28.3 82 0.0018 32.5 4.5 48 151-199 169-230 (609)
391 PF08032 SpoU_sub_bind: RNA 2' 28.2 1.3E+02 0.0027 21.8 4.4 40 152-194 18-59 (76)
392 PF11495 Regulator_TrmB: Archa 28.2 1.3E+02 0.0028 27.2 5.3 48 137-184 9-58 (233)
393 TIGR01428 HAD_type_II 2-haloal 28.2 2.1E+02 0.0045 24.3 6.4 66 112-184 98-174 (198)
394 TIGR01467 cobI_cbiL precorrin- 28.0 1.3E+02 0.0028 26.8 5.3 58 142-201 82-143 (230)
395 cd08192 Fe-ADH7 Iron-containin 28.0 1.6E+02 0.0035 28.3 6.3 77 115-192 16-99 (370)
396 COG0205 PfkA 6-phosphofructoki 27.9 2.8E+02 0.0061 27.4 7.9 73 108-181 52-124 (347)
397 cd08194 Fe-ADH6 Iron-containin 27.8 2.1E+02 0.0045 27.7 7.0 74 116-190 16-96 (375)
398 TIGR02009 PGMB-YQAB-SF beta-ph 27.7 71 0.0015 26.5 3.4 71 106-185 87-169 (185)
399 TIGR01993 Pyr-5-nucltdase pyri 27.7 1.5E+02 0.0032 25.0 5.3 14 168-181 171-184 (184)
400 PRK14649 UDP-N-acetylenolpyruv 27.6 55 0.0012 31.1 2.9 33 153-185 22-54 (295)
401 PLN02625 uroporphyrin-III C-me 27.5 1.2E+02 0.0027 27.9 5.2 62 138-201 80-145 (263)
402 cd06322 PBP1_ABC_sugar_binding 27.4 3.1E+02 0.0068 23.7 7.5 69 113-183 141-211 (267)
403 PRK06555 pyrophosphate--fructo 27.4 1.7E+02 0.0037 29.6 6.4 63 120-182 70-146 (403)
404 PRK09856 fructoselysine 3-epim 27.2 1.9E+02 0.0042 26.0 6.3 81 116-196 20-124 (275)
405 cd06300 PBP1_ABC_sugar_binding 27.2 3E+02 0.0065 23.9 7.4 68 113-184 146-217 (272)
406 PF01565 FAD_binding_4: FAD bi 27.1 83 0.0018 25.3 3.6 32 154-185 3-34 (139)
407 COG2362 DppA D-aminopeptidase 27.1 74 0.0016 30.5 3.6 72 121-203 119-192 (274)
408 cd02766 MopB_3 The MopB_3 CD i 26.9 89 0.0019 31.5 4.4 72 151-226 157-238 (501)
409 PF02844 GARS_N: Phosphoribosy 26.9 65 0.0014 26.3 2.9 25 160-184 47-71 (100)
410 PRK11175 universal stress prot 26.9 1.9E+02 0.0042 26.2 6.3 48 142-190 227-276 (305)
411 TIGR02254 YjjG/YfnB HAD superf 26.7 2.9E+02 0.0063 23.5 7.1 20 113-133 104-123 (224)
412 cd08187 BDH Butanol dehydrogen 26.7 2.2E+02 0.0048 27.6 6.9 79 114-192 20-104 (382)
413 TIGR01465 cobM_cbiF precorrin- 26.6 1.1E+02 0.0023 27.1 4.4 59 139-199 60-122 (229)
414 cd02753 MopB_Formate-Dh-H Form 26.6 92 0.002 31.0 4.4 48 151-199 156-208 (512)
415 TIGR00338 serB phosphoserine p 26.5 3.1E+02 0.0067 23.6 7.2 85 96-184 74-177 (219)
416 cd06373 PBP1_NPR_like Ligand b 26.5 1E+02 0.0022 29.3 4.5 63 114-178 166-228 (396)
417 cd06344 PBP1_ABC_ligand_bindin 26.3 1.3E+02 0.0028 27.6 5.1 68 114-183 155-223 (332)
418 PRK07085 diphosphate--fructose 26.2 1.3E+02 0.0028 31.6 5.5 63 119-183 133-199 (555)
419 PF13460 NAD_binding_10: NADH( 26.1 44 0.00096 27.7 1.8 72 110-183 10-97 (183)
420 PF00070 Pyr_redox: Pyridine n 26.1 70 0.0015 23.6 2.7 43 112-154 12-57 (80)
421 cd06282 PBP1_GntR_like_2 Ligan 25.9 2E+02 0.0043 24.7 5.9 63 113-177 138-201 (266)
422 PRK08942 D,D-heptose 1,7-bisph 25.7 2E+02 0.0043 24.4 5.8 43 137-183 106-148 (181)
423 cd06278 PBP1_LacI_like_2 Ligan 25.7 2.4E+02 0.0053 24.1 6.4 48 136-183 14-62 (266)
424 cd08188 Fe-ADH4 Iron-containin 25.6 2.2E+02 0.0047 27.7 6.7 69 116-185 21-96 (377)
425 PF13519 VWA_2: von Willebrand 25.6 2E+02 0.0043 22.9 5.5 49 137-186 84-137 (172)
426 PRK10725 fructose-1-P/6-phosph 25.5 1.4E+02 0.0031 24.9 4.8 43 137-183 145-187 (188)
427 CHL00194 ycf39 Ycf39; Provisio 25.4 1.1E+02 0.0024 28.3 4.5 71 111-183 13-109 (317)
428 cd02172 RfaE_N N-terminal doma 25.3 1.3E+02 0.0028 25.4 4.5 35 146-184 61-96 (144)
429 COG0241 HisB Histidinol phosph 25.2 2.7E+02 0.0059 25.0 6.7 81 116-196 41-144 (181)
430 cd06283 PBP1_RegR_EndR_KdgR_li 25.2 2.1E+02 0.0045 24.6 5.9 65 112-177 137-203 (267)
431 PF09338 Gly_reductase: Glycin 25.0 1.5E+02 0.0033 30.2 5.6 38 147-184 299-341 (428)
432 cd01537 PBP1_Repressors_Sugar_ 25.0 2E+02 0.0044 24.2 5.7 38 138-177 164-203 (264)
433 cd06313 PBP1_ABC_sugar_binding 24.9 1.8E+02 0.0038 25.8 5.5 61 120-183 1-63 (272)
434 cd06324 PBP1_ABC_sugar_binding 24.9 2.9E+02 0.0063 25.0 7.1 79 140-228 190-275 (305)
435 PRK14652 UDP-N-acetylenolpyruv 24.8 73 0.0016 30.4 3.2 33 153-185 37-69 (302)
436 PRK11609 nicotinamidase/pyrazi 24.7 1.7E+02 0.0037 25.7 5.4 45 141-185 131-177 (212)
437 PRK09423 gldA glycerol dehydro 24.6 2.5E+02 0.0053 27.1 6.8 75 116-192 23-102 (366)
438 PF07085 DRTGG: DRTGG domain; 24.6 1.1E+02 0.0025 23.9 3.8 47 121-176 40-86 (105)
439 PF14488 DUF4434: Domain of un 24.6 1.8E+02 0.0038 25.4 5.4 80 137-222 19-119 (166)
440 cd01544 PBP1_GalR Ligand-bindi 24.6 1.8E+02 0.0039 25.5 5.5 60 112-184 24-83 (270)
441 cd00198 vWFA Von Willebrand fa 24.5 1.5E+02 0.0031 22.9 4.4 35 151-185 101-141 (161)
442 PF03411 Peptidase_M74: Penici 24.4 75 0.0016 30.0 3.1 30 169-198 49-90 (240)
443 PRK13903 murB UDP-N-acetylenol 24.3 75 0.0016 31.4 3.3 33 153-185 34-66 (363)
444 COG0041 PurE Phosphoribosylcar 24.3 3.1E+02 0.0067 24.6 6.7 51 134-184 12-66 (162)
445 PRK14071 6-phosphofructokinase 24.2 2.4E+02 0.0052 27.7 6.7 44 138-181 94-137 (360)
446 TIGR00179 murB UDP-N-acetyleno 24.2 77 0.0017 29.9 3.2 32 154-185 15-46 (284)
447 TIGR01469 cobA_cysG_Cterm urop 24.0 1.3E+02 0.0029 26.6 4.6 61 138-200 65-129 (236)
448 TIGR03614 RutB pyrimidine util 23.7 1.7E+02 0.0037 26.2 5.3 44 142-185 141-186 (226)
449 PF13778 DUF4174: Domain of un 23.7 2E+02 0.0043 23.6 5.2 70 132-203 18-105 (118)
450 PRK00994 F420-dependent methyl 23.5 3.6E+02 0.0078 26.0 7.4 62 120-185 29-97 (277)
451 cd02765 MopB_4 The MopB_4 CD i 23.5 1.2E+02 0.0026 31.1 4.6 76 151-232 159-244 (567)
452 TIGR03407 urea_ABC_UrtA urea A 23.4 2.3E+02 0.0049 26.6 6.2 61 114-177 154-215 (359)
453 cd01475 vWA_Matrilin VWA_Matri 23.4 1.3E+02 0.0027 26.7 4.3 33 153-185 110-145 (224)
454 cd03013 PRX5_like Peroxiredoxi 23.4 2.3E+02 0.005 23.9 5.7 58 138-198 52-111 (155)
455 PF10727 Rossmann-like: Rossma 23.3 73 0.0016 26.8 2.6 71 107-181 18-101 (127)
456 PRK11263 cardiolipin synthase 23.2 2.6E+02 0.0057 27.9 6.9 61 122-183 190-254 (411)
457 PF03129 HGTP_anticodon: Antic 23.2 3.2E+02 0.007 20.3 7.8 36 143-179 21-56 (94)
458 cd06389 PBP1_iGluR_AMPA_GluR2 22.9 1.9E+02 0.0042 27.6 5.7 64 118-184 141-213 (370)
459 cd06319 PBP1_ABC_sugar_binding 22.8 3.5E+02 0.0076 23.5 6.9 70 113-184 146-219 (277)
460 TIGR00676 fadh2 5,10-methylene 22.8 2.8E+02 0.006 25.8 6.6 17 164-180 75-91 (272)
461 TIGR00246 tRNA_RlmH_YbeA rRNA 22.8 3.4E+02 0.0074 23.6 6.7 77 122-198 31-120 (153)
462 PF10740 DUF2529: Protein of u 22.8 1.6E+02 0.0034 26.6 4.7 48 151-198 81-133 (172)
463 cd02759 MopB_Acetylene-hydrata 22.8 1.2E+02 0.0027 30.0 4.5 47 151-198 160-212 (477)
464 PF00571 CBS: CBS domain CBS d 22.7 1.7E+02 0.0036 19.6 3.9 32 154-185 8-39 (57)
465 cd01422 MGS Methylglyoxal synt 22.7 2.6E+02 0.0056 22.7 5.7 64 112-179 34-105 (115)
466 TIGR01457 HAD-SF-IIA-hyp2 HAD- 22.7 1.9E+02 0.0041 26.3 5.4 49 130-184 177-225 (249)
467 cd00032 CASc Caspase, interleu 22.7 1.6E+02 0.0035 26.7 4.9 44 112-158 35-80 (243)
468 PRK09492 treR trehalose repres 22.6 3.1E+02 0.0067 24.6 6.8 66 112-183 82-147 (315)
469 cd01540 PBP1_arabinose_binding 22.6 2.6E+02 0.0056 24.6 6.1 71 112-183 150-228 (289)
470 PRK13368 3-deoxy-manno-octulos 22.5 2.1E+02 0.0046 25.0 5.5 42 137-181 27-69 (238)
471 COG5405 HslV ATP-dependent pro 22.5 81 0.0018 28.5 2.8 58 168-230 35-98 (178)
472 TIGR00010 hydrolase, TatD fami 22.5 1.4E+02 0.0031 26.0 4.4 29 147-175 24-53 (252)
473 cd01019 ZnuA Zinc binding prot 22.4 6.4E+02 0.014 23.5 9.4 69 112-184 187-260 (286)
474 PRK00923 sirohydrochlorin coba 22.4 3.8E+02 0.0083 21.5 6.6 23 160-182 44-66 (126)
475 PF11814 DUF3335: Peptidase_C3 22.3 1.6E+02 0.0035 27.2 4.8 22 112-133 57-78 (207)
476 cd08171 GlyDH-like2 Glycerol d 22.3 2.5E+02 0.0054 26.9 6.3 74 117-192 17-96 (345)
477 smart00734 ZnF_Rad18 Rad18-lik 22.2 55 0.0012 20.3 1.2 19 42-61 2-20 (26)
478 PF00582 Usp: Universal stress 22.2 2.2E+02 0.0047 21.3 4.9 42 150-191 77-118 (140)
479 cd06310 PBP1_ABC_sugar_binding 22.2 4.6E+02 0.0099 22.7 7.6 70 112-183 143-216 (273)
480 TIGR03669 urea_ABC_arch urea A 22.1 1.5E+02 0.0033 28.5 4.9 61 115-178 154-215 (374)
481 cd00363 PFK Phosphofructokinas 22.1 1.8E+02 0.0039 28.3 5.3 66 117-183 59-127 (338)
482 PF01012 ETF: Electron transfe 22.1 4.4E+02 0.0095 22.0 7.2 12 150-161 57-68 (164)
483 cd00338 Ser_Recombinase Serine 22.1 2.7E+02 0.0057 22.0 5.6 16 166-181 86-101 (137)
484 cd05992 PB1 The PB1 domain is 22.0 91 0.002 22.9 2.6 27 154-180 51-77 (81)
485 cd01456 vWA_ywmD_type VWA ywmD 21.9 1.8E+02 0.004 25.1 5.0 35 151-185 134-178 (206)
486 PRK06136 uroporphyrin-III C-me 21.6 2E+02 0.0044 25.7 5.3 61 138-200 68-132 (249)
487 KOG3408 U1-like Zn-finger-cont 21.6 70 0.0015 27.5 2.1 24 38-61 54-77 (129)
488 PF10758 DUF2586: Protein of u 21.6 2E+02 0.0042 28.9 5.5 62 123-184 38-106 (363)
489 COG2084 MmsB 3-hydroxyisobutyr 21.6 1.5E+02 0.0032 28.6 4.5 72 110-183 11-94 (286)
490 cd07766 DHQ_Fe-ADH Dehydroquin 21.6 2.1E+02 0.0045 26.9 5.5 73 117-192 17-96 (332)
491 PRK15118 universal stress glob 21.5 4.1E+02 0.009 21.1 6.7 42 143-184 70-112 (144)
492 PF00289 CPSase_L_chain: Carba 21.3 94 0.002 25.3 2.8 21 165-185 15-35 (110)
493 PF03622 IBV_3B: IBV 3B protei 21.3 45 0.00098 25.3 0.8 12 269-280 45-56 (64)
494 PRK13906 murB UDP-N-acetylenol 21.3 88 0.0019 30.0 3.0 34 152-185 37-70 (307)
495 PLN02940 riboflavin kinase 21.3 4.1E+02 0.009 26.0 7.7 22 112-133 99-120 (382)
496 PF01301 Glyco_hydro_35: Glyco 21.3 1.4E+02 0.0031 28.6 4.4 44 137-181 23-81 (319)
497 cd01482 vWA_collagen_alphaI-XI 21.2 1.5E+02 0.0034 24.6 4.2 32 154-185 106-140 (164)
498 cd08183 Fe-ADH2 Iron-containin 21.2 3.6E+02 0.0078 26.1 7.2 71 117-191 17-92 (374)
499 PF01297 TroA: Periplasmic sol 21.2 6E+02 0.013 22.8 8.5 69 112-184 158-231 (256)
500 TIGR02128 G6PI_arch bifunction 21.2 1.1E+02 0.0024 29.2 3.7 41 151-193 66-109 (308)
No 1
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=98.79 E-value=1.6e-08 Score=83.78 Aligned_cols=83 Identities=31% Similarity=0.447 Sum_probs=70.7
Q ss_pred CchhhhhhhcCeeeeecCC-----CchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC--
Q 023366 112 YGLADELKRAGFWVRTVSD-----KPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI-- 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~d-----kp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~-- 184 (283)
-.+...|++.||.|..+.. .+.++|.+|.-.|.+.+...+++++||||.|+||+++++.+|++|.+.+|+|-.
T Consensus 55 ~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G~~V~v~~~~~~ 134 (149)
T cd06167 55 RGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELGKRVIVVGFEAK 134 (149)
T ss_pred HHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcCCEEEEEccCcc
Confidence 4566788899999998884 567999999999998887889999999999999999999999999999999874
Q ss_pred CCcccccccc
Q 023366 185 NDGALKRIAD 194 (283)
Q Consensus 185 ~~~~l~r~ad 194 (283)
....|.+.||
T Consensus 135 ~s~~L~~~~d 144 (149)
T cd06167 135 TSRELRKAAD 144 (149)
T ss_pred ChHHHHHhCC
Confidence 2244555566
No 2
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=98.72 E-value=2.8e-08 Score=81.10 Aligned_cols=84 Identities=30% Similarity=0.451 Sum_probs=55.7
Q ss_pred hhhhhhhcCeeeeecCC------CchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc--CC
Q 023366 114 LADELKRAGFWVRTVSD------KPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD--IN 185 (283)
Q Consensus 114 la~~L~RaG~~V~~v~d------kp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~--~~ 185 (283)
+...|++.|+.|..++. ...++|.+|.-.|...+....++.+||||.|+||+++++.+|++|.+++|||. ..
T Consensus 52 ~~~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~v~~l~~~g~~V~v~~~~~~~ 131 (146)
T PF01936_consen 52 FQEALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTIVLVSGDSDFAPLVRKLRERGKRVIVVGAEDSA 131 (146)
T ss_dssp HHHHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEEEEE---GGGHHHHHHHHHH--EEEEEE-GGGS
T ss_pred HHHHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEEEEEECcHHHHHHHHHHHHcCCEEEEEEeCCCC
Confidence 44667889999987765 56799999999998888666789999999999999999999999999999993 33
Q ss_pred Cccccccccccc
Q 023366 186 DGALKRIADASF 197 (283)
Q Consensus 186 ~~~l~r~ad~~~ 197 (283)
...|.+.||-.+
T Consensus 132 s~~L~~~ad~f~ 143 (146)
T PF01936_consen 132 SEALRSAADEFI 143 (146)
T ss_dssp -HHHHHHSSEEE
T ss_pred CHHHHHhcCEEE
Confidence 456666677554
No 3
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.48 E-value=6.4e-08 Score=90.78 Aligned_cols=58 Identities=24% Similarity=0.370 Sum_probs=51.3
Q ss_pred hhcccCCCCCccCCCCCCccCCchhHhhhhhcccccccc-------ccccCchhhhhhhhhhhhhhhh
Q 023366 32 NRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQK-------KRLNQIESARGKRRVHLVGKYS 92 (283)
Q Consensus 32 hqriHTGEKPykC~vCGKsFss~ssLkrH~KriHtGEK~-------Krf~~~~sl~~hrR~h~~~k~~ 92 (283)
|.++|+ -|++|.+|||.|+.+--|+-|+ ++|||||| |.|...++|+-|+++|...|..
T Consensus 180 HirTH~--l~c~C~iCGKaFSRPWLLQGHi-RTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~ 244 (279)
T KOG2462|consen 180 HIRTHT--LPCECGICGKAFSRPWLLQGHI-RTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKH 244 (279)
T ss_pred HhhccC--CCcccccccccccchHHhhccc-ccccCCCCccCCcccchhcchHHHHHHHHhhcCCccc
Confidence 677777 7899999999999999999999 99999996 7778889999999999886654
No 4
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.43 E-value=7.4e-08 Score=90.35 Aligned_cols=52 Identities=21% Similarity=0.378 Sum_probs=44.5
Q ss_pred hhhcccCCCCCccCCCCCCccCCchhHhhhhhcccccccc-------ccccCchhhhhhh
Q 023366 31 ENRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQK-------KRLNQIESARGKR 83 (283)
Q Consensus 31 EhqriHTGEKPykC~vCGKsFss~ssLkrH~KriHtGEK~-------Krf~~~~sl~~hr 83 (283)
-|.|+|||||||.|..|+|+|..+++|+.|+ ++|.+-|. |.|++.+-|..|.
T Consensus 205 GHiRTHTGEKPF~C~hC~kAFADRSNLRAHm-QTHS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 205 GHIRTHTGEKPFSCPHCGKAFADRSNLRAHM-QTHSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred cccccccCCCCccCCcccchhcchHHHHHHH-HhhcCCccccCcchhhHHHHHHHHHHhh
Confidence 3899999999999999999999999999999 99999885 5555556566553
No 5
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=98.25 E-value=2.7e-06 Score=74.51 Aligned_cols=82 Identities=24% Similarity=0.410 Sum_probs=66.6
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC--Ccccc
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN--DGALK 190 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~--~~~l~ 190 (283)
+|...|...||.+..+.. +.|++|-=.+++++-+..++++||||.|+||+.++..+|++|++.+|||-.. ...|.
T Consensus 70 ~l~~~l~~~Gf~pv~~kG---~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L~ 146 (160)
T TIGR00288 70 KLIEAVVNQGFEPIIVAG---DVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKENGKETIVIGAEPGFSTALQ 146 (160)
T ss_pred HHHHHHHHCCceEEEecC---cccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHCCCEEEEEeCCCCChHHHH
Confidence 467788899999876543 9999999888888766799999999999999999999999999999999431 23455
Q ss_pred ccccccc
Q 023366 191 RIADASF 197 (283)
Q Consensus 191 r~ad~~~ 197 (283)
+-||-++
T Consensus 147 ~acd~FI 153 (160)
T TIGR00288 147 NSADIAI 153 (160)
T ss_pred HhcCeEE
Confidence 5566443
No 6
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=97.97 E-value=2.9e-06 Score=88.31 Aligned_cols=62 Identities=21% Similarity=0.345 Sum_probs=55.5
Q ss_pred HhhhhhhhhhcccCCCCCccCCCCCCccCCchhHhhhhhcccccccc-------ccccCchhhhhhhhhh
Q 023366 24 RKLFNQLENRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQK-------KRLNQIESARGKRRVH 86 (283)
Q Consensus 24 r~~l~~LEhqriHTGEKPykC~vCGKsFss~ssLkrH~KriHtGEK~-------Krf~~~~sl~~hrR~h 86 (283)
-|.-.+++|+--|+|.+||+|.+|.|+|....+|+.|. ++|.|||| |||++..+..+|+.-.
T Consensus 905 qKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHk-RLHSGEKPfQCdKClKRFSHSGSYSQHMNHR 973 (1007)
T KOG3623|consen 905 QKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHK-RLHSGEKPFQCDKCLKRFSHSGSYSQHMNHR 973 (1007)
T ss_pred HhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhh-hhccCCCcchhhhhhhhcccccchHhhhccc
Confidence 45557888999999999999999999999999999999 99999996 8999999999997543
No 7
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.82 E-value=5.2e-06 Score=51.71 Aligned_cols=25 Identities=24% Similarity=0.557 Sum_probs=22.2
Q ss_pred hhhhhcccCCCCCccCCCCCCccCC
Q 023366 29 QLENRGVIKPAEPYVCGVCGRRFYS 53 (283)
Q Consensus 29 ~LEhqriHTGEKPykC~vCGKsFss 53 (283)
+..|+++|++++||.|+.|++.|.+
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEESS
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 4568999999999999999999964
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=97.56 E-value=2.2e-05 Score=82.79 Aligned_cols=59 Identities=24% Similarity=0.532 Sum_probs=49.0
Q ss_pred hhcccCCCCCccCCCCCCccCCchhHhhhhhcccccccc--------------ccccCchhhhhhhhhhhhhhh
Q 023366 32 NRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQK--------------KRLNQIESARGKRRVHLVGKY 91 (283)
Q Consensus 32 hqriHTGEKPykC~vCGKsFss~ssLkrH~KriHtGEK~--------------Krf~~~~sl~~hrR~h~~~k~ 91 (283)
|-|+||||+||+|.+||++|.++.+|+.|+ .+|....+ +.|..--.+-+|-|+|++...
T Consensus 624 HyrtHtGERPFkCKiCgRAFtTkGNLkaH~-~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~~~~~ 696 (958)
T KOG1074|consen 624 HYRTHTGERPFKCKICGRAFTTKGNLKAHM-SVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQHIRIHLGGQI 696 (958)
T ss_pred hhhcccCcCccccccccchhccccchhhcc-cccccCccccccccCCchhhhcccccccccccceEEeecCCCC
Confidence 789999999999999999999999999999 88875542 555666667888888875444
No 9
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=97.26 E-value=0.00055 Score=60.43 Aligned_cols=63 Identities=27% Similarity=0.448 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC--Ccccccccccccc
Q 023366 136 DVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN--DGALKRIADASFS 198 (283)
Q Consensus 136 D~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~--~~~l~r~ad~~~s 198 (283)
|+-|--+|....++-.++++||||.|.||..+++.|+++|.+|+|||-.+ -..|...||-...
T Consensus 95 Dv~la~D~~~l~~~~~~D~ivl~SgD~DF~p~v~~~~~~G~rv~v~~~~~~~s~~L~~~aD~~i~ 159 (181)
T COG1432 95 DVELAVDAMELADKKNVDTIVLFSGDGDFIPLVEAARDKGKRVEVAGIEPMTSSDLRNAADYYID 159 (181)
T ss_pred chhhHHHHHHhhcccCCCEEEEEcCCccHHHHHHHHHHcCCEEEEEecCCcCHHHHHHhhcceEE
Confidence 44444556566667799999999999999999999999999999999865 1235555664443
No 10
>PHA00616 hypothetical protein
Probab=97.08 E-value=0.00015 Score=51.16 Aligned_cols=32 Identities=25% Similarity=0.532 Sum_probs=29.1
Q ss_pred CccCCCCCCccCCchhHhhhhhccccccccccc
Q 023366 41 PYVCGVCGRRFYSNEKLVNHFKQIHEREQKKRL 73 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~KriHtGEK~Krf 73 (283)
||+|+.||+.|.....|..|. +.|+++++.++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~-r~~hg~~~~~~ 32 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHL-LSVHKQNKLTL 32 (44)
T ss_pred CCccchhhHHHhhHHHHHHHH-HHhcCCCccce
Confidence 799999999999999999999 99999887554
No 11
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=97.04 E-value=0.00017 Score=66.25 Aligned_cols=48 Identities=17% Similarity=0.255 Sum_probs=40.1
Q ss_pred hhhhhcccCCCCCccCCCCCCccCCchhHhhhhhccccccccccccCch
Q 023366 29 QLENRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQKKRLNQIE 77 (283)
Q Consensus 29 ~LEhqriHTGEKPykC~vCGKsFss~ssLkrH~KriHtGEK~Krf~~~~ 77 (283)
+.+|...|+..+.|.|..||++|..-..|++|. ++|+|-+|++|+.+.
T Consensus 133 lnrh~kch~~vkr~lct~cgkgfndtfdlkrh~-rthtgvrpykc~~c~ 180 (267)
T KOG3576|consen 133 LNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHT-RTHTGVRPYKCSLCE 180 (267)
T ss_pred HHHHhhhccHHHHHHHhhccCcccchhhhhhhh-ccccCccccchhhhh
Confidence 345788899889999999999999999999999 999999986665543
No 12
>PHA00733 hypothetical protein
Probab=96.94 E-value=0.001 Score=55.97 Aligned_cols=49 Identities=27% Similarity=0.445 Sum_probs=39.8
Q ss_pred CCCCCccCCCCCCccCCchhHhhhhhccccccc-----cccccCchhhhhhhhhh
Q 023366 37 KPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQ-----KKRLNQIESARGKRRVH 86 (283)
Q Consensus 37 TGEKPykC~vCGKsFss~ssLkrH~KriHtGEK-----~Krf~~~~sl~~hrR~h 86 (283)
.+.+||.|..||+.|.+...|..|+ +.|+... ++.|....+|..|++.+
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~-r~h~~~~~C~~CgK~F~~~~sL~~H~~~~ 122 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHI-RYTEHSKVCPVCGKEFRNTDSTLDHVCKK 122 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHH-hcCCcCccCCCCCCccCCHHHHHHHHHHh
Confidence 4478999999999999999999999 7653211 57888888888887755
No 13
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=96.93 E-value=0.00024 Score=74.54 Aligned_cols=56 Identities=20% Similarity=0.317 Sum_probs=51.2
Q ss_pred CCCCCccCCCCCCccCCchhHhhhhhcccccccc-------ccccCchhhhhhhhhhhhhhhhh
Q 023366 37 KPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQK-------KRLNQIESARGKRRVHLVGKYSM 93 (283)
Q Consensus 37 TGEKPykC~vCGKsFss~ssLkrH~KriHtGEK~-------Krf~~~~sl~~hrR~h~~~k~~~ 93 (283)
+.+.+|.|..|.|.|...++|.+|. --|+|.+| |.|.+..+|+.|+|.|.++|..+
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHK-YEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQ 952 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHK-YEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQ 952 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhh-hhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcch
Confidence 4567899999999999999999998 99999996 77888999999999999999884
No 14
>PHA02768 hypothetical protein; Provisional
Probab=96.89 E-value=0.00043 Score=51.00 Aligned_cols=25 Identities=24% Similarity=0.802 Sum_probs=23.7
Q ss_pred CccCCCCCCccCCchhHhhhhhcccc
Q 023366 41 PYVCGVCGRRFYSNEKLVNHFKQIHE 66 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~KriHt 66 (283)
.|.|+.||+.|...++|..|+ ++|+
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~-r~H~ 29 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHL-RKHN 29 (55)
T ss_pred ccCcchhCCeeccHHHHHHHH-HhcC
Confidence 589999999999999999999 8898
No 15
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=96.69 E-value=0.00049 Score=63.23 Aligned_cols=88 Identities=23% Similarity=0.345 Sum_probs=58.3
Q ss_pred CCCCCccCCCCCCccCCchhHhhhhhccccccc-------cccccCchhhhhhhhhhhhhhhhhhhHHHHHHHhh--hcc
Q 023366 37 KPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQ-------KKRLNQIESARGKRRVHLVGKYSMKMEKYKRAARA--ILT 107 (283)
Q Consensus 37 TGEKPykC~vCGKsFss~ssLkrH~KriHtGEK-------~Krf~~~~sl~~hrR~h~~~k~~~k~~KY~~AA~~--~l~ 107 (283)
.+...|.|.+|+|.|.-..-|++|+ +.|..-+ +|.|+..-.|++|.|+|++-++++ +....+|-.+ .|.
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~-kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpyk-c~~c~kaftqrcsle 190 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHL-KCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYK-CSLCEKAFTQRCSLE 190 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHh-hhccHHHHHHHhhccCcccchhhhhhhhccccCccccc-hhhhhHHHHhhccHH
Confidence 3445688888999888888888888 8887655 688888888888888888877763 3333343221 111
Q ss_pred ---CCC-C--CchhhhhhhcCeeee
Q 023366 108 ---PKI-G--YGLADELKRAGFWVR 126 (283)
Q Consensus 108 ---pk~-g--ygla~~L~RaG~~V~ 126 (283)
.|+ | -..|..-+|+-++|.
T Consensus 191 shl~kvhgv~~~yaykerr~kl~vc 215 (267)
T KOG3576|consen 191 SHLKKVHGVQHQYAYKERRAKLYVC 215 (267)
T ss_pred HHHHHHcCchHHHHHHHhhhheeee
Confidence 111 2 334555566666665
No 16
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=96.54 E-value=0.00077 Score=71.54 Aligned_cols=37 Identities=32% Similarity=0.600 Sum_probs=32.5
Q ss_pred hhhhcccCCCCCccCCCCCCccCCchhHhhhhhccccc
Q 023366 30 LENRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQIHER 67 (283)
Q Consensus 30 LEhqriHTGEKPykC~vCGKsFss~ssLkrH~KriHtG 67 (283)
.-|.|.|||++||+|.+||.+|+++.+|+.|+ ..|..
T Consensus 370 qiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~-~rH~e 406 (958)
T KOG1074|consen 370 QIHLRSHTGERPFQCNVCGNRFSTKGNLKVHF-QRHRE 406 (958)
T ss_pred hhhhhccCCCCCeeecccccccccccceeeee-eeccc
Confidence 34889999999999999999999999999999 66653
No 17
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=96.12 E-value=0.0015 Score=38.51 Aligned_cols=23 Identities=39% Similarity=0.928 Sum_probs=20.7
Q ss_pred ccCCCCCCccCCchhHhhhhhccc
Q 023366 42 YVCGVCGRRFYSNEKLVNHFKQIH 65 (283)
Q Consensus 42 ykC~vCGKsFss~ssLkrH~KriH 65 (283)
|.|+.|++.|.+...|..|+ +.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~-~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHM-RRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHH-HHH
T ss_pred CCCCCCCCccCCHHHHHHHH-hHC
Confidence 68999999999999999998 544
No 18
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=95.50 E-value=0.0058 Score=37.38 Aligned_cols=25 Identities=36% Similarity=0.713 Sum_probs=22.7
Q ss_pred CccCCCCCCccCCchhHhhhhhcccc
Q 023366 41 PYVCGVCGRRFYSNEKLVNHFKQIHE 66 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~KriHt 66 (283)
||.|..|++.|.+...|..|+ +.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~-~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHK-RSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHH-CTTT
T ss_pred CCCCCccCCccCChhHHHHHh-HHhc
Confidence 789999999999999999999 6664
No 19
>PHA00732 hypothetical protein
Probab=95.34 E-value=0.011 Score=46.13 Aligned_cols=27 Identities=22% Similarity=0.354 Sum_probs=23.4
Q ss_pred CccCCCCCCccCCchhHhhhhhc-ccccc
Q 023366 41 PYVCGVCGRRFYSNEKLVNHFKQ-IHERE 68 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~Kr-iHtGE 68 (283)
||.|..|++.|.+...|..|+ + .|++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~-r~~H~~~ 28 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHA-RRNHTLT 28 (79)
T ss_pred CccCCCCCCccCCHHHHHHHh-hcccCCC
Confidence 689999999999999999998 6 57654
No 20
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=94.99 E-value=0.0091 Score=34.50 Aligned_cols=23 Identities=35% Similarity=0.927 Sum_probs=18.6
Q ss_pred ccCCCCCCccCCchhHhhhhhccc
Q 023366 42 YVCGVCGRRFYSNEKLVNHFKQIH 65 (283)
Q Consensus 42 ykC~vCGKsFss~ssLkrH~KriH 65 (283)
|.|++|++.|.+...|..|+ ..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~-~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHM-RTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHH-HHH
T ss_pred CCCcCCCCcCCcHHHHHHHH-Hhh
Confidence 68999999999999999998 543
No 21
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=94.74 E-value=0.18 Score=39.91 Aligned_cols=77 Identities=23% Similarity=0.223 Sum_probs=54.8
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCc---chHHHHHHHHHcCCcEEEEccCCCcccc
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDS---DFVDVLQEAKYRCLKTVVVGDINDGALK 190 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~---~f~~~l~~ar~~~~~tvvvg~~~~~~l~ 190 (283)
++..|.+.|..+.++.+.-. .......+ ..-+|++++|-.. +...+++.|+++|.++|+|++..+..+.
T Consensus 31 ~~~~l~~~~~~~~~~~~~~~------~~~~~~~~--~~~~~~i~iS~~g~~~~~~~~~~~a~~~g~~iv~iT~~~~~~l~ 102 (139)
T cd05013 31 LAYKLLRLGKPVVLLSDPHL------QLMSAANL--TPGDVVIAISFSGETKETVEAAEIAKERGAKVIAITDSANSPLA 102 (139)
T ss_pred HHHHHHHcCCceEEecCHHH------HHHHHHcC--CCCCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEEcCCCCChhH
Confidence 55567788888888755221 11111122 2457888888554 4777889999999999999998888899
Q ss_pred cccccccc
Q 023366 191 RIADASFS 198 (283)
Q Consensus 191 r~ad~~~s 198 (283)
+.+|..|.
T Consensus 103 ~~~d~~i~ 110 (139)
T cd05013 103 KLADIVLL 110 (139)
T ss_pred HhcCEEEE
Confidence 99998764
No 22
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=94.69 E-value=0.054 Score=43.40 Aligned_cols=78 Identities=15% Similarity=0.288 Sum_probs=56.2
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccc
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALK 190 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~ 190 (283)
++..|.+.|+.+....+.. .+...+ ..+ ..-++++++|-. .+...+++.||++|+++|+|.+..+..|+
T Consensus 18 ~~~~l~~~g~~~~~~~~~~-----~~~~~~-~~~--~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la 89 (128)
T cd05014 18 IAATLSSTGTPAFFLHPTE-----ALHGDL-GMV--TPGDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPNSTLA 89 (128)
T ss_pred HHHHhhcCCCceEEcccch-----hhcccc-CcC--CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCchh
Confidence 4455567788888764421 111111 112 244788899854 78889999999999999999998889999
Q ss_pred ccccccccH
Q 023366 191 RIADASFSW 199 (283)
Q Consensus 191 r~ad~~~sW 199 (283)
+.||..|..
T Consensus 90 ~~ad~~l~~ 98 (128)
T cd05014 90 KLSDVVLDL 98 (128)
T ss_pred hhCCEEEEC
Confidence 999988866
No 23
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.12 E-value=0.027 Score=32.64 Aligned_cols=24 Identities=38% Similarity=0.812 Sum_probs=21.4
Q ss_pred ccCCCCCCccCCchhHhhhhhcccc
Q 023366 42 YVCGVCGRRFYSNEKLVNHFKQIHE 66 (283)
Q Consensus 42 ykC~vCGKsFss~ssLkrH~KriHt 66 (283)
|.|..|++.|.....|..|+ +.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~-~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHM-RTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHH-HHhc
Confidence 67999999999999999999 6664
No 24
>PHA02768 hypothetical protein; Provisional
Probab=94.09 E-value=0.021 Score=42.14 Aligned_cols=30 Identities=7% Similarity=0.070 Sum_probs=25.7
Q ss_pred hhhhhhcccCCCCCccCCCCCCccCCchhHhh
Q 023366 28 NQLENRGVIKPAEPYVCGVCGRRFYSNEKLVN 59 (283)
Q Consensus 28 ~~LEhqriHTGEKPykC~vCGKsFss~ssLkr 59 (283)
++..|+++|+ +||+|..|++.|.+.+.|..
T Consensus 20 ~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~~ 49 (55)
T PHA02768 20 SMITHLRKHN--TNLKLSNCKRISLRTGEYIE 49 (55)
T ss_pred HHHHHHHhcC--CcccCCcccceecccceeEE
Confidence 5567999999 79999999999998887763
No 25
>PRK15482 transcriptional regulator MurR; Provisional
Probab=93.47 E-value=0.23 Score=45.80 Aligned_cols=96 Identities=16% Similarity=0.304 Sum_probs=66.6
Q ss_pred hHHHHHHHhhhccCCC----CC--------chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC-
Q 023366 95 MEKYKRAARAILTPKI----GY--------GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD- 161 (283)
Q Consensus 95 ~~KY~~AA~~~l~pk~----gy--------gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd- 161 (283)
.+.+++++..+...+. |. -|...|.+.|..|....|.. +...+...+ . .-+++|++|-.
T Consensus 122 ~~~l~~~~~~i~~A~~I~i~G~G~S~~~A~~l~~~l~~~g~~~~~~~d~~------~~~~~~~~~-~-~~Dv~i~iS~sg 193 (285)
T PRK15482 122 YARLQKIIEVISKAPFIQITGLGGSALVGRDLSFKLMKIGYRVACEADTH------VQATVSQAL-K-KGDVQIAISYSG 193 (285)
T ss_pred HHHHHHHHHHHHhCCeeEEEEeChhHHHHHHHHHHHHhCCCeeEEeccHh------HHHHHHhcC-C-CCCEEEEEeCCC
Confidence 3466777776666653 32 23455668899888765432 222222223 2 33789999955
Q ss_pred --cchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 162 --SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 162 --~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
.+...+++.|+++|+++|.|++.....|.+.||.-|.
T Consensus 194 ~t~~~~~~~~~a~~~g~~iI~IT~~~~s~la~~ad~~l~ 232 (285)
T PRK15482 194 SKKEIVLCAEAARKQGATVIAITSLADSPLRRLAHFTLD 232 (285)
T ss_pred CCHHHHHHHHHHHHCCCEEEEEeCCCCCchHHhCCEEEE
Confidence 6677888999999999999999888889999998874
No 26
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=93.19 E-value=0.043 Score=40.24 Aligned_cols=34 Identities=21% Similarity=0.521 Sum_probs=24.0
Q ss_pred cCCCCCccCCCCCCccCCchhHhhhhhcccccccc
Q 023366 36 IKPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQK 70 (283)
Q Consensus 36 HTGEKPykC~vCGKsFss~ssLkrH~KriHtGEK~ 70 (283)
+..++|..|++|+..+++..+|.+|+ .++++.||
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHl-e~~H~~k~ 52 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHL-EIRHFKKP 52 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHH-HHHTTTS-
T ss_pred hccCCCCCCCcchhhccchhhHHHHH-HHHhcccC
Confidence 45678999999999999999999999 77776654
No 27
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=92.50 E-value=0.19 Score=39.86 Aligned_cols=48 Identities=21% Similarity=0.359 Sum_probs=39.5
Q ss_pred CccEEEEEeC---CcchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 151 HVECLVIVSD---DSDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 151 ~v~~lvlvsd---d~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
..++|+++|- ..+...+++.|+++|+++|+|.+..+..+.+.||.-|.
T Consensus 53 ~~d~vi~is~sg~~~~~~~~~~~ak~~g~~vi~iT~~~~~~l~~~ad~~l~ 103 (131)
T PF01380_consen 53 PDDLVIIISYSGETRELIELLRFAKERGAPVILITSNSESPLARLADIVLY 103 (131)
T ss_dssp TTEEEEEEESSSTTHHHHHHHHHHHHTTSEEEEEESSTTSHHHHHSSEEEE
T ss_pred ccceeEeeeccccchhhhhhhHHHHhcCCeEEEEeCCCCCchhhhCCEEEE
Confidence 4578888884 34567788899999999999999888899999987653
No 28
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=92.42 E-value=0.56 Score=39.82 Aligned_cols=83 Identities=16% Similarity=0.262 Sum_probs=54.6
Q ss_pred hhhhcCeeeeecCCCchhH-----HHHHHHHHHHHHh--hcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCC
Q 023366 117 ELKRAGFWVRTVSDKPQAA-----DVALRNHMVDMMD--KRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDIND 186 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp~aa-----D~al~~~~~~~~~--~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~ 186 (283)
.+.|.|+.+..+.+.+... |.-....+..++. -..-+.++++|-+ .+-..+++.|+++|+++|+|.+..+
T Consensus 38 ~~~~~g~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~D~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~ 117 (154)
T TIGR00441 38 RENRPGLPAIALSADVSHLTCVSNDYGYEDVFSRQVEALGQKGDVLLGISTSGNSKNVLKAIEAAKDKGMKTITLAGKDG 117 (154)
T ss_pred ccCCCCceEEecCCcHHHHHHhhccCCHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCC
Confidence 3457788887766333211 1111222222221 2345788999965 5566778899999999999999888
Q ss_pred ccccccccccccH
Q 023366 187 GALKRIADASFSW 199 (283)
Q Consensus 187 ~~l~r~ad~~~sW 199 (283)
..|.+.||.-|.=
T Consensus 118 s~l~~~ad~~l~~ 130 (154)
T TIGR00441 118 GKMAGLADIELRV 130 (154)
T ss_pred CchhhhCCEEEEe
Confidence 8999999987753
No 29
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=91.82 E-value=0.27 Score=39.20 Aligned_cols=76 Identities=20% Similarity=0.218 Sum_probs=51.4
Q ss_pred hhhhhhhcC-eeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccc
Q 023366 114 LADELKRAG-FWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGAL 189 (283)
Q Consensus 114 la~~L~RaG-~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l 189 (283)
++..|.+.| +.+.... +. +... .+ ..+ ..-+.++.+|-+ .+-..+++.|+++|.++|+|.+..+..|
T Consensus 17 ~~~~l~~~~~~~~~~~~--~~--~~~~--~~-~~~--~~~d~~I~iS~sG~t~e~~~~~~~a~~~g~~vi~iT~~~~s~l 87 (126)
T cd05008 17 AKYLLERLAGIPVEVEA--AS--EFRY--RR-PLL--DEDTLVIAISQSGETADTLAALRLAKEKGAKTVAITNVVGSTL 87 (126)
T ss_pred HHHHHHHhcCCceEEEe--hh--Hhhh--cC-CCC--CCCcEEEEEeCCcCCHHHHHHHHHHHHcCCeEEEEECCCCChH
Confidence 455666765 6776644 21 1111 11 012 345678888855 4566778899999999999999888899
Q ss_pred ccccccccc
Q 023366 190 KRIADASFS 198 (283)
Q Consensus 190 ~r~ad~~~s 198 (283)
.+.||..|.
T Consensus 88 a~~ad~~l~ 96 (126)
T cd05008 88 AREADYVLY 96 (126)
T ss_pred HHhCCEEEE
Confidence 999998774
No 30
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=91.51 E-value=0.28 Score=42.22 Aligned_cols=73 Identities=23% Similarity=0.282 Sum_probs=55.6
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccc
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALK 190 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~ 190 (283)
++..|.+.|..+..+.+.- ...+ ..-++++.+|-. .+...+++.|+++|+++|+|.+.....|.
T Consensus 51 ~~~~l~~~g~~~~~~~~~~-----------~~~~--~~~D~vI~iS~sG~t~~~i~~~~~ak~~g~~iI~IT~~~~s~la 117 (179)
T cd05005 51 FAMRLMHLGLNVYVVGETT-----------TPAI--GPGDLLIAISGSGETSSVVNAAEKAKKAGAKVVLITSNPDSPLA 117 (179)
T ss_pred HHHHHHhCCCeEEEeCCCC-----------CCCC--CCCCEEEEEcCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCchH
Confidence 3445678899988876521 0112 356788888855 67778899999999999999998888999
Q ss_pred ccccccccH
Q 023366 191 RIADASFSW 199 (283)
Q Consensus 191 r~ad~~~sW 199 (283)
+.||..|.-
T Consensus 118 ~~ad~~l~~ 126 (179)
T cd05005 118 KLADVVVVI 126 (179)
T ss_pred HhCCEEEEe
Confidence 999998754
No 31
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=91.37 E-value=0.064 Score=52.96 Aligned_cols=102 Identities=21% Similarity=0.259 Sum_probs=71.5
Q ss_pred hhhhhhhhcccCCCCCccCCCCCCccCCchhHhhhhhccccc-cc--------cccccCchhhhhhhhhhhhhhhhhhhH
Q 023366 26 LFNQLENRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQIHER-EQ--------KKRLNQIESARGKRRVHLVGKYSMKME 96 (283)
Q Consensus 26 ~l~~LEhqriHTGEKPykC~vCGKsFss~ssLkrH~KriHtG-EK--------~Krf~~~~sl~~hrR~h~~~k~~~k~~ 96 (283)
.+.+.||.++|+++|-..|+.||.-|++++.|-.|. +-.+. .+ .|+|..-+.|+.|.+.|..-
T Consensus 192 k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~-rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~------- 263 (467)
T KOG3608|consen 192 KYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHL-RRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNC------- 263 (467)
T ss_pred HHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHH-HhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhc-------
Confidence 456778999999999999999999999999999998 33332 22 37787777888887777321
Q ss_pred HHHHHHhhhccCC--CCCchhhhhhhcCeeeeecCCCchhHH---------HHHHHHHH
Q 023366 97 KYKRAARAILTPK--IGYGLADELKRAGFWVRTVSDKPQAAD---------VALRNHMV 144 (283)
Q Consensus 97 KY~~AA~~~l~pk--~gygla~~L~RaG~~V~~v~dkp~aaD---------~al~~~~~ 144 (283)
.-+|- .+.|+++.|++.=. .+--.|||.+-| .-|.+|++
T Consensus 264 --------ykCplCdmtc~~~ssL~~H~r-~rHs~dkpfKCd~Cd~~c~~esdL~kH~~ 313 (467)
T KOG3608|consen 264 --------YKCPLCDMTCSSASSLTTHIR-YRHSKDKPFKCDECDTRCVRESDLAKHVQ 313 (467)
T ss_pred --------ccccccccCCCChHHHHHHHH-hhhccCCCccccchhhhhccHHHHHHHHH
Confidence 23343 36888999976532 334458887544 45666653
No 32
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=91.36 E-value=0.65 Score=42.50 Aligned_cols=96 Identities=18% Similarity=0.161 Sum_probs=65.0
Q ss_pred hHHHHHHHhhhccCCC----CCc--------hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC-
Q 023366 95 MEKYKRAARAILTPKI----GYG--------LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD- 161 (283)
Q Consensus 95 ~~KY~~AA~~~l~pk~----gyg--------la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd- 161 (283)
..+..+++..+...+. |.| |...|.+.|+.+-...|.-. .......| ..-++|+.+|=.
T Consensus 115 ~~~l~~~~~~i~~a~~I~i~G~G~s~~~A~~~~~~l~~~g~~~~~~~d~~~------~~~~~~~~--~~~Dv~I~iS~sg 186 (278)
T PRK11557 115 EEKLHECVTMLRSARRIILTGIGASGLVAQNFAWKLMKIGINAVAERDMHA------LLATVQAL--SPDDLLLAISYSG 186 (278)
T ss_pred HHHHHHHHHHHhcCCeEEEEecChhHHHHHHHHHHHhhCCCeEEEcCChHH------HHHHHHhC--CCCCEEEEEcCCC
Confidence 3566777776666663 433 34456789998877544211 11111223 245577788754
Q ss_pred --cchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 162 --SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 162 --~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
.+...+++.|+++|+++|+|++.....+.+.||.-|.
T Consensus 187 ~~~~~~~~~~~ak~~ga~iI~IT~~~~s~la~~ad~~l~ 225 (278)
T PRK11557 187 ERRELNLAADEALRVGAKVLAITGFTPNALQQRASHCLY 225 (278)
T ss_pred CCHHHHHHHHHHHHcCCCEEEEcCCCCCchHHhCCEEEE
Confidence 4455788999999999999999888899999998883
No 33
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=91.00 E-value=0.39 Score=38.98 Aligned_cols=47 Identities=19% Similarity=0.234 Sum_probs=40.1
Q ss_pred ccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 152 VECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 152 v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
-+.++.+|-+ .+-..+++.|+++|+++|+|.+..+..|.+.||..|.
T Consensus 48 ~dl~I~iS~SG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad~~l~ 97 (120)
T cd05710 48 KSVVILASHSGNTKETVAAAKFAKEKGATVIGLTDDEDSPLAKLADYVIV 97 (120)
T ss_pred CcEEEEEeCCCCChHHHHHHHHHHHcCCeEEEEECCCCCcHHHhCCEEEE
Confidence 4788888865 5677888899999999999999888899999998774
No 34
>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=90.99 E-value=0.79 Score=39.98 Aligned_cols=71 Identities=13% Similarity=0.170 Sum_probs=52.6
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+.++...... ......+.+.+...+++-|++++.+.....+++.+++.++..|+|+..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~ 89 (270)
T cd01545 19 LGALDACRDTGYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPG 89 (270)
T ss_pred HHHHHHHHhCCCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecC
Confidence 57778888899998776433221 125555666565789999999987655678899999999999999753
No 35
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=90.83 E-value=0.37 Score=41.28 Aligned_cols=71 Identities=21% Similarity=0.281 Sum_probs=53.6
Q ss_pred hhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccccc
Q 023366 115 ADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKR 191 (283)
Q Consensus 115 a~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r 191 (283)
+..|.+.|..+..+.+.- ...+ ..-+++|++|-. .+...+++.|+++|+++|+|.+.....|.+
T Consensus 49 ~~~l~~~g~~~~~~~~~~-----------~~~~--~~~Dv~I~iS~sG~t~~~i~~~~~ak~~g~~ii~IT~~~~s~la~ 115 (179)
T TIGR03127 49 AMRLMHLGFNVYVVGETT-----------TPSI--KKGDLLIAISGSGETESLVTVAKKAKEIGATVAAITTNPESTLGK 115 (179)
T ss_pred HHHHHhCCCeEEEeCCcc-----------cCCC--CCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCchHH
Confidence 344667899888876531 0112 245788888865 567788889999999999999988889999
Q ss_pred ccccccc
Q 023366 192 IADASFS 198 (283)
Q Consensus 192 ~ad~~~s 198 (283)
.||.-|.
T Consensus 116 ~ad~~l~ 122 (179)
T TIGR03127 116 LADVVVE 122 (179)
T ss_pred hCCEEEE
Confidence 9998773
No 36
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=90.61 E-value=1 Score=39.86 Aligned_cols=79 Identities=16% Similarity=0.335 Sum_probs=53.9
Q ss_pred hhcCeeeeecCCCchh----HHHHHHHHHHHHHh--hcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccc
Q 023366 119 KRAGFWVRTVSDKPQA----ADVALRNHMVDMMD--KRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGAL 189 (283)
Q Consensus 119 ~RaG~~V~~v~dkp~a----aD~al~~~~~~~~~--~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l 189 (283)
.|.|+.+....|..-- .|.-...++..+.. ...-+.++.+|-+ .+-..+++.|+++|++||+|....+..|
T Consensus 73 ~r~g~~~~~~~d~~~~~~~~~d~~~~~~~~~~~~~~~~~~Dv~I~iS~SG~t~~~i~~~~~ak~~g~~iI~iT~~~~s~l 152 (192)
T PRK00414 73 NRPGYPAIAISDVSHLSCVSNDFGYDYVFSRYVEAVGREGDVLLGISTSGNSGNIIKAIEAARAKGMKVITLTGKDGGKM 152 (192)
T ss_pred CCCCceEEecCcHHHHhhhhccCCHHHHHHHHHHHhCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCChh
Confidence 4778888776542111 11112222222222 2456788889965 6677889999999999999999888899
Q ss_pred cccccccc
Q 023366 190 KRIADASF 197 (283)
Q Consensus 190 ~r~ad~~~ 197 (283)
++.||.-+
T Consensus 153 ~~~ad~~l 160 (192)
T PRK00414 153 AGLADIEI 160 (192)
T ss_pred HHhCCEEE
Confidence 99999877
No 37
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=90.51 E-value=0.85 Score=42.12 Aligned_cols=95 Identities=19% Similarity=0.341 Sum_probs=65.6
Q ss_pred HHHHHHHhhhccCCC----CCc--------hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC--
Q 023366 96 EKYKRAARAILTPKI----GYG--------LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD-- 161 (283)
Q Consensus 96 ~KY~~AA~~~l~pk~----gyg--------la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd-- 161 (283)
+...+++..+...+. |.| |+..|.|.|+.+..+.|... .......+ ..-++||++|-.
T Consensus 128 ~~l~~~~~~i~~A~~I~i~G~G~S~~~A~~l~~~l~~~g~~~~~~~d~~~------~~~~~~~~--~~~Dl~I~iS~sG~ 199 (292)
T PRK11337 128 DEFHRAARFFYQARQRDLYGAGGSAAIARDVQHKFLRIGVRCQAYDDAHI------MLMSAALL--QEGDVVLVVSHSGR 199 (292)
T ss_pred HHHHHHHHHHHcCCeEEEEEecHHHHHHHHHHHHHhhCCCeEEEcCCHHH------HHHHHhcC--CCCCEEEEEeCCCC
Confidence 556666666666553 333 34556788998887655321 11111112 345677888864
Q ss_pred -cchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 162 -SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 162 -~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
.+...+++.|+++|+++|+|++..+..|.+.||.-|.
T Consensus 200 t~~~~~~~~~ak~~g~~ii~IT~~~~s~la~~ad~~l~ 237 (292)
T PRK11337 200 TSDVIEAVELAKKNGAKIICITNSYHSPIAKLADYVIC 237 (292)
T ss_pred CHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEE
Confidence 5688889999999999999999888899999999874
No 38
>PRK13937 phosphoheptose isomerase; Provisional
Probab=90.48 E-value=1.3 Score=38.83 Aligned_cols=49 Identities=18% Similarity=0.276 Sum_probs=41.4
Q ss_pred CccEEEEEeC---CcchHHHHHHHHHcCCcEEEEccCCCccccccccccccH
Q 023366 151 HVECLVIVSD---DSDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW 199 (283)
Q Consensus 151 ~v~~lvlvsd---d~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW 199 (283)
.-+.++++|- ..+-..+++.|+++|++||+|.+..+..|.+.||..+.-
T Consensus 106 ~~Dl~i~iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~~s~L~~~ad~~l~~ 157 (188)
T PRK13937 106 PGDVLIGISTSGNSPNVLAALEKARELGMKTIGLTGRDGGKMKELCDHLLIV 157 (188)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEEe
Confidence 4478888884 467778899999999999999998788899999988754
No 39
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=90.01 E-value=0.5 Score=40.58 Aligned_cols=50 Identities=24% Similarity=0.339 Sum_probs=41.5
Q ss_pred CccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccccccccccccHH
Q 023366 151 HVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSWR 200 (283)
Q Consensus 151 ~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~ 200 (283)
.-+.+|++|-. .+-..+++.|+++|++||.|.+.++..|.+.||..|.-.
T Consensus 101 ~~Dv~I~iS~SG~t~~~i~~~~~ak~~Ga~vI~IT~~~~s~La~~aD~~l~~~ 153 (177)
T cd05006 101 PGDVLIGISTSGNSPNVLKALEAAKERGMKTIALTGRDGGKLLELADIEIHVP 153 (177)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeC
Confidence 45678888843 467788899999999999999988889999999988654
No 40
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=89.84 E-value=1.4 Score=38.87 Aligned_cols=66 Identities=17% Similarity=0.249 Sum_probs=48.4
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
|+..+++..|+.+..+...++ + ...+.+++.+.+++.|++++.+.+ ..+++.+.++|+..|++|-.
T Consensus 31 gi~~~~~~~g~~~~v~~~~~~--~---~~~~~~~l~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 96 (275)
T cd06295 31 GIADALAERGYDLLLSFVSSP--D---RDWLARYLASGRADGVILIGQHDQ-DPLPERLAETGLPFVVWGRP 96 (275)
T ss_pred HHHHHHHHcCCEEEEEeCCch--h---HHHHHHHHHhCCCCEEEEeCCCCC-hHHHHHHHhCCCCEEEECCc
Confidence 556777788999887655444 1 234455665689999999876544 57789999999999999754
No 41
>PHA00733 hypothetical protein
Probab=89.82 E-value=0.24 Score=41.72 Aligned_cols=32 Identities=22% Similarity=0.513 Sum_probs=25.7
Q ss_pred hhhhcccCCCCCccCCCCCCccCCchhHhhhhhc
Q 023366 30 LENRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQ 63 (283)
Q Consensus 30 LEhqriHTGEKPykC~vCGKsFss~ssLkrH~Kr 63 (283)
..|+++| +.+|.|.+|++.|.....|..|+.+
T Consensus 90 ~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~ 121 (128)
T PHA00733 90 KQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCK 121 (128)
T ss_pred HHHHhcC--CcCccCCCCCCccCCHHHHHHHHHH
Confidence 3455555 3689999999999999999999833
No 42
>PF04123 DUF373: Domain of unknown function (DUF373); InterPro: IPR007254 This archaeal family of unknown function is predicted to be an integral membrane protein with six transmembrane regions.
Probab=88.92 E-value=1.8 Score=42.41 Aligned_cols=91 Identities=27% Similarity=0.313 Sum_probs=69.6
Q ss_pred hhhhhHHHHHHHhh--hccCCCC--------CchhhhhhhcC--eeeeecCCCch---hHHHHHHHHHHHHHhhcCccEE
Q 023366 91 YSMKMEKYKRAARA--ILTPKIG--------YGLADELKRAG--FWVRTVSDKPQ---AADVALRNHMVDMMDKRHVECL 155 (283)
Q Consensus 91 ~~~k~~KY~~AA~~--~l~pk~g--------ygla~~L~RaG--~~V~~v~dkp~---aaD~al~~~~~~~~~~~~v~~l 155 (283)
+.-+.+...+||.+ +..|... ..+..+|++.| +.|-+|+.-|. .||.++.+++.++++..+.+-.
T Consensus 23 PVvGre~vl~AA~~l~laDPeDSD~N~if~avkiydeL~~~GedveVA~VsG~~~~~v~ad~~I~~qld~vl~~~~~~~~ 102 (344)
T PF04123_consen 23 PVVGREAVLDAAVKLALADPEDSDVNAIFGAVKIYDELKAEGEDVEVAVVSGSPDVGVEADRKIAEQLDEVLSKFDPDSA 102 (344)
T ss_pred CcccHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHhcCCCeEEEEEECCCCCchhhHHHHHHHHHHHHHhCCCCEE
Confidence 33455666677665 4555543 67889999888 55567877776 8999999999999999999999
Q ss_pred EEEeCCcchHHHHHHHHH----cCCcEEEE
Q 023366 156 VIVSDDSDFVDVLQEAKY----RCLKTVVV 181 (283)
Q Consensus 156 vlvsdd~~f~~~l~~ar~----~~~~tvvv 181 (283)
++|||..+=.-++---+. .+|+.|||
T Consensus 103 i~VsDGaeDE~vlPiIqSr~~V~sV~RVVV 132 (344)
T PF04123_consen 103 IVVSDGAEDERVLPIIQSRVPVDSVKRVVV 132 (344)
T ss_pred EEEecChhhhhhhHhhhccCceEEEEEEEE
Confidence 999998776655554444 58899998
No 43
>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=88.85 E-value=1.6 Score=38.57 Aligned_cols=70 Identities=17% Similarity=0.177 Sum_probs=49.6
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHH-HHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVA-LRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~a-l~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.|....... .|.. ....|..++ ..+++-||+++.+.+ +.++|+.++++|+..|+++..
T Consensus 20 ~g~~~~~~~~g~~v~~~~~~~--~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 91 (271)
T cd06312 20 NGAEDAAKDLGVDVEYRGPET--FDVADMARLIEAAI-AAKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAG 91 (271)
T ss_pred HHHHHHHHHhCCEEEEECCCC--CCHHHHHHHHHHHH-HhCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCC
Confidence 466777778899998765432 1122 223333345 779999999987654 678899999999999999754
No 44
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=88.65 E-value=2.2 Score=36.95 Aligned_cols=70 Identities=14% Similarity=0.215 Sum_probs=49.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+.......+..+ ..+.+..++ ..+++.||+.+.+.+..++++.++++|+..|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~l~-~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~ 88 (266)
T cd06282 19 QGIQEEARAAGYSLLLATTDYDAER--EADAVETLL-RQRVDGLILTVADAATSPALDLLDAERVPYVLAYND 88 (266)
T ss_pred HHHHHHHHHCCCEEEEeeCCCCHHH--HHHHHHHHH-hcCCCEEEEecCCCCchHHHHHHhhCCCCEEEEecc
Confidence 3666677788999887655433221 123333345 789999999887766567899999999999999764
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=88.39 E-value=0.17 Score=30.21 Aligned_cols=20 Identities=30% Similarity=0.883 Sum_probs=19.0
Q ss_pred ccCCCCCCccCCchhHhhhh
Q 023366 42 YVCGVCGRRFYSNEKLVNHF 61 (283)
Q Consensus 42 ykC~vCGKsFss~ssLkrH~ 61 (283)
|.|..|.+.|.+...+..|.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~ 20 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHL 20 (25)
T ss_dssp EEETTTTEEESSHHHHHHHH
T ss_pred CCCCCCCCCcCCHHHHHHHH
Confidence 67999999999999999998
No 46
>PRK13936 phosphoheptose isomerase; Provisional
Probab=88.29 E-value=1.8 Score=38.45 Aligned_cols=50 Identities=16% Similarity=0.319 Sum_probs=41.0
Q ss_pred cCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccccc---ccccccH
Q 023366 150 RHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRI---ADASFSW 199 (283)
Q Consensus 150 ~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~---ad~~~sW 199 (283)
..-|+++++|-+ .+-..+++.|+++|+++|.|++..+..|++. ||..|.=
T Consensus 110 ~~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~~iI~IT~~~~s~l~~l~~~ad~~l~v 165 (197)
T PRK13936 110 QPGDVLLAISTSGNSANVIQAIQAAHEREMHVVALTGRDGGKMASLLLPEDVEIRV 165 (197)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhhhhhccCCEEEEe
Confidence 355899999965 6677889999999999999999777788885 8877743
No 47
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=87.92 E-value=2.1 Score=37.44 Aligned_cols=92 Identities=17% Similarity=0.181 Sum_probs=60.7
Q ss_pred CchhhhhhhcCeeeeec-CCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHHcCCcEEEEccCCCccc
Q 023366 112 YGLADELKRAGFWVRTV-SDKPQAADVALRNHMVDMMDKRHVECLVIVSDD-SDFVDVLQEAKYRCLKTVVVGDINDGAL 189 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v-~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd-~~f~~~l~~ar~~~~~tvvvg~~~~~~l 189 (283)
-|+...++..|+.+..+ ...... ......+..++ +.|++.|++..-+ ....++|+.|++.|+..|.+... ...
T Consensus 18 ~g~~~~a~~~g~~~~~~~~~~~d~--~~q~~~i~~~i-~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~--~~~ 92 (257)
T PF13407_consen 18 KGAKAAAKELGYEVEIVFDAQNDP--EEQIEQIEQAI-SQGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD--EAP 92 (257)
T ss_dssp HHHHHHHHHHTCEEEEEEESTTTH--HHHHHHHHHHH-HTTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST--HHT
T ss_pred HHHHHHHHHcCCEEEEeCCCCCCH--HHHHHHHHHHH-HhcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc--ccc
Confidence 35666777889999886 333332 44556666677 8899999988554 57889999999999988888655 012
Q ss_pred cccccccccHHHHhcchhh
Q 023366 190 KRIADASFSWRDILMGKAK 208 (283)
Q Consensus 190 ~r~ad~~~sW~~v~~g~~~ 208 (283)
...-...+....-..|+..
T Consensus 93 ~~~~~~~v~~d~~~~G~~~ 111 (257)
T PF13407_consen 93 DSPRAAYVGTDNYEAGKLA 111 (257)
T ss_dssp TSTSSEEEEE-HHHHHHHH
T ss_pred cccceeeeeccHHHHHHHH
Confidence 3333444445555555443
No 48
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=87.78 E-value=1.6 Score=40.83 Aligned_cols=97 Identities=26% Similarity=0.319 Sum_probs=68.8
Q ss_pred hhHHHHHHHhhhccCCC----CCc--------hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCcc-EEEEEeC
Q 023366 94 KMEKYKRAARAILTPKI----GYG--------LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVE-CLVIVSD 160 (283)
Q Consensus 94 k~~KY~~AA~~~l~pk~----gyg--------la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~-~lvlvsd 160 (283)
..+...+++..+..++. |.| ++..|.|-|+.|..+.|..... | ++...+-+ .+|.+|-
T Consensus 116 ~~~~l~~av~~L~~A~rI~~~G~g~S~~vA~~~~~~l~~ig~~~~~~~d~~~~~-------~--~~~~~~~~Dv~i~iS~ 186 (281)
T COG1737 116 DEEALERAVELLAKARRIYFFGLGSSGLVASDLAYKLMRIGLNVVALSDTHGQL-------M--QLALLTPGDVVIAISF 186 (281)
T ss_pred CHHHHHHHHHHHHcCCeEEEEEechhHHHHHHHHHHHHHcCCceeEecchHHHH-------H--HHHhCCCCCEEEEEeC
Confidence 34567777777777772 333 4456679999999999876522 1 12244555 4455554
Q ss_pred C---cchHHHHHHHHHcCCcEEEEccCCCccccccccccccH
Q 023366 161 D---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW 199 (283)
Q Consensus 161 d---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW 199 (283)
. .+-..+++.|+++|+++|.|.+..+-.|.+.||..|.=
T Consensus 187 sG~t~e~i~~a~~ak~~ga~vIaiT~~~~spla~~Ad~~L~~ 228 (281)
T COG1737 187 SGYTREIVEAAELAKERGAKVIAITDSADSPLAKLADIVLLV 228 (281)
T ss_pred CCCcHHHHHHHHHHHHCCCcEEEEcCCCCCchhhhhceEEec
Confidence 3 24556788999999999999998778899999998865
No 49
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase. The central phosphatase domain is a member of the IIIA subfamily (TIGR01662) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the ususal site which may indicate slightly different fold in this region.
Probab=87.37 E-value=2.3 Score=36.76 Aligned_cols=87 Identities=14% Similarity=0.287 Sum_probs=55.3
Q ss_pred hhhhhhhcCeeeeecCCCchh-----HHHHHHHHHHHHHhhcCccEEEEEeCCcc-h----HHHHHHHH-HcC--C---c
Q 023366 114 LADELKRAGFWVRTVSDKPQA-----ADVALRNHMVDMMDKRHVECLVIVSDDSD-F----VDVLQEAK-YRC--L---K 177 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~a-----aD~al~~~~~~~~~~~~v~~lvlvsdd~~-f----~~~l~~ar-~~~--~---~ 177 (283)
+-..|+..|+.+-.++++|.. .-.++...|..+|+..|+...+.++.+.. . .+++..|. +.| + .
T Consensus 50 ~L~~Lk~~G~~l~I~TN~~~~~~~~~~~~~~~~~i~~~l~~~gl~~~~ii~~~~~~~~KP~p~~~~~~~~~~~~~~~~~~ 129 (166)
T TIGR01664 50 KLQELDDEGYKIVIFTNQSGIGRGKLSAESFKNKIEAFLEKLKVPIQVLAATHAGLYRKPMTGMWEYLQSQYNSPIKMTR 129 (166)
T ss_pred HHHHHHHCCCEEEEEeCCcccccCcccHHHHHHHHHHHHHHcCCCEEEEEecCCCCCCCCccHHHHHHHHHcCCCCCchh
Confidence 345667899999999999873 23356677778888888875433332222 2 33555544 455 2 4
Q ss_pred EEEEccCC---------CccccccccccccHH
Q 023366 178 TVVVGDIN---------DGALKRIADASFSWR 200 (283)
Q Consensus 178 tvvvg~~~---------~~~l~r~ad~~~sW~ 200 (283)
+|+|||.. |-.-++.|-+.|=|.
T Consensus 130 ~v~VGD~~~~~~~~~~~Di~aA~~aGi~~~~~ 161 (166)
T TIGR01664 130 SFYVGDAAGRKLDFSDADIKFAKNLGLEFKYP 161 (166)
T ss_pred cEEEECCCCCCCCCchhHHHHHHHCCCCcCCh
Confidence 99999974 444555566666554
No 50
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=87.25 E-value=2.8 Score=36.65 Aligned_cols=70 Identities=14% Similarity=0.095 Sum_probs=49.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+..+....+ .....+..+.+...+++-||+.+.++. ..++++.+.++|+.-|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~ 89 (273)
T cd06305 19 AGTKAEAEALGGDLRVYDAGGD---DAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVD 89 (273)
T ss_pred HHHHHHHHHcCCEEEEECCCCC---HHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCC
Confidence 4667778889999887654332 233333333333779999999876544 578899999999999999764
No 51
>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=86.91 E-value=3 Score=36.72 Aligned_cols=71 Identities=14% Similarity=0.193 Sum_probs=49.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|+..+++..|+.+-......+. + ...+.+..++ ..+++.|++++.+.+-..+++.++++++..|+++...
T Consensus 19 ~~i~~~a~~~g~~~~~~~~~~~~-~-~~~~~i~~l~-~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~ 89 (269)
T cd06281 19 SGAEDRLRAAGYSLLIANSLNDP-E-RELEILRSFE-QRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRDM 89 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCh-H-HHHHHHHHHH-HcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEeccc
Confidence 56778888899998765332221 1 2223333344 7899999999876665678899999999999997643
No 52
>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=86.45 E-value=3.2 Score=36.02 Aligned_cols=69 Identities=13% Similarity=0.170 Sum_probs=49.1
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.+.........+ ..+..+..++ +.+++.||+++.+.+ ..+++.+++.|+..|++|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~-~~~~dgii~~~~~~~-~~~~~~~~~~~ipvv~~~~~ 87 (259)
T cd01542 19 KGILAALYENGYQMLLMNTNFSIE--KEIEALELLA-RQKVDGIILLATTIT-DEHREAIKKLNVPVVVVGQD 87 (259)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHH-hcCCCEEEEeCCCCC-HHHHHHHhcCCCCEEEEecc
Confidence 577778888999998765443321 2233344445 789999999876543 57888888899999999764
No 53
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=86.16 E-value=0.39 Score=29.54 Aligned_cols=20 Identities=30% Similarity=0.823 Sum_probs=19.2
Q ss_pred ccCCCCCCccCCchhHhhhh
Q 023366 42 YVCGVCGRRFYSNEKLVNHF 61 (283)
Q Consensus 42 ykC~vCGKsFss~ssLkrH~ 61 (283)
|.|..|++.|.+...+..|+
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~ 21 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHM 21 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCT
T ss_pred CCcccCCCCcCCHHHHHHHH
Confidence 78999999999999999998
No 54
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=85.62 E-value=7 Score=35.63 Aligned_cols=95 Identities=19% Similarity=0.276 Sum_probs=60.8
Q ss_pred hHHHHHHHhhhccCCC----CCchhh--------hhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCc
Q 023366 95 MEKYKRAARAILTPKI----GYGLAD--------ELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDS 162 (283)
Q Consensus 95 ~~KY~~AA~~~l~pk~----gygla~--------~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~ 162 (283)
.+...+++..+...+. |.|... .|-+-|+.+-...+ ..... +. ...-..-++|+++|-.-
T Consensus 115 ~~~i~~~~~~i~~a~~I~i~G~G~S~~~a~~~~~~l~~~g~~~~~~~~------~~~~~-~~-~~~~~~~D~vI~iS~sG 186 (284)
T PRK11302 115 PSAINRAVDLLTQAKKISFFGLGASAAVAHDAQNKFFRFNVPVVYFDD------IVMQR-MS-CMNSSDGDVVVLISHTG 186 (284)
T ss_pred HHHHHHHHHHHHcCCeEEEEEcchHHHHHHHHHHHHHhcCCceEecCC------HHHHH-HH-HHhCCCCCEEEEEeCCC
Confidence 3556677776666653 433322 25577887776543 11111 11 11123446778887654
Q ss_pred ---chHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 163 ---DFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 163 ---~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
+...+++.|+++|+++|+|++ .+..|.+.||..|.
T Consensus 187 ~t~~~~~~~~~ak~~g~~vI~IT~-~~s~l~~~ad~~l~ 224 (284)
T PRK11302 187 RTKSLVELAQLARENGATVIAITS-AGSPLAREATLALT 224 (284)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECC-CCChhHHhCCEEEe
Confidence 566678889999999999998 56889999998774
No 55
>cd06324 PBP1_ABC_sugar_binding_like_13 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 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=85.47 E-value=3 Score=38.06 Aligned_cols=70 Identities=13% Similarity=0.086 Sum_probs=49.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhc--CccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKR--HVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~--~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+-.+....+ ......+.++|.+. +++-||+.+.+.....+++.++++|+..|+++..
T Consensus 20 ~gi~~~~~~~g~~v~~~~~~~~---~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~~~giPvV~~~~~ 91 (305)
T cd06324 20 RFMQAAADDLGIELEVLYAERD---RFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLAEGAGVKLFLVNSG 91 (305)
T ss_pred HHHHHHHHhcCCeEEEEeCCCC---HHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHHHhCCCeEEEEecC
Confidence 4677778889998876643222 22222333334477 9999999876655677899999999999999753
No 56
>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=85.21 E-value=3.8 Score=35.66 Aligned_cols=69 Identities=16% Similarity=0.314 Sum_probs=48.7
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+...... . +......+..++.+.+++.||+++.+.. ..+++.+.++|+..|+++..
T Consensus 24 ~~~~~~~~~~g~~~~~~~~~-~--~~~~~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 92 (270)
T cd06294 24 RGISAVANENGYDISLATGK-N--EEELLEEVKKMIQQKRVDGFILLYSRED-DPIIDYLKEEKFPFVVIGKP 92 (270)
T ss_pred HHHHHHHHHCCCEEEEecCC-C--cHHHHHHHHHHHHHcCcCEEEEecCcCC-cHHHHHHHhcCCCEEEECCC
Confidence 46667777888888654322 2 2334556666675678999999874433 57788999999999999764
No 57
>TIGR00393 kpsF KpsF/GutQ family protein. This model describes a number of closely related proteins with the phosphosugar-binding domain SIS (Sugar ISomerase) followed by two copies of the CBS (named after Cystathionine Beta Synthase) domain. One is GutQ, a protein of the glucitol operon. Another is KpsF, a virulence factor involved in capsular polysialic acid biosynthesis in some pathogenic strains of E. coli.
Probab=85.09 E-value=1.4 Score=39.70 Aligned_cols=76 Identities=11% Similarity=0.105 Sum_probs=55.4
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHH--HhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcc
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDM--MDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGA 188 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~--~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~ 188 (283)
|+..|.+.|..+..+.+ .++... ..-..-++++.+|-+ .+-..+++.|+++|+++|.|.+.....
T Consensus 18 ~~~~l~~~g~~~~~~~~----------~~~~~~~~~~~~~~d~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s~ 87 (268)
T TIGR00393 18 IVATFASTGTPSFFLHP----------TEAMHGDLGMVEPNDVVLMISYSGESLELLNLIPHLKRLSHKIIAFTGSPNSS 87 (268)
T ss_pred HHHHHHhcCCceEEeCH----------hHHhhcccCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCCc
Confidence 55566778888876643 111111 101234688999865 667788999999999999999988888
Q ss_pred ccccccccccH
Q 023366 189 LKRIADASFSW 199 (283)
Q Consensus 189 l~r~ad~~~sW 199 (283)
|++.||..|..
T Consensus 88 l~~~~d~~l~~ 98 (268)
T TIGR00393 88 LARAADYVLDI 98 (268)
T ss_pred ccccCCEEEEc
Confidence 99999999876
No 58
>PLN03086 PRLI-interacting factor K; Provisional
Probab=85.06 E-value=0.78 Score=47.72 Aligned_cols=39 Identities=23% Similarity=0.374 Sum_probs=24.6
Q ss_pred hhhcccCCCCCccCCCCCCccCCchhHhhhhhcccccccccccc
Q 023366 31 ENRGVIKPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQKKRLN 74 (283)
Q Consensus 31 EhqriHTGEKPykC~vCGKsFss~ssLkrH~KriHtGEK~Krf~ 74 (283)
+|..+|+ +|+.|+ ||+.+ .+..|..|+ ..|..+++..|.
T Consensus 470 kH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~-~thCp~Kpi~C~ 508 (567)
T PLN03086 470 KHMKVFH--EPLQCP-CGVVL-EKEQMVQHQ-ASTCPLRLITCR 508 (567)
T ss_pred HHHHhcC--CCccCC-CCCCc-chhHHHhhh-hccCCCCceeCC
Confidence 3555553 677777 77544 557777777 677777764443
No 59
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=84.99 E-value=0.38 Score=47.67 Aligned_cols=49 Identities=18% Similarity=0.360 Sum_probs=33.2
Q ss_pred cCCCCCccCCCCCCccCCchhHhhhhhccccccc---------cccccCchhhhhhhhhh
Q 023366 36 IKPAEPYVCGVCGRRFYSNEKLVNHFKQIHEREQ---------KKRLNQIESARGKRRVH 86 (283)
Q Consensus 36 HTGEKPykC~vCGKsFss~ssLkrH~KriHtGEK---------~Krf~~~~sl~~hrR~h 86 (283)
|+..+||+|..|.+.|.+.+.|.+|. ..|+ +. +.++....+++.|.+.+
T Consensus 287 Hs~dkpfKCd~Cd~~c~~esdL~kH~-~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~ev 344 (467)
T KOG3608|consen 287 HSKDKPFKCDECDTRCVRESDLAKHV-QVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEV 344 (467)
T ss_pred hccCCCccccchhhhhccHHHHHHHH-Hhcc-ccceecCCCCCcHHHHHHHHHHHHHHHh
Confidence 56678888888888888888888888 7776 33 23334455566665533
No 60
>PRK13938 phosphoheptose isomerase; Provisional
Probab=84.91 E-value=1.1 Score=40.27 Aligned_cols=57 Identities=16% Similarity=0.148 Sum_probs=43.8
Q ss_pred CccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccccccccccccHHHHhcchh
Q 023366 151 HVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSWRDILMGKA 207 (283)
Q Consensus 151 ~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~~v~~g~~ 207 (283)
.-+.|+++|-+ .+-..+++.|+++|++||.|.+.++..|.+.||..|.-..-..+.+
T Consensus 113 ~~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~s~La~~aD~~l~v~~~e~~~v 172 (196)
T PRK13938 113 PGDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESGGQLAEFADFLINVPSRDTGRI 172 (196)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCChhhhhCCEEEEeCCCchhhH
Confidence 44678888875 3455788889999999999999888899999999886544344433
No 61
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=84.86 E-value=4.7 Score=35.53 Aligned_cols=70 Identities=20% Similarity=0.246 Sum_probs=48.9
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.|.......+.+.. .+.+..++ ..+++.|++.+.+++ +.+.++.++++|+..|+|+..
T Consensus 19 ~~i~~~~~~~g~~v~~~~~~~~~~~~--~~~i~~~~-~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (282)
T cd06318 19 EAAKAHAKALGYELISTDAQGDLTKQ--IADVEDLL-TRGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSS 89 (282)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCHHHH--HHHHHHHH-HcCCCEEEEecCCccchHHHHHHHHHCCCCEEEecCC
Confidence 57777888899988765433332211 23333345 889999999876544 357889999999999999763
No 62
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=84.61 E-value=1.5 Score=41.17 Aligned_cols=76 Identities=13% Similarity=0.188 Sum_probs=55.1
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccc
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALK 190 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~ 190 (283)
++..|.+.|..+..+.+.. ........+ ..-++++.+|-. .+-.++++.|+++|++||+|.+..+..|+
T Consensus 65 ~~~~l~~~g~~~~~~~~~~------~~~~~~~~~--~~~d~~I~iS~sG~t~~~~~~~~~ak~~g~~vi~iT~~~~s~la 136 (326)
T PRK10892 65 MAATFASTGTPSFFVHPGE------AAHGDLGMV--TPQDVVIAISNSGESSEILALIPVLKRLHVPLICITGRPESSMA 136 (326)
T ss_pred HHHHHhcCCceeEEeChHH------hhccccccC--CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCcEEEEECCCCCccc
Confidence 4556668898887753321 111011122 234688999965 77888999999999999999999889999
Q ss_pred ccccccc
Q 023366 191 RIADASF 197 (283)
Q Consensus 191 r~ad~~~ 197 (283)
+.||..|
T Consensus 137 ~~ad~~l 143 (326)
T PRK10892 137 RAADIHL 143 (326)
T ss_pred ccCCEEE
Confidence 9999988
No 63
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=84.46 E-value=4.3 Score=37.19 Aligned_cols=69 Identities=22% Similarity=0.239 Sum_probs=49.5
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
|+..+++..|+.+....... |.+...++.+.|-..+|+.|++++.+.. ..+.|+.+++.|+.-|+++..
T Consensus 19 ~i~~~a~~~g~~v~~~~~~~---~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~ 88 (302)
T TIGR02634 19 IFVAAAESLGAKVFVQSANG---NEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRL 88 (302)
T ss_pred HHHHHHHhcCCEEEEEeCCC---CHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCc
Confidence 56677778899887654322 2333333444444889999999997755 578999999999999999654
No 64
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=84.10 E-value=4.3 Score=36.00 Aligned_cols=70 Identities=13% Similarity=0.237 Sum_probs=48.7
Q ss_pred CchhhhhhhcCeeeeecCCC--chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDK--PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dk--p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.+-.+... +.+ ......+..++ ..+++-|++++-+.+....|..++.+|+..|+++..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~~--~~~~~~i~~~~-~~~vdgiI~~~~~~~~~~~~~~~~~~giPvV~~~~~ 90 (268)
T cd06306 19 YGMVEEAKRLGVSLKLLEAGGYPNL--AKQIAQLEDCA-AWGADAILLGAVSPDGLNEILQQVAASIPVIALVND 90 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCCH--HHHHHHHHHHH-HcCCCEEEEcCCChhhHHHHHHHHHCCCCEEEeccC
Confidence 46777888899999876432 222 12233444455 789999999986655433678899999999999654
No 65
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=83.69 E-value=5 Score=35.58 Aligned_cols=68 Identities=19% Similarity=0.216 Sum_probs=48.5
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcch-HHHHHHHHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDF-VDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f-~~~l~~ar~~~~~tvvvg~~ 184 (283)
|+..+++..|+.+..+... .. + .....+..++ ..+++-||+.+.++.+ ..+++.++..|+..|+++..
T Consensus 20 gi~~~~~~~g~~~~~~~~~-~~-~-~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~ 88 (289)
T cd01540 20 FAKKAAKEKGFTVVKIDVP-DG-E-KVLSAIDNLG-AQGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDR 88 (289)
T ss_pred HHHHHHHHcCCEEEEccCC-CH-H-HHHHHHHHHH-HcCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCC
Confidence 5666777899998876333 22 2 2333444456 7899999999877654 45789999999999999754
No 66
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=83.67 E-value=2.9 Score=39.75 Aligned_cols=70 Identities=14% Similarity=0.182 Sum_probs=49.9
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHH-HHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALR-NHMVDMMDKRHVECLVIVSDD-SDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~-~~~~~~~~~~~v~~lvlvsdd-~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+....++.|+.|.... |.-.|.+-+ ..|..++ ..|++-|+++.-| .-+.+.|+.|+++|+..|++...
T Consensus 43 ~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li-~~~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~ 114 (336)
T PRK15408 43 NGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFV-NQGYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSD 114 (336)
T ss_pred HHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHH-HcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCC
Confidence 466677778999997622 222233333 4555566 8999999998744 44689999999999999999654
No 67
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=82.38 E-value=3.8 Score=36.59 Aligned_cols=70 Identities=7% Similarity=0.149 Sum_probs=46.0
Q ss_pred CchhhhhhhcCeeeeec--CCCc-hhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 112 YGLADELKRAGFWVRTV--SDKP-QAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v--~dkp-~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
-|+..+++..|+.+... ...+ ..++ .....+..++ .++++-||+..++....+.++.+.+.+.-.|+|.+
T Consensus 20 ~~i~~~~~~~g~~~~~~~~~~~~~~~~~-~~~~~i~~l~-~~~vDgiIv~~~~~~~~~~~~~l~~~~~p~V~i~~ 92 (280)
T cd06303 20 ASFTARLEELNIPYELTQFSSRPGIDHR-LQSQQLNEAL-QSKPDYLIFTLDSLRHRKLIERVLASGKTKIILQN 92 (280)
T ss_pred HHHHHHHHHcCCcEEEEEeccCcccCHH-HHHHHHHHHH-HcCCCEEEEcCCchhhHHHHHHHHhCCCCeEEEeC
Confidence 36677788899877654 2222 1111 1123333445 78999999987665567888888888888888855
No 68
>PRK02947 hypothetical protein; Provisional
Probab=81.97 E-value=2.1 Score=39.39 Aligned_cols=49 Identities=27% Similarity=0.367 Sum_probs=39.6
Q ss_pred cCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCC-----------Ccccccccccccc
Q 023366 150 RHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDIN-----------DGALKRIADASFS 198 (283)
Q Consensus 150 ~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~-----------~~~l~r~ad~~~s 198 (283)
..-++++++|-. .+-..+++.|+++|+++|+|.+.. +..|.+.||+-+.
T Consensus 105 ~~~Dv~i~iS~sG~t~~~i~~~~~a~~~g~~vI~iT~~~~s~~~~~~h~~gs~l~~~ad~~l~ 167 (246)
T PRK02947 105 RPGDVLIVVSNSGRNPVPIEMALEAKERGAKVIAVTSLAYSASVASRHSSGKRLAEVADVVLD 167 (246)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEcCCcccccccccCCCcCchhHhCCEEEE
Confidence 345788999855 667778889999999999999965 3589999998774
No 69
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=81.73 E-value=2.1 Score=39.91 Aligned_cols=77 Identities=14% Similarity=0.142 Sum_probs=54.0
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccc
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGAL 189 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l 189 (283)
.++..|.+.|..+..+.+. ..+..+. .+ -..-++++.+|-+ .+-..+++.|+++|.++|.|++..+..|
T Consensus 59 ~~~~~l~~~g~~~~~~~~~-----~~~~~~~--~~-~~~~d~~i~iS~sG~t~~~~~~~~~ak~~g~~vI~iT~~~~s~l 130 (321)
T PRK11543 59 KIAATLASTGTPAFFVHPA-----EALHGDL--GM-IESRDVMLFISYSGGAKELDLIIPRLEDKSIALLAMTGKPTSPL 130 (321)
T ss_pred HHHHHHHcCCCceeecChH-----HHhhCCc--Cc-cCCCCEEEEEeCCCCcHHHHHHHHHHHHcCCeEEEEECCCCChh
Confidence 3455667889988876531 0111111 11 1234688888876 5567788899999999999999888899
Q ss_pred cccccccc
Q 023366 190 KRIADASF 197 (283)
Q Consensus 190 ~r~ad~~~ 197 (283)
.+.||.-|
T Consensus 131 a~~ad~~l 138 (321)
T PRK11543 131 GLAAKAVL 138 (321)
T ss_pred HHhCCEEE
Confidence 99999987
No 70
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=81.63 E-value=0.81 Score=28.26 Aligned_cols=19 Identities=37% Similarity=0.929 Sum_probs=16.8
Q ss_pred ccCCCCCCccCCchhHhhhh
Q 023366 42 YVCGVCGRRFYSNEKLVNHF 61 (283)
Q Consensus 42 ykC~vCGKsFss~ssLkrH~ 61 (283)
..|+.||+.| ....|..|+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~ 21 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHE 21 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHH
Confidence 5799999999 778899997
No 71
>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=81.31 E-value=6.6 Score=34.02 Aligned_cols=69 Identities=16% Similarity=0.175 Sum_probs=47.9
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+.......+ ....+.+..++...+++.+++.+.+.+ ...+..+.+.++..|+++..
T Consensus 23 ~~i~~~~~~~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 91 (268)
T cd06271 23 SGLSEALAEHGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRPD-DPRVALLLERGFPFVTHGRT 91 (268)
T ss_pred HHHHHHHHHCCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCCC-ChHHHHHHhcCCCEEEECCc
Confidence 4677888889988876544333 223344555565568999999875543 35577888899999999754
No 72
>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=81.28 E-value=7.9 Score=33.52 Aligned_cols=70 Identities=19% Similarity=0.264 Sum_probs=47.0
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+++.|+.+.......+ ......+.+.+.+.+++-|++++.+.+-..+++.++..|+..|.++..
T Consensus 19 ~g~~~~a~~~g~~~~~~~~~~~---~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~ 88 (268)
T cd06289 19 AGLEEVLEEAGYTVFLANSGED---VERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVARE 88 (268)
T ss_pred HHHHHHHHHcCCeEEEecCCCC---hHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEecc
Confidence 3555666778888876543322 222233333344789999999886554345889999999999999754
No 73
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=81.17 E-value=6.1 Score=35.20 Aligned_cols=70 Identities=13% Similarity=0.098 Sum_probs=50.7
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+.......+.. .....+..++ .++++-||+.+-+++ ..++++.+.++|+..|+++..
T Consensus 19 ~gi~~~~~~~G~~~~~~~~~~d~~--~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (272)
T cd06313 19 QAADEAGKLLGVDVTWYGGALDAV--KQVAAIENMA-SQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTL 89 (272)
T ss_pred HHHHHHHHHcCCEEEEecCCCCHH--HHHHHHHHHH-HcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCC
Confidence 466667777899988765443321 2334455556 899999999886655 577889999999999999764
No 74
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=80.98 E-value=5.7 Score=36.07 Aligned_cols=70 Identities=23% Similarity=0.292 Sum_probs=49.1
Q ss_pred CchhhhhhhcCeeeeec-CCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTV-SDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v-~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.|..+ ....+.. .....+..++ ..+++-||+++-+.+ +..+++.++++|+..|+|+..
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~~d~~--~~~~~i~~~~-~~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~ 90 (298)
T cd06302 19 EGAKEAAKELGVDAIYVGPTTADAA--GQVQIIEDLI-AQGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSD 90 (298)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCHH--HHHHHHHHHH-hcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCC
Confidence 56777888899998875 3333321 1123333445 789999999875544 678899999999999999753
No 75
>PLN03086 PRLI-interacting factor K; Provisional
Probab=80.89 E-value=1.1 Score=46.75 Aligned_cols=47 Identities=13% Similarity=0.252 Sum_probs=36.9
Q ss_pred hhhhhhcccCCCCCccCCCCCCccCC----------chhHhhhhhccccccccccccCc
Q 023366 28 NQLENRGVIKPAEPYVCGVCGRRFYS----------NEKLVNHFKQIHEREQKKRLNQI 76 (283)
Q Consensus 28 ~~LEhqriHTGEKPykC~vCGKsFss----------~ssLkrH~KriHtGEK~Krf~~~ 76 (283)
.+..|+.+|.+.+|+.|..|++.|.. ...|..|. ..+ |.++..|..+
T Consensus 491 ~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE-~~C-G~rt~~C~~C 547 (567)
T PLN03086 491 QMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHE-SIC-GSRTAPCDSC 547 (567)
T ss_pred HHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHH-Hhc-CCcceEcccc
Confidence 45668899999999999999999952 34799998 654 7777777554
No 76
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=80.65 E-value=2.3 Score=40.40 Aligned_cols=49 Identities=18% Similarity=0.112 Sum_probs=41.6
Q ss_pred CccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccccccccccccH
Q 023366 151 HVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW 199 (283)
Q Consensus 151 ~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW 199 (283)
--|++|.+|-+ .+..++++.|+++|..||+|+..+...|.+.||+.+.-
T Consensus 126 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tIaIT~~~~s~La~~aD~~I~~ 177 (291)
T TIGR00274 126 KNDVVVGIAASGRTPYVIAGLQYARSLGALTISIACNPKSAASEIADIAIET 177 (291)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEec
Confidence 45788999866 55678899999999999999998878899999998764
No 77
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=80.61 E-value=4.5 Score=42.01 Aligned_cols=95 Identities=17% Similarity=0.229 Sum_probs=64.7
Q ss_pred hHHHHHHHhhhccCCC----CCc--------hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCc
Q 023366 95 MEKYKRAARAILTPKI----GYG--------LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDS 162 (283)
Q Consensus 95 ~~KY~~AA~~~l~pk~----gyg--------la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~ 162 (283)
.+.+.+++..+...+. |.| +...|.+.|+.+....|. .+.......+ ..-++||++|-.-
T Consensus 455 ~~~l~~aa~~L~~a~rI~i~G~G~S~~~A~~~~~~l~~lg~~~~~~~d~------~~~~~~~~~l--~~~DvvI~iS~sG 526 (638)
T PRK14101 455 FEHVEQAIDILNNARRIEFYGLGNSNIVAQDAHYKFFRFGIPTIAYGDL------YMQAASAALL--GKGDVIVAVSKSG 526 (638)
T ss_pred HHHHHHHHHHHhcCCEEEEEEccHHHHHHHHHHHHHhcCCceEEEcCCH------HHHHHHHhcC--CCCCEEEEEeCCC
Confidence 3567777777766664 333 344567889888876542 2222211223 2447899999754
Q ss_pred ---chHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 163 ---DFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 163 ---~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
+...+++.|+++|+++|+|.+. ...|.+.||.-|.
T Consensus 527 ~t~e~i~~~~~Ak~~Ga~vIaIT~~-~spLa~~aD~~L~ 564 (638)
T PRK14101 527 RAPELLRVLDVAMQAGAKVIAITSS-NTPLAKRATVALE 564 (638)
T ss_pred CCHHHHHHHHHHHHCCCeEEEEcCC-CChhHhhCCEEEE
Confidence 4567788899999999999995 6889999998773
No 78
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=80.49 E-value=8.2 Score=33.91 Aligned_cols=70 Identities=16% Similarity=0.264 Sum_probs=47.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc----hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD----FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~----f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+-+.....+ .+ .....+..++ ..+|+.|++.+-+++ ...+++.++++++..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~-~~-~~~~~i~~l~-~~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 92 (273)
T cd01541 19 RGIESVLSEKGYSLLLASTNND-PE-RERKCLENML-SQGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINAS 92 (273)
T ss_pred HHHHHHHHHcCCEEEEEeCCCC-HH-HHHHHHHHHH-HcCCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecC
Confidence 4677788889999876543222 11 1123333445 789999999765432 457889999999999999754
No 79
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=80.45 E-value=8.1 Score=33.74 Aligned_cols=69 Identities=14% Similarity=0.206 Sum_probs=47.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHH-HHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNH-MVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~-~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+.......+ ...... +..++ ..+++.|++.+-+.+ +.++++.+++.|+..|.++..
T Consensus 19 ~~i~~~~~~~g~~~~i~~~~~~---~~~~~~~~~~~~-~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 89 (267)
T cd06322 19 NAMKEEAKKQKVNLIVSIANQD---LNKQLSDVEDFI-TKKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDIA 89 (267)
T ss_pred HHHHHHHHhcCCEEEEecCCCC---HHHHHHHHHHHH-HcCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEccc
Confidence 5677778888988865432221 222222 22335 789999999775543 678899999999999999753
No 80
>PRK12342 hypothetical protein; Provisional
Probab=80.37 E-value=7.3 Score=36.59 Aligned_cols=67 Identities=16% Similarity=0.168 Sum_probs=48.1
Q ss_pred hhhhhhcCeeeeecCCCchhHHHH-HHHHHHHHHhhcCccEEEEEeCC----cch---HHHHHHHHH-cCCcEEEEccCC
Q 023366 115 ADELKRAGFWVRTVSDKPQAADVA-LRNHMVDMMDKRHVECLVIVSDD----SDF---VDVLQEAKY-RCLKTVVVGDIN 185 (283)
Q Consensus 115 a~~L~RaG~~V~~v~dkp~aaD~a-l~~~~~~~~~~~~v~~lvlvsdd----~~f---~~~l~~ar~-~~~~tvvvg~~~ 185 (283)
+..|++.|-.|-.++..|..++.+ |++.. | ..|++-.|||||+ +|- +.+|-.+-+ .+..=|+-|..+
T Consensus 44 AlrLk~~g~~Vtvls~Gp~~a~~~~l~r~a---l-amGaD~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s 119 (254)
T PRK12342 44 ASQLATDGDEIAALTVGGSLLQNSKVRKDV---L-SRGPHSLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGS 119 (254)
T ss_pred HHHHhhcCCEEEEEEeCCChHhHHHHHHHH---H-HcCCCEEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCc
Confidence 334555677899999999876655 76653 6 7899999999988 454 455655544 478788888743
No 81
>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=80.28 E-value=7.9 Score=33.91 Aligned_cols=69 Identities=14% Similarity=0.198 Sum_probs=47.4
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+..+..... ......+.+.|.+.+++.|++++.+..- ..++.+++.|+..|+++..
T Consensus 19 ~g~~~~a~~~g~~~~~~~~~~~---~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~~ipvV~~~~~ 87 (268)
T cd06270 19 SGVESVARKAGKHLIITAGHHS---AEKEREAIEFLLERRCDALILHSKALSD-DELIELAAQVPPLVLINRH 87 (268)
T ss_pred HHHHHHHHHCCCEEEEEeCCCc---hHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhCCCCEEEEecc
Confidence 4667777889999987654333 2333344444448899999998754222 2388899999999999764
No 82
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=79.95 E-value=8.7 Score=33.77 Aligned_cols=70 Identities=10% Similarity=0.175 Sum_probs=47.9
Q ss_pred Cchhhhhhhc-CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRA-GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~Ra-G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++.+. |+.+-+... ....+ ...+.+..++ +++++-||+++.+.+ +.+.++.+.+.|+..|+++..
T Consensus 19 ~~i~~~~~~~~g~~~~~~~~-~~~~~-~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 90 (270)
T cd06308 19 DEIQREASNYPDVELIIADA-ADDNS-KQVADIENFI-RQGVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDRK 90 (270)
T ss_pred HHHHHHHHhcCCcEEEEEcC-CCCHH-HHHHHHHHHH-HhCCCEEEEecCchhhchHHHHHHHHCCCCEEEeCCC
Confidence 4666667775 888876533 22111 1233444445 889999999886654 678889999999999999863
No 83
>cd06316 PBP1_ABC_sugar_binding_like_7 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=79.93 E-value=7.9 Score=34.73 Aligned_cols=71 Identities=13% Similarity=0.190 Sum_probs=49.1
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.+-.+.....-++ .....+..++ ..+++-||+++.+.+ ..++++.++++|+..|+|+..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~~-~~~~~l~~~~-~~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 90 (294)
T cd06316 19 RGAKDEFAKLGIEVVATTDAQFDPA-KQVADIETTI-SQKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNV 90 (294)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCHH-HHHHHHHHHH-HhCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCC
Confidence 4667778889998875533221111 2234444455 779999999876654 578899999999999999764
No 84
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=79.91 E-value=6.6 Score=34.15 Aligned_cols=69 Identities=13% Similarity=0.239 Sum_probs=48.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.+-++...-.. ......+..++ +.+++-|++.+.+.+ ...++.++++|+..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~l~-~~~vdgiIi~~~~~~-~~~~~~l~~~~ipvV~~~~~ 87 (265)
T cd06299 19 TAIQDAASAAGYSTIIGNSDENP--ETENRYLDNLL-SQRVDGIIVVPHEQS-AEQLEDLLKRGIPVVFVDRE 87 (265)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCH--HHHHHHHHHHH-hcCCCEEEEcCCCCC-hHHHHHHHhCCCCEEEEecc
Confidence 46677777889998887542111 12223333345 889999999876654 35689999999999999875
No 85
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=79.70 E-value=2.6 Score=40.08 Aligned_cols=49 Identities=16% Similarity=0.144 Sum_probs=42.3
Q ss_pred CccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccccccccccccH
Q 023366 151 HVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW 199 (283)
Q Consensus 151 ~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW 199 (283)
.-|++|.+|-+ .+..++|+.|+++|..||.|...++..|.+.||+-+.-
T Consensus 131 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tI~IT~~~~s~La~~aD~~I~~ 182 (299)
T PRK05441 131 AKDVVVGIAASGRTPYVIGALEYARERGALTIGISCNPGSPLSKEADIAIEV 182 (299)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhhHhCCEEEEc
Confidence 45688888865 67889999999999999999998888999999997754
No 86
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=79.68 E-value=6.1 Score=35.71 Aligned_cols=70 Identities=17% Similarity=0.179 Sum_probs=44.8
Q ss_pred CchhhhhhhcCeeeeec-CCCchhHHHHH-HHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTV-SDKPQAADVAL-RNHMVDMMDKRHVECLVIVSDDS-DFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v-~dkp~aaD~al-~~~~~~~~~~~~v~~lvlvsdd~-~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++.+.|+..-++ ..... |.+. ...+..++ ..+++-||+++-++ .+..+++.++++|+..|+++..
T Consensus 18 ~gi~~~a~~~g~~~~i~~~~~~~--d~~~q~~~i~~l~-~~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~ 90 (302)
T TIGR02637 18 KGAEEAAKELGSVYIIYTGPTGT--TAEGQIEVVNSLI-AQKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSG 90 (302)
T ss_pred HHHHHHHHHhCCeeEEEECCCCC--CHHHHHHHHHHHH-HcCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCC
Confidence 46667777888543322 11111 1122 23444445 78999999988554 4567899999999999999753
No 87
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=79.53 E-value=8.1 Score=34.86 Aligned_cols=70 Identities=16% Similarity=0.205 Sum_probs=49.0
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcch-HHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDF-VDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f-~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.+-......+. + .....+..++ ..+++-|++.+.+++. ...|+.+++.|+..|+++..
T Consensus 46 ~~i~~~~~~~G~~~~~~~~~~d~-~-~~~~~~~~l~-~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 116 (295)
T PRK10653 46 DGAQKEADKLGYNLVVLDSQNNP-A-KELANVQDLT-VRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRG 116 (295)
T ss_pred HHHHHHHHHcCCeEEEecCCCCH-H-HHHHHHHHHH-HcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccC
Confidence 57778888999998765443222 1 1122333334 7799999988877554 57899999999999999764
No 88
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=79.29 E-value=0.71 Score=27.41 Aligned_cols=22 Identities=27% Similarity=0.566 Sum_probs=16.6
Q ss_pred ccCCCCCCccCCchhHhhhhhccc
Q 023366 42 YVCGVCGRRFYSNEKLVNHFKQIH 65 (283)
Q Consensus 42 ykC~vCGKsFss~ssLkrH~KriH 65 (283)
|+|+.|..... ...|.+|. +.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~-~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHL-KRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHH-HHH
T ss_pred CCCCCCCCcCC-HHHHHHHH-Hhh
Confidence 68999998887 88999998 543
No 89
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=79.12 E-value=8.4 Score=37.47 Aligned_cols=71 Identities=8% Similarity=0.134 Sum_probs=49.8
Q ss_pred hhhhhhhcCeeee---ecCCCc--hhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 114 LADELKRAGFWVR---TVSDKP--QAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 114 la~~L~RaG~~V~---~v~dkp--~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
|...+++.|+-|- .++... +.........+...+...+.+.||+.+...+-..+++.|++.|++.+.||..
T Consensus 192 f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~~~~wigs~ 267 (403)
T cd06361 192 FIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNINKVWIASD 267 (403)
T ss_pred HHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCCCeEEEEEC
Confidence 5567778898874 333322 2111123333334344679999999999999999999999999999999864
No 90
>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length. The function of this family is unknown.
Probab=79.05 E-value=2.7 Score=38.92 Aligned_cols=51 Identities=35% Similarity=0.544 Sum_probs=42.2
Q ss_pred CccEEEEEeCCcchH-HHHHHHHHcCCcEEEEccCCCccccccccccccHHHHhcc
Q 023366 151 HVECLVIVSDDSDFV-DVLQEAKYRCLKTVVVGDINDGALKRIADASFSWRDILMG 205 (283)
Q Consensus 151 ~v~~lvlvsdd~~f~-~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~~v~~g 205 (283)
|+|=+|+-|...||. .+|+.|+.-.-+.|||+.. ++.| +.-.|+|..+..|
T Consensus 115 ~iDF~vVDc~~~d~~~~vl~~~~~~~~GaVVV~~N---a~~r-~~~~~~w~~~~~~ 166 (218)
T PF07279_consen 115 GIDFVVVDCKREDFAARVLRAAKLSPRGAVVVCYN---AFSR-STNGFSWRSVLRG 166 (218)
T ss_pred CCCEEEEeCCchhHHHHHHHHhccCCCceEEEEec---cccC-CcCCccHHHhcCC
Confidence 899999999999999 9999999866789999885 2444 3467899988864
No 91
>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=79.01 E-value=7.3 Score=34.25 Aligned_cols=71 Identities=20% Similarity=0.232 Sum_probs=46.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHH-HHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALR-NHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~-~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+..+.-..+ .|.... +.+..++ ..+++.||+++.+++ ....++.++++|+..|.++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~-~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~ 91 (275)
T cd06320 19 EGYENEAKKLGVSVDIQAAPSE-GDQQGQLSIAENMI-NKGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDK 91 (275)
T ss_pred HHHHHHHHHhCCeEEEEccCCC-CCHHHHHHHHHHHH-HhCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCC
Confidence 4677778889998886531111 111222 2222334 679999998876543 457789999999999999753
No 92
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=78.89 E-value=9.4 Score=33.42 Aligned_cols=70 Identities=17% Similarity=0.198 Sum_probs=48.6
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+++.|+.+..+...-+. +.. ..-+..++ ..+++-||+.+.+++ ..++|+.+.+.|+..|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~-~~~-~~~i~~~~-~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 89 (277)
T cd06319 19 RGVKSKAKALGYDAVELSAENSA-KKE-LENLRTAI-DKGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIG 89 (277)
T ss_pred HHHHHHHHhcCCeEEEecCCCCH-HHH-HHHHHHHH-hcCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecC
Confidence 46677777889988776443221 111 12333345 679999998887766 457899999999999999764
No 93
>cd06315 PBP1_ABC_sugar_binding_like_6 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=78.67 E-value=9.1 Score=34.27 Aligned_cols=70 Identities=14% Similarity=0.129 Sum_probs=48.1
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+-.......... ..+.+..++ ..+++.|||++-+.+ ..+.+..+++.++..|+++..
T Consensus 20 ~gi~~~a~~~gy~~~~~~~~~~~~~--~~~~i~~l~-~~~vdgiil~~~~~~~~~~~~~~~~~~~iPvV~~d~~ 90 (280)
T cd06315 20 EGVREAAKAIGWNLRILDGRGSEAG--QAAALNQAI-ALKPDGIVLGGVDAAELQAELELAQKAGIPVVGWHAG 90 (280)
T ss_pred HHHHHHHHHcCcEEEEECCCCCHHH--HHHHHHHHH-HcCCCEEEEcCCCHHHHHHHHHHHHHCCCCEEEecCC
Confidence 5677788889998876543322222 123333344 889999999986654 356778888899999999763
No 94
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=78.37 E-value=9.1 Score=33.89 Aligned_cols=69 Identities=12% Similarity=0.017 Sum_probs=48.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.+-+...... ......+...|...+|+.|++.+.+.+ .++++.+++.|+..|+|+..
T Consensus 19 ~~i~~~~~~~gy~~~~~~~~~~---~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l~~~~iPvv~~~~~ 87 (269)
T cd06297 19 EGIEGALLEQRYDLALFPLLSL---ARLKRYLESTTLAYLTDGLLLASYDLT-ERLAERRLPTERPVVLVDAE 87 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCc---HHHHHHHHHHHHhcCCCEEEEecCccC-hHHHHHHhhcCCCEEEEccC
Confidence 5777888889988876543221 122333433354789999999987655 46778888999999999763
No 95
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=78.23 E-value=11 Score=33.90 Aligned_cols=70 Identities=17% Similarity=0.241 Sum_probs=50.6
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+.......... ...+.+..++ ..+++-|++++.+.+ ..++|+.+++.|+..|+++..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~ 89 (288)
T cd01538 19 PNFEAALKELGAEVIVQNANGDPA--KQISQIENMI-AKGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRL 89 (288)
T ss_pred HHHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHH-HcCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCC
Confidence 577888889999988765532211 1233344445 789999999986544 678999999999999999764
No 96
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=78.19 E-value=0.91 Score=27.96 Aligned_cols=21 Identities=19% Similarity=0.249 Sum_probs=16.1
Q ss_pred hHhhhhhccccccccccccCch
Q 023366 56 KLVNHFKQIHEREQKKRLNQIE 77 (283)
Q Consensus 56 sLkrH~KriHtGEK~Krf~~~~ 77 (283)
+|.+|+ ++|++++|..|..+.
T Consensus 1 ~l~~H~-~~H~~~k~~~C~~C~ 21 (26)
T PF13465_consen 1 NLRRHM-RTHTGEKPYKCPYCG 21 (26)
T ss_dssp HHHHHH-HHHSSSSSEEESSSS
T ss_pred CHHHHh-hhcCCCCCCCCCCCc
Confidence 478898 889999987776543
No 97
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=78.04 E-value=1.3 Score=28.16 Aligned_cols=21 Identities=19% Similarity=0.569 Sum_probs=19.7
Q ss_pred CccCCCCCCccCCchhHhhhh
Q 023366 41 PYVCGVCGRRFYSNEKLVNHF 61 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~ 61 (283)
+|.|..|+..|.....+..|.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~ 23 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHL 23 (35)
T ss_pred CeEccccCCccCCHHHHHHHH
Confidence 689999999999999999998
No 98
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=77.80 E-value=3.6 Score=36.97 Aligned_cols=78 Identities=17% Similarity=0.239 Sum_probs=52.0
Q ss_pred hcCeeeeecC-CCchh--------HHHHHHHHHHHHHhhcCccEEEEEeCCc---chHHHHHHHHHcCCcEEEEccCCCc
Q 023366 120 RAGFWVRTVS-DKPQA--------ADVALRNHMVDMMDKRHVECLVIVSDDS---DFVDVLQEAKYRCLKTVVVGDINDG 187 (283)
Q Consensus 120 RaG~~V~~v~-dkp~a--------aD~al~~~~~~~~~~~~v~~lvlvsdd~---~f~~~l~~ar~~~~~tvvvg~~~~~ 187 (283)
|.|+.+.-.. |.... .|.-..+++. .+ ...-++++++|.+- +-..+++.|+++|.++|+|+...++
T Consensus 71 r~gl~a~~l~~d~~~~ta~and~~~~~~f~~ql~-~~-~~~gDvli~iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~~s 148 (196)
T PRK10886 71 RPSLPAIALNTDNVVLTAIANDRLHDEVYAKQVR-AL-GHAGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDGG 148 (196)
T ss_pred CCCcceEEecCcHHHHHHHhccccHHHHHHHHHH-Hc-CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCC
Confidence 6777777443 33321 1233334433 22 24557888888753 4667788999999999999998888
Q ss_pred ccccc---ccccccH
Q 023366 188 ALKRI---ADASFSW 199 (283)
Q Consensus 188 ~l~r~---ad~~~sW 199 (283)
.|.+. +|+-+-=
T Consensus 149 ~l~~l~~~~D~~i~i 163 (196)
T PRK10886 149 ELAGLLGPQDVEIRI 163 (196)
T ss_pred hhhhccccCCEEEEc
Confidence 89996 6876643
No 99
>PRK04860 hypothetical protein; Provisional
Probab=77.57 E-value=1.1 Score=39.38 Aligned_cols=33 Identities=21% Similarity=0.426 Sum_probs=23.6
Q ss_pred CccCCCCCCccCCchhHhhhhhccccccccccccCchh
Q 023366 41 PYVCGVCGRRFYSNEKLVNHFKQIHEREQKKRLNQIES 78 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~KriHtGEK~Krf~~~~s 78 (283)
||.|. |+....+ +..|. ++|+++++.+|..+..
T Consensus 119 ~Y~C~-C~~~~~~---~rrH~-ri~~g~~~YrC~~C~~ 151 (160)
T PRK04860 119 PYRCK-CQEHQLT---VRRHN-RVVRGEAVYRCRRCGE 151 (160)
T ss_pred EEEcC-CCCeeCH---HHHHH-HHhcCCccEECCCCCc
Confidence 68887 8777665 56777 7888888777766543
No 100
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=77.57 E-value=7.8 Score=36.39 Aligned_cols=69 Identities=13% Similarity=0.215 Sum_probs=47.0
Q ss_pred CchhhhhhhcCeeeeecCCC--chhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDK--PQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dk--p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+...... +++ + .....+..++ +.+++-|+|++.+.+ +.+.+ .+++.|+..|++++.
T Consensus 66 ~gi~~aa~~~G~~l~i~~~~~~~~~-~-~q~~~i~~l~-~~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~ 137 (343)
T PRK10936 66 YGMVEEAKRLGVDLKVLEAGGYYNL-A-KQQQQLEQCV-AWGADAILLGAVTPDGLNPDL-ELQAANIPVIALVNG 137 (343)
T ss_pred HHHHHHHHHhCCEEEEEcCCCCCCH-H-HHHHHHHHHH-HhCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCC
Confidence 46777778899988775432 222 1 2234444455 889999999886544 45677 889999998878544
No 101
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=77.34 E-value=13 Score=32.46 Aligned_cols=70 Identities=13% Similarity=0.242 Sum_probs=48.4
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++.+.|+.+.+.....+. + ...+.+..++ ..+++-|++...+.+ ..+.|+.++++++..|.++..
T Consensus 20 ~g~~~~~~~~g~~~~~~~~~~~~-~-~~~~~~~~l~-~~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~ 90 (275)
T cd06317 20 KAFQAAAEEDGVEVIVLDANGDV-A-RQAAQVEDLI-AQKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSN 90 (275)
T ss_pred HHHHHHHHhcCCEEEEEcCCcCH-H-HHHHHHHHHH-HcCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCC
Confidence 35566666788888876543221 1 2233344455 779999999886655 468889999999999999753
No 102
>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=77.27 E-value=10 Score=33.20 Aligned_cols=68 Identities=13% Similarity=0.200 Sum_probs=47.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+-......+. .....+.+.|...+++-||+.+.+++ ++++.++++|+..|+++..
T Consensus 22 ~~i~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~vdgiii~~~~~~--~~~~~l~~~~ipvV~~~~~ 89 (268)
T cd06277 22 RAIEEEAKKYGYNLILKFVSDED---EEEFELPSFLEDGKVDGIILLGGIST--EYIKEIKELGIPFVLVDHY 89 (268)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCh---HHHHHHHHHHHHCCCCEEEEeCCCCh--HHHHHHhhcCCCEEEEccC
Confidence 46677788889888765433332 22223333444789999999886543 4588999999999999764
No 103
>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=77.17 E-value=13 Score=31.64 Aligned_cols=71 Identities=18% Similarity=0.259 Sum_probs=49.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|+...++..|+.+......... ......+..++ +.+++.+|+.+.+.....++..+.+.++..|.++...
T Consensus 19 ~g~~~~~~~~g~~l~~~~~~~~~--~~~~~~~~~~~-~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~ 89 (264)
T cd01537 19 KGIEEAAKAAGYQVLLANSQNDA--EKQLSALENLI-ARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDI 89 (264)
T ss_pred HHHHHHHHHcCCeEEEEeCCCCH--HHHHHHHHHHH-HcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCC
Confidence 35555566678887766554322 12344444556 6799999998877665556899999999999998764
No 104
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=77.04 E-value=14 Score=31.97 Aligned_cols=71 Identities=23% Similarity=0.326 Sum_probs=50.0
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcch-HHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDF-VDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f-~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|+..+++..|+.+.......... ...+.+..++ ..+++-|++++.++.. .++|+.++++++..|+|+...
T Consensus 19 ~~i~~~~~~~g~~v~~~~~~~~~~--~~~~~~~~~~-~~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~~ 90 (268)
T cd06323 19 DGAQKEAKELGYELTVLDAQNDAA--KQLNDIEDLI-TRGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDREA 90 (268)
T ss_pred HHHHHHHHHcCceEEecCCCCCHH--HHHHHHHHHH-HcCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccCC
Confidence 577788888999997765433222 2233444445 6789999998866554 367888999999999998753
No 105
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=77.03 E-value=7.4 Score=34.32 Aligned_cols=69 Identities=19% Similarity=0.194 Sum_probs=48.0
Q ss_pred CchhhhhhhcCeeeeecC-CCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVS-DKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~-dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.+-.+. ...... -....+..++ ..+|+-|++.+-+.+ +.++++.+.+ ++..|+++..
T Consensus 18 ~gi~~~~~~~g~~~~~~~~~~~~~~--~~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~l~~~~~-~ipvV~~~~~ 88 (271)
T cd06314 18 AGVKAAGKELGVDVEFVVPQQGTVN--AQLRMLEDLI-AEGVDGIAISPIDPKAVIPALNKAAA-GIKLITTDSD 88 (271)
T ss_pred HHHHHHHHHcCCeEEEeCCCCCCHH--HHHHHHHHHH-hcCCCEEEEecCChhHhHHHHHHHhc-CCCEEEecCC
Confidence 677888889999988764 221211 1223333344 789999999876543 5688898888 9999999764
No 106
>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=76.74 E-value=13 Score=32.17 Aligned_cols=68 Identities=13% Similarity=0.297 Sum_probs=48.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+..+...... + ....+..++ ..+++-|++++.+.+ ..+++.+.+.|+..|.|+..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~-~--~~~~i~~~~-~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 86 (266)
T cd06278 19 EALSRALQARGYQPLLINTDDDE-D--LDAALRQLL-QYRVDGVIVTSGTLS-SELAEECRRNGIPVVLINRY 86 (266)
T ss_pred HHHHHHHHHCCCeEEEEcCCCCH-H--HHHHHHHHH-HcCCCEEEEecCCCC-HHHHHHHhhcCCCEEEECCc
Confidence 35677788899998876544332 2 233444455 789999999876544 35688999999999999764
No 107
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=76.66 E-value=16 Score=32.93 Aligned_cols=81 Identities=20% Similarity=0.227 Sum_probs=49.8
Q ss_pred HHHHHhhhccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccE---EEEEeCC-----cchHHHH
Q 023366 98 YKRAARAILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVEC---LVIVSDD-----SDFVDVL 168 (283)
Q Consensus 98 Y~~AA~~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~---lvlvsdd-----~~f~~~l 168 (283)
|.......+.|.-| .-+-..|+..|+.+-.+++++.. . +...|...|+.. .|+.+++ ++=..++
T Consensus 99 y~~~~~~~~~l~pgv~e~L~~L~~~g~~l~I~Tn~~~~----~---~~~~l~~~gl~~~Fd~iv~~~~~~~~KP~p~~~~ 171 (248)
T PLN02770 99 FRKLASEQLKPLNGLYKLKKWIEDRGLKRAAVTNAPRE----N---AELMISLLGLSDFFQAVIIGSECEHAKPHPDPYL 171 (248)
T ss_pred HHHHHHhcCCcCccHHHHHHHHHHcCCeEEEEeCCCHH----H---HHHHHHHcCChhhCcEEEecCcCCCCCCChHHHH
Confidence 44433334555555 55666788899999999999872 1 222344456553 3555655 2223455
Q ss_pred HHHHHcCCc---EEEEccCC
Q 023366 169 QEAKYRCLK---TVVVGDIN 185 (283)
Q Consensus 169 ~~ar~~~~~---tvvvg~~~ 185 (283)
+.+++.|+. +|+|||+.
T Consensus 172 ~a~~~~~~~~~~~l~vgDs~ 191 (248)
T PLN02770 172 KALEVLKVSKDHTFVFEDSV 191 (248)
T ss_pred HHHHHhCCChhHEEEEcCCH
Confidence 666667775 79999975
No 108
>cd06347 PBP1_ABC_ligand_binding_like_12 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=76.58 E-value=4.7 Score=36.45 Aligned_cols=67 Identities=9% Similarity=0.198 Sum_probs=48.3
Q ss_pred hhhhhhhcCeeeeecCC-CchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 114 LADELKRAGFWVRTVSD-KPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 114 la~~L~RaG~~V~~v~d-kp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
+...++..|+.|-.... .+...| ....|.+++ ..+.+.+++.+...+...+++.|++.|++..++|.
T Consensus 156 ~~~~~~~~g~~v~~~~~~~~~~~d--~~~~~~~~~-~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~i~~~ 223 (334)
T cd06347 156 FKEAFKKLGGEIVAEETFNAGDTD--FSAQLTKIK-AKNPDVIFLPGYYTEVGLIAKQARELGIKVPILGG 223 (334)
T ss_pred HHHHHHHcCCEEEEEEEecCCCCc--HHHHHHHHH-hcCCCEEEEcCchhhHHHHHHHHHHcCCCCcEEec
Confidence 44556678887754322 233334 555666666 67999999999999999999999999998777764
No 109
>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=76.53 E-value=11 Score=32.89 Aligned_cols=70 Identities=17% Similarity=0.097 Sum_probs=47.8
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCc----chHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDS----DFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~----~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+++.|+.+-......+ ......+.+.|...+++.|++.+-.. ...+.+..+.++|+..|+||..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~~ 92 (273)
T cd06292 19 EAIEAALAQYGYTVLLCNTYRG---GVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNGR 92 (273)
T ss_pred HHHHHHHHHCCCEEEEEeCCCC---hHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcCC
Confidence 5778888899999876543322 22233333444488999999986322 2456688889999999999864
No 110
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=76.33 E-value=15 Score=31.57 Aligned_cols=70 Identities=17% Similarity=0.204 Sum_probs=47.4
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcch-HHHHHHHHHcCCcEEEEccCC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDF-VDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f-~~~l~~ar~~~~~tvvvg~~~ 185 (283)
|+...+...|+.+.++....+. +.. .+.+.+++ ..+++-|++++.+.+. .+++..+++.++..|.++...
T Consensus 20 ~~~~~a~~~g~~~~~~~~~~~~-~~~-~~~~~~l~-~~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~~ 90 (267)
T cd01536 20 GAEAAAKELGVELIVLDAQNDV-SKQ-IQQIEDLI-AQGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSDI 90 (267)
T ss_pred HHHHHHHhcCceEEEECCCCCH-HHH-HHHHHHHH-HcCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCCC
Confidence 4455566678888876554322 111 23344445 6699999999876554 458899999999999998753
No 111
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=76.18 E-value=11 Score=33.12 Aligned_cols=70 Identities=14% Similarity=0.255 Sum_probs=50.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+-.....-+.... .+.|..++ ..+++-||+.+.+.+ +.++++.+.+.++..|+|+..
T Consensus 19 ~~~~~~a~~~g~~~~~~~~~~~~~~~--~~~i~~l~-~~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (273)
T cd06309 19 KSIKDAAEKRGFDLKFADAQQKQENQ--ISAIRSFI-AQGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRG 89 (273)
T ss_pred HHHHHHHHhcCCEEEEeCCCCCHHHH--HHHHHHHH-HcCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecC
Confidence 46677777899999886544332221 23444455 779999999887655 568899999999999999764
No 112
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=75.82 E-value=13 Score=33.81 Aligned_cols=69 Identities=16% Similarity=0.152 Sum_probs=47.7
Q ss_pred Cchhhhhhh--cCeeeeecCCCchhHHHHHHHH-HHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKR--AGFWVRTVSDKPQAADVALRNH-MVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~R--aG~~V~~v~dkp~aaD~al~~~-~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++. .|+.+......- |.+.... |..++ ..+++-||+...+++ +.++++.+++.|+..|+++..
T Consensus 19 ~gi~~~a~~~~~g~~~~~~~~~~---~~~~q~~~i~~l~-~~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~~ 91 (303)
T cd01539 19 KNLEDIQKENGGKVEFTFYDAKN---NQSTQNEQIDTAL-AKGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNRE 91 (303)
T ss_pred HHHHHHHHhhCCCeeEEEecCCC---CHHHHHHHHHHHH-HcCCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCCC
Confidence 356666667 788877654332 2333333 33345 789999998876654 678999999999998888753
No 113
>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=75.61 E-value=5.4 Score=36.15 Aligned_cols=67 Identities=15% Similarity=0.123 Sum_probs=48.6
Q ss_pred hhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 115 ADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 115 a~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
...+++.|+.|-....-|. ..|. ...+..+. ..+.+.|++.....+...+++.+++.|+...++|..
T Consensus 156 ~~~~~~~g~~v~~~~~~~~~~~d~--~~~l~~i~-~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (334)
T cd06342 156 KKALKAAGGKVVAREGTTDGATDF--SAILTKIK-AANPDAVFFGGYYPEAGPLVRQMRQLGLKAPFMGGD 223 (334)
T ss_pred HHHHHHcCCEEEEEecCCCCCccH--HHHHHHHH-hcCCCEEEEcCcchhHHHHHHHHHHcCCCCcEEecC
Confidence 3556667888765444432 3343 33344444 679999999999999999999999999998888764
No 114
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=75.53 E-value=12 Score=34.22 Aligned_cols=70 Identities=17% Similarity=0.239 Sum_probs=48.6
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+-++....... .....+..++ ..+++-|++++.+.....++..+++.++..|.|+..
T Consensus 84 ~gi~~~a~~~g~~~~~~~~~~~~~--~~~~~~~~l~-~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~ 153 (342)
T PRK10014 84 AGLTEALEAQGRMVFLLQGGKDGE--QLAQRFSTLL-NQGVDGVVIAGAAGSSDDLREMAEEKGIPVVFASRA 153 (342)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHH-hCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEEEecC
Confidence 466677788898887654433221 1223333344 789999999876655668889999999999999753
No 115
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=75.36 E-value=3.7 Score=41.78 Aligned_cols=80 Identities=19% Similarity=0.198 Sum_probs=52.9
Q ss_pred hhhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC-CCccccc
Q 023366 114 LADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI-NDGALKR 191 (283)
Q Consensus 114 la~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~-~~~~l~r 191 (283)
+-..|++.|+ .+..++.+++.. -.. .+.+.|++.+.-.....+=..+++.....+-.++.|||+ +|-...+
T Consensus 370 ~i~~L~~~Gi~~v~vvTgd~~~~----a~~---i~~~lgi~~~f~~~~p~~K~~~i~~l~~~~~~v~~vGDg~nD~~al~ 442 (536)
T TIGR01512 370 AIAELKALGIEKVVMLTGDRRAV----AER---VARELGIDEVHAELLPEDKLEIVKELREKYGPVAMVGDGINDAPALA 442 (536)
T ss_pred HHHHHHHcCCCcEEEEcCCCHHH----HHH---HHHHcCChhhhhccCcHHHHHHHHHHHhcCCEEEEEeCCHHHHHHHH
Confidence 3456778888 888888887722 122 233446654332222334466777778888899999996 5555678
Q ss_pred cccccccHH
Q 023366 192 IADASFSWR 200 (283)
Q Consensus 192 ~ad~~~sW~ 200 (283)
.||+.++|.
T Consensus 443 ~A~vgia~g 451 (536)
T TIGR01512 443 AADVGIAMG 451 (536)
T ss_pred hCCEEEEeC
Confidence 899999885
No 116
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=75.33 E-value=11 Score=32.97 Aligned_cols=72 Identities=21% Similarity=0.241 Sum_probs=48.0
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+....... .-|.+....+.+.|...+++-||+++.+.+ ..++|+.+++.|+..|+++..
T Consensus 19 ~g~~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 91 (273)
T cd06310 19 AGAEAAAKELGVKVTFQGPAS-ETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAKDAGIPVVLIDSG 91 (273)
T ss_pred HHHHHHHHHcCCEEEEecCcc-CCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEecCC
Confidence 577778888999998864211 112222333333333779999999875433 357889999999999999754
No 117
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=75.17 E-value=14 Score=32.45 Aligned_cols=60 Identities=20% Similarity=0.218 Sum_probs=41.3
Q ss_pred CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHHcCCcEEEEccC
Q 023366 122 GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD-SDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 122 G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd-~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
|+.+........+ .-..++.+.|...+++-|++++-+ ..+...++.++++|+..|.++..
T Consensus 34 g~~~~~~~~~~~~---~~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~~ 94 (274)
T cd06311 34 DVEFILVTASNDT---EQQNAQQDLLINRKIDALVILPFESAPLTQPVAKAKKAGIFVVVVDRG 94 (274)
T ss_pred CeEEEEEcCCCCH---HHHHHHHHHHHHcCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcCC
Confidence 6777765443222 233344443437899999998755 44678899999999999999753
No 118
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=75.11 E-value=1.2 Score=43.85 Aligned_cols=24 Identities=33% Similarity=0.711 Sum_probs=22.1
Q ss_pred CCCCccCCCCCCccCCchhHhhhh
Q 023366 38 PAEPYVCGVCGRRFYSNEKLVNHF 61 (283)
Q Consensus 38 GEKPykC~vCGKsFss~ssLkrH~ 61 (283)
..|||.|.+|+|++.....|+.|+
T Consensus 395 ~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 395 KDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred cCCceeccccchhhccCccceecc
Confidence 348999999999999999999997
No 119
>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid carries a unique D-lactyl ether substituent at the C3 position. The etherase catalyzes the cleavage of the lactyl ether bond of N-acetylmuramic acid 6-phosphate.
Probab=74.94 E-value=4.3 Score=37.65 Aligned_cols=48 Identities=15% Similarity=0.184 Sum_probs=41.0
Q ss_pred CccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 151 HVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 151 ~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
.-+++|.+|-+ .+..++++.|+++|..||.|....+..|.+.||..+.
T Consensus 118 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~I~It~~~~s~L~~~aD~~I~ 168 (257)
T cd05007 118 ERDVVIGIAASGRTPYVLGALRYARARGALTIGIACNPGSPLLQLADIAIA 168 (257)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEE
Confidence 45688888864 6678899999999999999999888889999998764
No 120
>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=74.81 E-value=6.7 Score=33.88 Aligned_cols=69 Identities=16% Similarity=0.211 Sum_probs=45.1
Q ss_pred chhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg~~ 184 (283)
++...++..|+.+..+..-+. ..| ....+.++. ..+.+.|++.++..+...+++.+++.|+ +..+||-.
T Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~-~~~~~~v~~~~~~~~~~~~~~~~~~~g~~~~~~~i~~~ 226 (299)
T cd04509 155 AFKAAFKKKGGTVVGEEYYPLGTTD--FTSLLQKLK-AAKPDVIVLCGSGEDAATILKQAAEAGLTGGYPILGIT 226 (299)
T ss_pred HHHHHHHHcCCEEEEEecCCCCCcc--HHHHHHHHH-hcCCCEEEEcccchHHHHHHHHHHHcCCCCCCcEEecc
Confidence 455566678877653322221 122 223333344 4567888888888999999999999999 77777754
No 121
>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=74.66 E-value=17 Score=31.68 Aligned_cols=69 Identities=14% Similarity=0.120 Sum_probs=48.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+-...+.-+ ......+.+.+.+.+|+.+++++.+. ...+++.++++|+..|.++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~---~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~~iPvv~~~~~ 87 (268)
T cd06273 19 QAFQETLAAHGYTLLVASSGYD---LDREYAQARKLLERGVDGLALIGLDH-SPALLDLLARRGVPYVATWNY 87 (268)
T ss_pred HHHHHHHHHCCCEEEEecCCCC---HHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhCCCCEEEEcCC
Confidence 5778888889999877544332 22223333334477999999887654 357788999999999999764
No 122
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=74.64 E-value=17 Score=31.85 Aligned_cols=70 Identities=14% Similarity=0.220 Sum_probs=49.3
Q ss_pred Cchhhhhhh-cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKR-AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~R-aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+++ .|+.+......-+.. ..++.+..++ +.+++-||+.+.+++ ..++++.+.++++..|+|+..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~ 90 (272)
T cd06301 19 NAMKEHAKVLGGVELQFEDAKNDVA--TQLSQVENFI-AQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRR 90 (272)
T ss_pred HHHHHHHHHcCCcEEEEeCCCCCHH--HHHHHHHHHH-HcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCC
Confidence 467777878 899888754322211 1223344445 789999999887765 457889999999999999864
No 123
>TIGR01422 phosphonatase phosphonoacetaldehyde hydrolase. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases (pfam00702), and contains a modified version of the conserved catalytic motifs of that superfamily: the first motif is usually DxDx(T/V), here it is DxAxT, and in the third motif the normal conserved lysine is instead an arginine. Additionally, the enzyme contains a unique conserved catalytic lysine (B. cereus pos. 53) which is involved in the binding and activation of the substrate through the formation of a Schiff base. The substrate of this enzyme is the product of 2-aminoethylphosphonate (AEP) transaminase, phosphonoacetaldehyde. This degradation pathway for AEP may be related to its toxic properties which are utilized by microorganisms as a chemical warfare agent.
Probab=74.57 E-value=24 Score=31.54 Aligned_cols=77 Identities=16% Similarity=0.112 Sum_probs=45.0
Q ss_pred hccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCc-cEEEEEeCCc-----chHHHHHHHHHcCCc
Q 023366 105 ILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHV-ECLVIVSDDS-----DFVDVLQEAKYRCLK 177 (283)
Q Consensus 105 ~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v-~~lvlvsdd~-----~f~~~l~~ar~~~~~ 177 (283)
.+.|--| .-+-..|+..|+.+-.+++++.. ....+.+.+.-.+. .-.|+.||+. +=..+++.+++.|+.
T Consensus 97 ~~~~~pg~~e~L~~L~~~g~~l~IvT~~~~~----~~~~~l~~~gl~~~f~d~ii~~~~~~~~KP~p~~~~~a~~~l~~~ 172 (253)
T TIGR01422 97 YSSPIPGVIEVIAYLRARGIKIGSTTGYTRE----MMDVVAPEAALQGYRPDYNVTTDDVPAGRPAPWMALKNAIELGVY 172 (253)
T ss_pred cCccCCCHHHHHHHHHHCCCeEEEECCCcHH----HHHHHHHHHHhcCCCCceEEccccCCCCCCCHHHHHHHHHHcCCC
Confidence 3455555 55666777889999999999873 22232222211121 1223445542 334567777778874
Q ss_pred ----EEEEccCC
Q 023366 178 ----TVVVGDIN 185 (283)
Q Consensus 178 ----tvvvg~~~ 185 (283)
+|+|||+.
T Consensus 173 ~~~~~l~IGDs~ 184 (253)
T TIGR01422 173 DVAACVKVGDTV 184 (253)
T ss_pred CchheEEECCcH
Confidence 79999974
No 124
>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=74.55 E-value=14 Score=33.64 Aligned_cols=70 Identities=16% Similarity=0.209 Sum_probs=46.4
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++...|+.+-......+. + .....+..++ .++++-||+.+.+....+.+...++.++..|+|+..
T Consensus 80 ~~i~~~~~~~gy~~~i~~~~~~~-~-~~~~~~~~l~-~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~ 149 (327)
T TIGR02417 80 KELEQQCREAGYQLLIACSDDNP-D-QEKVVIENLL-ARQVDALIVASCMPPEDAYYQKLQNEGLPVVALDRS 149 (327)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCH-H-HHHHHHHHHH-HcCCCEEEEeCCCCCChHHHHHHHhcCCCEEEEccc
Confidence 36777778899998765433221 1 1122233334 789999999876553456777888889999999753
No 125
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=74.40 E-value=7 Score=33.75 Aligned_cols=70 Identities=20% Similarity=0.227 Sum_probs=47.7
Q ss_pred CchhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
-++...+++.|+.+.....-+. ..| ....+..++ ..+.+.|++.++..+...+++.+++.|+.-.+||..
T Consensus 153 ~~~~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~-~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (298)
T cd06268 153 AAFREALKKLGGEVVAEETYPPGATD--FSPLIAKLK-AAGPDAVFLAGYGGDAALFLKQAREAGLKVPIVGGD 223 (298)
T ss_pred HHHHHHHHHcCCEEEEEeccCCCCcc--HHHHHHHHH-hcCCCEEEEccccchHHHHHHHHHHcCCCCcEEecC
Confidence 4455667788876643322221 122 344455555 567889999999899999999999999877777653
No 126
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=74.23 E-value=15 Score=31.95 Aligned_cols=69 Identities=14% Similarity=0.181 Sum_probs=47.8
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+......... ......+..++ ..+++-|++++.+.+ ...++.+.++++..|.|+..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~--~~~~~~i~~l~-~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~i~~~ 87 (270)
T cd06296 19 RGVEEAAAAAGYDVVLSESGRRT--SPERQWVERLS-ARRTDGVILVTPELT-SAQRAALRRTGIPFVVVDPA 87 (270)
T ss_pred HHHHHHHHHcCCeEEEecCCCch--HHHHHHHHHHH-HcCCCEEEEecCCCC-hHHHHHHhcCCCCEEEEecc
Confidence 57777888899998776554332 11222233334 789999998876544 36789999999999999764
No 127
>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=73.86 E-value=15 Score=31.88 Aligned_cols=68 Identities=10% Similarity=0.175 Sum_probs=44.0
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
|+...+++.|+.+..+....+.. ....-+..++ ..+++-||+++.+.. .++++.+.+.++..|+++..
T Consensus 20 ~~~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~-~~~vdgiii~~~~~~-~~~~~~l~~~~ipvV~~~~~ 87 (268)
T cd06298 20 GIDDIATMYKYNIILSNSDNDKE--KELKVLNNLL-AKQVDGIIFMGGKIS-EEHREEFKRSPTPVVLAGSV 87 (268)
T ss_pred HHHHHHHHcCCeEEEEeCCCCHH--HHHHHHHHHH-HhcCCEEEEeCCCCc-HHHHHHHhcCCCCEEEEccc
Confidence 55666778888887664432211 1122222234 679999998865432 46888888899999999764
No 128
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=73.75 E-value=29 Score=27.06 Aligned_cols=50 Identities=12% Similarity=0.210 Sum_probs=35.6
Q ss_pred HHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCCCccccc
Q 023366 141 NHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDINDGALKR 191 (283)
Q Consensus 141 ~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r 191 (283)
+.+.+.....+++++++.++ +-...++..|.+.++..||+|....+.+++
T Consensus 52 ~~~~~~~~~~~~~~~~~~~~-~~~~~I~~~~~~~~~dllviG~~~~~~~~~ 101 (124)
T cd01987 52 AEALRLAEELGAEVVTLPGD-DVAEAIVEFAREHNVTQIVVGKSRRSRWRE 101 (124)
T ss_pred HHHHHHHHHcCCEEEEEeCC-cHHHHHHHHHHHcCCCEEEeCCCCCchHHH
Confidence 33444555668877665554 457889999999999999999986554443
No 129
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=73.51 E-value=15 Score=34.46 Aligned_cols=69 Identities=20% Similarity=0.265 Sum_probs=49.0
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEcc
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~ 183 (283)
.|+..++...|+.+..+....... ...+.+..++ ..+++-|++++.+.+ +.+.++.+.++++..|+++.
T Consensus 45 ~gi~~~a~~~g~~l~i~~~~~~~~--~~~~~i~~l~-~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~ 114 (330)
T PRK10355 45 DIFVKKAESLGAKVFVQSANGNEE--TQMSQIENMI-NRGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDR 114 (330)
T ss_pred HHHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHH-HcCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECC
Confidence 356667778899988765433221 1223333445 789999999986654 67889999999999999975
No 130
>PRK11382 frlB fructoselysine-6-P-deglycase; Provisional
Probab=73.36 E-value=4.6 Score=38.66 Aligned_cols=48 Identities=17% Similarity=0.212 Sum_probs=40.5
Q ss_pred cEEEEEeC---CcchHHHHHHHHHcCCcEEEEccCCCccccccccccccHH
Q 023366 153 ECLVIVSD---DSDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSWR 200 (283)
Q Consensus 153 ~~lvlvsd---d~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~ 200 (283)
+++|.+|= ..+-..+++.|+++|.+||.|.+..+..|.+.||..+...
T Consensus 94 ~lvI~iS~SGeT~e~i~al~~ak~~Ga~~I~IT~~~~S~L~~~ad~~l~~~ 144 (340)
T PRK11382 94 CAVIGVSDYGKTEEVIKALELGRACGALTAAFTKRADSPITSAAEFSIDYQ 144 (340)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCCEEEEeC
Confidence 56777874 4678899999999999999999988889999999877554
No 131
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=72.90 E-value=14 Score=32.81 Aligned_cols=71 Identities=28% Similarity=0.334 Sum_probs=49.3
Q ss_pred cCCCC-CchhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEE--EEEeCCc------chHHHHHHHHHcCC
Q 023366 107 TPKIG-YGLADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECL--VIVSDDS------DFVDVLQEAKYRCL 176 (283)
Q Consensus 107 ~pk~g-ygla~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~l--vlvsdd~------~f~~~l~~ar~~~~ 176 (283)
.|--| .-+-..|+.+|+..-.|+.||. -++. .++..|+.-+ +.++.+. +-..++..+.+.|+
T Consensus 89 ~~~~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~--------~l~~~gl~~~F~~i~g~~~~~~~KP~P~~l~~~~~~~~~ 160 (220)
T COG0546 89 RLFPGVKELLAALKSAGYKLGIVTNKPERELDI--------LLKALGLADYFDVIVGGDDVPPPKPDPEPLLLLLEKLGL 160 (220)
T ss_pred ccCCCHHHHHHHHHhCCCeEEEEeCCcHHHHHH--------HHHHhCCccccceEEcCCCCCCCCcCHHHHHHHHHHhCC
Confidence 34445 6777889999999999999998 2222 3434455533 2444232 44678888899999
Q ss_pred c---EEEEccCC
Q 023366 177 K---TVVVGDIN 185 (283)
Q Consensus 177 ~---tvvvg~~~ 185 (283)
. +|.|||+.
T Consensus 161 ~~~~~l~VGDs~ 172 (220)
T COG0546 161 DPEEALMVGDSL 172 (220)
T ss_pred ChhheEEECCCH
Confidence 8 89999975
No 132
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=72.87 E-value=19 Score=31.52 Aligned_cols=69 Identities=16% Similarity=0.197 Sum_probs=46.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+++.|+.|-...... |..-...+.+.|...+++.|++++.+... +.++.+...++..|+|+..
T Consensus 19 ~gi~~~~~~~gy~v~~~~~~~---~~~~~~~~i~~~~~~~~dgiii~~~~~~~-~~~~~~~~~~~pvV~i~~~ 87 (269)
T cd06293 19 DAVEEEADARGLSLVLCATRN---RPERELTYLRWLDTNHVDGLIFVTNRPDD-GALAKLINSYGNIVLVDED 87 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCC---CHHHHHHHHHHHHHCCCCEEEEeCCCCCH-HHHHHHHhcCCCEEEECCC
Confidence 577778889999987654332 22333334444448899999999765444 4455566789999999864
No 133
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=72.73 E-value=23 Score=29.85 Aligned_cols=85 Identities=24% Similarity=0.257 Sum_probs=49.6
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEE---EEEeCCcch--------------HHH
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECL---VIVSDDSDF--------------VDV 167 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~l---vlvsdd~~f--------------~~~ 167 (283)
+.+.-| --+-..|++.|+.+-.|++.+. .+...+ +...|++.+ ++++++..+ ..+
T Consensus 79 ~~~~~g~~e~l~~l~~~g~~~~IvS~~~~----~~~~~~---l~~~g~~~~~~~~~~~~~~g~~~p~~~~~~~~~~k~~~ 151 (201)
T TIGR01491 79 ISLRDYAEELVRWLKEKGLKTAIVSGGIM----CLAKKV---AEKLNPDYVYSNELVFDEKGFIQPDGIVRVTFDNKGEA 151 (201)
T ss_pred CCCCccHHHHHHHHHHCCCEEEEEeCCcH----HHHHHH---HHHhCCCeEEEEEEEEcCCCeEecceeeEEccccHHHH
Confidence 345555 4566777889999999999886 333343 445566643 445543221 134
Q ss_pred HHH-HHHcCC---cEEEEccCC-Cccccccccccc
Q 023366 168 LQE-AKYRCL---KTVVVGDIN-DGALKRIADASF 197 (283)
Q Consensus 168 l~~-ar~~~~---~tvvvg~~~-~~~l~r~ad~~~ 197 (283)
++. +++.|+ ++|+|||+. |-...+.|++.+
T Consensus 152 ~~~~~~~~~~~~~~~i~iGDs~~D~~~a~~ag~~~ 186 (201)
T TIGR01491 152 VERLKRELNPSLTETVAVGDSKNDLPMFEVADISI 186 (201)
T ss_pred HHHHHHHhCCCHHHEEEEcCCHhHHHHHHhcCCeE
Confidence 444 444566 589999974 223344455443
No 134
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=71.61 E-value=18 Score=28.44 Aligned_cols=67 Identities=19% Similarity=0.244 Sum_probs=40.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEe-CCcchHHHHHHHHH---cCCc-EEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVS-DDSDFVDVLQEAKY---RCLK-TVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvs-dd~~f~~~l~~ar~---~~~~-tvvvg~~ 184 (283)
.-+++.|+++|+.|..+...... ..+.+.+...+.+-|++-+ -...+..+.+.++. .+-+ .||||+.
T Consensus 18 ~~la~~l~~~G~~v~~~d~~~~~------~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~ 89 (121)
T PF02310_consen 18 LYLAAYLRKAGHEVDILDANVPP------EELVEALRAERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGP 89 (121)
T ss_dssp HHHHHHHHHTTBEEEEEESSB-H------HHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEES
T ss_pred HHHHHHHHHCCCeEEEECCCCCH------HHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECC
Confidence 55788999999999977332211 3444445456777765544 56666666666555 4333 5555554
No 135
>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=70.67 E-value=24 Score=30.02 Aligned_cols=70 Identities=17% Similarity=0.217 Sum_probs=47.9
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|+...++..|+.+.......+. ......+..++ +.+++.||+...++.-.. ++.+.++|+.-|.++...
T Consensus 19 ~g~~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~-~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~ 88 (264)
T cd06267 19 RGIEEAAREAGYSVLLCNSDEDP--EKEREALELLL-SRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPL 88 (264)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCH--HHHHHHHHHHH-HcCcCEEEEecCCcchHH-HHHHHHcCCCEEEecccc
Confidence 35556666678888876554332 11233344455 789999999887765544 888999999999997653
No 136
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=70.10 E-value=11 Score=36.14 Aligned_cols=70 Identities=9% Similarity=0.152 Sum_probs=48.3
Q ss_pred chhhhhhhcCeeeeecCCCch--hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC-cEEEEcc
Q 023366 113 GLADELKRAGFWVRTVSDKPQ--AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL-KTVVVGD 183 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~--aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~-~tvvvg~ 183 (283)
.+...|++.|+.|-...--|. ..+..+...+.++. ..+.+.|||.+...+...+|+.|++.|+ ..+.||.
T Consensus 195 ~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~-~~~~dvIil~~~~~~~~~il~qa~~~g~~~~~~i~~ 267 (410)
T cd06363 195 LFSELIANTGICIAYQGLIPLDTDPETDYQQILKQIN-QTKVNVIVVFASRQPAEAFFNSVIQQNLTGKVWIAS 267 (410)
T ss_pred HHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHh-cCCCeEEEEEcChHHHHHHHHHHHhcCCCCCEEEEe
Confidence 344577788987753222211 12334555555555 6799999999999999999999999999 4555554
No 137
>PRK04860 hypothetical protein; Provisional
Probab=70.04 E-value=2.2 Score=37.43 Aligned_cols=24 Identities=21% Similarity=0.508 Sum_probs=12.8
Q ss_pred hhhhhcccCCCCCccCCCCCCccC
Q 023366 29 QLENRGVIKPAEPYVCGVCGRRFY 52 (283)
Q Consensus 29 ~LEhqriHTGEKPykC~vCGKsFs 52 (283)
...|.++|++++||.|..|+..|.
T Consensus 131 ~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 131 VRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred HHHHHHHhcCCccEECCCCCceeE
Confidence 344555555555555555555543
No 138
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=69.83 E-value=6.6 Score=31.56 Aligned_cols=42 Identities=24% Similarity=0.276 Sum_probs=32.5
Q ss_pred CccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccccccc
Q 023366 151 HVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIAD 194 (283)
Q Consensus 151 ~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad 194 (283)
.-+.++.+|-+ .+-..+++.|+++|+++|+|.+. +.|.+.||
T Consensus 43 ~~dl~I~iS~SG~t~e~i~~~~~a~~~g~~iI~IT~~--~~l~~~~~ 87 (119)
T cd05017 43 RKTLVIAVSYSGNTEETLSAVEQAKERGAKIVAITSG--GKLLEMAR 87 (119)
T ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEeCC--chHHHHHH
Confidence 55788888855 56778888999999999999863 34777666
No 139
>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=69.74 E-value=14 Score=33.88 Aligned_cols=68 Identities=16% Similarity=0.296 Sum_probs=44.9
Q ss_pred hhhhhhhcCeeeeecCCCchhH-HHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC-cEEEEc
Q 023366 114 LADELKRAGFWVRTVSDKPQAA-DVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL-KTVVVG 182 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aa-D~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~-~tvvvg 182 (283)
+...++..|+.|.....-|... +.-+...+..+. ..+.+.||+.+...+...+|+.|++.|+ ...+||
T Consensus 180 ~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~-~~~~~vvv~~~~~~~~~~~~~~a~~~g~~~~~~i~ 249 (348)
T cd06350 180 LEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLK-SSTARVIVVFGDEDDALRLFCEAYKLGMTGKYWII 249 (348)
T ss_pred HHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHH-hCCCcEEEEEeCcHHHHHHHHHHHHhCCCCeEEEE
Confidence 3445667787776433333210 123444454455 6688999999999999999999999999 344443
No 140
>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=69.69 E-value=11 Score=34.35 Aligned_cols=69 Identities=12% Similarity=0.136 Sum_probs=49.8
Q ss_pred chhhhhhhcCeeeeecCC-CchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSD-KPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~d-kp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg~~ 184 (283)
++...|++.|+.|....- .+.+.|. ...+.++. +.+.+.|++..-..+...+++.+++.|+ +..++|..
T Consensus 153 ~~~~~~~~~G~~v~~~~~~~~~~~d~--~~~v~~~~-~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 224 (336)
T cd06360 153 GFKEAFTEAGGKIVKELWVPFGTSDF--ASYLAQIP-DDVPDAVFVFFAGGDAIKFVKQYDAAGLKAKIPLIGSG 224 (336)
T ss_pred HHHHHHHHcCCEEEEEEecCCCCcch--HHHHHHHH-hcCCCEEEEecccccHHHHHHHHHHcCCccCCeEEecc
Confidence 466777888988753222 2334443 35555566 6789999999999999999999999999 55677653
No 141
>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=69.62 E-value=16 Score=33.58 Aligned_cols=69 Identities=13% Similarity=0.280 Sum_probs=50.7
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|+..++++.|+.+-........ |.. +.+ ++|.+++|+-||+.|-..++..+.+..+. +.-.|+++...
T Consensus 21 ~gIe~~a~~~Gy~l~l~~t~~~~-~~e--~~i-~~l~~~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~~ 89 (279)
T PF00532_consen 21 RGIEQEAREHGYQLLLCNTGDDE-EKE--EYI-ELLLQRRVDGIILASSENDDEELRRLIKS-GIPVVLIDRYI 89 (279)
T ss_dssp HHHHHHHHHTTCEEEEEEETTTH-HHH--HHH-HHHHHTTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS-S
T ss_pred HHHHHHHHHcCCEEEEecCCCch-HHH--HHH-HHHHhcCCCEEEEecccCChHHHHHHHHc-CCCEEEEEecc
Confidence 57888899999998765444432 222 444 34458999999999998888888777777 99999998763
No 142
>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=69.55 E-value=8.6 Score=35.38 Aligned_cols=69 Identities=22% Similarity=0.247 Sum_probs=44.7
Q ss_pred chhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEEEEc
Q 023366 113 GLADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTVVVG 182 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg 182 (283)
++...+++.|.-+..|... +...+......|.+++ ..+.+-|+++....+.+.+++.+++.|+ .-.++|
T Consensus 157 ~~~~~~~~~g~~~~~v~~~~~~~~~~d~~~~v~~i~-~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 228 (346)
T cd06330 157 DFKAALKRLRPDVEVVSEQWPKLGAPDYGSEITALL-AAKPDAIFSSLWGGDLVTFVRQANARGLFDGTTVVL 228 (346)
T ss_pred HHHHHHHHhCCCCeecccccCCCCCcccHHHHHHHH-hcCCCEEEEecccccHHHHHHHHHhcCcccCceEEe
Confidence 4555566775544444322 1112233444455566 7899999999888999999999999999 334554
No 143
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=69.31 E-value=22 Score=30.84 Aligned_cols=70 Identities=14% Similarity=0.068 Sum_probs=45.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++++.|+.+........ |......+.++|.+.+++.+++++.+.+=. .+..+.++|+..|+++..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~~~~ipvv~~~~~ 88 (264)
T cd01574 19 AAIESAAREAGYAVTLSMLAEA--DEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAAPADVPVVFVDGS 88 (264)
T ss_pred HHHHHHHHHCCCeEEEEeCCCC--chHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHHhcCCCEEEEecc
Confidence 5777788889999877654322 112333333334477899999876543323 345567899999999764
No 144
>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=68.85 E-value=10 Score=35.30 Aligned_cols=64 Identities=13% Similarity=0.162 Sum_probs=46.3
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEE
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTV 179 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tv 179 (283)
+...+++.|+.|-....-|.. +.....++.+++ ..+++.|++.....+...+++.+++.|+..-
T Consensus 164 ~~~~~~~~G~~vv~~~~~~~~-~~d~~~~i~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~ 227 (347)
T cd06340 164 IKKFAKERGFEIVEDISYPAN-ARDLTSEVLKLK-AANPDAILPASYTNDAILLVRTMKEQRVEPK 227 (347)
T ss_pred HHHHHHHcCCEEEEeeccCCC-CcchHHHHHHHH-hcCCCEEEEcccchhHHHHHHHHHHcCCCCc
Confidence 345677899888754444321 223444555556 6799999999999999999999999999653
No 145
>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=68.24 E-value=21 Score=31.14 Aligned_cols=69 Identities=13% Similarity=0.130 Sum_probs=43.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+....-... ..-...+.+.|...+++-|++++.+.+- ..++.+++.|+..|+|+..
T Consensus 19 ~~~~~~~~~~g~~~~~~~~~~~---~~~~~~~i~~l~~~~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~ 87 (264)
T cd06274 19 KRLEALARERGYQLLIACSDDD---PETERETVETLIARQVDALIVAGSLPPD-DPYYLCQKAGLPVVALDRP 87 (264)
T ss_pred HHHHHHHHHCCCEEEEEeCCCC---HHHHHHHHHHHHHcCCCEEEEcCCCCch-HHHHHHHhcCCCEEEecCc
Confidence 4556667778887765432222 1111222233348899999999876443 2377888999999999664
No 146
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=68.19 E-value=16 Score=33.67 Aligned_cols=54 Identities=15% Similarity=0.137 Sum_probs=35.9
Q ss_pred hhhhhhhcCeeeeecCCCch--hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH
Q 023366 114 LADELKRAGFWVRTVSDKPQ--AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY 173 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~--aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~ 173 (283)
+...|+..|+.+.....+.. +.. + +...+ ..+.++||.+..|=-+..+++....
T Consensus 24 i~~~l~~~~~~~~~~~t~~~~~~~~--~---~~~~~-~~~~d~ivv~GGDGTl~~v~~~l~~ 79 (293)
T TIGR00147 24 VIMLLREEGMEIHVRVTWEKGDAAR--Y---VEEAR-KFGVDTVIAGGGDGTINEVVNALIQ 79 (293)
T ss_pred HHHHHHHCCCEEEEEEecCcccHHH--H---HHHHH-hcCCCEEEEECCCChHHHHHHHHhc
Confidence 44557778887765444432 322 1 22334 4578999999999999999987765
No 147
>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=68.02 E-value=27 Score=30.57 Aligned_cols=71 Identities=17% Similarity=0.203 Sum_probs=46.9
Q ss_pred Cchhhhhhh--cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKR--AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~R--aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|+...++. .|+.+.++....+.. .....+..++ ..+++-||+++-+.+ ..++++.++++|+..|+++...
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~~~-~~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~~ 92 (271)
T cd06321 19 KGAEAAAKKLNPGVKVTVVSADYDLN--KQVSQIDNFI-AAKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVAA 92 (271)
T ss_pred HHHHHHHHHhCCCeEEEEccCCCCHH--HHHHHHHHHH-HhCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCCC
Confidence 466667777 788776654332211 2223333334 789999998875543 5788999999999999997643
No 148
>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=67.69 E-value=25 Score=30.66 Aligned_cols=69 Identities=19% Similarity=0.250 Sum_probs=48.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+++.|+.+-.....- |......+.++|...+++-|++.+-+.+ ...++.+++.++..|+++..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~---~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~~~~~~~~~~iPvv~~~~~ 87 (265)
T cd06285 19 EGIEEAAAERGYSTFVANTGD---NPDAQRRAIEMLLDRRVDGLILGDARSD-DHFLDELTRRGVPFVLVLRH 87 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCCC---CHHHHHHHHHHHHHcCCCEEEEecCCCC-hHHHHHHHHcCCCEEEEccC
Confidence 577888889999986543321 2334444444555889999998765443 35688999999999999764
No 149
>PRK09701 D-allose transporter subunit; Provisional
Probab=67.69 E-value=19 Score=33.15 Aligned_cols=70 Identities=16% Similarity=0.142 Sum_probs=46.2
Q ss_pred CchhhhhhhcCeeeeecC--CCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVS--DKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~--dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+.++. ..++..+ ....+..++ ..+++-||+..-+++ -.+.+..+.+.|+..|+|+..
T Consensus 44 ~gi~~~a~~~g~~v~~~~~~~~~~~~~--~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~ 116 (311)
T PRK09701 44 KGIEDEAKTLGVSVDIFASPSEGDFQS--QLQLFEDLS-NKNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEK 116 (311)
T ss_pred HHHHHHHHHcCCeEEEecCCCCCCHHH--HHHHHHHHH-HcCCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCC
Confidence 567777888999998752 2222211 122233334 789999999875543 335577888999999999864
No 150
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=67.46 E-value=14 Score=36.53 Aligned_cols=67 Identities=15% Similarity=0.179 Sum_probs=46.4
Q ss_pred hhhhhcCeeeee---cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 116 DELKRAGFWVRT---VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 116 ~~L~RaG~~V~~---v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
..+++.|+.|-. ++..+.. ..+...+.++....+.+.|||.+...+...+|+.|++.|+..+.||..
T Consensus 196 ~~~~~~gi~i~~~~~i~~~~~~--~d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~~~wigs~ 265 (458)
T cd06375 196 QEARLRNICIATSEKVGRSADR--KSYDSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNASFTWVASD 265 (458)
T ss_pred HHHHHCCeeEEEEEEecCCCCH--HHHHHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCcEEEEEec
Confidence 456678887643 4333333 333344444442358889999999999999999999999997777653
No 151
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=67.30 E-value=8.2 Score=36.75 Aligned_cols=49 Identities=20% Similarity=0.190 Sum_probs=40.8
Q ss_pred CccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccccccccccccH
Q 023366 151 HVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW 199 (283)
Q Consensus 151 ~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW 199 (283)
.-|++|.+|-+ ++-.++|+.|+++|..||.|....+..|.+.||.-+.-
T Consensus 127 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~IaIT~~~~s~La~~aD~~I~~ 178 (296)
T PRK12570 127 ADDVVVGIAASGRTPYVIGALEYAKQIGATTIALSCNPDSPIAKIADIAISP 178 (296)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEee
Confidence 34788888864 45678899999999999999998888899999987753
No 152
>PRK13478 phosphonoacetaldehyde hydrolase; Provisional
Probab=67.22 E-value=46 Score=30.16 Aligned_cols=76 Identities=18% Similarity=0.144 Sum_probs=41.2
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCc-cEEEEEeCCc-----chHHHHHHHHHcCCc-
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHV-ECLVIVSDDS-----DFVDVLQEAKYRCLK- 177 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v-~~lvlvsdd~-----~f~~~l~~ar~~~~~- 177 (283)
..|.-| .-+-..|++.|+.+-.++.++... ...+...+.-.+. .-.|+.+|+. +=..++..+++.|+.
T Consensus 100 ~~~~pg~~elL~~L~~~g~~l~I~T~~~~~~----~~~~l~~~~l~~~~~d~i~~~~~~~~~KP~p~~~~~a~~~l~~~~ 175 (267)
T PRK13478 100 ATPIPGVLEVIAALRARGIKIGSTTGYTREM----MDVVVPLAAAQGYRPDHVVTTDDVPAGRPYPWMALKNAIELGVYD 175 (267)
T ss_pred CCCCCCHHHHHHHHHHCCCEEEEEcCCcHHH----HHHHHHHHhhcCCCceEEEcCCcCCCCCCChHHHHHHHHHcCCCC
Confidence 344445 455567778899999998888732 1222121111122 1234445442 223456666777762
Q ss_pred ---EEEEccCC
Q 023366 178 ---TVVVGDIN 185 (283)
Q Consensus 178 ---tvvvg~~~ 185 (283)
+|+|||+.
T Consensus 176 ~~e~l~IGDs~ 186 (267)
T PRK13478 176 VAACVKVDDTV 186 (267)
T ss_pred CcceEEEcCcH
Confidence 68888864
No 153
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=67.20 E-value=22 Score=32.37 Aligned_cols=70 Identities=11% Similarity=0.140 Sum_probs=45.6
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+-........ .-...+.+.|...+++-|++.+.+..-.+.++.+.+.|+..|+|+..
T Consensus 81 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~v~~~ 150 (328)
T PRK11303 81 KYLERQARQRGYQLLIACSDDQP---DNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRLQNDGLPIIALDRA 150 (328)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCH---HHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHHHhcCCCEEEECCC
Confidence 36667777899888765322111 11112333344789999999876544456778888899999999764
No 154
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=66.84 E-value=2.9 Score=31.49 Aligned_cols=21 Identities=33% Similarity=0.771 Sum_probs=19.4
Q ss_pred CccCCCCCCccCCchhHhhhh
Q 023366 41 PYVCGVCGRRFYSNEKLVNHF 61 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~ 61 (283)
++.|..|++.|.+...|..|+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm 70 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHM 70 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHH
T ss_pred CCCCCccCCCCcCHHHHHHHH
Confidence 799999999999999999999
No 155
>PF05368 NmrA: NmrA-like family; InterPro: IPR008030 NmrA is a negative transcriptional regulator involved in the post-translational modification of the transcription factor AreA. NmrA is part of a system controlling nitrogen metabolite repression in fungi []. This family only contains a few sequences as iteration results in significant matches to other Rossmann fold families.; PDB: 2ZCV_A 2ZCU_A 2R6J_B 3C3X_A 2QZZ_B 2QYS_A 2QX7_A 2QW8_A 2R2G_B 3E5M_B ....
Probab=66.79 E-value=19 Score=31.46 Aligned_cols=42 Identities=19% Similarity=0.286 Sum_probs=32.2
Q ss_pred HHHHHHHhhcCccEEEEEeCC---c---chHHHHHHHHHcCCcEEEEccC
Q 023366 141 NHMVDMMDKRHVECLVIVSDD---S---DFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 141 ~~~~~~~~~~~v~~lvlvsdd---~---~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
..|...+ .|+++++++... . ....++++|++.||+.+|....
T Consensus 56 ~~l~~al--~g~d~v~~~~~~~~~~~~~~~~~li~Aa~~agVk~~v~ss~ 103 (233)
T PF05368_consen 56 ESLVAAL--KGVDAVFSVTPPSHPSELEQQKNLIDAAKAAGVKHFVPSSF 103 (233)
T ss_dssp HHHHHHH--TTCSEEEEESSCSCCCHHHHHHHHHHHHHHHT-SEEEESEE
T ss_pred HHHHHHH--cCCceEEeecCcchhhhhhhhhhHHHhhhccccceEEEEEe
Confidence 4555566 499999999983 3 4567899999999999998664
No 156
>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=66.48 E-value=15 Score=34.69 Aligned_cols=70 Identities=14% Similarity=0.131 Sum_probs=51.5
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
++...+++.|+.|-...-.|. .+..+...|.+++ ..+.+.|++.....+.+.+++.+++.|+...+||..
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~~-~~~D~~~~v~~i~-~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~~~~~ 228 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPPP-GPNDQKAQWLQIR-RSGPDYVILWGWGVMNPVAIKEAKRVGLDDKFIGNW 228 (351)
T ss_pred HHHHHHHHcCCeeeeeccCCC-CcccHHHHHHHHH-HcCCCEEEEecccchHHHHHHHHHHcCCCceEEEee
Confidence 355667788998765443332 1233456666667 689999999999999999999999999987777653
No 157
>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=66.47 E-value=9.3 Score=35.21 Aligned_cols=70 Identities=14% Similarity=0.224 Sum_probs=49.8
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
++...+++.|+.|.....-|. .+.-+...+.++. ..+.+.|++.....+...+++.|++.|+...++|..
T Consensus 156 ~~~~~~~~~g~~v~~~~~~~~-~~~d~~~~v~~i~-~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 225 (344)
T cd06348 156 IFQKALRDQGLNLVTVQTFQT-GDTDFQAQITAVL-NSKPDLIVISALAADGGNLVRQLRELGYNGLIVGGN 225 (344)
T ss_pred HHHHHHHHcCCEEEEEEeeCC-CCCCHHHHHHHHH-hcCCCEEEECCcchhHHHHHHHHHHcCCCCceeccc
Confidence 355667778888864322221 1122344455555 679999999999999999999999999998888753
No 158
>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=66.36 E-value=11 Score=35.04 Aligned_cols=67 Identities=12% Similarity=0.127 Sum_probs=48.8
Q ss_pred chhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 023366 113 GLADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg 182 (283)
++...+++.|+.|-....- |...| ....|.+++ +.+.+.|++.+...+++.+++.+++.|++.-++|
T Consensus 157 ~~~~~~~~~G~~v~~~~~~~~~~~d--~s~~i~~i~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~ 224 (347)
T cd06335 157 DLTAALAARGLKPVAVEWFNWGDKD--MTAQLLRAK-AAGADAIIIVGNGPEGAQIANGMAKLGWKVPIIS 224 (347)
T ss_pred HHHHHHHHcCCeeEEEeeecCCCcc--HHHHHHHHH-hCCCCEEEEEecChHHHHHHHHHHHcCCCCcEec
Confidence 3456677889887532222 22334 445666666 6799999999999999999999999999866665
No 159
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=66.15 E-value=22 Score=32.16 Aligned_cols=68 Identities=10% Similarity=0.234 Sum_probs=43.0
Q ss_pred CchhhhhhhcCeeeeecCCC--chhHHHHHHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHHcCCcEEEEcc
Q 023366 112 YGLADELKRAGFWVRTVSDK--PQAADVALRNHMVDMMDKRHVECLVIVSDD-SDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dk--p~aaD~al~~~~~~~~~~~~v~~lvlvsdd-~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
.|+..+++..|+.+...... ++. + ...+.+..++ .++++-|++++-+ ..+..++..+ +.|+..|++++
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~~~~~-~-~~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~l~~~-~~~iPvV~~~~ 89 (295)
T TIGR02955 19 YGMVEQAKHLGVELKVLEAGGYPNL-D-KQLAQIEQCK-SWGADAILLGTVSPEALNHDLAQL-TKSIPVFALVN 89 (295)
T ss_pred HHHHHHHHHhCCEEEEEcCCCCCCH-H-HHHHHHHHHH-HcCCCEEEEecCChhhhhHHHHHH-hcCCCEEEEec
Confidence 46667777889988875432 221 1 1223333345 8999999998743 4446777766 46998887844
No 160
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=66.13 E-value=9.4 Score=38.93 Aligned_cols=80 Identities=19% Similarity=0.150 Sum_probs=53.1
Q ss_pred hhhhhhhcC-eeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC-Cccccc
Q 023366 114 LADELKRAG-FWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN-DGALKR 191 (283)
Q Consensus 114 la~~L~RaG-~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~-~~~l~r 191 (283)
+-..|+..| +.+..++.++...=.+ ++.+.|++.++--....+=..+++.....+-.++.|||+. |-.-.+
T Consensus 392 ~l~~L~~~g~i~v~ivTgd~~~~a~~-------i~~~lgi~~~f~~~~p~~K~~~v~~l~~~~~~v~~vGDg~nD~~al~ 464 (556)
T TIGR01525 392 AIAALKRAGGIKLVMLTGDNRSAAEA-------VAAELGIDEVHAELLPEDKLAIVKELQEEGGVVAMVGDGINDAPALA 464 (556)
T ss_pred HHHHHHHcCCCeEEEEeCCCHHHHHH-------HHHHhCCCeeeccCCHHHHHHHHHHHHHcCCEEEEEECChhHHHHHh
Confidence 345567889 9999999988832222 2444577655433222344567777777778999999953 434557
Q ss_pred cccccccHH
Q 023366 192 IADASFSWR 200 (283)
Q Consensus 192 ~ad~~~sW~ 200 (283)
.||+.++|.
T Consensus 465 ~A~vgia~g 473 (556)
T TIGR01525 465 AADVGIAMG 473 (556)
T ss_pred hCCEeEEeC
Confidence 799999886
No 161
>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=66.08 E-value=11 Score=34.13 Aligned_cols=68 Identities=9% Similarity=0.055 Sum_probs=45.9
Q ss_pred chhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 113 GLADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
++...+++.|+.+-....- +...| ....+.+++ ..+.+.|++.+++.+-..+++.+++.|++.=++|.
T Consensus 152 ~~~~~~~~~G~~v~~~~~~~~~~~d--~~~~~~~l~-~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p~~~~ 220 (312)
T cd06333 152 ELKALAPKYGIEVVADERYGRTDTS--VTAQLLKIR-AARPDAVLIWGSGTPAALPAKNLRERGYKGPIYQT 220 (312)
T ss_pred HHHHHHHHcCCEEEEEEeeCCCCcC--HHHHHHHHH-hCCCCEEEEecCCcHHHHHHHHHHHcCCCCCEEee
Confidence 4555666778766432222 22233 344555566 45799999999888888899999999998666654
No 162
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=66.06 E-value=12 Score=27.39 Aligned_cols=56 Identities=25% Similarity=0.287 Sum_probs=39.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHH-----HHHHHHHcCCcEEEE
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVD-----VLQEAKYRCLKTVVV 181 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~-----~l~~ar~~~~~tvvv 181 (283)
+.|...|++.|+.|+.+.. |. .+|. ..-.+||+++.+..+.. -|...-++| .||||
T Consensus 8 ~a~~~~L~~~g~~v~~~~~-~~---~~l~---------~~~~tll~i~~~~~~~~~~~~~~l~~~v~~G-~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK-PY---EALE---------ADDGTLLVIGPDLRLSEPEEAEALLEWVEAG-NTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc-cH---HHhC---------CCCCEEEEEeCCCCCCchHHHHHHHHHHHcC-CEEEE
Confidence 7788899999999998666 43 1332 26668999998866653 555555688 66665
No 163
>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=65.05 E-value=32 Score=29.72 Aligned_cols=69 Identities=14% Similarity=0.172 Sum_probs=45.7
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++...|+.+......-+.. ....+.+.+...+++-|++++-+.. ..++..+.+.|+.-|++++.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~---~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvv~~~~~ 87 (268)
T cd01575 19 QGISDVLEAAGYQLLLGNTGYSPE---REEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAAGIPVVEIMDL 87 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCCch---hHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhcCCCEEEEecC
Confidence 466777788898887654432221 1222222333789999988876544 56778888899999999764
No 164
>PLN03243 haloacid dehalogenase-like hydrolase; Provisional
Probab=65.05 E-value=28 Score=32.15 Aligned_cols=74 Identities=16% Similarity=0.239 Sum_probs=41.8
Q ss_pred hccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCcc---EEEEEeCCcc-----hHHHHHHHHHcC
Q 023366 105 ILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVE---CLVIVSDDSD-----FVDVLQEAKYRC 175 (283)
Q Consensus 105 ~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~---~lvlvsdd~~-----f~~~l~~ar~~~ 175 (283)
...|..| -.+-..|+..|+.+-.+++++.. .... .+...|+. -.|+.+++.. =.-++..+.+.|
T Consensus 107 ~~~l~pg~~e~L~~L~~~g~~l~I~Tn~~~~----~~~~---~l~~~gl~~~Fd~ii~~~d~~~~KP~Pe~~~~a~~~l~ 179 (260)
T PLN03243 107 LYRLRPGSREFVQALKKHEIPIAVASTRPRR----YLER---AIEAVGMEGFFSVVLAAEDVYRGKPDPEMFMYAAERLG 179 (260)
T ss_pred CcccCCCHHHHHHHHHHCCCEEEEEeCcCHH----HHHH---HHHHcCCHhhCcEEEecccCCCCCCCHHHHHHHHHHhC
Confidence 3445555 55677788899999999999862 1112 23233443 1244455432 123445555566
Q ss_pred Cc---EEEEccCC
Q 023366 176 LK---TVVVGDIN 185 (283)
Q Consensus 176 ~~---tvvvg~~~ 185 (283)
+. +|+|||+.
T Consensus 180 ~~p~~~l~IgDs~ 192 (260)
T PLN03243 180 FIPERCIVFGNSN 192 (260)
T ss_pred CChHHeEEEcCCH
Confidence 64 67777753
No 165
>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=64.82 E-value=13 Score=34.68 Aligned_cols=66 Identities=11% Similarity=0.082 Sum_probs=48.6
Q ss_pred hhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHHcCCcEEEEc
Q 023366 114 LADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECLVIVSDDS-DFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~lvlvsdd~-~f~~~l~~ar~~~~~tvvvg 182 (283)
+...|++.|+.|-....-|. ..|. ...|.++. ..+.+.|++..... +...+++.++++|+..-+++
T Consensus 158 ~~~~l~~~G~~vv~~~~~~~~~~D~--s~~i~~i~-~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 225 (347)
T cd06336 158 YKAAWEAAGGKVVSEEPYDPGTTDF--SPIVTKLL-AEKPDVIFLGGPSPAPAALVIKQARELGFKGGFLS 225 (347)
T ss_pred HHHHHHHcCCEEeeecccCCCCcch--HHHHHHHH-hcCCCEEEEcCCCchHHHHHHHHHHHcCCCccEEe
Confidence 45678889988864333333 4453 45565566 67999999999989 99999999999999864544
No 166
>COG2237 Predicted membrane protein [Function unknown]
Probab=64.79 E-value=28 Score=34.64 Aligned_cols=90 Identities=26% Similarity=0.296 Sum_probs=64.2
Q ss_pred hhHHHHHHHhh--hccCCCC--------CchhhhhhhcCeee--eecCCCc---hhHHHHHHHHHHHHHhhcCccEEEEE
Q 023366 94 KMEKYKRAARA--ILTPKIG--------YGLADELKRAGFWV--RTVSDKP---QAADVALRNHMVDMMDKRHVECLVIV 158 (283)
Q Consensus 94 k~~KY~~AA~~--~l~pk~g--------ygla~~L~RaG~~V--~~v~dkp---~aaD~al~~~~~~~~~~~~v~~lvlv 158 (283)
+.++..+||-. +..|... ..+-.+|++.|-.| -.|+.-+ -.+|..|.+++..++...+.+-.++|
T Consensus 26 Grd~~~~aavkl~~AdPeDSD~Nalf~alkiydeLk~~geDveIA~vsG~~~vgv~sd~~l~~qld~vl~~~~pd~av~V 105 (364)
T COG2237 26 GRDEVLRAAVKLGLADPEDSDVNALFAALKIYDELKAKGEDVEIAVVSGDKDVGVESDLKLSEQLDEVLSELDPDDAVVV 105 (364)
T ss_pred cHHHHHHHHHHHhcCCCccccHHHHHHHHHHHHHHhccCCceEEEEEecCCCcchhhHHHHHHHHHHHHHcCCCcEEEEe
Confidence 44556666554 4455543 66778999988444 4555544 49999999999999999999999999
Q ss_pred eCCcchH---HHHHHHHH-cCCcEEEEcc
Q 023366 159 SDDSDFV---DVLQEAKY-RCLKTVVVGD 183 (283)
Q Consensus 159 sdd~~f~---~~l~~ar~-~~~~tvvvg~ 183 (283)
||..+=. ++++-=.. ..++.|||--
T Consensus 106 sDGaeDe~ivPiI~Sr~~I~svkrVVVrQ 134 (364)
T COG2237 106 SDGAEDERIVPIIQSRVKIDSVKRVVVRQ 134 (364)
T ss_pred ccCcccchhhhhhhcccceeEEEEEEEec
Confidence 9976544 44433222 6789999944
No 167
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=64.68 E-value=25 Score=30.60 Aligned_cols=66 Identities=12% Similarity=0.177 Sum_probs=43.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+-....... ++ .....+..++ ..+++.||+.+.+.+ ++.+++.|+..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~-~~-~~~~~i~~~~-~~~~dgiii~~~~~~----~~~~~~~gipvv~~~~~ 84 (265)
T cd06291 19 RAVEKELYKKGYKLILCNSDND-PE-KEREYLEMLR-QNQVDGIIAGTHNLG----IEEYENIDLPIVSFDRY 84 (265)
T ss_pred HHHHHHHHHCCCeEEEecCCcc-HH-HHHHHHHHHH-HcCCCEEEEecCCcC----HHHHhcCCCCEEEEeCC
Confidence 4667777888988765433222 11 1123333345 789999999987655 35667889999999765
No 168
>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=64.16 E-value=40 Score=28.00 Aligned_cols=70 Identities=13% Similarity=0.171 Sum_probs=46.6
Q ss_pred chhhhhhh--cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 113 GLADELKR--AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 113 gla~~L~R--aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
|+...+.. .|+.+..+....... .....+..++ ..+++-|++...+..-..++..+.+.++.+|.++...
T Consensus 21 ~~~~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~~~~-~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~ 92 (269)
T cd01391 21 GIELAAEEIGRGLEVILADSQSDPE--RALEALRDLI-QQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATA 92 (269)
T ss_pred HHHHHHHHhCCceEEEEecCCCCHH--HHHHHHHHHH-HcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCC
Confidence 34444445 677776655433321 2223333345 6699999998887766668999999999999998764
No 169
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=64.01 E-value=3.4 Score=41.90 Aligned_cols=25 Identities=28% Similarity=0.606 Sum_probs=23.0
Q ss_pred CccCCCCCCccCCchhHhhhhhcccc
Q 023366 41 PYVCGVCGRRFYSNEKLVNHFKQIHE 66 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~KriHt 66 (283)
-|+|++|+|.|+-+.+|..|. +.|.
T Consensus 295 EYrCPEC~KVFsCPANLASHR-RWHK 319 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHR-RWHK 319 (500)
T ss_pred eecCCcccccccCchhhhhhh-cccC
Confidence 599999999999999999999 8885
No 170
>TIGR01548 HAD-SF-IA-hyp1 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548. All but the Halobacterium sequence currently found are annotated as "Imidazoleglycerol-phosphate dehydratase", however, the source of the annotation could not be traced and significant homology could not be found between any of these sequences and known IGPD's.
Probab=64.01 E-value=28 Score=29.84 Aligned_cols=67 Identities=24% Similarity=0.288 Sum_probs=41.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccE---EEEEeCCc----chHHHHHHHHHcCCc---EEEE
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVEC---LVIVSDDS----DFVDVLQEAKYRCLK---TVVV 181 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~---lvlvsdd~----~f~~~l~~ar~~~~~---tvvv 181 (283)
..+-..|++.|+.+-.++.+|.. .... .|...|+.- .++.+|+. +=..++..+++.|+. +|+|
T Consensus 112 ~~~L~~l~~~g~~~~i~T~~~~~----~~~~---~l~~~gl~~~f~~~~~~~~~~~KP~p~~~~~~~~~~~~~~~~~i~v 184 (197)
T TIGR01548 112 KGLLRELHRAPKGMAVVTGRPRK----DAAK---FLTTHGLEILFPVQIWMEDCPPKPNPEPLILAAKALGVEACHAAMV 184 (197)
T ss_pred HHHHHHHHHcCCcEEEECCCCHH----HHHH---HHHHcCchhhCCEEEeecCCCCCcCHHHHHHHHHHhCcCcccEEEE
Confidence 45556688899999999999872 2222 233345442 35555552 233455666667764 8999
Q ss_pred ccCC
Q 023366 182 GDIN 185 (283)
Q Consensus 182 g~~~ 185 (283)
||+.
T Consensus 185 GD~~ 188 (197)
T TIGR01548 185 GDTV 188 (197)
T ss_pred eCCH
Confidence 9974
No 171
>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=63.61 E-value=70 Score=27.97 Aligned_cols=85 Identities=11% Similarity=0.093 Sum_probs=51.4
Q ss_pred Cchhhhhhhc---Cee--eeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKRA---GFW--VRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDS-DFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~Ra---G~~--V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~-~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|+..++++. |+. +......-+. +. ..+.+..++ ..+++-||+.+-+. .+.+++..++++|+.-|+++...
T Consensus 19 ~~i~~~~~~~~~~g~~~~l~i~~~~~~~-~~-~~~~~~~~~-~~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~~ 95 (272)
T cd06300 19 DEFKAQAKELKKAGLISEFIVTSADGDV-AQ-QIADIRNLI-AQGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGTV 95 (272)
T ss_pred HHHHHHHHhhhccCCeeEEEEecCCCCH-HH-HHHHHHHHH-HcCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecCC
Confidence 3555666667 873 3443332221 11 234444455 67999999987554 46778999999999988886542
Q ss_pred CccccccccccccHHH
Q 023366 186 DGALKRIADASFSWRD 201 (283)
Q Consensus 186 ~~~l~r~ad~~~sW~~ 201 (283)
.. ....-+.+++..
T Consensus 96 ~~--~~~~~v~~d~~~ 109 (272)
T cd06300 96 TT--PCAYNVNEDQAE 109 (272)
T ss_pred CC--CceeEecCCHHH
Confidence 22 223445556544
No 172
>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=63.05 E-value=17 Score=33.43 Aligned_cols=61 Identities=10% Similarity=-0.040 Sum_probs=44.7
Q ss_pred hhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 114 LADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
+...+++.|+.|-.+..- +...| +...+.+++ ..+.+.|++..+..+...+++.+++.|+.
T Consensus 152 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~~~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~ 213 (333)
T cd06331 152 ARALLEELGGEVVGEEYLPLGTSD--FGSVIEKIK-AAGPDVVLSTLVGDSNVAFYRQFAAAGLD 213 (333)
T ss_pred HHHHHHHcCCEEEEEEEecCCccc--HHHHHHHHH-HcCCCEEEEecCCCChHHHHHHHHHcCCC
Confidence 445677789877432222 22344 455666666 67999999999999999999999999996
No 173
>TIGR01691 enolase-ppase 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. This enzyme is the enolase-phosphatase of methionine salvage, a pathway that regenerates methionine from methylthioadenosine (MTA). Adenosylmethionine (AdoMet) is a donor of different moieties for various processes, including methylation reactions. Use of AdoMet for spermidine biosynthesis, which leads to polyamine biosynthesis, leaves MTA as a by-product that must be cleared. In Bacillus subtilis and related species, this single protein is replaced by separate enzymes with enolase and phosphatase activities.
Probab=62.91 E-value=33 Score=31.21 Aligned_cols=27 Identities=22% Similarity=0.217 Sum_probs=19.7
Q ss_pred cEEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 023366 153 ECLVIVSDDSDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 153 ~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg 182 (283)
+-++.|+|. ..=+..|+++|++||.|-
T Consensus 170 ~e~lfVgDs---~~Di~AA~~AG~~ti~v~ 196 (220)
T TIGR01691 170 REILFLSDI---INELDAARKAGLHTGQLV 196 (220)
T ss_pred hHEEEEeCC---HHHHHHHHHcCCEEEEEE
Confidence 346677766 244688999999998884
No 174
>TIGR03649 ergot_EASG ergot alkaloid biosynthesis protein, AFUA_2G17970 family. This family consists of fungal proteins of unknown function associated with secondary metabolite biosynthesis, such as of the ergot alkaloids such as ergovaline. Nomenclature differs because gene order differs - this is EasG in Neotyphodium lolii but is designated ergot alkaloid biosynthetic protein A in several other fungi.
Probab=62.68 E-value=12 Score=33.82 Aligned_cols=75 Identities=11% Similarity=0.084 Sum_probs=43.6
Q ss_pred CCCchhhhhhhcCeeeeecCCCchh----------HHHHHHHHHHHHHh---h-cC-ccEEEEEeCCc-----chHHHHH
Q 023366 110 IGYGLADELKRAGFWVRTVSDKPQA----------ADVALRNHMVDMMD---K-RH-VECLVIVSDDS-----DFVDVLQ 169 (283)
Q Consensus 110 ~gygla~~L~RaG~~V~~v~dkp~a----------aD~al~~~~~~~~~---~-~~-v~~lvlvsdd~-----~f~~~l~ 169 (283)
+|..+...|...|+.|+.+.-.|+. .|..=...+...+. . .| ++.+++++... ....++.
T Consensus 11 iG~~vv~~L~~~g~~V~~~~R~~~~~~~~~~~~~~~d~~d~~~l~~a~~~~~~~~g~~d~v~~~~~~~~~~~~~~~~~i~ 90 (285)
T TIGR03649 11 TASRIARLLQAASVPFLVASRSSSSSAGPNEKHVKFDWLDEDTWDNPFSSDDGMEPEISAVYLVAPPIPDLAPPMIKFID 90 (285)
T ss_pred HHHHHHHHHHhCCCcEEEEeCCCccccCCCCccccccCCCHHHHHHHHhcccCcCCceeEEEEeCCCCCChhHHHHHHHH
Confidence 3455566666677777755444431 11111112222231 1 47 99999887642 2346788
Q ss_pred HHHHcCCcEEEEccC
Q 023366 170 EAKYRCLKTVVVGDI 184 (283)
Q Consensus 170 ~ar~~~~~tvvvg~~ 184 (283)
.|++.||+.||.-.+
T Consensus 91 aa~~~gv~~~V~~Ss 105 (285)
T TIGR03649 91 FARSKGVRRFVLLSA 105 (285)
T ss_pred HHHHcCCCEEEEeec
Confidence 999999998887553
No 175
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=62.63 E-value=44 Score=30.94 Aligned_cols=79 Identities=23% Similarity=0.270 Sum_probs=49.4
Q ss_pred hhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEEEEEeCCcchH-HHHHHHHHcCCcEEEEccCCCccccc
Q 023366 114 LADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECLVIVSDDSDFV-DVLQEAKYRCLKTVVVGDINDGALKR 191 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~-~~l~~ar~~~~~tvvvg~~~~~~l~r 191 (283)
+...++..|+.|..+++... +.|.+- +...|...+.+.| |.|.-.|. ..++..+..+.++|+|.|..++..
T Consensus 45 ~~~~i~~~g~~v~~~~~~~~~~~d~~~---~~~~l~~~~~d~v--V~D~y~~~~~~~~~~k~~~~~l~~iDD~~~~~~-- 117 (279)
T TIGR03590 45 LIDLLLSAGFPVYELPDESSRYDDALE---LINLLEEEKFDIL--IVDHYGLDADWEKLIKEFGRKILVIDDLADRPH-- 117 (279)
T ss_pred HHHHHHHcCCeEEEecCCCchhhhHHH---HHHHHHhcCCCEE--EEcCCCCCHHHHHHHHHhCCeEEEEecCCCCCc--
Confidence 34677889999998877542 223221 3344544466655 55554444 234555568999999999754433
Q ss_pred cccccccH
Q 023366 192 IADASFSW 199 (283)
Q Consensus 192 ~ad~~~sW 199 (283)
.||+.|.-
T Consensus 118 ~~D~vin~ 125 (279)
T TIGR03590 118 DCDLLLDQ 125 (279)
T ss_pred CCCEEEeC
Confidence 79998855
No 176
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=62.41 E-value=38 Score=31.00 Aligned_cols=69 Identities=10% Similarity=0.120 Sum_probs=45.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..++...|+.+-......+... -...+..++ ..+++-|++++.+. -.+.++.+.+.|+..|++++.
T Consensus 83 ~gi~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~~~-~~~vdgiI~~~~~~-~~~~~~~l~~~~iPvV~~~~~ 151 (331)
T PRK14987 83 RGIESVTDAHGYQTMLAHYGYKPEM--EQERLESML-SWNIDGLILTERTH-TPRTLKMIEVAGIPVVELMDS 151 (331)
T ss_pred HHHHHHHHHCCCEEEEecCCCCHHH--HHHHHHHHH-hcCCCEEEEcCCCC-CHHHHHHHHhCCCCEEEEecC
Confidence 5777888889988766433222111 122233334 78999999986432 246788888999999988653
No 177
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=62.37 E-value=21 Score=34.56 Aligned_cols=68 Identities=12% Similarity=0.222 Sum_probs=46.0
Q ss_pred hhhhhhhcCeeeee---cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEEEEcc
Q 023366 114 LADELKRAGFWVRT---VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTVVVGD 183 (283)
Q Consensus 114 la~~L~RaG~~V~~---v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg~ 183 (283)
|...+++.|+.|.. ++..+.+.| +...+.+++...+.+.+||.+...+...+|+.|++.|+ +.+.||.
T Consensus 192 ~~~~~~~~gi~i~~~~~~~~~~~~~d--~~~~l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~~~~~~i~~ 264 (452)
T cd06362 192 FEKLAAERGICIAGSEKIPSSATEEE--FDNIIRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAEGHFQWIAS 264 (452)
T ss_pred HHHHHHHCCeeEEEEEEcCCCCCHHH--HHHHHHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCcCceEEEEe
Confidence 34566678887653 333344444 33444444422468889999999999999999999999 5566654
No 178
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=62.17 E-value=39 Score=29.13 Aligned_cols=69 Identities=13% Similarity=0.218 Sum_probs=44.0
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+.......... .....+..++ ..+++.|++.+-+.+- ..|+.+++.|+.-|+++..
T Consensus 19 ~~i~~~a~~~g~~~~~~~~~~~~~--~~~~~~~~l~-~~~~dgiii~~~~~~~-~~l~~~~~~~ipvV~~~~~ 87 (267)
T cd06283 19 KGIEDVCRAHGYQVLVCNSDNDPE--KEKEYLESLL-AYQVDGLIVNPTGNNK-ELYQRLAKNGKPVVLVDRK 87 (267)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCHH--HHHHHHHHHH-HcCcCEEEEeCCCCCh-HHHHHHhcCCCCEEEEcCC
Confidence 355556667788776544332211 1122333344 7899999998765543 4578889999999999764
No 179
>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=62.00 E-value=24 Score=33.93 Aligned_cols=66 Identities=15% Similarity=0.167 Sum_probs=52.0
Q ss_pred hhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 117 ELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
.+...|-...|-+.+|.. +....+.+.+.|.+++|+.||.+-.|--|..+.+++.+.++..|.|=-
T Consensus 58 ~~~~gGt~LgtsR~~~~~-~~~~~~~~~~~l~~~~Id~Li~IGGdgs~~~a~~L~e~~~i~vigiPk 123 (301)
T TIGR02482 58 IIHRGGTILGTARCPEFK-TEEGRQKAVENLKKLGIEGLVVIGGDGSYTGAQKLYEEGGIPVIGLPG 123 (301)
T ss_pred HHhCCCceeccCCCCccC-CHHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHhhCCCEEeecc
Confidence 345677777776666544 345667788888899999999999999999999999988887777643
No 180
>TIGR01511 ATPase-IB1_Cu copper-(or silver)-translocating P-type ATPase. One member from Halobacterium is annotated as "molybdenum-binding protein" although no evidence can be found for this classification.
Probab=61.99 E-value=16 Score=37.52 Aligned_cols=78 Identities=17% Similarity=0.155 Sum_probs=51.9
Q ss_pred hhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC-CCccccccc
Q 023366 115 ADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI-NDGALKRIA 193 (283)
Q Consensus 115 a~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~-~~~~l~r~a 193 (283)
-..|++.|+.+-.++.+++.. -+. .+...|++..- -....+-..+++..++.+=+++.|||+ +|-...+.|
T Consensus 414 i~~Lk~~Gi~v~ilSgd~~~~----a~~---ia~~lgi~~~~-~~~p~~K~~~v~~l~~~~~~v~~VGDg~nD~~al~~A 485 (562)
T TIGR01511 414 IQALKRRGIEPVMLTGDNRKT----AKA---VAKELGINVRA-EVLPDDKAALIKELQEKGRVVAMVGDGINDAPALAQA 485 (562)
T ss_pred HHHHHHcCCeEEEEcCCCHHH----HHH---HHHHcCCcEEc-cCChHHHHHHHHHHHHcCCEEEEEeCCCccHHHHhhC
Confidence 345778899999988888732 222 34445776221 111234566777777788889999996 566666889
Q ss_pred cccccHH
Q 023366 194 DASFSWR 200 (283)
Q Consensus 194 d~~~sW~ 200 (283)
|+.++|.
T Consensus 486 ~vgia~g 492 (562)
T TIGR01511 486 DVGIAIG 492 (562)
T ss_pred CEEEEeC
Confidence 9988775
No 181
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=61.87 E-value=31 Score=32.74 Aligned_cols=70 Identities=13% Similarity=0.245 Sum_probs=48.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
-|+..++...|+.+-...-.. |....+.+.+.|...+|+-||+.+ -..-...+....+.++..|+|+...
T Consensus 78 ~gi~~~~~~~gy~~~l~~~~~---~~~~e~~~~~~l~~~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~ 147 (333)
T COG1609 78 KGIEEAAREAGYSLLLANTDD---DPEKEREYLETLLQKRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSP 147 (333)
T ss_pred HHHHHHHHHcCCEEEEECCCC---CHHHHHHHHHHHHHcCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCC
Confidence 578888999999998655544 233334444445589999999998 2222334556666799999998753
No 182
>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=61.69 E-value=15 Score=33.45 Aligned_cols=68 Identities=9% Similarity=0.103 Sum_probs=46.1
Q ss_pred chhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 113 GLADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
++...++..|+.+.....- +...| ....+.+++ ..+.+.|++.+++.+...+++.++++|++.-+++.
T Consensus 155 ~~~~~~~~~G~~~~~~~~~~~~~~d--~~~~~~~l~-~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~~~~~ 223 (336)
T cd06326 155 GVEKALAARGLKPVATASYERNTAD--VAAAVAQLA-AARPQAVIMVGAYKAAAAFIRALRKAGGGAQFYNL 223 (336)
T ss_pred HHHHHHHHcCCCeEEEEeecCCccc--HHHHHHHHH-hcCCCEEEEEcCcHHHHHHHHHHHhcCCCCcEEEE
Confidence 3566677788765432222 22223 344555566 45789899988888999999999999998766654
No 183
>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=61.56 E-value=25 Score=32.90 Aligned_cols=61 Identities=15% Similarity=0.127 Sum_probs=45.9
Q ss_pred hhhhhhhcCeeeeecCCCc-hhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 114 LADELKRAGFWVRTVSDKP-QAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp-~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
+...++..|+.|-....-| .+.|.. ..+..++ ..+.+.|++.....+.+.+++.+++.|+.
T Consensus 153 ~~~~~~~~G~~vv~~~~~~~~~~D~~--~~v~~l~-~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 214 (348)
T cd06355 153 LKAQLESLGGEVVGEEYLPLGHTDFQ--SIINKIK-AAKPDVVVSTVNGDSNVAFFKQLKAAGIT 214 (348)
T ss_pred HHHHHHHcCCeEEeeEEecCChhhHH--HHHHHHH-HhCCCEEEEeccCCchHHHHHHHHHcCCC
Confidence 3456778898876544333 345544 6666667 67999999988888999999999999996
No 184
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=61.54 E-value=48 Score=24.11 Aligned_cols=62 Identities=18% Similarity=0.167 Sum_probs=39.2
Q ss_pred hhhhhhhc-CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEc
Q 023366 114 LADELKRA-GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 114 la~~L~Ra-G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg 182 (283)
+...|.+. |+.+..+.+.-. .+......-..-++++++|-. .+-..+++.|+++|.++|+|.
T Consensus 16 ~~~~l~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~d~~i~iS~sg~t~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 16 FALELLELTGIEVVALIATEL-------EHASLLSLLRKGDVVIALSYSGRTEELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred HHHHHhcccCCceEEeCCcHH-------HHHHHHhcCCCCCEEEEEECCCCCHHHHHHHHHHHHcCCeEEEEe
Confidence 34445566 888877654221 111111112355688888865 567778899999999999986
No 185
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=61.32 E-value=35 Score=29.67 Aligned_cols=65 Identities=9% Similarity=0.146 Sum_probs=43.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+.+.|+.+.......+ ...+ +.|...+++.|++++.+.+ ...++.+++.++..|+|+..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~------~~~~-~~l~~~~vdgii~~~~~~~-~~~~~~~~~~~ipvV~~~~~ 83 (261)
T cd06272 19 TGINQAISKNGYNMNVSITPSL------AEAE-DLFKENRFDGVIIFGESAS-DVEYLYKIKLAIPVVSYGVD 83 (261)
T ss_pred HHHHHHHHHcCCEEEEEecccH------HHHH-HHHHHcCcCEEEEeCCCCC-hHHHHHHHHcCCCEEEEccc
Confidence 4667777788888776543211 1122 2344789999999875533 34568888999999999764
No 186
>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=61.26 E-value=16 Score=33.76 Aligned_cols=66 Identities=15% Similarity=0.145 Sum_probs=45.0
Q ss_pred hhhhhhhcCeeeeecCC-CchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 023366 114 LADELKRAGFWVRTVSD-KPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 114 la~~L~RaG~~V~~v~d-kp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg 182 (283)
+...+++.|+.|-.... .+...| ....+.++. ..+.+.|++.....+...+++.++++|+..-.+|
T Consensus 164 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~ 230 (344)
T cd06345 164 IKALLPEAGLEVVSVERFSPDTTD--FTPILQQIK-AADPDVIIAGFSGNVGVLFTQQWAEQKVPIPTIG 230 (344)
T ss_pred HHHHHHHcCCeEEEEEecCCCCCc--hHHHHHHHH-hcCCCEEEEeecCchHHHHHHHHHHcCCCCceEE
Confidence 44567788988654322 222233 334444445 6789999999999999999999999998654444
No 187
>PF13242 Hydrolase_like: HAD-hyrolase-like; PDB: 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A 2HX1_D 2X4D_A 3HLT_C 3L1U_B ....
Probab=60.80 E-value=33 Score=25.24 Aligned_cols=50 Identities=20% Similarity=0.183 Sum_probs=30.9
Q ss_pred CCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 130 DKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 130 dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.||. ..+..++.+.+ ....+..+.|.|+ -.++ +..|++.|+.||.|..+.
T Consensus 3 gKP~---p~~~~~a~~~~-~~~~~~~~~VGD~-~~~D-i~~a~~~G~~~ilV~tG~ 52 (75)
T PF13242_consen 3 GKPS---PGMLEQALKRL-GVDPSRCVMVGDS-LETD-IEAAKAAGIDTILVLTGV 52 (75)
T ss_dssp STTS---HHHHHHHHHHH-TSGGGGEEEEESS-TTTH-HHHHHHTTSEEEEESSSS
T ss_pred CCCc---HHHHHHHHHHc-CCCHHHEEEEcCC-cHhH-HHHHHHcCCcEEEECCCC
Confidence 4555 44555544444 3334566667666 2233 378999999999997754
No 188
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=60.70 E-value=15 Score=32.29 Aligned_cols=36 Identities=11% Similarity=-0.052 Sum_probs=26.1
Q ss_pred HHHHHhhhccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 98 YKRAARAILTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 98 Y~~AA~~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
+.+.....+.+.-| ..+-..|++.|+.+..|++++.
T Consensus 65 ~~~~~~~~~~l~pG~~e~l~~l~~~g~~~~IvS~~~~ 101 (219)
T PRK09552 65 IIQFLLETAEIREGFHEFVQFVKENNIPFYVVSGGMD 101 (219)
T ss_pred HHHHHHhCCCcCcCHHHHHHHHHHcCCeEEEECCCcH
Confidence 33443444556666 4667778899999999999987
No 189
>TIGR01261 hisB_Nterm histidinol-phosphatase. This model describes histidinol phosphatase. All known examples in the scope of this model are bifunctional proteins with a histidinol phosphatase domain followed by an imidazoleglycerol-phosphate dehydratase domain. These enzymatic domains catalyze the ninth and seventh steps, respectively, of histidine biosynthesis.
Probab=60.67 E-value=36 Score=29.22 Aligned_cols=78 Identities=24% Similarity=0.356 Sum_probs=46.9
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCc--------hhHHHHHHHHHHHHHhhcCccEE--EEEe-----CCcc----hH
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKP--------QAADVALRNHMVDMMDKRHVECL--VIVS-----DDSD----FV 165 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp--------~aaD~al~~~~~~~~~~~~v~~l--vlvs-----dd~~----f~ 165 (283)
+.|..| ..+-..|+..|+.+-.+++++ .+.-.+....|..+++..|+. + +.+| ++.. -.
T Consensus 28 ~~~~pgv~e~L~~L~~~g~~l~IvSN~~g~~~~~~~~~~~~~~~~~~~~~l~~~gl~-fd~ii~~~~~~~~~~~~~KP~~ 106 (161)
T TIGR01261 28 LRFEKGVIPALLKLKKAGYKFVMVTNQDGLGTPSFPQADFDGPHNLMLQIFRSQGII-FDDVLICPHFPDDNCDCRKPKI 106 (161)
T ss_pred eeECCCHHHHHHHHHHCCCeEEEEeCCccccCCcCCHHHHHHHHHHHHHHHHHCCCc-eeEEEECCCCCCCCCCCCCCCH
Confidence 344444 455667777888888888864 333344556677777777887 4 4454 4421 13
Q ss_pred HHHHHH-HHcCC---cEEEEccC
Q 023366 166 DVLQEA-KYRCL---KTVVVGDI 184 (283)
Q Consensus 166 ~~l~~a-r~~~~---~tvvvg~~ 184 (283)
+++..+ +..++ .+++|||+
T Consensus 107 ~~~~~~~~~~~~~~~e~l~IGD~ 129 (161)
T TIGR01261 107 KLLEPYLKKNLIDKARSYVIGDR 129 (161)
T ss_pred HHHHHHHHHcCCCHHHeEEEeCC
Confidence 444444 34454 37888886
No 190
>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=60.64 E-value=21 Score=32.74 Aligned_cols=64 Identities=17% Similarity=0.145 Sum_probs=45.7
Q ss_pred hhhhhhcCeeeeecC-CCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 023366 115 ADELKRAGFWVRTVS-DKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 115 a~~L~RaG~~V~~v~-dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvv 181 (283)
...+++.|+.|-... =.+...| ....+.++. ..+.+.|++.....++..+++.+++.|+..-++
T Consensus 162 ~~~~~~~g~~v~~~~~~~~~~~d--~~~~v~~l~-~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~~~ 226 (345)
T cd06338 162 REKAEAAGLEVVYDETYPPGTAD--LSPLISKAK-AAGPDAVVVAGHFPDAVLLVRQMKELGYNPKAL 226 (345)
T ss_pred HHHHHHcCCEEEEEeccCCCccc--hHHHHHHHH-hcCCCEEEECCcchhHHHHHHHHHHcCCCCCEE
Confidence 446778898876322 2233344 334555556 678999999999999999999999999975444
No 191
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=60.34 E-value=50 Score=28.57 Aligned_cols=74 Identities=23% Similarity=0.274 Sum_probs=44.7
Q ss_pred hccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEE---EEEeCCc-----chHHHHHHHHHcC
Q 023366 105 ILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECL---VIVSDDS-----DFVDVLQEAKYRC 175 (283)
Q Consensus 105 ~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~l---vlvsdd~-----~f~~~l~~ar~~~ 175 (283)
...+-.| ..+-..|++.|+.+-.++.++.. .+...+...|+.-+ ++.+++. +=..+++.+++.|
T Consensus 80 ~~~~~~g~~~~l~~L~~~g~~~~i~S~~~~~-------~~~~~l~~~gl~~~f~~i~~~~~~~~~Kp~p~~~~~~~~~~~ 152 (214)
T PRK13288 80 LVTEYETVYETLKTLKKQGYKLGIVTTKMRD-------TVEMGLKLTGLDEFFDVVITLDDVEHAKPDPEPVLKALELLG 152 (214)
T ss_pred hcccCcCHHHHHHHHHHCCCeEEEEeCCCHH-------HHHHHHHHcCChhceeEEEecCcCCCCCCCcHHHHHHHHHcC
Confidence 3444455 66777888899999999998862 22223334455532 3444442 2234555556666
Q ss_pred C---cEEEEccCC
Q 023366 176 L---KTVVVGDIN 185 (283)
Q Consensus 176 ~---~tvvvg~~~ 185 (283)
+ ++|+|||+.
T Consensus 153 ~~~~~~~~iGDs~ 165 (214)
T PRK13288 153 AKPEEALMVGDNH 165 (214)
T ss_pred CCHHHEEEECCCH
Confidence 5 479999975
No 192
>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=60.25 E-value=18 Score=33.54 Aligned_cols=65 Identities=14% Similarity=0.183 Sum_probs=45.9
Q ss_pred hhhhhhhcCeeeeecCCCc-hhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 023366 114 LADELKRAGFWVRTVSDKP-QAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp-~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvv 181 (283)
+...++..|+.|-....-| ...|. ...+.++. ..+++.|++.....+.+.+++.+++.|+...++
T Consensus 164 ~~~~~~~~G~~vv~~~~~~~~~~d~--~~~v~~i~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~ 229 (362)
T cd06343 164 LKDGLGDAGLEIVAETSYEVTEPDF--DSQVAKLK-AAGADVVVLATTPKFAAQAIRKAAELGWKPTFL 229 (362)
T ss_pred HHHHHHHcCCeEEEEeeecCCCccH--HHHHHHHH-hcCCCEEEEEcCcHHHHHHHHHHHHcCCCceEE
Confidence 4455677888765433333 23343 34455556 789999999999999999999999999874444
No 193
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=60.00 E-value=36 Score=31.79 Aligned_cols=70 Identities=13% Similarity=0.130 Sum_probs=44.0
Q ss_pred CchhhhhhhcC-eeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAG-FWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG-~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+++.| +.+-.+..... .+.. ...+..++ .++++-|+|+.-++. ..+.++.+++.|+..|+|+..
T Consensus 44 ~gi~~~a~~~g~~~~~~~~~~~~-~~~~-~~~i~~l~-~~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~~ 115 (330)
T PRK15395 44 KAIEKDAKAAPDVQLLMNDSQND-QSKQ-NDQIDVLL-AKGVKALAINLVDPAAAPTVIEKARGQDVPVVFFNKE 115 (330)
T ss_pred HHHHHHHHhcCCeEEEEecCCCC-HHHH-HHHHHHHH-HcCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcCC
Confidence 35556666765 55554332211 1111 23333344 789999999865544 455789999999999999864
No 194
>PHA00732 hypothetical protein
Probab=59.99 E-value=6.1 Score=30.80 Aligned_cols=30 Identities=20% Similarity=0.382 Sum_probs=20.9
Q ss_pred hhhhhc-ccCCCCCccCCCCCCccCCchhHhhhhhccc
Q 023366 29 QLENRG-VIKPAEPYVCGVCGRRFYSNEKLVNHFKQIH 65 (283)
Q Consensus 29 ~LEhqr-iHTGEKPykC~vCGKsFss~ssLkrH~KriH 65 (283)
+..|++ .|+ ++.|+.|++.|. .+..|. +.+
T Consensus 17 Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~-~~~ 47 (79)
T PHA00732 17 LKQHARRNHT---LTKCPVCNKSYR---RLNQHF-YSQ 47 (79)
T ss_pred HHHHhhcccC---CCccCCCCCEeC---Chhhhh-ccc
Confidence 334655 355 468999999998 478887 443
No 195
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=59.97 E-value=12 Score=31.02 Aligned_cols=33 Identities=24% Similarity=0.500 Sum_probs=24.9
Q ss_pred cCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEc
Q 023366 150 RHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 150 ~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg 182 (283)
+--|+||.+|.+ ..-.++++.||++|+.||.|.
T Consensus 102 ~~gDvli~iS~SG~s~~vi~a~~~Ak~~G~~vIalT 137 (138)
T PF13580_consen 102 RPGDVLIVISNSGNSPNVIEAAEEAKERGMKVIALT 137 (138)
T ss_dssp -TT-EEEEEESSS-SHHHHHHHHHHHHTT-EEEEEE
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEEe
Confidence 466899999874 456778899999999999984
No 196
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=59.65 E-value=6.5 Score=27.92 Aligned_cols=28 Identities=32% Similarity=0.780 Sum_probs=21.3
Q ss_pred CccCCCCCCccCCchhHhhhhhccccccc
Q 023366 41 PYVCGVCGRRFYSNEKLVNHFKQIHEREQ 69 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~KriHtGEK 69 (283)
.|.|++|++. .+...|..|....|..+.
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~ 29 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSES 29 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCC
Confidence 5899999995 456789999856676553
No 197
>TIGR02137 HSK-PSP phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein. This enzyme is a member of the haloacid dehalogenase (HAD) superfamily, specifically part of subfamily IB by virtue of the presence of an alpha helical domain in between motifs I and II of the HAD domain . The closest homologs to this family are monofunctional phosphoserine phosphatases (TIGR00338).
Probab=59.21 E-value=22 Score=31.74 Aligned_cols=111 Identities=18% Similarity=0.164 Sum_probs=65.6
Q ss_pred cCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEE---EEeCC------------cchHHHHHH
Q 023366 107 TPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLV---IVSDD------------SDFVDVLQE 170 (283)
Q Consensus 107 ~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lv---lvsdd------------~~f~~~l~~ 170 (283)
.+.-| .-+-..|++.| .+-.|+++++. +...+ +...|++.++ |..++ ..=..+++.
T Consensus 68 ~l~pga~ell~~lk~~~-~~~IVS~~~~~----~~~~i---l~~lgi~~~~an~l~~~~~g~~tG~~~~~~~~K~~~l~~ 139 (203)
T TIGR02137 68 KPLEGAVEFVDWLRERF-QVVILSDTFYE----FSQPL---MRQLGFPTLLCHKLEIDDSDRVVGYQLRQKDPKRQSVIA 139 (203)
T ss_pred CCCccHHHHHHHHHhCC-eEEEEeCChHH----HHHHH---HHHcCCchhhceeeEEecCCeeECeeecCcchHHHHHHH
Confidence 34444 34555666655 89999999982 33332 4444665321 33333 122345666
Q ss_pred HHHcCCcEEEEccC-CCccccccccccccHHHHhcchhhhhhhhhhccccchhhhhhh
Q 023366 171 AKYRCLKTVVVGDI-NDGALKRIADASFSWRDILMGKAKKEAVSVVGKWEDRDILKRL 227 (283)
Q Consensus 171 ar~~~~~tvvvg~~-~~~~l~r~ad~~~sW~~v~~g~~~~~a~~~~~~w~~~~~~~~~ 227 (283)
.++.|.++|.|||+ +|-.+.+.|+..+.+. ..=..++.|++..--|.-.++|..|
T Consensus 140 l~~~~~~~v~vGDs~nDl~ml~~Ag~~ia~~--ak~~~~~~~~~~~~~~~~~~~~~~~ 195 (203)
T TIGR02137 140 FKSLYYRVIAAGDSYNDTTMLSEAHAGILFH--APENVIREFPQFPAVHTYEDLKREF 195 (203)
T ss_pred HHhhCCCEEEEeCCHHHHHHHHhCCCCEEec--CCHHHHHhCCCCCcccCHHHHHHHH
Confidence 67788899999995 4445667777776652 1223456666666666666665543
No 198
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=59.11 E-value=18 Score=31.82 Aligned_cols=70 Identities=11% Similarity=0.032 Sum_probs=43.1
Q ss_pred CchhhhhhhcCeeeeecC-CCchhHHH-HHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHHcCCcEEEEcc
Q 023366 112 YGLADELKRAGFWVRTVS-DKPQAADV-ALRNHMVDMMDKRHVECLVIVSDDSD-FVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~-dkp~aaD~-al~~~~~~~~~~~~v~~lvlvsdd~~-f~~~l~~ar~~~~~tvvvg~ 183 (283)
.|+..++++.|+.+-.+. ..+...|. ...+.+.. |.. +++-|++++.+.+ +..+++.+.+.|+..|+++.
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~-~~~-~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~ 91 (275)
T cd06307 19 AALEAAAAAFPDARIRVRIHFVESFDPAALAAALLR-LGA-RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVS 91 (275)
T ss_pred HHHHHHHhhhhccCceEEEEEccCCCHHHHHHHHHH-HHh-cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeC
Confidence 456667777765433321 00001111 23344434 436 9999999887644 46889999999999998875
No 199
>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=59.11 E-value=19 Score=33.30 Aligned_cols=67 Identities=10% Similarity=0.078 Sum_probs=47.3
Q ss_pred hhhhhhh--cCeeeeecCCCch-h-HHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 114 LADELKR--AGFWVRTVSDKPQ-A-ADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 114 la~~L~R--aG~~V~~v~dkp~-a-aD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
+...+++ .|+.|-...-.|. . .| ....|.+++ ..+.+.|++.....+.+.+++.++++|+..-++|.
T Consensus 163 ~~~~~~~~~~G~~vv~~~~~~~~~~~d--~~~~i~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 233 (342)
T cd06329 163 FKAMLAAKRPDIQIVGEDLHPLGKVKD--FSPYVAKIK-ASGADTVITGNWGNDLLLLVKQAADAGLKLPFYTP 233 (342)
T ss_pred HHHHHHhhcCCcEEeceeccCCCCCCc--hHHHHHHHH-HcCCCEEEEcccCchHHHHHHHHHHcCCCceEEec
Confidence 5566777 8887754332232 2 23 233455556 67999999998888999999999999998766664
No 200
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=58.15 E-value=13 Score=38.18 Aligned_cols=46 Identities=22% Similarity=0.291 Sum_probs=37.3
Q ss_pred cEEEEEeC---CcchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 153 ECLVIVSD---DSDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 153 ~~lvlvsd---d~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
+.+|.||= ..+-..+++.|+++|+.||.|.+..+..|.+.||..|.
T Consensus 338 dlvI~iS~SG~T~e~i~a~~~ak~~ga~~IaIT~~~~S~La~~aD~~l~ 386 (604)
T PRK00331 338 TLVIAISQSGETADTLAALRLAKELGAKTLAICNVPGSTIARESDAVLY 386 (604)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHCCCCEEEEECCCCChhHHhcCcEEE
Confidence 45566764 34667788999999999999999888899999997654
No 201
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=58.13 E-value=43 Score=32.46 Aligned_cols=74 Identities=16% Similarity=0.206 Sum_probs=49.5
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCCCc
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDINDG 187 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~~ 187 (283)
+..++++.|-.|-.|.++.......+..++...|...|++..+. |..++.+. .+++.+|+.+...|| ||+++-.
T Consensus 17 l~~~~~~~g~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGGS~i 96 (380)
T cd08185 17 LGEEALKPGKKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGGSSM 96 (380)
T ss_pred HHHHHHhcCCeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCccHH
Confidence 33445555555666777654333567778888887778887654 45455665 555778888999988 9987633
No 202
>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=57.75 E-value=44 Score=29.77 Aligned_cols=65 Identities=18% Similarity=0.181 Sum_probs=46.0
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
-|+..+++..|+.+..+.... +..+. ..++ ..+++-|++.+.+.. ...++.++..|+..|.++..
T Consensus 24 ~gi~~~a~~~g~~~~~~~~~~---~~~~~---~~~~-~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 24 AGVAEVLDAAGVNLLLLPASS---EDSDS---ALVV-SALVDGFIVYGVPRD-DPLVAALLRRGLPVVVVDQP 88 (283)
T ss_pred HHHHHHHHHCCCEEEEecCcc---HHHHH---HHHH-hcCCCEEEEeCCCCC-hHHHHHHHHcCCCEEEEecC
Confidence 466777888999998765543 22222 2234 789999999886533 36789999999999999764
No 203
>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=57.05 E-value=18 Score=33.06 Aligned_cols=67 Identities=12% Similarity=0.096 Sum_probs=47.8
Q ss_pred hhhhhhhcCeeeee-cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 114 LADELKRAGFWVRT-VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 114 la~~L~RaG~~V~~-v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
+...+++.|+.|-. ..=.|...|.. ..|.+++ ..+.+.|++.+...+...+++.+++.|+..-++|.
T Consensus 157 ~~~~~~~~G~~vv~~~~~~~~~~d~~--~~v~~l~-~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~ 224 (312)
T cd06346 157 FTKAFEALGGTVTNVVAHEEGKSSYS--SEVAAAA-AGGPDALVVIGYPETGSGILRSAYEQGLFDKFLLT 224 (312)
T ss_pred HHHHHHHcCCEEEEEEeeCCCCCCHH--HHHHHHH-hcCCCEEEEecccchHHHHHHHHHHcCCCCceEee
Confidence 45667788987753 22233344433 5566666 67999999999988999999999999997656653
No 204
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=56.97 E-value=50 Score=25.50 Aligned_cols=47 Identities=13% Similarity=0.088 Sum_probs=31.7
Q ss_pred HHHHHHHHhhcCccEE--EEEeCCcchHHHHHHHHHcCCcEEEEccCCCc
Q 023366 140 RNHMVDMMDKRHVECL--VIVSDDSDFVDVLQEAKYRCLKTVVVGDINDG 187 (283)
Q Consensus 140 ~~~~~~~~~~~~v~~l--vlvsdd~~f~~~l~~ar~~~~~tvvvg~~~~~ 187 (283)
.+.+.+.+...|+.+- +.++. +-...+++.|.+.+...||+|....+
T Consensus 58 ~~~~~~~~~~~g~~~~~~~~~~~-~~~~~I~~~a~~~~~dlIV~G~~~~~ 106 (132)
T cd01988 58 LRQAERIAASLGVPVHTIIRIDH-DIASGILRTAKERQADLIIMGWHGST 106 (132)
T ss_pred HHHHHHHhhhcCCceEEEEEecC-CHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 3334444434566644 44444 46678999999999999999997533
No 205
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=56.83 E-value=45 Score=29.59 Aligned_cols=28 Identities=29% Similarity=0.310 Sum_probs=18.8
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
..|..| ..+-..|++.|+.+..+++++.
T Consensus 94 ~~~~pg~~~~L~~L~~~g~~l~i~Tn~~~ 122 (229)
T PRK13226 94 SQLFDGVEGMLQRLECAGCVWGIVTNKPE 122 (229)
T ss_pred CeeCCCHHHHHHHHHHCCCeEEEECCCCH
Confidence 344445 5566677777887777777765
No 206
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=56.57 E-value=19 Score=34.34 Aligned_cols=68 Identities=22% Similarity=0.264 Sum_probs=48.5
Q ss_pred hhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 114 LADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
+...+++.|+.|-....- +...| +...+.++. ..+.+.|++.+...++..+++.++++|+..-+||..
T Consensus 181 ~~~~~~~~G~~v~~~~~~~~g~~D--~~~~v~~l~-~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~~~i~~~ 249 (369)
T PRK15404 181 VKDGLKKAGANVVFFEGITAGDKD--FSALIAKLK-KENVDFVYYGGYHPEMGQILRQAREAGLKTQFMGPE 249 (369)
T ss_pred HHHHHHHcCCEEEEEEeeCCCCCc--hHHHHHHHH-hcCCCEEEECCCchHHHHHHHHHHHCCCCCeEEecC
Confidence 345677889887632222 22344 445555566 679999888888889999999999999987777653
No 207
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=56.47 E-value=48 Score=28.61 Aligned_cols=68 Identities=22% Similarity=0.382 Sum_probs=43.5
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC---cEEEEcc
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL---KTVVVGD 183 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~---~tvvvg~ 183 (283)
+...++..|+.|..+..-+... ......+.++. ..+.+-||+.+...+...+|+.|++.|+ ..+++.+
T Consensus 160 ~~~~~~~~~~~v~~~~~~~~~~-~~~~~~l~~l~-~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~i~~~ 230 (298)
T cd06269 160 LEEELEKNGICVAFVESIPDGS-EDIRRLLKELK-SSTARVIVVFSSEEDALRLLEEAVELGMMTGYHWIITD 230 (298)
T ss_pred HHHHHHHCCeeEEEEEEcCCCH-HHHHHHHHHHH-hcCCcEEEEEechHHHHHHHHHHHHcCCCCCeEEEEEC
Confidence 3344556788887666555422 23333333334 5566777777777999999999999998 4444444
No 208
>TIGR02726 phenyl_P_delta phenylphosphate carboxylase, delta subunit. Members of this protein family are the alpha subunit of phenylphosphate carboxylase. Phenol (methyl-benzene) is converted to phenylphosphate, then para-carboxylated by this four-subunit enzyme, with the release of phosphate, to 4-hydroxybenzoate. The enzyme contains neither biotin nor thiamin pyrophosphate. This delta subunit belongs to HAD family hydrolases.
Probab=56.12 E-value=44 Score=29.17 Aligned_cols=60 Identities=15% Similarity=0.083 Sum_probs=34.4
Q ss_pred hhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC---cEEEEccC
Q 023366 117 ELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL---KTVVVGDI 184 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~---~tvvvg~~ 184 (283)
.|++.|+.+..++.+++ ..... .+..+|+..++-..- +.-..+...+.+.|+ .+++|||+
T Consensus 45 ~L~~~Gi~laIiT~k~~----~~~~~---~l~~lgi~~~f~~~k-pkp~~~~~~~~~l~~~~~ev~~iGD~ 107 (169)
T TIGR02726 45 VLQLCGIDVAIITSKKS----GAVRH---RAEELKIKRFHEGIK-KKTEPYAQMLEEMNISDAEVCYVGDD 107 (169)
T ss_pred HHHHCCCEEEEEECCCc----HHHHH---HHHHCCCcEEEecCC-CCHHHHHHHHHHcCcCHHHEEEECCC
Confidence 45667888888888777 22222 345556665544432 223344555555665 47788875
No 209
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=56.06 E-value=30 Score=33.54 Aligned_cols=63 Identities=27% Similarity=0.378 Sum_probs=43.0
Q ss_pred cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH-cCCcEEEEccCCCcccc
Q 023366 121 AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY-RCLKTVVVGDINDGALK 190 (283)
Q Consensus 121 aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~-~~~~tvvvg~~~~~~l~ 190 (283)
+-..|-.|+ -|.|+|.++ +.+ ..|+.++|++|+.----|||+..++ +..+|.+||-.+.|.+.
T Consensus 66 a~~svI~Vp-~~~aadai~-----EAi-da~i~liv~ITEgIP~~D~~~~~~~a~~~g~~iiGPncpGiI~ 129 (293)
T COG0074 66 ANASVIFVP-PPFAADAIL-----EAI-DAGIKLVVIITEGIPVLDMLELKRYAREKGTRLIGPNCPGIIT 129 (293)
T ss_pred CCEEEEecC-cHHHHHHHH-----HHH-hCCCcEEEEEeCCCCHHHHHHHHHHHHhcCCEEECCCCCccCc
Confidence 444444543 467888765 356 5789999999999877777765544 33348899987766554
No 210
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase (isomerizing). The member from Methanococcus jannaschii contains an intein.
Probab=56.04 E-value=16 Score=37.68 Aligned_cols=46 Identities=22% Similarity=0.265 Sum_probs=37.5
Q ss_pred cEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 153 ECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 153 ~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
+.+|.+|-+ .+-..+++.|+++|+.||.|.+..+..|.+.||..+.
T Consensus 340 dlvI~iS~SG~T~e~v~a~~~ak~~ga~~IaIT~~~~S~La~~ad~~l~ 388 (607)
T TIGR01135 340 TLVIAISQSGETADTLAALRLAKELGAKTLGICNVPGSTLVRESDHTLY 388 (607)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCChHHhhcCceEE
Confidence 466667643 4667788999999999999999888899999997655
No 211
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=55.69 E-value=30 Score=28.69 Aligned_cols=70 Identities=16% Similarity=0.223 Sum_probs=39.9
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhc-CccEEEEEeCCcchHHHHHHHHHcCCc---EEEEcc
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKR-HVECLVIVSDDSDFVDVLQEAKYRCLK---TVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~-~v~~lvlvsdd~~f~~~l~~ar~~~~~---tvvvg~ 183 (283)
-++...+++.|+.+..+..-+...+ ...+.+...|... +++-|++.+| .....+++.+++.|+. ..+||-
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~ 216 (269)
T cd01391 143 EGFKAALKKAGIEVVAIEYGDLDTE-KGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGF 216 (269)
T ss_pred HHHHHHHHhcCcEEEeccccCCCcc-ccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEec
Confidence 3455566667655543322222221 2233444556333 5666666665 7788999999999983 444544
No 212
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549).
Probab=55.29 E-value=84 Score=27.03 Aligned_cols=72 Identities=21% Similarity=0.188 Sum_probs=43.3
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccE---EEEEeCCcc-----hHHHHHHHHHcC
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVEC---LVIVSDDSD-----FVDVLQEAKYRC 175 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~---lvlvsdd~~-----f~~~l~~ar~~~ 175 (283)
+.|.-| ..+-..|+..|+.+-.|++.+. .+... |...|+.- .|+.|++.. =..++..+++.|
T Consensus 93 ~~~~~g~~~~L~~L~~~g~~~~i~Tn~~~~~~~~~--------l~~~~l~~~f~~i~~~~~~~~~KP~~~~~~~~~~~~~ 164 (221)
T TIGR02253 93 LRVYPGVRDTLMELRESGYRLGIITDGLPVKQWEK--------LERLGVRDFFDAVITSEEEGVEKPHPKIFYAALKRLG 164 (221)
T ss_pred CCCCCCHHHHHHHHHHCCCEEEEEeCCchHHHHHH--------HHhCChHHhccEEEEeccCCCCCCCHHHHHHHHHHcC
Confidence 444445 5566778889999999999975 22222 22334431 144454432 234555666677
Q ss_pred C---cEEEEccCC
Q 023366 176 L---KTVVVGDIN 185 (283)
Q Consensus 176 ~---~tvvvg~~~ 185 (283)
+ ++|+|||+.
T Consensus 165 ~~~~~~~~igDs~ 177 (221)
T TIGR02253 165 VKPEEAVMVGDRL 177 (221)
T ss_pred CChhhEEEECCCh
Confidence 7 589999973
No 213
>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=55.28 E-value=34 Score=31.01 Aligned_cols=57 Identities=12% Similarity=0.167 Sum_probs=40.2
Q ss_pred hhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 118 LKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 118 L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
+...|..|....-.|. .+ .....+.++. ..+.+.|||.+...+...+|+.|++.|+.
T Consensus 150 ~~~~g~~v~~~~~~~~-~~-d~~~~l~~i~-~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~ 206 (324)
T cd06368 150 LSPKGIQVTVRRLDDD-TD-MYRPLLKEIK-REKERRIILDCSPERLKEFLEQAVEVGMM 206 (324)
T ss_pred hccCCceEEEEEecCC-ch-HHHHHHHHHh-hccCceEEEECCHHHHHHHHHHHHHhccc
Confidence 3345666654332232 22 4555555556 77899999999999999999999999985
No 214
>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=55.11 E-value=24 Score=32.40 Aligned_cols=66 Identities=18% Similarity=0.229 Sum_probs=46.6
Q ss_pred hhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEEEEc
Q 023366 114 LADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTVVVG 182 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg 182 (283)
+...+++.|+.|-....-|. ..| ....+.+++ ..+.+.|++.+...+.+.+++.+++.|+ +..++|
T Consensus 155 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (334)
T cd06327 155 ARKVVKANGGKVVGSVRHPLGTSD--FSSYLLQAQ-ASGADVLVLANAGADTVNAIKQAAEFGLTKGQKLAG 223 (334)
T ss_pred HHHHHHhcCCEEcCcccCCCCCcc--HHHHHHHHH-hCCCCEEEEeccchhHHHHHHHHHHhCCccCCcEEE
Confidence 45566678887754333322 333 345566666 6789999999999999999999999999 455554
No 215
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=54.90 E-value=29 Score=27.70 Aligned_cols=30 Identities=30% Similarity=0.361 Sum_probs=21.4
Q ss_pred hhccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 104 AILTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 104 ~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
..++|..| .-+-..|+..|+.+-.+++.+.
T Consensus 74 ~~~~~~~~~~~~L~~l~~~~~~~~i~Sn~~~ 104 (176)
T PF13419_consen 74 SKLQPYPGVRELLERLKAKGIPLVIVSNGSR 104 (176)
T ss_dssp GGEEESTTHHHHHHHHHHTTSEEEEEESSEH
T ss_pred hccchhhhhhhhhhhcccccceeEEeecCCc
Confidence 45555555 5566677778899988888875
No 216
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=54.78 E-value=44 Score=28.90 Aligned_cols=76 Identities=16% Similarity=0.150 Sum_probs=39.9
Q ss_pred cCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhh-cCccEEEEEeCCc-----chHHHHHHHHHcCCc--
Q 023366 107 TPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDK-RHVECLVIVSDDS-----DFVDVLQEAKYRCLK-- 177 (283)
Q Consensus 107 ~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~-~~v~~lvlvsdd~-----~f~~~l~~ar~~~~~-- 177 (283)
.+..| -.+-..|+..|+.+-.|++++...=..+.+++. +.. .-.+ .++.+++. +=..+++.+++.|+.
T Consensus 87 ~l~~G~~~~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~~--l~~~~~f~-~i~~~~~~~~~KP~p~~~~~a~~~~~~~~~ 163 (220)
T TIGR03351 87 VALPGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKLG--WTVGDDVD-AVVCPSDVAAGRPAPDLILRAMELTGVQDV 163 (220)
T ss_pred ccCCCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHHhh--hhhhccCC-EEEcCCcCCCCCCCHHHHHHHHHHcCCCCh
Confidence 34444 456677778899999999888732222222210 100 1122 24444442 123344555556663
Q ss_pred --EEEEccCC
Q 023366 178 --TVVVGDIN 185 (283)
Q Consensus 178 --tvvvg~~~ 185 (283)
+|+|||+.
T Consensus 164 ~~~~~igD~~ 173 (220)
T TIGR03351 164 QSVAVAGDTP 173 (220)
T ss_pred hHeEEeCCCH
Confidence 78888864
No 217
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=54.67 E-value=17 Score=38.54 Aligned_cols=47 Identities=21% Similarity=0.179 Sum_probs=39.2
Q ss_pred ccEEEEEeC---CcchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 152 VECLVIVSD---DSDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 152 v~~lvlvsd---d~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
-+++|+||- ..+-..+|+.|+++|..||.|.+..+..|.+.||..+.
T Consensus 411 ~~lvI~ISqSGeT~eti~Al~~Ak~~Ga~~IaITn~~~S~La~~ad~~i~ 460 (680)
T PLN02981 411 EDTAVFVSQSGETADTLRALEYAKENGALCVGITNTVGSAISRGTHCGVH 460 (680)
T ss_pred CCeEEEEeCCcCCHHHHHHHHHHHHCCCcEEEEECCCCChhHhccCeeEE
Confidence 467888885 44778899999999999999999888899999997443
No 218
>PRK14072 6-phosphofructokinase; Provisional
Probab=54.63 E-value=31 Score=34.55 Aligned_cols=66 Identities=8% Similarity=0.068 Sum_probs=50.7
Q ss_pred hhhhcCeeeeecCCCc--hhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH---cCCcEEEEc
Q 023366 117 ELKRAGFWVRTVSDKP--QAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY---RCLKTVVVG 182 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp--~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~---~~~~tvvvg 182 (283)
.+.+.|-...|-+.++ ...+..-.+.+.+.|.+++|++||.+-.|--|..+.+++.. .|...-|||
T Consensus 67 i~~~gGt~LgssR~~~~~~~~~~~~~~~~~~~l~~~~Id~LivIGGdgS~~~a~~L~e~~~~~g~~i~vIg 137 (416)
T PRK14072 67 LAHTPSGALGSCRYKLKSLEEDRAEYERLLEVFKAHDIGYFFYNGGNDSMDTALKVSQLAKKMGYPIRCIG 137 (416)
T ss_pred HhcCCCeEeccCCCCCcccccChHHHHHHHHHHHHcCCCEEEEECChHHHHHHHHHHHHHHHhCCCceEEE
Confidence 4556788888877775 22245667888888999999999999999999999988775 675455555
No 219
>PLN02575 haloacid dehalogenase-like hydrolase
Probab=54.60 E-value=68 Score=31.94 Aligned_cols=29 Identities=21% Similarity=0.264 Sum_probs=21.3
Q ss_pred hccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 105 ILTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 105 ~l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
...+.-| .-+-..|+..|+.+..+++++.
T Consensus 214 ~~~l~pGa~ElL~~Lk~~GiklaIaSn~~~ 243 (381)
T PLN02575 214 IYRLRTGSQEFVNVLMNYKIPMALVSTRPR 243 (381)
T ss_pred CCCcCcCHHHHHHHHHHCCCeEEEEeCCCH
Confidence 3444445 5566777889999999999886
No 220
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=54.55 E-value=30 Score=32.86 Aligned_cols=56 Identities=21% Similarity=0.389 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHHcCCcEEEEccCCCcccccccc
Q 023366 138 ALRNHMVDMMDKRHVECLVIVSDDS-DFVDVLQEAKYRCLKTVVVGDINDGALKRIAD 194 (283)
Q Consensus 138 al~~~~~~~~~~~~v~~lvlvsdd~-~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad 194 (283)
.+.+.+...|.+.|.+-.+.++... +=..+.+.|...++.+|+++.+ ||.+.+.++
T Consensus 20 ~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GG-DGTv~evin 76 (301)
T COG1597 20 KLLREVEELLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGG-DGTVNEVAN 76 (301)
T ss_pred hHHHHHHHHHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecC-cchHHHHHH
Confidence 4556666677788888777777776 6677777777788999999888 488887654
No 221
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=54.15 E-value=74 Score=27.42 Aligned_cols=68 Identities=16% Similarity=0.276 Sum_probs=43.7
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+..+...- |.+....+.+++...+|+-|++.+.+..-. +++ +...|+..|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~~~-~~~~~ipvv~~~~~ 86 (267)
T cd06284 19 KGIEDEAREAGYGVLLGDTRS---DPEREQEYLDLLRRKQADGIILLDGSLPPT-ALT-ALAKLPPIVQACEY 86 (267)
T ss_pred HHHHHHHHHcCCeEEEecCCC---ChHHHHHHHHHHHHcCCCEEEEecCCCCHH-HHH-HHhcCCCEEEEecc
Confidence 567777788999987654432 223333334445478999999987654433 344 44679999999764
No 222
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=54.09 E-value=4.2 Score=30.63 Aligned_cols=31 Identities=23% Similarity=0.406 Sum_probs=25.5
Q ss_pred ccCCCCCccCCCCCCccCCchhHhhhhhccc
Q 023366 35 VIKPAEPYVCGVCGRRFYSNEKLVNHFKQIH 65 (283)
Q Consensus 35 iHTGEKPykC~vCGKsFss~ssLkrH~KriH 65 (283)
+.-||.-+.|+.||..|..+.+..+|....|
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 3457888999999999999999999983333
No 223
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=53.55 E-value=60 Score=25.99 Aligned_cols=42 Identities=19% Similarity=0.361 Sum_probs=28.9
Q ss_pred hcCccEEEEE-eCCcchHHHHHHHHHcCCcEEEEccCCCcccc
Q 023366 149 KRHVECLVIV-SDDSDFVDVLQEAKYRCLKTVVVGDINDGALK 190 (283)
Q Consensus 149 ~~~v~~lvlv-sdd~~f~~~l~~ar~~~~~tvvvg~~~~~~l~ 190 (283)
..|+.+-..+ -++.-...+++.|.+.++..||+|....+.++
T Consensus 76 ~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~ 118 (146)
T cd01989 76 RKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFS 118 (146)
T ss_pred hcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCcee
Confidence 3455543333 33345778999999999999999997544443
No 224
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=53.25 E-value=33 Score=28.48 Aligned_cols=84 Identities=15% Similarity=0.145 Sum_probs=47.7
Q ss_pred cCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEE--EEEeC-----------------------
Q 023366 107 TPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECL--VIVSD----------------------- 160 (283)
Q Consensus 107 ~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~l--vlvsd----------------------- 160 (283)
.+..| ..+-..|+..|+.+-.+++.+.. .... ++...|+.-+ .+||.
T Consensus 72 ~l~~g~~~ll~~l~~~g~~~~i~S~~~~~----~~~~---~l~~~~l~~~f~~i~~~~~~~~~~g~~~~~~~~~~~~~~~ 144 (188)
T TIGR01489 72 PIDPGFKEFIAFIKEHGIDFIVISDGNDF----FIDP---VLEGIGEKDVFIEIYSNPASFDNDGRHIVWPHHCHGCCSC 144 (188)
T ss_pred CCCccHHHHHHHHHHcCCcEEEEeCCcHH----HHHH---HHHHcCChhheeEEeccCceECCCCcEEEecCCCCccCcC
Confidence 44444 45667778899999999998762 1111 2223343321 12221
Q ss_pred Ccc--hHHHHHHHHHc-CCcEEEEccCC-Cccccccccccc
Q 023366 161 DSD--FVDVLQEAKYR-CLKTVVVGDIN-DGALKRIADASF 197 (283)
Q Consensus 161 d~~--f~~~l~~ar~~-~~~tvvvg~~~-~~~l~r~ad~~~ 197 (283)
... =..+++..++. .-++|.|||+. |-..++.||+-|
T Consensus 145 ~~g~~K~~~~~~~~~~~~~~~i~iGD~~~D~~aa~~~d~~~ 185 (188)
T TIGR01489 145 PCGCCKGKVIHKLSEPKYQHIIYIGDGVTDVCPAKLSDVVF 185 (188)
T ss_pred CCCCCHHHHHHHHHhhcCceEEEECCCcchhchHhcCCccc
Confidence 111 13477777776 78899999964 333455577665
No 225
>cd02755 MopB_Thiosulfate-R-like The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Members of the MopB_Thiosulfate-R-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=53.13 E-value=34 Score=33.80 Aligned_cols=71 Identities=14% Similarity=0.055 Sum_probs=46.4
Q ss_pred CccEEEEEeCCc------chHHHHHHHHHcCCcEEEEccCCCccccccccccccH-----HHHhcchhhhhhhhhhcccc
Q 023366 151 HVECLVIVSDDS------DFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW-----RDILMGKAKKEAVSVVGKWE 219 (283)
Q Consensus 151 ~v~~lvlvsdd~------~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW-----~~v~~g~~~~~a~~~~~~w~ 219 (283)
.-++||++--|. -+..-+..||++|.+.|||...- ....+.||.|++= ..++.|-++... ...|-
T Consensus 156 ~ad~il~~G~n~~~~~~~~~~~~~~~a~~~g~kiivIdPr~-t~ta~~AD~~i~i~PGtD~al~~a~~~~ii---~~~~~ 231 (454)
T cd02755 156 NARYIILFGRNLAEAIIVVDARRLMKALENGAKVVVVDPRF-SELASKADEWIPIKPGTDLAFVLALIHVLI---SENLY 231 (454)
T ss_pred cCCEEEEECcCcccccccHHHHHHHHHHHCCCeEEEECCCC-ChhhHhhCEecCCCCCcHHHHHHHHHHHHH---HcCCc
Confidence 456888886552 13555678899999999998864 4567889998864 233444443332 23467
Q ss_pred chhhhh
Q 023366 220 DRDILK 225 (283)
Q Consensus 220 ~~~~~~ 225 (283)
|+++++
T Consensus 232 d~~fi~ 237 (454)
T cd02755 232 DAAFVE 237 (454)
T ss_pred cHHHHH
Confidence 777776
No 226
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=52.74 E-value=47 Score=28.75 Aligned_cols=16 Identities=19% Similarity=0.320 Sum_probs=9.6
Q ss_pred hhhcCeeeeecCCCch
Q 023366 118 LKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 118 L~RaG~~V~~v~dkp~ 133 (283)
|++.|+.+-.++.++.
T Consensus 60 L~~~Gi~v~I~T~~~~ 75 (183)
T PRK09484 60 LLTSGIEVAIITGRKS 75 (183)
T ss_pred HHHCCCEEEEEeCCCc
Confidence 3446666666666655
No 227
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=52.24 E-value=83 Score=26.82 Aligned_cols=28 Identities=21% Similarity=0.294 Sum_probs=16.3
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
+.+..| --+-..|+..|+.+-.+++.+.
T Consensus 84 ~~~~~g~~~~L~~l~~~g~~~~i~S~~~~ 112 (213)
T TIGR01449 84 TSVFPGVEATLGALRAKGLRLGLVTNKPT 112 (213)
T ss_pred CccCCCHHHHHHHHHHCCCeEEEEeCCCH
Confidence 334334 3344556667777777777665
No 228
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=51.74 E-value=24 Score=28.22 Aligned_cols=27 Identities=30% Similarity=0.468 Sum_probs=24.5
Q ss_pred EEEEeCCcchHHHHHHHHHcCCcEEEE
Q 023366 155 LVIVSDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 155 lvlvsdd~~f~~~l~~ar~~~~~tvvv 181 (283)
.||.+.|+|+.+.+..||..|.++|.+
T Consensus 55 ~VllT~D~DL~e~v~iar~~g~~~v~L 81 (86)
T cd06409 55 IVLITSDSDLVAAVLVARSAGLKKLDL 81 (86)
T ss_pred EEEEeccchHHHHHHHHHHcCCCEEEE
Confidence 478888899999999999999999876
No 229
>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=50.98 E-value=25 Score=32.95 Aligned_cols=63 Identities=17% Similarity=0.229 Sum_probs=44.9
Q ss_pred hhhhcCeeee-ecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 023366 117 ELKRAGFWVR-TVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 117 ~L~RaG~~V~-~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg 182 (283)
.|++.|+.|- ...=.|...|. -..+.++. ..|.|.|++.+...+.+.+++.+++.|+..-+++
T Consensus 171 ~~~~~G~~vv~~~~~~~~~~D~--~~~v~~ik-~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~~~~ 234 (357)
T cd06337 171 ALADAGYKLVDPGRFEPGTDDF--SSQINAFK-REGVDIVTGFAIPPDFATFWRQAAQAGFKPKIVT 234 (357)
T ss_pred HHHhCCcEEecccccCCCCCcH--HHHHHHHH-hcCCCEEEeCCCccHHHHHHHHHHHCCCCCCeEE
Confidence 4556788864 33333445553 33333445 7899999999999999999999999999765554
No 230
>PRK09449 dUMP phosphatase; Provisional
Probab=50.96 E-value=75 Score=27.55 Aligned_cols=27 Identities=19% Similarity=0.227 Sum_probs=16.5
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
++|.-| ..+-..|+ .|+.+-.+++++.
T Consensus 94 ~~~~~g~~~~L~~L~-~~~~~~i~Tn~~~ 121 (224)
T PRK09449 94 CTPLPGAVELLNALR-GKVKMGIITNGFT 121 (224)
T ss_pred CccCccHHHHHHHHH-hCCeEEEEeCCcH
Confidence 444444 44455665 5788778887765
No 231
>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=50.94 E-value=74 Score=28.91 Aligned_cols=69 Identities=9% Similarity=0.183 Sum_probs=42.9
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+...|+.+-......+ .+ ....+.++|...+++-||+++...+ ..++...++.++..|+|+..
T Consensus 79 ~~i~~~~~~~g~~~~i~~~~~~-~~--~~~~~~~~l~~~~vdGiIi~~~~~~-~~~~~~l~~~~iPvV~~~~~ 147 (329)
T TIGR01481 79 RGIEDIATMYKYNIILSNSDED-PE--KEVQVLNTLLSKQVDGIIFMGGTIT-EKLREEFSRSPVPVVLAGTV 147 (329)
T ss_pred HHHHHHHHHcCCEEEEEeCCCC-HH--HHHHHHHHHHhCCCCEEEEeCCCCC-hHHHHHHHhcCCCEEEEecC
Confidence 3566667778888866433222 11 1222223343789999999875422 34567777889999999754
No 232
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=50.13 E-value=55 Score=28.74 Aligned_cols=33 Identities=24% Similarity=0.224 Sum_probs=25.6
Q ss_pred cEEEEEeCCcch-------HHHHHHHHHcCCcEEEEccCC
Q 023366 153 ECLVIVSDDSDF-------VDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 153 ~~lvlvsdd~~f-------~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.-|||++|.... ..+.+.+|+.||...+||.+.
T Consensus 110 kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~ 149 (192)
T cd01473 110 KVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGA 149 (192)
T ss_pred eEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEecc
Confidence 357999998653 466777899999988888864
No 233
>PRK10490 sensor protein KdpD; Provisional
Probab=49.88 E-value=54 Score=35.76 Aligned_cols=50 Identities=18% Similarity=0.237 Sum_probs=37.8
Q ss_pred hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 134 AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 134 aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
+.-..|.+++ +....+|.+..++ .++.--..+++.||+.|+-.||||-+.
T Consensus 297 ~~~~~l~~~~-~lA~~lGa~~~~~-~~~dva~~i~~~A~~~~vt~IViG~s~ 346 (895)
T PRK10490 297 KKRRAILSAL-RLAQELGAETATL-SDPAEEKAVLRYAREHNLGKIIIGRRA 346 (895)
T ss_pred HHHHHHHHHH-HHHHHcCCEEEEE-eCCCHHHHHHHHHHHhCCCEEEECCCC
Confidence 3344566666 4666789995544 555566899999999999999999974
No 234
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=49.73 E-value=75 Score=29.08 Aligned_cols=69 Identities=12% Similarity=0.145 Sum_probs=45.7
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH-cCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY-RCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~-~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+-+....-+ ......+.++|...+++-|+++..+ ...++++.+.+ .|+..|+|+..
T Consensus 79 ~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~i~~l~~~~vdgiii~~~~-~~~~~~~~l~~~~~iPvV~~d~~ 148 (341)
T PRK10703 79 EAVEKNCYQKGYTLILCNAWNN---LEKQRAYLSMLAQKRVDGLLVMCSE-YPEPLLAMLEEYRHIPMVVMDWG 148 (341)
T ss_pred HHHHHHHHHCCCEEEEEeCCCC---HHHHHHHHHHHHHcCCCEEEEecCC-CCHHHHHHHHhcCCCCEEEEecc
Confidence 5777778888998877643321 2222222333447899999887653 23467788888 89999999753
No 235
>PTZ00287 6-phosphofructokinase; Provisional
Probab=49.62 E-value=37 Score=39.29 Aligned_cols=68 Identities=19% Similarity=0.299 Sum_probs=51.4
Q ss_pred hhhhhhcCeee-eecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH---cCCcEEEEcc
Q 023366 115 ADELKRAGFWV-RTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY---RCLKTVVVGD 183 (283)
Q Consensus 115 a~~L~RaG~~V-~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~---~~~~tvvvg~ 183 (283)
...+.+.|+.. .+-+..|.. +..-.+.+.+.+.+++|+.||.+-+|--+..+..++.. .|+.|-|||-
T Consensus 892 ~~i~n~GGtiLlgssR~~~f~-t~e~~~ka~~~lk~l~ID~LVvIGGDgS~t~A~~LaE~f~~~gi~i~VIGV 963 (1419)
T PTZ00287 892 AKHVNQGGLELTGNSPEHSLF-DKENRNKVCETVTNLQLNGLVMPGSNVTITEAALLAEYFLEKKIPTSVVGI 963 (1419)
T ss_pred hhHHHcCCeeecCCcCCCCCC-CHHHHHHHHHHHHHhCCCEEEEECCchHHHHHHHHHHHHHhcCCCccEEEe
Confidence 34456889888 454444433 34556677777889999999999999999999888774 8999888875
No 236
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=49.55 E-value=18 Score=32.61 Aligned_cols=46 Identities=15% Similarity=0.344 Sum_probs=37.1
Q ss_pred cEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 153 ECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 153 ~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
|.|+=+|-+ .+-...++.|+++|+.||+..+.++|.++..+|+.+.
T Consensus 111 DvLigISTSGNS~nVl~Ai~~Ak~~gm~vI~ltG~~GG~~~~~~D~~i~ 159 (176)
T COG0279 111 DVLIGISTSGNSKNVLKAIEAAKEKGMTVIALTGKDGGKLAGLLDVEIR 159 (176)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHcCCEEEEEecCCCcccccccceEEe
Confidence 466656543 4566778889999999999999999999999998765
No 237
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=49.52 E-value=77 Score=27.51 Aligned_cols=68 Identities=13% Similarity=0.250 Sum_probs=44.9
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+-...... |......+.++|.+.+++-+++++.+..- +.+...+ .++..|+||..
T Consensus 19 ~gi~~~~~~~gy~~~~~~~~~---~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~-~~iPvV~i~~~ 86 (265)
T cd06290 19 KGMERGLNGSGYSPIIATGHW---NQSRELEALELLKSRRVDALILLGGDLPE-EEILALA-EEIPVLAVGRR 86 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCCC---CHHHHHHHHHHHHHCCCCEEEEeCCCCCh-HHHHHHh-cCCCEEEECCC
Confidence 467777888998887654332 33444455555668899999999765333 3344333 58999999864
No 238
>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=49.28 E-value=55 Score=30.19 Aligned_cols=64 Identities=19% Similarity=0.194 Sum_probs=43.9
Q ss_pred chhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 113 GLADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
.+...+++.|+.|.....-|. +.+.-+...+.++. ..+.+.|++.....+...+|+.|++.|+.
T Consensus 154 ~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~-~~~~dvvi~~~~~~~~~~~~~~a~~~g~~ 218 (350)
T cd06366 154 DLVDALQEAGIEISYRAAFPPSANDDDITDALKKLK-EKDSRVIVVHFSPDLARRVFCEAYKLGMM 218 (350)
T ss_pred HHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHh-cCCCeEEEEECChHHHHHHHHHHHHcCCc
Confidence 344667778988764332222 11234444555555 56789999999999999999999999994
No 239
>TIGR01549 HAD-SF-IA-v1 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E. HAD subfamilies caused by an overly broad single model.
Probab=49.26 E-value=1.1e+02 Score=24.84 Aligned_cols=68 Identities=22% Similarity=0.212 Sum_probs=41.0
Q ss_pred CchhhhhhhcCeeeeecCCCch-hHHHHHHHHHHHHHhhcCccEEEEEeCCc----chHHHHHHHHHcCC--cEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQ-AADVALRNHMVDMMDKRHVECLVIVSDDS----DFVDVLQEAKYRCL--KTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~-aaD~al~~~~~~~~~~~~v~~lvlvsdd~----~f~~~l~~ar~~~~--~tvvvg~~ 184 (283)
--+-..|+..|+.+-.+++.+. .++..+ ++. + ..-.+. |..+|+. +=..++..+++.|+ ++|+|||+
T Consensus 70 ~e~l~~L~~~g~~~~i~T~~~~~~~~~~~-~~~---l-~~~f~~-i~~~~~~~~Kp~~~~~~~~~~~~~~~~~~l~iGDs 143 (154)
T TIGR01549 70 ADLLKRLKEAGIKLGIISNGSLRAQKLLL-RKH---L-GDYFDL-ILGSDEFGAKPEPEIFLAALESLGLPPEVLHVGDN 143 (154)
T ss_pred HHHHHHHHHCcCeEEEEeCCchHHHHHHH-HHH---H-HhcCcE-EEecCCCCCCcCHHHHHHHHHHcCCCCCEEEEeCC
Confidence 3455567778999999999887 333333 332 2 122333 3345543 22345566666777 78999997
Q ss_pred C
Q 023366 185 N 185 (283)
Q Consensus 185 ~ 185 (283)
.
T Consensus 144 ~ 144 (154)
T TIGR01549 144 L 144 (154)
T ss_pred H
Confidence 4
No 240
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=49.23 E-value=36 Score=31.90 Aligned_cols=67 Identities=19% Similarity=0.216 Sum_probs=43.8
Q ss_pred chhhhhhhcCeeeeecCCCch---hHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc---EEEEcc
Q 023366 113 GLADELKRAGFWVRTVSDKPQ---AADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK---TVVVGD 183 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~---aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~---tvvvg~ 183 (283)
.+...++..|+.|..+..-|. +.|. ...+.++. ..+ +.||+.....+...+|+.+++.|+. .++||.
T Consensus 157 ~~~~~~~~~G~~v~~~~~~~~~~~~~d~--~~~l~~i~-~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~ 229 (389)
T cd06352 157 ALEAALREFNLTVSHVVFMEDNSGAEDL--LEILQDIK-RRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILI 229 (389)
T ss_pred HHHHHHHhcCCeEEEEEEecCCccchhH--HHHHHHhh-hcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 455666778888764332222 3333 23333334 445 7777777779999999999999995 788864
No 241
>TIGR02252 DREG-2 REG-2-like, HAD superfamily (subfamily IA) hydrolase. Most likely, these sequences, like the vast majority of HAD sequences, represent phosphatase enzymes.
Probab=48.90 E-value=73 Score=27.14 Aligned_cols=66 Identities=12% Similarity=0.154 Sum_probs=40.8
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCcc---EEEEEeCCcch-----HHHHHHHHHcCC---cEEE
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVE---CLVIVSDDSDF-----VDVLQEAKYRCL---KTVV 180 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~---~lvlvsdd~~f-----~~~l~~ar~~~~---~tvv 180 (283)
-.+-..|++.|+.+-.+++.+... ...|...|+. ..|+.|++... .-++..+++.|+ ++|+
T Consensus 111 ~~~l~~L~~~g~~~~i~Sn~~~~~--------~~~l~~~~l~~~fd~i~~s~~~~~~KP~~~~~~~~~~~~~~~~~~~~~ 182 (203)
T TIGR02252 111 IKLLKDLRERGLILGVISNFDSRL--------RGLLEALGLLEYFDFVVTSYEVGAEKPDPKIFQEALERAGISPEEALH 182 (203)
T ss_pred HHHHHHHHHCCCEEEEEeCCchhH--------HHHHHHCCcHHhcceEEeecccCCCCCCHHHHHHHHHHcCCChhHEEE
Confidence 345567778899999999987632 1234344553 23556665322 234555566676 5899
Q ss_pred EccCC
Q 023366 181 VGDIN 185 (283)
Q Consensus 181 vg~~~ 185 (283)
|||+.
T Consensus 183 IgD~~ 187 (203)
T TIGR02252 183 IGDSL 187 (203)
T ss_pred ECCCc
Confidence 99973
No 242
>TIGR01656 Histidinol-ppas histidinol-phosphate phosphatase family domain. This domain is a member of the haloacid-dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. This superfamily is distinguished by the presence of three motifs: an N-terminal motif containing the nucleophilic aspartate, a central motif containing an conserved serine or threonine, and a C-terminal motif containing a conserved lysine (or arginine) and conserved aspartates. More specifically, the domian modelled here is a member of subfamily III of the HAD-superfamily by virtue of lacking a "capping" domain in either of the two common positions, between motifs 1 and 2, or between motifs 2 and 3.
Probab=48.48 E-value=65 Score=26.64 Aligned_cols=14 Identities=36% Similarity=0.453 Sum_probs=7.1
Q ss_pred HHHHHHcCCcEEEE
Q 023366 168 LQEAKYRCLKTVVV 181 (283)
Q Consensus 168 l~~ar~~~~~tvvv 181 (283)
+..|+..|++||.|
T Consensus 131 i~~A~~~Gi~~v~i 144 (147)
T TIGR01656 131 LQAARNAGLAAVLL 144 (147)
T ss_pred HHHHHHCCCCEEEe
Confidence 34455555555544
No 243
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=48.09 E-value=45 Score=30.08 Aligned_cols=59 Identities=14% Similarity=0.144 Sum_probs=39.8
Q ss_pred CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEEEEcc
Q 023366 122 GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTVVVGD 183 (283)
Q Consensus 122 G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg~ 183 (283)
|..+......+...|.+ ..+.++. ..+.+.|++.++..+...+++.+++.|+ +--++|.
T Consensus 160 ~~~~~~~~~~~~~~d~~--~~i~~l~-~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 220 (333)
T cd06332 160 GEVVEEVYTPLGQLDFS--AELAQIR-AAKPDAVFVFLPGGMAVNFVKQYDQAGLKKKIPLYGP 220 (333)
T ss_pred EEEeeEEecCCCCcchH--HHHHHHH-hcCCCEEEEecccchHHHHHHHHHHcCcccCCceecc
Confidence 43343333333444533 3444444 6789999998888999999999999999 6556664
No 244
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=47.39 E-value=52 Score=27.11 Aligned_cols=44 Identities=25% Similarity=0.329 Sum_probs=35.2
Q ss_pred HHHHHHHhhcCccEEEEEe--CCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 141 NHMVDMMDKRHVECLVIVS--DDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 141 ~~~~~~~~~~~v~~lvlvs--dd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
...+++| =|++-+-|||- |+.|...++.+|.++||.-.++++.+
T Consensus 45 gEaTRvL-LRRvP~~vLVr~~~~pd~~Hl~~LA~ekgVpVe~~~d~~ 90 (100)
T PF15608_consen 45 GEATRVL-LRRVPWKVLVRDPDDPDLAHLLLLAEEKGVPVEVYPDLP 90 (100)
T ss_pred hHHHHHH-HhcCCCEEEECCCCCccHHHHHHHHHHcCCcEEEeCCCC
Confidence 3445555 36777888885 67899999999999999999998764
No 245
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=47.15 E-value=46 Score=30.58 Aligned_cols=62 Identities=10% Similarity=-0.022 Sum_probs=45.2
Q ss_pred hhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE
Q 023366 114 LADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT 178 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t 178 (283)
+...+++.|+.|-....- +...|. ...+.++. ..+.+.|++.....+++.+++.+++.|+..
T Consensus 152 ~~~~~~~~G~~v~~~~~~~~~~~d~--~~~v~~l~-~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~ 214 (333)
T cd06358 152 AKRYIAELGGEVVGEEYVPLGTTDF--TSVLERIA-ASGADAVLSTLVGQDAVAFNRQFAAAGLRD 214 (333)
T ss_pred HHHHHHHcCCEEeeeeeecCChHHH--HHHHHHHH-HcCCCEEEEeCCCCchHHHHHHHHHcCCCc
Confidence 456788889887532222 334453 55555566 678998888888899999999999999974
No 246
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=46.89 E-value=96 Score=26.46 Aligned_cols=72 Identities=18% Similarity=0.147 Sum_probs=40.5
Q ss_pred Cchhhhhhhc-CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEEEEccC
Q 023366 112 YGLADELKRA-GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~Ra-G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg~~ 184 (283)
-|+...++.+ |+.+..+......++ .....+..++....--..|++++|....++++.++++|+ .--|||-.
T Consensus 141 ~gf~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~~~i~ivg~d 215 (267)
T cd01536 141 KGFRDALKEYPDIEIVAVQDGNWDRE-KALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRKGDVKIVGVD 215 (267)
T ss_pred HHHHHHHHhCCCcEEEEEecCCCcHH-HHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCCCCceEEecC
Confidence 4566667777 465443321111111 223444455533221246777788888999999999998 34455543
No 247
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=46.66 E-value=74 Score=28.15 Aligned_cols=67 Identities=10% Similarity=0.071 Sum_probs=42.8
Q ss_pred CchhhhhhhcC-eeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAG-FWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG-~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...+...| +.+-...... | ....+..++ ..+++-+|++|...+=..+.....+.++..|+||..
T Consensus 18 ~~i~~~l~~~g~~~l~~~~~~~---~--~~~~~~~~~-~~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~ 85 (247)
T cd06276 18 NSFVNTLGKNAQVDLYFHHYNE---D--LFKNIISNT-KGKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHS 85 (247)
T ss_pred HHHHHHHHhcCcEEEEEEcCch---H--HHHHHHHHH-hcCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCc
Confidence 57788888999 8777654443 2 122334455 689999999985422111334445578899999864
No 248
>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=46.56 E-value=95 Score=27.04 Aligned_cols=68 Identities=13% Similarity=0.207 Sum_probs=42.5
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
-|+...++..|+.+-....... ......+.+.+...+++-|++++-+.... .+ .+...++..|+|+..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~---~~~~~~~i~~l~~~~~dgiii~~~~~~~~-~~-~~~~~~iPvV~~~~~ 86 (263)
T cd06280 19 RAVEDAAYRAGLRVILCNTDED---PEKEAMYLELMEEERVTGVIFAPTRATLR-RL-AELRLSFPVVLIDRA 86 (263)
T ss_pred HHHHHHHHHCCCEEEEEeCCCC---HHHHHHHHHHHHhCCCCEEEEeCCCCCch-HH-HHHhcCCCEEEECCC
Confidence 3566777788988876544332 12222333334478899999988654432 33 345679999999864
No 249
>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=46.40 E-value=93 Score=26.90 Aligned_cols=68 Identities=13% Similarity=0.192 Sum_probs=40.8
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+......-... .....+..++ ..+++.|++.+.... .+.++.+++.+ ..|+|+..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~-~~~vdgiii~~~~~~-~~~~~~~~~~~-pvv~~~~~ 86 (260)
T cd06286 19 DGIEKAALKHGYKVVLLQTNYDKE--KELEYLELLK-TKQVDGLILCSREND-WEVIEPYTKYG-PIVLCEEY 86 (260)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHH-HcCCCEEEEeCCCCC-HHHHHHHhcCC-CEEEEecc
Confidence 356666777888876543321111 1122333334 789999999876544 45677777776 77777653
No 250
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=46.25 E-value=11 Score=39.55 Aligned_cols=28 Identities=36% Similarity=0.756 Sum_probs=24.8
Q ss_pred CCCccCCCCCCccCCchhHhhhhhccccc
Q 023366 39 AEPYVCGVCGRRFYSNEKLVNHFKQIHER 67 (283)
Q Consensus 39 EKPykC~vCGKsFss~ssLkrH~KriHtG 67 (283)
..|..|..||.+|........|+ .+|..
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~m-d~H~d 443 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHM-DIHDD 443 (579)
T ss_pred CCcchhcccccccccchhhhhHh-hhhhh
Confidence 46799999999999999999999 88864
No 251
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=46.21 E-value=31 Score=31.76 Aligned_cols=72 Identities=18% Similarity=0.283 Sum_probs=39.0
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEE-eCCcchHHHHHH-HHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIV-SDDSDFVDVLQE-AKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlv-sdd~~f~~~l~~-ar~~~~~tvvvg~~ 184 (283)
+++.+|+..|+.|.-+.-........+...+...+...+++.|.++ .+|-.+...|+. +.+.|+...|+-+.
T Consensus 53 hfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~~~l~~~~~~~~i~~~~~~~~ 126 (224)
T PF04244_consen 53 HFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLEQRLESLAQQLGIPLEVLEDP 126 (224)
T ss_dssp HHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHHHHHHH----SSS-EEEE--T
T ss_pred HHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHhhhcccCCceEEeCCC
Confidence 5788999999999987666544433566666666777788887544 556666666666 55689998888663
No 252
>PTZ00394 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=46.15 E-value=29 Score=36.70 Aligned_cols=47 Identities=17% Similarity=0.186 Sum_probs=38.6
Q ss_pred ccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 152 VECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 152 v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
-+++|+||-+ .+-..+++.|+++|.+||.|.+..+..|.+.||.-+.
T Consensus 402 ~dlvI~ISqSGeT~dtl~Al~~Ak~~Ga~tIaITn~~~S~La~~AD~~l~ 451 (670)
T PTZ00394 402 DDVCFFVSQSGETADTLMALQLCKEAGAMCVGITNVVGSSISRLTHYAIH 451 (670)
T ss_pred CCEEEEEECCcCcHHHHHHHHHHHHCCCcEEEEECCCCCHHHHhcCeEEE
Confidence 3577888744 4566778999999999999999888899999998665
No 253
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=45.90 E-value=54 Score=32.04 Aligned_cols=71 Identities=13% Similarity=0.212 Sum_probs=46.4
Q ss_pred hhhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCC
Q 023366 114 LADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDIN 185 (283)
Q Consensus 114 la~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~ 185 (283)
+..++++-|. .|-.|.++ ......+...+.+.|...|+++.+. |.-++.+. .+.+.+|+.+...|| ||+++
T Consensus 22 l~~~~~~~g~~~~livt~~-~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGGS 99 (383)
T PRK09860 22 AMNMMADYGFTRTLIVTDN-MLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGGS 99 (383)
T ss_pred HHHHHHhcCCCEEEEEcCc-chhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCch
Confidence 3455666663 44456664 3333456667888887788886444 33355555 666778889999998 99876
No 254
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=45.63 E-value=60 Score=25.85 Aligned_cols=13 Identities=38% Similarity=0.350 Sum_probs=6.6
Q ss_pred HHHHHcCCcEEEE
Q 023366 169 QEAKYRCLKTVVV 181 (283)
Q Consensus 169 ~~ar~~~~~tvvv 181 (283)
..|+..|+.||.|
T Consensus 118 ~~A~~~Gi~~i~~ 130 (132)
T TIGR01662 118 QAAKRAGLAFILV 130 (132)
T ss_pred HHHHHCCCeEEEe
Confidence 4445555555544
No 255
>PRK00075 cbiD cobalt-precorrin-6A synthase; Reviewed
Probab=45.55 E-value=54 Score=32.49 Aligned_cols=87 Identities=25% Similarity=0.412 Sum_probs=58.2
Q ss_pred HHHHhhhccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHh---hcCccEEEEEeCC-------------
Q 023366 99 KRAARAILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMD---KRHVECLVIVSDD------------- 161 (283)
Q Consensus 99 ~~AA~~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~---~~~v~~lvlvsdd------------- 161 (283)
++.|+..+-|+.| -|==+.|-=-|+ |+.+++ .|++.++...|+ ..|.+.|||+...
T Consensus 151 eelAkkT~NprLGI~GGISILGTTGi-V~P~S~------~a~~~si~~~l~va~a~g~~~vvl~~G~~ge~~a~~~~~l~ 223 (361)
T PRK00075 151 EELAKKTLNPRLGIVGGISILGTTGI-VEPMSE------EAYLASIKQELDVARANGLDHVVLVTGNNGEDYARKLLGLP 223 (361)
T ss_pred HHHHHhccchhcCccCCeEecccCEE-EEECCH------HHHHHHHHHHHHHHHHcCCCeEEEccChHHHHHHHHhcCCC
Confidence 3567778889988 555566655554 454444 455555554443 4577777766543
Q ss_pred -------cchH-HHHHHHHHcCCcEEEEccCCCccccccc
Q 023366 162 -------SDFV-DVLQEAKYRCLKTVVVGDINDGALKRIA 193 (283)
Q Consensus 162 -------~~f~-~~l~~ar~~~~~tvvvg~~~~~~l~r~a 193 (283)
+||. .+|+.|.+.|++.|++.... |.|-+.|
T Consensus 224 ~~~~V~~gnfiG~~L~~A~~~g~~~i~l~G~~-GKl~KlA 262 (361)
T PRK00075 224 EDAIIKMGNFVGPMLKAAARLGVKKVLLVGHP-GKLIKLA 262 (361)
T ss_pred hhhEEEeehhHHHHHHHHHHcCCCEEEEEeeH-HHHHHHh
Confidence 2344 78999999999999998876 6776664
No 256
>TIGR02483 PFK_mixed phosphofructokinase. Members of this family that are characterized, save one, are phosphofructokinases dependent on pyrophosphate (EC 2.7.1.90) rather than ATP (EC 2.7.1.11). The exception is one of three phosphofructokinases from Streptomyces coelicolor. Family members are both bacterial and archaeal.
Probab=45.28 E-value=60 Score=31.46 Aligned_cols=65 Identities=17% Similarity=0.187 Sum_probs=48.7
Q ss_pred hhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 023366 117 ELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg 182 (283)
.+...|-...+-+.+|..-+..-.+.+.+.|.+++|+.||.+-.|--|..+.+++. .++..|.|=
T Consensus 60 ~~~~GGt~LgtsR~~~~~~~~~~~~~~~~~l~~~~Id~LivIGGdgS~~~a~~L~~-~gi~vigiP 124 (324)
T TIGR02483 60 ILPRGGTILGSSRTNPFKYEEDGDDKIVANLKELGLDALIAIGGDGTLGIARRLAD-KGLPVVGVP 124 (324)
T ss_pred HHhCCCccccCCCCCccccCHHHHHHHHHHHHHcCCCEEEEECCchHHHHHHHHHh-cCCCEEeec
Confidence 34456666677666664323456778888898999999999999999999998886 567766663
No 257
>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=44.91 E-value=47 Score=31.28 Aligned_cols=67 Identities=10% Similarity=0.159 Sum_probs=42.9
Q ss_pred hhhhhcC--eeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEE----EEcc
Q 023366 116 DELKRAG--FWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTV----VVGD 183 (283)
Q Consensus 116 ~~L~RaG--~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tv----vvg~ 183 (283)
..+++.| +.|....-.+...+.-....+.++- ..+.+.|||.+-..+-..+++.|++.|+.+- ++|+
T Consensus 147 ~~~~~~g~~i~v~~~~~~~~~~~~d~~~~L~~ik-~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~ 219 (382)
T cd06380 147 DYLREKDNKWQVTARRVDNVTDEEEFLRLLEDLD-RRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILAN 219 (382)
T ss_pred HHHhccCCceEEEEEEecCCCcHHHHHHHHHHhh-cccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEcc
Confidence 3445667 6565421111111233444444444 5688999998888999999999999998874 5554
No 258
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=44.79 E-value=1e+02 Score=26.71 Aligned_cols=70 Identities=16% Similarity=0.206 Sum_probs=40.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+..+......+ ...+.+..++ ..+++-||+.+-+.+-..+.......++..|+|+..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~~l~~~~~ipvV~i~~~ 88 (269)
T cd06275 19 RGVEQYCYRQGYNLILCNTEGDPE--RQRSYLRMLA-QKRVDGLLVMCSEYDQPLLAMLERYRHIPMVVMDWG 88 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHH-HcCCCEEEEecCCCChHHHHHHHhcCCCCEEEEecc
Confidence 356666677888877653222211 2223333344 789999998875544222222233468899999764
No 259
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=44.79 E-value=71 Score=29.35 Aligned_cols=71 Identities=18% Similarity=0.230 Sum_probs=48.4
Q ss_pred CchhhhhhhcCe--eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEE-eCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 112 YGLADELKRAGF--WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIV-SDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 112 ygla~~L~RaG~--~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlv-sdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|+..+.+..|+ .+.+....++.+ .=..+|.+++ .+|++-|++. .|..-+.+.+++|+++|+.-|.+-...
T Consensus 53 ~g~~~~a~~~g~~~~~~~~~~~~d~~--~Q~~~i~~~i-a~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~ 126 (322)
T COG1879 53 KGAEAAAKKLGVVVAVVIADAQNDVA--KQIAQIEDLI-AQGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDI 126 (322)
T ss_pred HHHHHHHHHcCCcEEEEecccccChH--HHHHHHHHHH-HcCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCC
Confidence 456666677885 333433233211 2344566667 8999998776 466779999999999999999886543
No 260
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=44.62 E-value=12 Score=34.17 Aligned_cols=34 Identities=26% Similarity=0.611 Sum_probs=23.6
Q ss_pred ccCCC--CCccCC--CCCCccCCchhHhhhhhccccccc
Q 023366 35 VIKPA--EPYVCG--VCGRRFYSNEKLVNHFKQIHEREQ 69 (283)
Q Consensus 35 iHTGE--KPykC~--vCGKsFss~ssLkrH~KriHtGEK 69 (283)
.|+++ +|+.|+ .|++.|.....+..|. .+|+.-.
T Consensus 313 ~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~-~~~~~~~ 350 (467)
T COG5048 313 NHSGESLKPFSCPYSLCGKLFSRNDALKRHI-LLHTSIS 350 (467)
T ss_pred ccccccCCceeeeccCCCccccccccccCCc-ccccCCC
Confidence 56776 777777 5777777777777776 6666544
No 261
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=44.62 E-value=83 Score=27.73 Aligned_cols=68 Identities=18% Similarity=0.062 Sum_probs=40.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHc-CCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYR-CLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~-~~~tvvvg~~ 184 (283)
.|+...++..|+.+...... . ..-..++.+.|..++++-|++++-+.+ ..++..+.+. ++.-|+++..
T Consensus 21 ~gi~~~~~~~gy~~~~~~~~-~---~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~~ipvv~~~~~ 89 (260)
T cd06304 21 EGLEKAEKELGVEVKYVESV-E---DADYEPNLRQLAAQGYDLIFGVGFGFM-DAVEKVAKEYPDVKFAIIDGV 89 (260)
T ss_pred HHHHHHHHhcCceEEEEecC-C---HHHHHHHHHHHHHcCCCEEEECCcchh-HHHHHHHHHCCCCEEEEecCc
Confidence 45666777789988764332 1 112223444454789999999874422 2343444443 7778888764
No 262
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=44.46 E-value=56 Score=32.26 Aligned_cols=69 Identities=20% Similarity=0.293 Sum_probs=51.2
Q ss_pred HHHHHHHHHHhhcCccEEEEEe-CCcchHHHHHHHHHcCCcEEEEccCCCcccccc--ccccccHHHHhcchhhhhhh
Q 023366 138 ALRNHMVDMMDKRHVECLVIVS-DDSDFVDVLQEAKYRCLKTVVVGDINDGALKRI--ADASFSWRDILMGKAKKEAV 212 (283)
Q Consensus 138 al~~~~~~~~~~~~v~~lvlvs-dd~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~--ad~~~sW~~v~~g~~~~~a~ 212 (283)
.-..++.-|+ ++|++.||++. |...++.+++.|...|++-|-. + + |=++ +|.+++..--.=|+.+..+.
T Consensus 69 ~Q~~qien~i-~qg~~vlvi~a~d~~~l~~~i~~A~~~gikViaY---D-R-lI~n~dvd~YvsFDN~~VG~lQa~~l 140 (341)
T COG4213 69 KQLAQIENMI-NQGVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAY---D-R-LINNADVDFYVSFDNEKVGELQAKAL 140 (341)
T ss_pred HHHHHHHHHH-hcCCCEEEEEeccchhHHHHHHHHHHcCCeEEEe---e-c-ccccCCccEEEEecchhHHHHHHHHH
Confidence 3456777788 99999999988 5557999999999999987665 2 2 4444 55578887666677665544
No 263
>TIGR00522 dph5 diphthine synthase. This protein participates in the modification of a specific His of elongation factor 2 of eukarotes and Archaea to diphthamide. The protein was characterized in Saccharomyces cerevisiae and designated DPH5.
Probab=44.39 E-value=49 Score=30.64 Aligned_cols=80 Identities=23% Similarity=0.220 Sum_probs=54.9
Q ss_pred hhccCCCC----C----chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCc-cEEEEEeCCc---chHHHHHHH
Q 023366 104 AILTPKIG----Y----GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHV-ECLVIVSDDS---DFVDVLQEA 171 (283)
Q Consensus 104 ~~l~pk~g----y----gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v-~~lvlvsdd~---~f~~~l~~a 171 (283)
++..-+.| | .+...|+++|+.|+.|+.-..+.=.|-.-.+ -+-++|. .++.++|+.- .+.+.....
T Consensus 77 ~Vv~l~~GDP~i~~~~~~l~~~l~~~~i~vevIPGiSs~~aaaa~~g~--~lt~~g~~~~v~~~s~~~~~~~~~~~~~~~ 154 (257)
T TIGR00522 77 DVALLVAGDPMVATTHTDLKLEAKRKGIETRIIHGASISSAVCGLTGL--QLYKFGKTATIVFFTDNYRPQTPYNVIKEN 154 (257)
T ss_pred CEEEEECCcCcccCCHHHHHHHHHHCCCeEEEECcHhHHHHHHHHcCC--CcccCCCcEEEEEecCCcCCCCHHHHHHHH
Confidence 34445555 6 4566778899999999987775444333333 2335666 7899999775 455677778
Q ss_pred HHcCCcEEEEccCC
Q 023366 172 KYRCLKTVVVGDIN 185 (283)
Q Consensus 172 r~~~~~tvvvg~~~ 185 (283)
..++.+|+|+=|..
T Consensus 155 l~~~~~Tlvll~~~ 168 (257)
T TIGR00522 155 RKIGLHTLVLLDIH 168 (257)
T ss_pred HhcCCCcEEEEecc
Confidence 88999999996543
No 264
>TIGR01509 HAD-SF-IA-v3 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED. HAD subfamilies caused by an overly broad single model.
Probab=44.12 E-value=58 Score=26.76 Aligned_cols=21 Identities=19% Similarity=0.400 Sum_probs=11.7
Q ss_pred hhhhhhhcCeeeeecCCCchh
Q 023366 114 LADELKRAGFWVRTVSDKPQA 134 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~a 134 (283)
+-..|++.|+.+-.+++.+..
T Consensus 93 ~l~~l~~~g~~~~i~Tn~~~~ 113 (183)
T TIGR01509 93 LLEALRARGKKLALLTNSPRD 113 (183)
T ss_pred HHHHHHHCCCeEEEEeCCchH
Confidence 344455556666666665553
No 265
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=44.05 E-value=59 Score=32.83 Aligned_cols=59 Identities=19% Similarity=0.349 Sum_probs=45.3
Q ss_pred CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEe----CCcchHHHHHHHHHcCCcEEEE
Q 023366 122 GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVS----DDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 122 G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvs----dd~~f~~~l~~ar~~~~~tvvv 181 (283)
+..+..+++.|.-.+..+..-+..+|. .--..|.+.+ .|..+...|+.|.++||+--+|
T Consensus 302 ~~~~qi~~sgP~~~~~~~~~~~~~~I~-~A~~~I~I~tpYfip~~~i~~aL~~Aa~rGV~Vril 364 (483)
T PRK01642 302 GHTVQVIASGPGDPEETIHQFLLTAIY-SARERLWITTPYFVPDEDLLAALKTAALRGVDVRII 364 (483)
T ss_pred CceEEEEeCCCCChhhHHHHHHHHHHH-HhccEEEEEcCCcCCCHHHHHHHHHHHHcCCEEEEE
Confidence 457888999998777788877878884 3335666665 5778999999999999986555
No 266
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=44.04 E-value=33 Score=35.83 Aligned_cols=48 Identities=19% Similarity=0.176 Sum_probs=40.3
Q ss_pred ccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccccccccccccH
Q 023366 152 VECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW 199 (283)
Q Consensus 152 v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW 199 (283)
-+.+|+||-+ .|-..+++.|+++|..||.|.+..+..|.+.||.-|..
T Consensus 370 ~~lvI~ISqSGeT~d~i~al~~ak~~Ga~~IaITn~~~S~La~~ad~~l~~ 420 (640)
T PTZ00295 370 DAGVIFISQSGETLDVVRALNLADELNLPKISVVNTVGSLIARSTDCGVYL 420 (640)
T ss_pred CCEEEEEeCCCCcHHHHHHHHHHHHCCCCEEEEECCCCChhHHhcCEEEEe
Confidence 4577888744 46778889999999999999998888999999998765
No 267
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=43.94 E-value=27 Score=33.33 Aligned_cols=43 Identities=21% Similarity=0.277 Sum_probs=29.6
Q ss_pred CccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCccccccccc
Q 023366 151 HVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGALKRIADA 195 (283)
Q Consensus 151 ~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~ 195 (283)
.-+.+|.+|.+ .+-..+++.|+++|.++|+|++. +.|.+.||.
T Consensus 78 ~~dlvI~iS~SG~T~e~~~a~~~a~~~ga~vIaIT~~--~~L~~~a~~ 123 (337)
T PRK08674 78 EKTLVIAVSYSGNTEETLSAVEQALKRGAKIIAITSG--GKLKEMAKE 123 (337)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHCCCeEEEECCC--chHHHHHHh
Confidence 33566666654 34456678888889988888864 458887775
No 268
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=43.54 E-value=29 Score=33.11 Aligned_cols=67 Identities=18% Similarity=0.174 Sum_probs=50.2
Q ss_pred hhhhhcCeeeee-cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 116 DELKRAGFWVRT-VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 116 ~~L~RaG~~V~~-v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
..|+..|..+-. ..-.|...| +...+.+++ +.+.+-|++.+...+.+.++|.++++|++..+++...
T Consensus 170 ~~l~~~G~~~~~~~~~~~~~~~--~~~~v~~i~-~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~~~~~~~ 237 (366)
T COG0683 170 AALKALGGEVVVEEVYAPGDTD--FSALVAKIK-AAGPDAVLVGGYGPDAALFLRQAREQGLKAKLIGGDG 237 (366)
T ss_pred HHHHhCCCeEEEEEeeCCCCCC--hHHHHHHHH-hcCCCEEEECCCCccchHHHHHHHHcCCCCccccccc
Confidence 345578886221 223333334 777777777 7899999999999999999999999999998777654
No 269
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=43.40 E-value=8 Score=39.37 Aligned_cols=30 Identities=23% Similarity=0.527 Sum_probs=25.2
Q ss_pred cCCCCCccCCCCCCccCCchhHhhhhhcccc
Q 023366 36 IKPAEPYVCGVCGRRFYSNEKLVNHFKQIHE 66 (283)
Q Consensus 36 HTGEKPykC~vCGKsFss~ssLkrH~KriHt 66 (283)
.+.+.-|.|.+|+|.|.+...|++|+ -.|.
T Consensus 351 dss~gi~~C~~C~KkFrRqAYLrKHq-lthq 380 (500)
T KOG3993|consen 351 DSSSGIFSCHTCGKKFRRQAYLRKHQ-LTHQ 380 (500)
T ss_pred cccCceeecHHhhhhhHHHHHHHHhH-Hhhh
Confidence 34456899999999999999999997 6654
No 270
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=43.05 E-value=53 Score=31.65 Aligned_cols=87 Identities=23% Similarity=0.231 Sum_probs=51.3
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEE----EE-------------eCCcchHHH
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLV----IV-------------SDDSDFVDV 167 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lv----lv-------------sdd~~f~~~ 167 (283)
+.+.-| --+-..|++.|+.+-.++..+. -+...+ +...|++.++ .+ .+...=..+
T Consensus 180 l~l~pGa~elL~~Lk~~G~~~aIvSgg~~----~~~~~l---~~~Lgld~~~an~lei~dg~ltg~v~g~iv~~k~K~~~ 252 (322)
T PRK11133 180 LPLMPGLTELVLKLQALGWKVAIASGGFT----YFADYL---RDKLRLDAAVANELEIMDGKLTGNVLGDIVDAQYKADT 252 (322)
T ss_pred CCCChhHHHHHHHHHHcCCEEEEEECCcc----hhHHHH---HHHcCCCeEEEeEEEEECCEEEeEecCccCCcccHHHH
Confidence 444444 5667889999999999999986 122232 2234554321 11 111222344
Q ss_pred H-HHHHHcCC---cEEEEccCC-CccccccccccccH
Q 023366 168 L-QEAKYRCL---KTVVVGDIN-DGALKRIADASFSW 199 (283)
Q Consensus 168 l-~~ar~~~~---~tvvvg~~~-~~~l~r~ad~~~sW 199 (283)
| +.|++.|+ .||+|||+. |-...+.|.+.+-|
T Consensus 253 L~~la~~lgi~~~qtIaVGDg~NDl~m~~~AGlgiA~ 289 (322)
T PRK11133 253 LTRLAQEYEIPLAQTVAIGDGANDLPMIKAAGLGIAY 289 (322)
T ss_pred HHHHHHHcCCChhhEEEEECCHHHHHHHHHCCCeEEe
Confidence 4 44556776 699999964 33345667777776
No 271
>PRK03202 6-phosphofructokinase; Provisional
Probab=43.03 E-value=60 Score=31.42 Aligned_cols=63 Identities=13% Similarity=0.247 Sum_probs=49.0
Q ss_pred hhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 023366 118 LKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 118 L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg 182 (283)
+...|-...|-+.+|.. +..-.+.+.+.|.+.+|+.||.+-+|--|..+.+++. .++..|.|=
T Consensus 61 ~~~gGs~LgtsR~~~~~-~~~~~~~~~~~l~~~~Id~Li~IGGd~s~~~a~~L~e-~~i~vigiP 123 (320)
T PRK03202 61 INRGGTILGSARFPEFK-DEEGRAKAIENLKKLGIDALVVIGGDGSYMGAKRLTE-HGIPVIGLP 123 (320)
T ss_pred HhCCCcccccCCCCCcC-CHHHHHHHHHHHHHcCCCEEEEeCChHHHHHHHHHHh-cCCcEEEec
Confidence 34567777776766643 3456677888888999999999999999999999985 577777663
No 272
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=42.94 E-value=39 Score=31.00 Aligned_cols=80 Identities=19% Similarity=0.221 Sum_probs=56.9
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHHcCCcEEEEccCCCcc
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD---SDFVDVLQEAKYRCLKTVVVGDINDGA 188 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd---~~f~~~l~~ar~~~~~tvvvg~~~~~~ 188 (283)
-.++..|---|+.+-.|-... |+-. ..-|+ ..-|.||+.|.+ +....++..|++.|..=|-|....+..
T Consensus 55 kk~Aa~L~s~G~~a~fv~p~e-----a~hg-dlg~i--~~~DvviaiS~SGeT~el~~~~~~aK~~g~~liaiT~~~~Ss 126 (202)
T COG0794 55 KKFAARLASTGTPAFFVGPAE-----ALHG-DLGMI--TPGDVVIAISGSGETKELLNLAPKAKRLGAKLIAITSNPDSS 126 (202)
T ss_pred HHHHHHHHccCCceEEecCch-----hccC-CccCC--CCCCEEEEEeCCCcHHHHHHHHHHHHHcCCcEEEEeCCCCCh
Confidence 456677777787777765221 1111 11123 356799999986 456677788999999999999999899
Q ss_pred ccccccccccH
Q 023366 189 LKRIADASFSW 199 (283)
Q Consensus 189 l~r~ad~~~sW 199 (283)
|++.||+-+.=
T Consensus 127 Lak~aDvvl~i 137 (202)
T COG0794 127 LAKAADVVLVI 137 (202)
T ss_pred HHHhcCeEEEc
Confidence 99999998753
No 273
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=42.83 E-value=83 Score=28.33 Aligned_cols=96 Identities=21% Similarity=0.161 Sum_probs=60.8
Q ss_pred HHHHHHhhhccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCcc---EEEEEeCC-----------
Q 023366 97 KYKRAARAILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVE---CLVIVSDD----------- 161 (283)
Q Consensus 97 KY~~AA~~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~---~lvlvsdd----------- 161 (283)
.-.+...+.+....| --+...|+..|+.|-.|+..|. -|-+.+-+ .+|++ ...|..+|
T Consensus 67 ~v~~~~~~~~~l~~ga~elv~~lk~~G~~v~iiSgg~~----~lv~~ia~---~lg~d~~~an~l~~~dG~ltG~v~g~~ 139 (212)
T COG0560 67 VLEEVREEFLRLTPGAEELVAALKAAGAKVVIISGGFT----FLVEPIAE---RLGIDYVVANELEIDDGKLTGRVVGPI 139 (212)
T ss_pred HHHHHHHhcCcCCccHHHHHHHHHHCCCEEEEEcCChH----HHHHHHHH---HhCCchheeeEEEEeCCEEeceeeeee
Confidence 334444453333333 7788899999999999999998 55566533 33666 33444444
Q ss_pred ---cchHHHH-HHHHHcCCc---EEEEccCC-CccccccccccccH
Q 023366 162 ---SDFVDVL-QEAKYRCLK---TVVVGDIN-DGALKRIADASFSW 199 (283)
Q Consensus 162 ---~~f~~~l-~~ar~~~~~---tvvvg~~~-~~~l~r~ad~~~sW 199 (283)
..=+..| +.+++.|+. |+-|||+. |-.+-+.|+..+.+
T Consensus 140 ~~~~~K~~~l~~~~~~~g~~~~~~~a~gDs~nDlpml~~ag~~ia~ 185 (212)
T COG0560 140 CDGEGKAKALRELAAELGIPLEETVAYGDSANDLPMLEAAGLPIAV 185 (212)
T ss_pred cCcchHHHHHHHHHHHcCCCHHHeEEEcCchhhHHHHHhCCCCeEe
Confidence 2233344 778888997 99999963 33444556655544
No 274
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=42.80 E-value=65 Score=26.02 Aligned_cols=69 Identities=14% Similarity=0.194 Sum_probs=38.1
Q ss_pred eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH-cCC-cEEEEccCCCccccccccccc
Q 023366 124 WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY-RCL-KTVVVGDINDGALKRIADASF 197 (283)
Q Consensus 124 ~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~-~~~-~tvvvg~~~~~~l~r~ad~~~ 197 (283)
.+...+.+-.+. + +.+...+...+.+.-+..+...+....+..... ..- .+|||..+ ||.+.+.++...
T Consensus 5 i~Np~sG~~~~~---~-~~v~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~ivv~GG-DGTl~~vv~~l~ 75 (130)
T PF00781_consen 5 IINPKSGGGRAK---W-KKVEPALRAAGIDYEVIETESAGHAEALARILALDDYPDVIVVVGG-DGTLNEVVNGLM 75 (130)
T ss_dssp EEETTSTTSHHH---H-HHHHHHHHHTTCEEEEEEESSTTHHHHHHHHHHHTTS-SEEEEEES-HHHHHHHHHHHC
T ss_pred EECCCCCCCchh---H-HHHHHHHHHcCCceEEEEEeccchHHHHHHHHhhccCccEEEEEcC-ccHHHHHHHHHh
Confidence 344444444444 2 555556656666666666666666666665333 332 46666655 477766655443
No 275
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=42.60 E-value=1.4e+02 Score=22.19 Aligned_cols=40 Identities=15% Similarity=0.175 Sum_probs=30.5
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCCCcc
Q 023366 149 KRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDINDGA 188 (283)
Q Consensus 149 ~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~~~~ 188 (283)
..|+..-..+........+++.+++.+...||+|....+.
T Consensus 67 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~~~ 106 (130)
T cd00293 67 EAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRGRSG 106 (130)
T ss_pred cCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCCCc
Confidence 3577765555555558899999999999999999875443
No 276
>PRK11914 diacylglycerol kinase; Reviewed
Probab=42.55 E-value=62 Score=30.16 Aligned_cols=87 Identities=17% Similarity=0.189 Sum_probs=54.1
Q ss_pred hccCCCCCc--------hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC
Q 023366 105 ILTPKIGYG--------LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL 176 (283)
Q Consensus 105 ~l~pk~gyg--------la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~ 176 (283)
++-|.+|-| +...|+++|+.+..+..... .|. ..-+.+.+ ..+.+.||.+..|=-+..++......++
T Consensus 14 I~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t~~~-~~~--~~~a~~~~-~~~~d~vvv~GGDGTi~evv~~l~~~~~ 89 (306)
T PRK11914 14 LTNPLSGHGAAPHAAERAIARLHHRGVDVVEIVGTDA-HDA--RHLVAAAL-AKGTDALVVVGGDGVISNALQVLAGTDI 89 (306)
T ss_pred EECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEeCCH-HHH--HHHHHHHH-hcCCCEEEEECCchHHHHHhHHhccCCC
Confidence 567777633 34467788987765444442 221 11122234 5788999999999999999887766665
Q ss_pred cEEEEccCCCccccccccc
Q 023366 177 KTVVVGDINDGALKRIADA 195 (283)
Q Consensus 177 ~tvvvg~~~~~~l~r~ad~ 195 (283)
.--||-.++.-.++|.-.+
T Consensus 90 ~lgiiP~GT~NdfAr~lg~ 108 (306)
T PRK11914 90 PLGIIPAGTGNDHAREFGI 108 (306)
T ss_pred cEEEEeCCCcchhHHHcCC
Confidence 5556655554456665443
No 277
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=42.45 E-value=1.1e+02 Score=30.39 Aligned_cols=71 Identities=14% Similarity=0.226 Sum_probs=46.6
Q ss_pred chhhhhhhcCeeeee---cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHH-HHHHHHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRT---VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVD-VLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~---v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~-~l~~ar~~~~~tvvvg~~ 184 (283)
.|..++++.|+-|.. ++..++..+......+.++. ..+.+.|||.+...+... +.+.+|+.+.+.+.||..
T Consensus 191 ~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~-~~~arvIvl~~~~~~~~~l~~~~~~~~~~~~~wi~s~ 265 (469)
T cd06365 191 DLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIM-TSSAKVIIIYGDTDSLLEVSFRLWQYLLIGKVWITTS 265 (469)
T ss_pred HHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhh-cCCCeEEEEEcCcHHHHHHHHHHHHhccCceEEEeec
Confidence 345566788988764 44444433334444554444 578899999888777755 466677788888888763
No 278
>PRK13225 phosphoglycolate phosphatase; Provisional
Probab=42.06 E-value=1.8e+02 Score=27.03 Aligned_cols=72 Identities=15% Similarity=0.200 Sum_probs=38.8
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCchh-HHHHHHHHHHHHHhhcCccEE--EEEeCCc---chHHHHHHHHHcCCc-
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQA-ADVALRNHMVDMMDKRHVECL--VIVSDDS---DFVDVLQEAKYRCLK- 177 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~a-aD~al~~~~~~~~~~~~v~~l--vlvsdd~---~f~~~l~~ar~~~~~- 177 (283)
++|..| .-+-..|+..|+.+..+++++.. +... +...|+.-. ++++.+. .-..++..+.+.++.
T Consensus 141 ~~l~pg~~e~L~~L~~~gi~laIvSn~~~~~~~~~--------L~~~gl~~~F~~vi~~~~~~~k~~~~~~~l~~~~~~p 212 (273)
T PRK13225 141 LQLFPGVADLLAQLRSRSLCLGILSSNSRQNIEAF--------LQRQGLRSLFSVVQAGTPILSKRRALSQLVAREGWQP 212 (273)
T ss_pred CCcCCCHHHHHHHHHHCCCeEEEEeCCCHHHHHHH--------HHHcCChhheEEEEecCCCCCCHHHHHHHHHHhCcCh
Confidence 344444 55667788889999999988772 2222 222333211 1233222 223344555556664
Q ss_pred --EEEEccCC
Q 023366 178 --TVVVGDIN 185 (283)
Q Consensus 178 --tvvvg~~~ 185 (283)
+|+|||+.
T Consensus 213 ~~~l~IGDs~ 222 (273)
T PRK13225 213 AAVMYVGDET 222 (273)
T ss_pred hHEEEECCCH
Confidence 78888864
No 279
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=42.02 E-value=55 Score=26.77 Aligned_cols=36 Identities=8% Similarity=0.097 Sum_probs=24.6
Q ss_pred cCccEEEEEeCCcc------hHH---HHHHHHHcCCcEEEEccCC
Q 023366 150 RHVECLVIVSDDSD------FVD---VLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 150 ~~v~~lvlvsdd~~------f~~---~l~~ar~~~~~tvvvg~~~ 185 (283)
.++..|||+||-.+ +.. .++.++..++...+||-+.
T Consensus 95 ~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~~~v~i~~i~~g~ 139 (170)
T cd01465 95 GGVNRILLATDGDFNVGETDPDELARLVAQKRESGITLSTLGFGD 139 (170)
T ss_pred CCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhcCCeEEEEEEeCC
Confidence 45578999999863 333 4455566888888887763
No 280
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=41.64 E-value=98 Score=24.60 Aligned_cols=63 Identities=21% Similarity=0.230 Sum_probs=40.8
Q ss_pred hhhhhhcCee-----eeecCCCc-hhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 023366 115 ADELKRAGFW-----VRTVSDKP-QAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 115 a~~L~RaG~~-----V~~v~dkp-~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvv 181 (283)
...|++.|+. +-...+.+ .+.+..+-.++.+-+ ...-+.+++|.|+. .=++.|++.|+.||.|
T Consensus 108 ~~~l~~~~~~~~f~~i~~~~~~~~~Kp~~~~~~~~~~~~-~~~p~~~~~vgD~~---~d~~~A~~~G~~~i~v 176 (176)
T PF13419_consen 108 ERVLERLGLDDYFDEIISSDDVGSRKPDPDAYRRALEKL-GIPPEEILFVGDSP---SDVEAAKEAGIKTIWV 176 (176)
T ss_dssp HHHHHHTTHGGGCSEEEEGGGSSSSTTSHHHHHHHHHHH-TSSGGGEEEEESSH---HHHHHHHHTTSEEEEE
T ss_pred cccccccccccccccccccchhhhhhhHHHHHHHHHHHc-CCCcceEEEEeCCH---HHHHHHHHcCCeEEeC
Confidence 3456666655 22222222 345567777776666 45556777887776 5668999999999976
No 281
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=41.55 E-value=94 Score=27.66 Aligned_cols=68 Identities=19% Similarity=0.141 Sum_probs=42.7
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHc-CCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYR-CLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~-~~~tvvvg~~ 184 (283)
.|+..++++.|+.+-.+.... ..+ ....+.. |...+|+-||+.+-..+ ..+....++. ++..|+||..
T Consensus 22 ~gi~~~~~~~gy~~~i~~~~~-~~~--~~~~i~~-l~~~~vdgiI~~~~~~~-~~~~~~~~~~~~~PiV~i~~~ 90 (265)
T cd06354 22 EGLERAAKELGIEYKYVESKS-DAD--YEPNLEQ-LADAGYDLIVGVGFLLA-DALKEVAKQYPDQKFAIIDAV 90 (265)
T ss_pred HHHHHHHHHcCCeEEEEecCC-HHH--HHHHHHH-HHhCCCCEEEEcCcchH-HHHHHHHHHCCCCEEEEEecc
Confidence 467778889999988764432 122 2333444 44789999999853211 2344555553 8999999863
No 282
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=41.38 E-value=69 Score=26.02 Aligned_cols=43 Identities=9% Similarity=0.180 Sum_probs=26.9
Q ss_pred HHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 139 LRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 139 l~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
+-..+.++. ++|+..+++.+. ..-..+++.|++.|++ +||..+
T Consensus 68 ~~~~v~~~~-~~g~~~v~~~~g-~~~~~~~~~a~~~gi~--vigp~C 110 (116)
T PF13380_consen 68 VPEIVDEAA-ALGVKAVWLQPG-AESEELIEAAREAGIR--VIGPNC 110 (116)
T ss_dssp HHHHHHHHH-HHT-SEEEE-TT-S--HHHHHHHHHTT-E--EEESS-
T ss_pred HHHHHHHHH-HcCCCEEEEEcc-hHHHHHHHHHHHcCCE--EEeCCc
Confidence 334444455 778999988888 7778888888998887 666554
No 283
>PF00365 PFK: Phosphofructokinase; InterPro: IPR000023 The enzyme-catalysed transfer of a phosphoryl group from ATP is an important reaction in a wide variety of biological processes []. One enzyme that utilises this reaction is phosphofructokinase (PFK), which catalyses the phosphorylation of fructose-6-phosphate to fructose-1,6- bisphosphate, a key regulatory step in the glycolytic pathway [, ]. PFK exists as a homotetramer in bacteria and mammals (where each monomer possesses 2 similar domains), and as an octomer in yeast (where there are 4 alpha- (PFK1) and 4 beta-chains (PFK2), the latter, like the mammalian monomers, possessing 2 similar domains []). PFK is ~300 amino acids in length, and structural studies of the bacterial enzyme have shown it comprises two similar (alpha/beta) lobes: one involved in ATP binding and the other housing both the substrate-binding site and the allosteric site (a regulatory binding site distinct from the active site, but that affects enzyme activity). The identical tetramer subunits adopt 2 different conformations: in a 'closed' state, the bound magnesium ion bridges the phosphoryl groups of the enzyme products (ADP and fructose-1,6- bisphosphate); and in an 'open' state, the magnesium ion binds only the ADP [], as the 2 products are now further apart. These conformations are thought to be successive stages of a reaction pathway that requires subunit closure to bring the 2 molecules sufficiently close to react []. Deficiency in PFK leads to glycogenosis type VII (Tauri's disease), an autosomal recessive disorder characterised by severe nausea, vomiting, muscle cramps and myoglobinuria in response to bursts of intense or vigorous exercise []. Sufferers are usually able to lead a reasonably ordinary life by learning to adjust activity levels [].; GO: 0003872 6-phosphofructokinase activity, 0006096 glycolysis, 0005945 6-phosphofructokinase complex; PDB: 3O8O_E 3OPY_H 1PFK_A 2PFK_D 1MTO_F 3U39_C 6PFK_A 4PFK_A 3PFK_A 3HNO_B ....
Probab=41.23 E-value=51 Score=31.20 Aligned_cols=65 Identities=14% Similarity=0.221 Sum_probs=49.7
Q ss_pred hhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 118 LKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 118 L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
....|-...+-+.+|..-+. -+..+.+.|.+.+|+.||.+-+|--+..+..++.+.++.-|.|--
T Consensus 60 ~~~gGt~lgtsR~~~~~~~~-~~~~~~~~l~~~~Id~Li~IGG~gs~~~a~~L~~~~~i~vigiPk 124 (282)
T PF00365_consen 60 INQGGTILGTSRFKPFKDPE-GRKKIVENLKKLGIDALIVIGGDGSMKGAHKLSEEFGIPVIGIPK 124 (282)
T ss_dssp GGSSSSTTTBBBSSGGGSHH-HHHHHHHHHHHTTESEEEEEESHHHHHHHHHHHHHHHSEEEEEEE
T ss_pred ccCCCcEeCcccCccccchh-hhhhHHHHHHHhCCCEEEEecCCCHHHHHHHHHhcCceEEEEEec
Confidence 34567777776666543332 334577888899999999999999999999999898888777743
No 284
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=41.11 E-value=67 Score=31.60 Aligned_cols=71 Identities=6% Similarity=0.083 Sum_probs=45.1
Q ss_pred hhhhhhhcCeeee-ecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCC
Q 023366 114 LADELKRAGFWVR-TVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDIN 185 (283)
Q Consensus 114 la~~L~RaG~~V~-~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~ 185 (283)
|..++++.|...- .|.+ +......+...+...|...|++..+. |..++... .+++.+|+.+...|| ||+++
T Consensus 40 l~~~~~~~g~~~~lvv~~-~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGGS 117 (395)
T PRK15454 40 CGQQAQTRGLKHLFVMAD-SFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGGS 117 (395)
T ss_pred HHHHHHhcCCCEEEEEcC-cchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCChH
Confidence 3455667674433 3444 33344556677888887789987665 55566565 666777888887654 66655
No 285
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=41.01 E-value=91 Score=32.37 Aligned_cols=71 Identities=17% Similarity=0.254 Sum_probs=50.0
Q ss_pred hhhhhhcCeeeeecCCCchh-----HHHHHHHHHHHHHhhcCccEEEEEeCCcch-----HHHHHHHHH-cC----C---
Q 023366 115 ADELKRAGFWVRTVSDKPQA-----ADVALRNHMVDMMDKRHVECLVIVSDDSDF-----VDVLQEAKY-RC----L--- 176 (283)
Q Consensus 115 a~~L~RaG~~V~~v~dkp~a-----aD~al~~~~~~~~~~~~v~~lvlvsdd~~f-----~~~l~~ar~-~~----~--- 176 (283)
-..|+..|+.+-.|++++.- .-..++..|..+|..+|+.--++++.+.+. .+|+..+-+ .+ +
T Consensus 206 L~~L~~~Gy~IvIvTNQ~gI~~G~~~~~~~~~ki~~iL~~lgipfdviia~~~~~~RKP~pGm~~~a~~~~~~~~~Id~~ 285 (526)
T TIGR01663 206 LKELEADGFKICIFTNQGGIARGKINADDFKAKIEAIVAKLGVPFQVFIAIGAGFYRKPLTGMWDHLKEEANDGTEIQED 285 (526)
T ss_pred HHHHHHCCCEEEEEECCcccccCcccHHHHHHHHHHHHHHcCCceEEEEeCCCCCCCCCCHHHHHHHHHhcCcccCCCHH
Confidence 34567899999999998882 223456778888888888755666655432 477777655 33 3
Q ss_pred cEEEEccCC
Q 023366 177 KTVVVGDIN 185 (283)
Q Consensus 177 ~tvvvg~~~ 185 (283)
.++.|||..
T Consensus 286 ~S~~VGDaa 294 (526)
T TIGR01663 286 DCFFVGDAA 294 (526)
T ss_pred HeEEeCCcc
Confidence 789999975
No 286
>cd05009 SIS_GlmS_GlmD_2 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=40.80 E-value=53 Score=26.54 Aligned_cols=44 Identities=25% Similarity=0.390 Sum_probs=29.6
Q ss_pred ccEEEEEe-CCc---chHHHHHHHHHcCCcEEEEccCCCccccccccccc
Q 023366 152 VECLVIVS-DDS---DFVDVLQEAKYRCLKTVVVGDINDGALKRIADASF 197 (283)
Q Consensus 152 v~~lvlvs-dd~---~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~ 197 (283)
-+++|++| .+. .-..+++.+++.|.++|+|++.. .. .+.+|.-+
T Consensus 62 ~~~vi~is~~g~t~~~~~~~~~~~~~~~~~vi~it~~~-~s-~~~~d~~i 109 (153)
T cd05009 62 GTPVIFLAPEDRLEEKLESLIKEVKARGAKVIVITDDG-DA-KDLADVVI 109 (153)
T ss_pred CCcEEEEecCChhHHHHHHHHHHHHHcCCEEEEEecCC-cc-cccCCeEE
Confidence 33667777 333 24578899999999999998864 22 45555543
No 287
>cd08769 DAP_dppA_2 Peptidase M55, D-aminopeptidase dipeptide-binding protein family. M55 Peptidase, D-Aminopeptidase dipeptide-binding protein (dppA; DAP dppA; EC 3.4.11.-) domain: Peptide transport systems are found in many bacterial species and generally function to accumulate intact peptides in the cell, where they are hydrolyzed. The dipeptide-binding protein (dppA) of Bacillus subtilis belongs to the dipeptide ABC transport (dpp) operon expressed early during sporulation. It is a binuclear zinc-dependent, D-specific aminopeptidase. The biologically active enzyme is a homodecamer with active sites buried in its channel. These self-compartmentalizing proteases are characterized by a SXDXEG motif. D-Ala-D-Ala and D-Ala-Gly-Gly are the preferred substrates. Bacillus subtilis dppA is thought to function as an adaptation to nutrient deficiency; hydrolysis of its substrate releases D-Ala which can be used subsequently as metabolic fuel. This family also contains a number of uncharacteriz
Probab=40.18 E-value=41 Score=32.00 Aligned_cols=59 Identities=20% Similarity=0.211 Sum_probs=41.3
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHHc--CCcEEEEccCCCccccccccccccHHHHhcchhhhhhhhhhc
Q 023366 149 KRHVECLVIVSDDSDFVDVLQEAKYR--CLKTVVVGDINDGALKRIADASFSWRDILMGKAKKEAVSVVG 216 (283)
Q Consensus 149 ~~~v~~lvlvsdd~~f~~~l~~ar~~--~~~tvvvg~~~~~~l~r~ad~~~sW~~v~~g~~~~~a~~~~~ 216 (283)
..||- ++|||.|.. +.+++++. ++.||+| ..+++|+|-..+|..++.. ..++.|.++..
T Consensus 145 ~~gVP-V~lVsGDd~---~~~ea~~~~P~~~tv~v----K~~~gr~aA~~~~p~~a~~-~I~~aa~~Al~ 205 (270)
T cd08769 145 EFGVP-VVLVAGDSE---LEKEVKEETPWAVFVPT----KESLSRYSAKSPSMKKVKE-ELREAVKEALE 205 (270)
T ss_pred hcCCC-EEEEecCHH---HHHHHHHhCCCceEEEE----eeecCCCccccCCHHHHHH-HHHHHHHHHHH
Confidence 34554 567787774 45777775 8999999 4568999999999987764 34444444444
No 288
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=40.08 E-value=68 Score=25.69 Aligned_cols=63 Identities=17% Similarity=0.238 Sum_probs=42.2
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhh-cCccEEEEEeCCcc-------hHHHHHHHHHcCCcEE
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDK-RHVECLVIVSDDSD-------FVDVLQEAKYRCLKTV 179 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~-~~v~~lvlvsdd~~-------f~~~l~~ar~~~~~tv 179 (283)
|.+..|+..|+.|..|..-+...+ .++.+++.+ ..|+-+|-+.+..+ =-.|.|.|.+.++--+
T Consensus 33 gTa~~L~~~Gi~~~~v~~~~~~g~----~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~ 103 (112)
T cd00532 33 GTSRVLADAGIPVRAVSKRHEDGE----PTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVT 103 (112)
T ss_pred HHHHHHHHcCCceEEEEecCCCCC----cHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEE
Confidence 557889999999988765433212 335555657 78888887775333 4467788888876543
No 289
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=40.01 E-value=57 Score=31.37 Aligned_cols=95 Identities=13% Similarity=0.132 Sum_probs=67.6
Q ss_pred eeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC---CCccccccccccccH
Q 023366 123 FWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI---NDGALKRIADASFSW 199 (283)
Q Consensus 123 ~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~---~~~~l~r~ad~~~sW 199 (283)
+.--|.+|+...-=..-+.+|.-+.|.--+.+||..++.+.-+.+++.-|++.=.-+.|... +...+...||+.++=
T Consensus 34 I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aDi~~~~ 113 (275)
T PF12683_consen 34 IKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAADIVVNP 113 (275)
T ss_dssp EEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSSEEEE-
T ss_pred EEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccCeEecc
Confidence 34457888887777788888888787889999999999999999999999987777776553 234577789999999
Q ss_pred HHHhcchhhhhhhhhhcc
Q 023366 200 RDILMGKAKKEAVSVVGK 217 (283)
Q Consensus 200 ~~v~~g~~~~~a~~~~~~ 217 (283)
+.+.+|+.-.++.+--|.
T Consensus 114 D~~~~G~~i~~~Ak~mGA 131 (275)
T PF12683_consen 114 DEISRGYTIVWAAKKMGA 131 (275)
T ss_dssp -HHHHHHHHHHHHHHTT-
T ss_pred chhhccHHHHHHHHHcCC
Confidence 999999988877766553
No 290
>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=39.91 E-value=62 Score=29.31 Aligned_cols=63 Identities=19% Similarity=0.239 Sum_probs=44.0
Q ss_pred chhhhhhhcCeeee-ecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE
Q 023366 113 GLADELKRAGFWVR-TVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT 178 (283)
Q Consensus 113 gla~~L~RaG~~V~-~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t 178 (283)
.+...+++.|+.|- ...=.+...|. ...+.++. +.+.+.|++.++..+-..+|+.+++.|+.-
T Consensus 154 ~~~~~~~~~G~~vv~~~~~~~~~~d~--~~~~~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~ 217 (343)
T PF13458_consen 154 AFRKALEAAGGKVVGEIRYPPGDTDF--SALVQQLK-SAGPDVVVLAGDPADAAAFLRQLRQLGLKP 217 (343)
T ss_dssp HHHHHHHHTTCEEEEEEEE-TTSSHH--HHHHHHHH-HTTTSEEEEESTHHHHHHHHHHHHHTTGCS
T ss_pred HHHHHHhhcCceeccceecccccccc--hHHHHHHh-hcCCCEEEEeccchhHHHHHHHHHhhcccc
Confidence 46677888998862 22212233332 23444445 679999999999999999999999999883
No 291
>PRK13337 putative lipid kinase; Reviewed
Probab=39.85 E-value=75 Score=29.68 Aligned_cols=91 Identities=13% Similarity=0.188 Sum_probs=52.9
Q ss_pred hccCCCCCc--------hhhhhhhcCeeeeec--CCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHc
Q 023366 105 ILTPKIGYG--------LADELKRAGFWVRTV--SDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYR 174 (283)
Q Consensus 105 ~l~pk~gyg--------la~~L~RaG~~V~~v--~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~ 174 (283)
++-|++|-| +...|..+|+.+..+ +....|...+ + +.. ..+.+.||.+..|=-..+++.-....
T Consensus 7 I~Np~aG~~~~~~~~~~~~~~l~~~~~~~~~~~t~~~~~a~~~a--~---~~~-~~~~d~vvv~GGDGTl~~vv~gl~~~ 80 (304)
T PRK13337 7 IYNPTSGRELFKKNLPDVLQKLEQAGYETSAHATTGPGDATLAA--E---RAV-ERKFDLVIAAGGDGTLNEVVNGIAEK 80 (304)
T ss_pred EECCcccchhHHHHHHHHHHHHHHcCCEEEEEEecCCCCHHHHH--H---HHH-hcCCCEEEEEcCCCHHHHHHHHHhhC
Confidence 456676633 234677899876543 3222233322 1 223 46789999999999999999866544
Q ss_pred CCc--EEEEccCCCccccccccccccHHH
Q 023366 175 CLK--TVVVGDINDGALKRIADASFSWRD 201 (283)
Q Consensus 175 ~~~--tvvvg~~~~~~l~r~ad~~~sW~~ 201 (283)
+-+ --||=.++.-.+.|.-.+..+|++
T Consensus 81 ~~~~~lgiiP~GT~NdfAr~lgi~~~~~~ 109 (304)
T PRK13337 81 ENRPKLGIIPVGTTNDFARALHVPRDIEK 109 (304)
T ss_pred CCCCcEEEECCcCHhHHHHHcCCCCCHHH
Confidence 332 233433333356666666556644
No 292
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=39.74 E-value=1.3e+02 Score=26.33 Aligned_cols=72 Identities=19% Similarity=0.144 Sum_probs=38.6
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhh-cCccEEEEEeCCcchHHHHHHHHHcCCc--EEEEc-cCC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDK-RHVECLVIVSDDSDFVDVLQEAKYRCLK--TVVVG-DIN 185 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~-~~v~~lvlvsdd~~f~~~l~~ar~~~~~--tvvvg-~~~ 185 (283)
-|+...|+..|+.+..+...+...+.+ ..-+.++|.+ ..++.|+. ..|.-..++++.++++|++ .+||| |.+
T Consensus 146 ~gf~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~~~~ivg~d~~ 221 (274)
T cd06311 146 DAFDAAIAKYPIKILDRQYANWNRDDA-FSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRTDIKFVVGGAGS 221 (274)
T ss_pred HHHHHHHhhCCcEEEeccCCCCcHHHH-HHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCCCCceEEEeCCC
Confidence 355556666675443222222222222 2344555632 23565544 4445567899999999986 45665 444
No 293
>PRK10671 copA copper exporting ATPase; Provisional
Probab=39.17 E-value=46 Score=35.83 Aligned_cols=77 Identities=14% Similarity=0.209 Sum_probs=42.3
Q ss_pred hhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC-CCccccccccc
Q 023366 117 ELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI-NDGALKRIADA 195 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~-~~~~l~r~ad~ 195 (283)
.|+..|+.+..++..++..=.+ .+...|++.++--.-..+=..+++..+..+-.++.|||+ +|-...+.||+
T Consensus 661 ~L~~~gi~v~~~Tgd~~~~a~~-------ia~~lgi~~~~~~~~p~~K~~~i~~l~~~~~~v~~vGDg~nD~~al~~Agv 733 (834)
T PRK10671 661 RLHKAGYRLVMLTGDNPTTANA-------IAKEAGIDEVIAGVLPDGKAEAIKRLQSQGRQVAMVGDGINDAPALAQADV 733 (834)
T ss_pred HHHHCCCeEEEEcCCCHHHHHH-------HHHHcCCCEEEeCCCHHHHHHHHHHHhhcCCEEEEEeCCHHHHHHHHhCCe
Confidence 4455666666666555521111 122335543322121223344556666667778999994 55556678999
Q ss_pred cccHH
Q 023366 196 SFSWR 200 (283)
Q Consensus 196 ~~sW~ 200 (283)
.+.|.
T Consensus 734 gia~g 738 (834)
T PRK10671 734 GIAMG 738 (834)
T ss_pred eEEec
Confidence 77764
No 294
>PRK11587 putative phosphatase; Provisional
Probab=39.10 E-value=1.1e+02 Score=26.57 Aligned_cols=29 Identities=21% Similarity=0.247 Sum_probs=19.9
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCchh
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQA 134 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~a 134 (283)
+.|.-| ..+-..|+..|+.+-.|++++..
T Consensus 82 ~~~~pg~~e~L~~L~~~g~~~~ivTn~~~~ 111 (218)
T PRK11587 82 ITALPGAIALLNHLNKLGIPWAIVTSGSVP 111 (218)
T ss_pred ceeCcCHHHHHHHHHHcCCcEEEEcCCCch
Confidence 344444 55666777888888888887763
No 295
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=38.92 E-value=1.4e+02 Score=26.16 Aligned_cols=37 Identities=8% Similarity=0.005 Sum_probs=25.7
Q ss_pred HHHHHHhhhccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 97 KYKRAARAILTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 97 KY~~AA~~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
.+.+.....+.+.-| ..+-..|++.|+.+-.|++++.
T Consensus 60 ~~~~~~~~~~~l~pg~~e~l~~l~~~g~~~~IvS~~~~ 97 (214)
T TIGR03333 60 EITSFVLETAEIREGFREFVAFINEHGIPFYVISGGMD 97 (214)
T ss_pred HHHHHHHhcCcccccHHHHHHHHHHCCCeEEEECCCcH
Confidence 444433333445555 5677777889999999999987
No 296
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=38.90 E-value=82 Score=28.18 Aligned_cols=62 Identities=16% Similarity=0.208 Sum_probs=44.1
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+..+++..|+.+-....... + +.|...+|+-||+++.+.+ .+.++...+.++..|+|+..
T Consensus 27 ~~i~~~~~~~gy~~~~~~~~~~--~--------~~l~~~~vdgiIi~~~~~~-~~~~~~l~~~~iPvV~i~~~ 88 (269)
T cd06287 27 AAAAESALERGLALCLVPPHEA--D--------SPLDALDIDGAILVEPMAD-DPQVARLRQRGIPVVSIGRP 88 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCc--h--------hhhhccCcCeEEEecCCCC-CHHHHHHHHcCCCEEEeCCC
Confidence 6788888999999887654321 1 1244679999999875433 25667777889999999764
No 297
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=38.68 E-value=1.9e+02 Score=25.09 Aligned_cols=18 Identities=22% Similarity=0.220 Sum_probs=10.3
Q ss_pred hhhhhcCeeeeecCCCch
Q 023366 116 DELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 116 ~~L~RaG~~V~~v~dkp~ 133 (283)
..|++.|+.+-.++..+.
T Consensus 102 ~~l~~~g~~~~i~S~~~~ 119 (222)
T PRK10826 102 ALCKAQGLKIGLASASPL 119 (222)
T ss_pred HHHHHCCCeEEEEeCCcH
Confidence 445556666666666543
No 298
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=38.63 E-value=83 Score=25.00 Aligned_cols=31 Identities=19% Similarity=0.262 Sum_probs=25.5
Q ss_pred EEEEEeCCcc-----hHHHHHHHHHcCCcEEEEccC
Q 023366 154 CLVIVSDDSD-----FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 154 ~lvlvsdd~~-----f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|||++|..+ ...+++..++.++..++||-+
T Consensus 106 ~iiliTDG~~~~~~~~~~~~~~~~~~~v~v~~i~~g 141 (161)
T cd01450 106 VIIVLTDGRSDDGGDPKEAAAKLKDEGIKVFVVGVG 141 (161)
T ss_pred EEEEECCCCCCCCcchHHHHHHHHHCCCEEEEEecc
Confidence 6899998643 778999999999998888775
No 299
>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=38.60 E-value=41 Score=30.86 Aligned_cols=63 Identities=21% Similarity=0.192 Sum_probs=42.4
Q ss_pred chhhhhhhcCeeeeecCC-CchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE
Q 023366 113 GLADELKRAGFWVRTVSD-KPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT 178 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~d-kp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t 178 (283)
++...+++.|+.+..... .+...|. ...+.+++ ..+.+.|++.++..+...+++.+++.|++-
T Consensus 152 ~~~~~~~~~G~~v~~~~~~~~~~~d~--~~~~~~i~-~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~ 215 (341)
T cd06341 152 LLARSLAAAGVSVAGIVVITATAPDP--TPQAQQAA-AAGADAIITVLDAAVCASVLKAVRAAGLTP 215 (341)
T ss_pred HHHHHHHHcCCccccccccCCCCCCH--HHHHHHHH-hcCCCEEEEecChHHHHHHHHHHHHcCCCC
Confidence 455667778876643222 2223443 23444456 568999988888889999999999999864
No 300
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=38.59 E-value=1.5e+02 Score=25.82 Aligned_cols=70 Identities=14% Similarity=0.126 Sum_probs=37.2
Q ss_pred CchhhhhhhcC-eeeeecCCCchhHHHHHHHHHHHHHhhc-CccEEEEEeCCcchHHHHHHHHHcCCc---EEEEcc
Q 023366 112 YGLADELKRAG-FWVRTVSDKPQAADVALRNHMVDMMDKR-HVECLVIVSDDSDFVDVLQEAKYRCLK---TVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG-~~V~~v~dkp~aaD~al~~~~~~~~~~~-~v~~lvlvsdd~~f~~~l~~ar~~~~~---tvvvg~ 183 (283)
-|+...|...| +.+........-.+.+ .+.+.+++... .++ .|+++.|.-..++++.++++|++ ..|||-
T Consensus 143 ~gf~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-ai~~~~d~~a~~~~~~l~~~g~~~~di~ivg~ 217 (272)
T cd06301 143 KGVEEVLAKYPDIKVVEEQTANWSRAEA-MDLMENWLSSGGKID-AVVANNDEMALGAIMALKAAGKSDKDVPVAGI 217 (272)
T ss_pred HHHHHHHHHCCCcEEEecCCCCccHHHH-HHHHHHHHHhCCCCC-EEEECCCchHHHHHHHHHHcCCCCCCcEEEee
Confidence 34555566666 4433221212112222 24555556332 234 45555666666999999999985 345554
No 301
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=38.58 E-value=1.3e+02 Score=27.16 Aligned_cols=67 Identities=13% Similarity=0.287 Sum_probs=39.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchH--HHHHHHHHcCCcEEEEcc
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFV--DVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~--~~l~~ar~~~~~tvvvg~ 183 (283)
.|+..++.+.|+.+-......... ....+.+.|...+|+-|++.+-+.+.. .+|. +..++..|+|+.
T Consensus 76 ~gi~~~~~~~g~~~~~~~~~~~~~---~~~~~~~~l~~~~vdGiI~~~~~~~~~~~~~l~--~~~~iPvV~i~~ 144 (327)
T PRK10423 76 RGVERSCFERGYSLVLCNTEGDEQ---RMNRNLETLMQKRVDGLLLLCTETHQPSREIMQ--RYPSVPTVMMDW 144 (327)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH---HHHHHHHHHHHcCCCEEEEeCCCcchhhHHHHH--hcCCCCEEEECC
Confidence 467777888998876543322211 112222234478999999987554332 2332 225888999975
No 302
>TIGR00312 cbiD cobalamin biosynthesis protein CbiD. role_id
Probab=38.45 E-value=78 Score=31.24 Aligned_cols=122 Identities=21% Similarity=0.286 Sum_probs=76.4
Q ss_pred HHHHhhhccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHh---hcCccEEEEEeCC-------------
Q 023366 99 KRAARAILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMD---KRHVECLVIVSDD------------- 161 (283)
Q Consensus 99 ~~AA~~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~---~~~v~~lvlvsdd------------- 161 (283)
++.|+..+-|+.| -|==+.|-=-|+ |+.++. .|++..|...|+ ..|.++|||+...
T Consensus 138 eelAkkT~NprLGI~GGISILGTTGI-V~P~S~------~A~~~Si~~~i~va~a~g~~~~vl~~G~~ge~~a~~~~~~~ 210 (347)
T TIGR00312 138 RTLATRTSNPALGIVGGLSILGTTGI-ARPMSA------EAYLASLACQIDTAAAQGHQCLVFVPGNIGLDLARQWGVPL 210 (347)
T ss_pred HHHHHhccccccCccCCeEeccCCEE-EEECCH------HHHHHHHHHHHHHHHHcCCCeEEEccChHHHHHHHHhCCCC
Confidence 4567778888888 555556655554 555554 466665543332 5688888887643
Q ss_pred -------cch-HHHHHHHHHcCCcEEEEccCCCccccc-----------cccccccH---HHHhcchhhhhhhhhhcccc
Q 023366 162 -------SDF-VDVLQEAKYRCLKTVVVGDINDGALKR-----------IADASFSW---RDILMGKAKKEAVSVVGKWE 219 (283)
Q Consensus 162 -------~~f-~~~l~~ar~~~~~tvvvg~~~~~~l~r-----------~ad~~~sW---~~v~~g~~~~~a~~~~~~w~ 219 (283)
+|| ..+|+.|.++|++.|++.... |.|-+ .||..+.. --...|--.....++...=.
T Consensus 211 ~~~~V~~gnfiG~~L~~a~~~g~~~i~l~G~~-GKLvKlA~Gi~~THs~~ad~r~e~La~~a~~~G~~~~~~~~i~~a~T 289 (347)
T TIGR00312 211 DDEIIKTANFLGSMLVAAAAVGVEEILLLGHA-GKLIKLAGGIFHTHSHLADGRLEILAAQAVLAGLPYPLVQEIGQAPT 289 (347)
T ss_pred cccEEEEehhhHHHHHHHHHcCCCEEEEEeEh-HHHHHHhCCccccccCcccccHHHHHHHHHHcCCCHHHHHHHHhcch
Confidence 223 458999999999999998765 55544 36766654 22345555555555555555
Q ss_pred chhhhhhhc
Q 023366 220 DRDILKRLE 228 (283)
Q Consensus 220 ~~~~~~~~~ 228 (283)
.+.+|.-|+
T Consensus 290 ~e~a~~~l~ 298 (347)
T TIGR00312 290 TEEGIKLLE 298 (347)
T ss_pred HHHHHHHHH
Confidence 566555443
No 303
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=38.06 E-value=1.1e+02 Score=28.66 Aligned_cols=58 Identities=22% Similarity=0.276 Sum_probs=41.5
Q ss_pred CeeeeecCCCchhHH--HHHHHHHHHHHhhcCccEEEEEeCCcch--------HHHHHHHHH-cCCcEEEEccCC
Q 023366 122 GFWVRTVSDKPQAAD--VALRNHMVDMMDKRHVECLVIVSDDSDF--------VDVLQEAKY-RCLKTVVVGDIN 185 (283)
Q Consensus 122 G~~V~~v~dkp~aaD--~al~~~~~~~~~~~~v~~lvlvsdd~~f--------~~~l~~ar~-~~~~tvvvg~~~ 185 (283)
|-.|..++..|..|+ .+|++- | ..|.+..|||||+ .| +.+|..+-+ .+..=|+-|..+
T Consensus 54 g~~Vtvvs~Gp~~a~~~~~lr~a----L-AmGaD~avli~d~-~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s 122 (256)
T PRK03359 54 EAQVTALSVGGKALTNAKGRKDV----L-SRGPDELIVVIDD-QFEQALPQQTASALAAAAQKAGFDLILCGDGS 122 (256)
T ss_pred CCEEEEEEECCcchhhHHHHHHH----H-HcCCCEEEEEecC-cccCcCHHHHHHHHHHHHHHhCCCEEEEcCcc
Confidence 368999999998665 556665 4 6799999999988 33 334544444 477888888744
No 304
>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=38.04 E-value=1.6e+02 Score=25.80 Aligned_cols=71 Identities=18% Similarity=0.271 Sum_probs=40.2
Q ss_pred Cchhhhhhhc-CeeeeecCCCchhHHHHHHHHHHHHHhhcC-ccEEEEEeCCcchHHHHHHHHHcCC--cEEEEccC
Q 023366 112 YGLADELKRA-GFWVRTVSDKPQAADVALRNHMVDMMDKRH-VECLVIVSDDSDFVDVLQEAKYRCL--KTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~Ra-G~~V~~v~dkp~aaD~al~~~~~~~~~~~~-v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg~~ 184 (283)
-|+...+++. |..+..+.......+.+ ...+.+++.... ++ .|+.+.|.-..++++..+++|+ .-.|||-.
T Consensus 142 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-ai~~~~d~~a~~~~~al~~~g~~~di~vig~d 216 (275)
T cd06320 142 EGFTEAIKKASGIEVVASQPADWDREKA-YDVATTILQRNPDLK-AIYCNNDTMALGVVEAVKNAGKQGKVLVVGTD 216 (275)
T ss_pred HHHHHHHhhCCCcEEEEecCCCccHHHH-HHHHHHHHHhCCCcc-EEEECCchhHHHHHHHHHhcCCCCCeEEEecC
Confidence 4566667777 87765433222111112 234555663322 33 4455566677789999999998 44566653
No 305
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=38.00 E-value=79 Score=29.36 Aligned_cols=78 Identities=10% Similarity=0.049 Sum_probs=39.2
Q ss_pred hhhhhcCeeeeecC--CCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcC--Cc--EEEEccCCCccc
Q 023366 116 DELKRAGFWVRTVS--DKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRC--LK--TVVVGDINDGAL 189 (283)
Q Consensus 116 ~~L~RaG~~V~~v~--dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~--~~--tvvvg~~~~~~l 189 (283)
..|+++|+.+.... ..-.|.. +-+.+ . ..+.+.||.|..|=-...++......+ .. -.||-.++.-.+
T Consensus 21 ~~l~~~g~~~~v~~t~~~~~a~~--~a~~~---~-~~~~d~vv~~GGDGTi~ev~ngl~~~~~~~~~~lgiiP~GTgNdf 94 (293)
T TIGR03702 21 GDLRDEGIQLHVRVTWEKGDAQR--YVAEA---L-ALGVSTVIAGGGDGTLREVATALAQIRDDAAPALGLLPLGTANDF 94 (293)
T ss_pred HHHHHCCCeEEEEEecCCCCHHH--HHHHH---H-HcCCCEEEEEcCChHHHHHHHHHHhhCCCCCCcEEEEcCCchhHH
Confidence 35667777654322 2222322 22222 2 356778888888877777777665432 21 233333333345
Q ss_pred cccccccccH
Q 023366 190 KRIADASFSW 199 (283)
Q Consensus 190 ~r~ad~~~sW 199 (283)
+|.-.+..++
T Consensus 95 Ar~l~ip~~~ 104 (293)
T TIGR03702 95 ATAAGIPLEP 104 (293)
T ss_pred HHhcCCCCCH
Confidence 6654444433
No 306
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=37.99 E-value=47 Score=31.45 Aligned_cols=58 Identities=22% Similarity=0.285 Sum_probs=42.2
Q ss_pred cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchH--------HHHHH-HHHcCCcEEEEccC
Q 023366 121 AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFV--------DVLQE-AKYRCLKTVVVGDI 184 (283)
Q Consensus 121 aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~--------~~l~~-ar~~~~~tvvvg~~ 184 (283)
.|-.|-.++..|..|..+|.+ .| ..|+|..+|++|+. |. .+|.. .+.-+..=|+.|..
T Consensus 54 ~~~eV~vlt~Gp~~a~~~lr~----aL-AmGaDraili~d~~-~~~~d~~~ta~~Laa~~~~~~~~LVl~G~q 120 (260)
T COG2086 54 YGGEVTVLTMGPPQAEEALRE----AL-AMGADRAILITDRA-FAGADPLATAKALAAAVKKIGPDLVLTGKQ 120 (260)
T ss_pred CCceEEEEEecchhhHHHHHH----HH-hcCCCeEEEEeccc-ccCccHHHHHHHHHHHHHhcCCCEEEEecc
Confidence 677899999999999999988 35 78999999999855 32 23333 23456666666653
No 307
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=37.67 E-value=18 Score=35.83 Aligned_cols=24 Identities=29% Similarity=0.808 Sum_probs=21.9
Q ss_pred CCCCccCCC--CCCccCCchhHhhhh
Q 023366 38 PAEPYVCGV--CGRRFYSNEKLVNHF 61 (283)
Q Consensus 38 GEKPykC~v--CGKsFss~ssLkrH~ 61 (283)
+++||+|++ |.|.+.....|+.|+
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~ 371 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHM 371 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhh
Confidence 459999987 999999999999997
No 308
>PF04951 Peptidase_M55: D-aminopeptidase; InterPro: IPR007035 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M55 (DppA aminopeptidase family, clan MN). The type example is Bacillus subtilis DppA, which is a binuclear zinc-dependent, D-specific aminopeptidase. The structure reveals that DppA is a new example of a self-compartmentalising protease, a family of proteolytic complexes. Proteasomes are the most extensively studied representatives of this family. The DppA enzyme is composed of identical 30 kDa subunits organised in a decamer with 52 point-group symmetry. A 20 A wide channel runs through the complex, giving access to a central chamber holding the active sites. The structure shows DppA to be a prototype of a new family of metalloaminopeptidases characterised by the SXDXEG key sequence []. The only known substrates are D-ala-D-ala and D-ala-gly-gly.; PDB: 1HI9_A.
Probab=37.45 E-value=20 Score=34.07 Aligned_cols=67 Identities=25% Similarity=0.284 Sum_probs=39.4
Q ss_pred cCccEEEEEeCCcchHHHHHHHHH--cCCcEEEEccCCCccccccccccccHHHHhcchhhhhhhhhhccccchhhhh
Q 023366 150 RHVECLVIVSDDSDFVDVLQEAKY--RCLKTVVVGDINDGALKRIADASFSWRDILMGKAKKEAVSVVGKWEDRDILK 225 (283)
Q Consensus 150 ~~v~~lvlvsdd~~f~~~l~~ar~--~~~~tvvvg~~~~~~l~r~ad~~~sW~~v~~g~~~~~a~~~~~~w~~~~~~~ 225 (283)
.||- ++|||.|.-+. +.|++ =++.||+| ..+++|+|-..+|.+++.. +.++.|.+++.+-+....++
T Consensus 146 ~GVP-V~lVsGD~~l~---~ea~~~~P~~~tv~v----K~~~gr~aA~~~~p~~a~~-~i~~~a~~Al~~~~~~~p~~ 214 (265)
T PF04951_consen 146 YGVP-VVLVSGDDALC---EEAKELLPWIVTVAV----KEGIGRYAAISLHPAEACE-RIREAAKEALERLREIKPLK 214 (265)
T ss_dssp TT---EEEEEEEHHHH---HHHHTTSTT-EEEEE----EEEEETTEEEE--HHHHHH-HHHHHHHHHHHSGGG-----
T ss_pred cCCc-EEEEeCcHHHH---HHHHHhCCCceEEEE----ecccCCCccccCCHHHHHH-HHHHHHHHHHHhcccCCCCC
Confidence 4554 56777776443 44554 37889998 3569999999999988764 56666666666665555554
No 309
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=37.26 E-value=28 Score=33.63 Aligned_cols=54 Identities=26% Similarity=0.349 Sum_probs=42.8
Q ss_pred ccEEEEE--eCCcchH-HHHHHHHHcCCcEEEEccCCCccccccccccccH---HHHhcc
Q 023366 152 VECLVIV--SDDSDFV-DVLQEAKYRCLKTVVVGDINDGALKRIADASFSW---RDILMG 205 (283)
Q Consensus 152 v~~lvlv--sdd~~f~-~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW---~~v~~g 205 (283)
-||||=+ |...-|+ +.|+.||++|..||-|...++-.+.+.||+.++= -||.+|
T Consensus 130 ~DvvvgIaASGrTPYvigal~yAr~~Ga~Ti~iacNp~s~i~~~Ad~~I~~~vGPEvltG 189 (298)
T COG2103 130 KDVVVGIAASGRTPYVIGALEYARQRGATTIGIACNPGSAISRIADIAIEPVVGPEVLTG 189 (298)
T ss_pred CCEEEEEecCCCCchhhHHHHHHHhcCCeEEEeecCCCchhhhhcCcceeeccCcccccc
Confidence 3577555 5555554 8999999999999999998888999999998876 455554
No 310
>PRK06769 hypothetical protein; Validated
Probab=36.84 E-value=1e+02 Score=26.46 Aligned_cols=16 Identities=19% Similarity=0.374 Sum_probs=7.7
Q ss_pred hhhhcCeeeeecCCCc
Q 023366 117 ELKRAGFWVRTVSDKP 132 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp 132 (283)
.|+..|+.+-.+++++
T Consensus 39 ~Lk~~G~~l~I~Tn~~ 54 (173)
T PRK06769 39 KLKANHIKIFSFTNQP 54 (173)
T ss_pred HHHHCCCEEEEEECCc
Confidence 4444455555555444
No 311
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. 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=36.81 E-value=85 Score=29.05 Aligned_cols=67 Identities=10% Similarity=0.096 Sum_probs=44.6
Q ss_pred chhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHHcCCc-EEEEc
Q 023366 113 GLADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDS-DFVDVLQEAKYRCLK-TVVVG 182 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~-~f~~~l~~ar~~~~~-tvvvg 182 (283)
++...+++.|+.|-....- |.+.| +-..+.+++ ..+.+-|+++.... +|..+++.++..|+. ++++|
T Consensus 155 ~~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~-~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 224 (333)
T cd06328 155 AFKAALEKLGAAIVTEEYAPTDTTD--FTPYAQRLL-DALKKVLFVIWAGAGGPWPKLQQMGVLGYGIEITLA 224 (333)
T ss_pred HHHHHHHhCCCEEeeeeeCCCCCcc--hHHHHHHHH-hcCCCEEEEEecCchhHHHHHHHhhhhcCCCeEEec
Confidence 3455677889888643322 33444 444555666 67889888775554 899999999998888 44444
No 312
>PRK13059 putative lipid kinase; Reviewed
Probab=36.72 E-value=96 Score=28.94 Aligned_cols=56 Identities=11% Similarity=0.087 Sum_probs=35.5
Q ss_pred hhhhhhhcCeeeeec-CCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcC
Q 023366 114 LADELKRAGFWVRTV-SDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRC 175 (283)
Q Consensus 114 la~~L~RaG~~V~~v-~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~ 175 (283)
+...|.++|+.+... ...+..+ ++ ..+.+ ..+.+.||.+..|=-+..+++..-..+
T Consensus 24 i~~~l~~~g~~~~~~~~~~~~~~--~~---~~~~~-~~~~d~vi~~GGDGTv~evv~gl~~~~ 80 (295)
T PRK13059 24 VIRIHQEKGYLVVPYRISLEYDL--KN---AFKDI-DESYKYILIAGGDGTVDNVVNAMKKLN 80 (295)
T ss_pred HHHHHHHCCcEEEEEEccCcchH--HH---HHHHh-hcCCCEEEEECCccHHHHHHHHHHhcC
Confidence 344677889775532 2222222 22 22334 467899999999999999998877554
No 313
>TIGR01454 AHBA_synth_RP 3-amino-5-hydroxybenoic acid synthesis related protein. The most closely related enzyme below the noise cutoff is IndB which is involved in the biosynthesis of Indigoidine in Pectobacterium (Erwinia) chrysanthemi, a gamma proteobacter. This enzyme is similarly related to PGP. In this case, too it is unclear what role would be be played by a PGPase activity.
Probab=36.69 E-value=1.7e+02 Score=25.06 Aligned_cols=28 Identities=21% Similarity=0.173 Sum_probs=19.4
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
+.|..| .-+-..|++.|+.+-.+++++.
T Consensus 74 ~~~~~g~~~~L~~L~~~g~~~~i~Sn~~~ 102 (205)
T TIGR01454 74 VEVFPGVPELLAELRADGVGTAIATGKSG 102 (205)
T ss_pred cccCCCHHHHHHHHHHCCCeEEEEeCCch
Confidence 444445 5566667778888888888765
No 314
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=36.61 E-value=60 Score=31.25 Aligned_cols=63 Identities=17% Similarity=0.307 Sum_probs=43.8
Q ss_pred hhhcCeeeee--cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEE----EEccC
Q 023366 118 LKRAGFWVRT--VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTV----VVGDI 184 (283)
Q Consensus 118 L~RaG~~V~~--v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tv----vvg~~ 184 (283)
++..|..|.. +.... |.-....+.+ |...+.++|||.+-...-..+|+.|++.|+.+- ++|+.
T Consensus 147 ~~~~g~~v~~~~~~~~~---~~d~~~~L~~-ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~ 215 (371)
T cd06388 147 AGQNGWQVSAICVENFN---DASYRRLLED-LDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANL 215 (371)
T ss_pred hHhcCCeeeeEEeccCC---cHHHHHHHHH-hcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccC
Confidence 3456866553 33222 2233333333 446799999999999999999999999999886 77763
No 315
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=36.58 E-value=1.8e+02 Score=21.59 Aligned_cols=64 Identities=27% Similarity=0.370 Sum_probs=42.2
Q ss_pred chhhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEe--CCcchHHHHHHHHHcC--CcEEEEccCC
Q 023366 113 GLADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVS--DDSDFVDVLQEAKYRC--LKTVVVGDIN 185 (283)
Q Consensus 113 gla~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvs--dd~~f~~~l~~ar~~~--~~tvvvg~~~ 185 (283)
.+...|++.|+ .|.++.+..+|-. .+.+...+.+++-. .+-+-.++++..|..+ .+.|++++..
T Consensus 13 ~l~~~l~~~~~~~v~~~~~~~~~~~---------~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~~~ 81 (112)
T PF00072_consen 13 LLEKLLERAGYEEVTTASSGEEALE---------LLKKHPPDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVTDED 81 (112)
T ss_dssp HHHHHHHHTTEEEEEEESSHHHHHH---------HHHHSTESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEESST
T ss_pred HHHHHHHhCCCCEEEEECCHHHHHH---------HhcccCceEEEEEeeeccccccccccccccccccccEEEecCCC
Confidence 45566778999 8888777555321 23345577776653 4456667777777754 8888888764
No 316
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=36.56 E-value=53 Score=26.34 Aligned_cols=64 Identities=16% Similarity=0.160 Sum_probs=37.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL 176 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~ 176 (283)
.|+...++..|+.+....-...-.+......+..+|++.+.+ .|+++++.-..++++.++++|+
T Consensus 29 ~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~pd-aii~~~~~~a~~~~~~l~~~g~ 92 (160)
T PF13377_consen 29 EGFREALKEHGIEFEELIFFSDDDSEDAREAQLLWLRRLRPD-AIICSNDRLALGVLRALRELGI 92 (160)
T ss_dssp HHHHHHHHHTTSEEEGEEEEESSSHHHHHHHHHHHHHTCSSS-EEEESSHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHCCCCCCeeEeecCCcchhHHHHHHHHHhcCCCc-EEEEcCHHHHHHHHHHHHHcCC
Confidence 456666677887765322222111111111111134333443 6777999999999999999988
No 317
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=36.49 E-value=69 Score=32.38 Aligned_cols=66 Identities=11% Similarity=0.239 Sum_probs=43.9
Q ss_pred hhhhhhcCeeeee---cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE-EEEcc
Q 023366 115 ADELKRAGFWVRT---VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT-VVVGD 183 (283)
Q Consensus 115 a~~L~RaG~~V~~---v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t-vvvg~ 183 (283)
...+++.|+-|.. +...+.+.| +...+..+. ..+.+.||+.+...+...+++.|+++|+.- +.||.
T Consensus 208 ~~~~~~~Gi~I~~~~~i~~~~~~~d--~~~~l~klk-~~~a~vVvl~~~~~~~~~ll~qa~~~g~~~~iwI~s 277 (510)
T cd06364 208 REEAEERDICIDFSELISQYSDEEE--IQRVVEVIQ-NSTAKVIVVFSSGPDLEPLIKEIVRRNITGKIWLAS 277 (510)
T ss_pred HHHHHHCCcEEEEEEEeCCCCCHHH--HHHHHHHHH-hcCCeEEEEEeCcHHHHHHHHHHHHhCCCCcEEEEE
Confidence 3456678987753 233222233 333333333 568999999999999999999999999863 34444
No 318
>cd00763 Bacterial_PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent phosphofructokinases. These are allosrterically regulated homotetramers; the subunits are of about 320 amino acids.
Probab=36.47 E-value=1.1e+02 Score=29.69 Aligned_cols=64 Identities=14% Similarity=0.299 Sum_probs=48.8
Q ss_pred hhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 023366 116 DELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 116 ~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvv 181 (283)
..+...|-...|-+..|.. +..-.+.+.+.|.+++|+.|+.+-.|--|..+.+++.. ++..|.|
T Consensus 58 ~~~~~gGt~LgtsR~~~~~-~~~~~~~~~~~l~~~~Id~Li~IGGdgs~~~a~~L~e~-~i~vigi 121 (317)
T cd00763 58 DIINRGGTFLGSARFPEFK-DEEGQAKAIEQLKKHGIDALVVIGGDGSYMGAMRLTEH-GFPCVGL 121 (317)
T ss_pred hHHhCCCeeeccCCCCccC-CHHHHHHHHHHHHHcCCCEEEEECCchHHHHHHHHHHc-CCCEEEe
Confidence 3355678777776654443 34566777888889999999999999999999998875 6766655
No 319
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=36.40 E-value=56 Score=27.81 Aligned_cols=34 Identities=12% Similarity=0.255 Sum_probs=26.1
Q ss_pred ccEEEEEeCCcch----------HHHHHHHHHcCCcEEEEccCC
Q 023366 152 VECLVIVSDDSDF----------VDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 152 v~~lvlvsdd~~f----------~~~l~~ar~~~~~tvvvg~~~ 185 (283)
...|||+||-.+- ..+.+.+++.|+..++||...
T Consensus 99 ~~~ivliTDG~~~~g~~~~~~~~~~~~~~l~~~gi~v~~I~~~~ 142 (178)
T cd01451 99 RPLIVVITDGRANVGPDPTADRALAAARKLRARGISALVIDTEG 142 (178)
T ss_pred ceEEEEECCCCCCCCCCchhHHHHHHHHHHHhcCCcEEEEeCCC
Confidence 5689999987643 345677789999999998754
No 320
>PRK13055 putative lipid kinase; Reviewed
Probab=36.22 E-value=1e+02 Score=29.39 Aligned_cols=88 Identities=15% Similarity=0.192 Sum_probs=47.5
Q ss_pred hccCCCCCc--------hhhhhhhcCeeeeecCCC--chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHc
Q 023366 105 ILTPKIGYG--------LADELKRAGFWVRTVSDK--PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYR 174 (283)
Q Consensus 105 ~l~pk~gyg--------la~~L~RaG~~V~~v~dk--p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~ 174 (283)
++-|.+|-| +...|+.+|+.+..+.-+ +-.+ ..+.+.+ . ..+.++||.+..|=-...++......
T Consensus 8 I~NP~sG~~~~~~~~~~i~~~l~~~g~~~~i~~t~~~~~~a-~~~~~~~---~-~~~~d~vvv~GGDGTl~evvngl~~~ 82 (334)
T PRK13055 8 IYNPTSGQEIMKKNVADILDILEQAGYETSAFQTTPEPNSA-KNEAKRA---A-EAGFDLIIAAGGDGTINEVVNGIAPL 82 (334)
T ss_pred EECCCCCchhHHHHHHHHHHHHHHcCCeEEEEEeecCCccH-HHHHHHH---h-hcCCCEEEEECCCCHHHHHHHHHhhc
Confidence 455666632 345677888876543222 2111 1222222 2 45788999999998888888766543
Q ss_pred C--CcEEEEccCCCccccccccccc
Q 023366 175 C--LKTVVVGDINDGALKRIADASF 197 (283)
Q Consensus 175 ~--~~tvvvg~~~~~~l~r~ad~~~ 197 (283)
+ +---||=.++.-.++|.-.+..
T Consensus 83 ~~~~~LgiiP~GTgNdfAr~Lgi~~ 107 (334)
T PRK13055 83 EKRPKMAIIPAGTTNDYARALKIPR 107 (334)
T ss_pred CCCCcEEEECCCchhHHHHHcCCCC
Confidence 2 2223333333334666655544
No 321
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=35.64 E-value=12 Score=28.02 Aligned_cols=24 Identities=33% Similarity=0.663 Sum_probs=0.0
Q ss_pred cCCCCCCccCCchhHhhhhhcccc
Q 023366 43 VCGVCGRRFYSNEKLVNHFKQIHE 66 (283)
Q Consensus 43 kC~vCGKsFss~ssLkrH~KriHt 66 (283)
+|..|+..|.....|..|++..|.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~ 24 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHG 24 (100)
T ss_dssp ------------------------
T ss_pred Cccccccccccccccccccccccc
Confidence 589999999999999999844443
No 322
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=35.60 E-value=1.1e+02 Score=29.80 Aligned_cols=77 Identities=19% Similarity=0.276 Sum_probs=47.2
Q ss_pred hhhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcch---HHHHHHHHHcCCcEEE-EccCCC
Q 023366 114 LADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDF---VDVLQEAKYRCLKTVV-VGDIND 186 (283)
Q Consensus 114 la~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f---~~~l~~ar~~~~~tvv-vg~~~~ 186 (283)
+..++++-|. .|-.|.|+ ...+..+...+...|...|+++.+. |.-++.+ ..+++.+|+.+...|| ||+++-
T Consensus 21 l~~~~~~~g~~~~lvvtd~-~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~ 99 (382)
T PRK10624 21 LTDEVKRRGFKKALIVTDK-TLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGGSP 99 (382)
T ss_pred HHHHHHhcCCCEEEEEeCc-chhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChHH
Confidence 3344555553 44455664 3344446777777887778887654 3334444 4556788888998887 888764
Q ss_pred ccccc
Q 023366 187 GALKR 191 (283)
Q Consensus 187 ~~l~r 191 (283)
..+++
T Consensus 100 iD~aK 104 (382)
T PRK10624 100 QDTCK 104 (382)
T ss_pred HHHHH
Confidence 44444
No 323
>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=35.36 E-value=96 Score=28.71 Aligned_cols=61 Identities=7% Similarity=-0.003 Sum_probs=44.9
Q ss_pred chhhhhhhcCeeeeec-CCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC
Q 023366 113 GLADELKRAGFWVRTV-SDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL 176 (283)
Q Consensus 113 gla~~L~RaG~~V~~v-~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~ 176 (283)
++...+++.|+.|-.. .-.+.++| +..++.++. ..+.+.|++.....+...+++.++++|+
T Consensus 151 ~~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~-~~~pd~v~~~~~~~~~~~~~~~~~~~G~ 212 (334)
T cd06356 151 WVRKIVEENGGEVVGEEFIPLDVSD--FGSTIQKIQ-AAKPDFVMSILVGANHLSFYRQWAAAGL 212 (334)
T ss_pred HHHHHHHHcCCEEEeeeecCCCchh--HHHHHHHHH-hcCCCEEEEeccCCcHHHHHHHHHHcCC
Confidence 3456778889877432 22333455 455666666 6789999998888899999999999999
No 324
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=35.24 E-value=60 Score=27.30 Aligned_cols=36 Identities=19% Similarity=0.183 Sum_probs=27.3
Q ss_pred CccEEEEEeCCcch------------HHH---HHHHHHcCCcEEEEccCCC
Q 023366 151 HVECLVIVSDDSDF------------VDV---LQEAKYRCLKTVVVGDIND 186 (283)
Q Consensus 151 ~v~~lvlvsdd~~f------------~~~---l~~ar~~~~~tvvvg~~~~ 186 (283)
+-..|||+||-.+- .++ .+.|++.|+...+||.+++
T Consensus 103 ~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~~ 153 (174)
T cd01454 103 KRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEVFGITIDRD 153 (174)
T ss_pred cCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEEEEEEecCc
Confidence 34579999997643 344 6778889999999998874
No 325
>TIGR01460 HAD-SF-IIA Haloacid Dehalogenase Superfamily Class (subfamily) IIA. Many of the genes in this subfamily have been annotated as "pNPPase" "4-nitrophenyl phosphatase" or "NPPase". These all refer to the same activity versus a common lab test compound used to determine phosphatase activity. There is no evidence that this activity is physiologically relevant.
Probab=35.13 E-value=1.2e+02 Score=27.30 Aligned_cols=62 Identities=23% Similarity=0.213 Sum_probs=34.1
Q ss_pred hhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 023366 116 DELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 116 ~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg 182 (283)
..+..++-...++..||. ..+...+.+.+ ....+..||+-.|+-..|+. .|++.|++||.|.
T Consensus 173 ~~i~~~~g~~~~~~~KP~---~~~~~~~~~~~-~~~~~~~~~~IGD~~~~Di~-~A~~~G~~~i~v~ 234 (236)
T TIGR01460 173 AGIKELSGREPTVVGKPS---PAIYRAALNLL-QARPERRDVMVGDNLRTDIL-GAKNAGFDTLLVL 234 (236)
T ss_pred HHHHHHhCceeeeecCCC---HHHHHHHHHHh-CCCCccceEEECCCcHHHHH-HHHHCCCcEEEEe
Confidence 334443333333456776 44555554444 22223333444455555654 6899999999985
No 326
>PRK13054 lipid kinase; Reviewed
Probab=34.97 E-value=1e+02 Score=28.71 Aligned_cols=81 Identities=10% Similarity=-0.020 Sum_probs=47.3
Q ss_pred hhhhhhhcCeeeeecC-CC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHc--C--CcEEEEccCCCc
Q 023366 114 LADELKRAGFWVRTVS-DK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYR--C--LKTVVVGDINDG 187 (283)
Q Consensus 114 la~~L~RaG~~V~~v~-dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~--~--~~tvvvg~~~~~ 187 (283)
+...|.++|+.+.... .. .+|.+ +.+. .+ ..+.+.||.+..|=-+..++...... + +.--||=.++.-
T Consensus 23 ~~~~l~~~g~~~~v~~t~~~~~a~~--~a~~---~~-~~~~d~vvv~GGDGTl~evv~~l~~~~~~~~~~lgiiP~GTgN 96 (300)
T PRK13054 23 AVGLLREEGHTLHVRVTWEKGDAAR--YVEE---AL-ALGVATVIAGGGDGTINEVATALAQLEGDARPALGILPLGTAN 96 (300)
T ss_pred HHHHHHHcCCEEEEEEecCCCcHHH--HHHH---HH-HcCCCEEEEECCccHHHHHHHHHHhhccCCCCcEEEEeCCcHh
Confidence 4556888998765322 22 23322 2222 34 46789999999999999999887644 2 222333333333
Q ss_pred cccccccccccHH
Q 023366 188 ALKRIADASFSWR 200 (283)
Q Consensus 188 ~l~r~ad~~~sW~ 200 (283)
.++|.-.+..+|+
T Consensus 97 dfar~lgi~~~~~ 109 (300)
T PRK13054 97 DFATAAGIPLEPD 109 (300)
T ss_pred HHHHhcCCCCCHH
Confidence 4666655555553
No 327
>TIGR00213 GmhB_yaeD D,D-heptose 1,7-bisphosphate phosphatase. This family of proteins formerly designated yaeD resembles the histidinol phosphatase domain of the bifunctional protein HisB. The member from E. coli has been characterized as D,D-heptose 1,7-bisphosphate phosphatase, GmhB, involved in inner core LPS assembly (PubMed:11751812).
Probab=34.73 E-value=1.5e+02 Score=25.21 Aligned_cols=10 Identities=30% Similarity=0.116 Sum_probs=5.5
Q ss_pred HHHHHcCCcE
Q 023366 169 QEAKYRCLKT 178 (283)
Q Consensus 169 ~~ar~~~~~t 178 (283)
..|+..|++|
T Consensus 137 ~aA~~aG~~~ 146 (176)
T TIGR00213 137 QAGVAAKVKT 146 (176)
T ss_pred HHHHHCCCcE
Confidence 4555555555
No 328
>TIGR01672 AphA HAD superfamily (subfamily IIIB) phosphatase, TIGR01672. Supporting evidence for the inclusion in the HAD superfamily, whose phosphatase members are magnesium dependent, is the inhibition by EDTA and calcium ions, and stimulation by magnesium ion.
Probab=34.55 E-value=92 Score=28.80 Aligned_cols=84 Identities=15% Similarity=0.188 Sum_probs=46.2
Q ss_pred HHHHHHhhhccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCcc---EEEEEeCCcc---hHHHHH
Q 023366 97 KYKRAARAILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVE---CLVIVSDDSD---FVDVLQ 169 (283)
Q Consensus 97 KY~~AA~~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~---~lvlvsdd~~---f~~~l~ 169 (283)
.|.........|..+ ..|-..|+..|+.+-.|+++.+.--..+.+. ++...|+. .+++=+|+.. ... ..
T Consensus 104 ~~~~~~~~~s~p~~~a~elL~~l~~~G~~i~iVTnr~~~k~~~~a~~---ll~~lGi~~~f~~i~~~d~~~~~Kp~~-~~ 179 (237)
T TIGR01672 104 KVNNGWDEFSIPKEVARQLIDMHQRRGDAIFFVTGRTPGKTDTVSKT---LAKNFHIPAMNPVIFAGDKPGQYQYTK-TQ 179 (237)
T ss_pred HHHHhcccCCcchhHHHHHHHHHHHCCCEEEEEeCCCCCcCHHHHHH---HHHHhCCchheeEEECCCCCCCCCCCH-HH
Confidence 444444444455543 6677788899999999999844211123333 34345665 3333334421 112 23
Q ss_pred HHHHcCCcEEEEccCC
Q 023366 170 EAKYRCLKTVVVGDIN 185 (283)
Q Consensus 170 ~ar~~~~~tvvvg~~~ 185 (283)
.+.+.|+ ++.|||+.
T Consensus 180 ~l~~~~i-~i~vGDs~ 194 (237)
T TIGR01672 180 WIQDKNI-RIHYGDSD 194 (237)
T ss_pred HHHhCCC-eEEEeCCH
Confidence 3445666 79999974
No 329
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=34.52 E-value=19 Score=24.14 Aligned_cols=26 Identities=23% Similarity=0.487 Sum_probs=15.7
Q ss_pred CCCCccCCCCCCccCCc----hhHhhhhhc
Q 023366 38 PAEPYVCGVCGRRFYSN----EKLVNHFKQ 63 (283)
Q Consensus 38 GEKPykC~vCGKsFss~----ssLkrH~Kr 63 (283)
+..-..|..|++.+... +.|.+|++.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 34567899999987664 678888733
No 330
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=34.46 E-value=1.1e+02 Score=29.72 Aligned_cols=69 Identities=12% Similarity=0.116 Sum_probs=43.5
Q ss_pred eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCCCcccccc
Q 023366 124 WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDINDGALKRI 192 (283)
Q Consensus 124 ~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~~~l~r~ 192 (283)
.+-.|.|+....-..+...+...|...|++..+. |..++.+. .+++.+++.+...|| ||+++-...++.
T Consensus 28 r~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~aK~ 102 (383)
T cd08186 28 KVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIGGGSPIDSAKS 102 (383)
T ss_pred EEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCccHHHHHHH
Confidence 4556677655433445566777777778887655 44344544 666777788887777 888764444444
No 331
>TIGR01490 HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrolase, TIGR01490. A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog.
Probab=34.14 E-value=1.1e+02 Score=25.85 Aligned_cols=64 Identities=13% Similarity=0.092 Sum_probs=38.1
Q ss_pred hhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEE---EEe-CCcchH--------------H-HHHHHHHcC
Q 023366 115 ADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLV---IVS-DDSDFV--------------D-VLQEAKYRC 175 (283)
Q Consensus 115 a~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lv---lvs-dd~~f~--------------~-~l~~ar~~~ 175 (283)
-..++..|+.|-.++..|+ .+.+.+ +...|++.++ ++. ++-.|+ . +...+.+.+
T Consensus 96 l~~l~~~g~~v~ivS~s~~----~~v~~~---~~~lg~~~~~~~~l~~~~~g~~~g~~~~~~~~g~~K~~~l~~~~~~~~ 168 (202)
T TIGR01490 96 IRWHKAEGHTIVLVSASLT----ILVKPL---ARILGIDNAIGTRLEESEDGIYTGNIDGNNCKGEGKVHALAELLAEEQ 168 (202)
T ss_pred HHHHHHCCCEEEEEeCCcH----HHHHHH---HHHcCCcceEecceEEcCCCEEeCCccCCCCCChHHHHHHHHHHHHcC
Confidence 3445678999999999998 333333 3334666443 333 431222 2 334455567
Q ss_pred C---cEEEEccCC
Q 023366 176 L---KTVVVGDIN 185 (283)
Q Consensus 176 ~---~tvvvg~~~ 185 (283)
+ .++.|||+.
T Consensus 169 ~~~~~~~~~gDs~ 181 (202)
T TIGR01490 169 IDLKDSYAYGDSI 181 (202)
T ss_pred CCHHHcEeeeCCc
Confidence 7 578999964
No 332
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=34.06 E-value=17 Score=31.22 Aligned_cols=25 Identities=28% Similarity=0.647 Sum_probs=15.0
Q ss_pred CccCCCCCCccCCchhHhhhhhccccccc
Q 023366 41 PYVCGVCGRRFYSNEKLVNHFKQIHEREQ 69 (283)
Q Consensus 41 PykC~vCGKsFss~ssLkrH~KriHtGEK 69 (283)
--.|-+||+.|.. |++|. +.|.|-.
T Consensus 72 ~i~clecGk~~k~---LkrHL-~~~~glt 96 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHL-RTHHGLT 96 (132)
T ss_dssp -EE-TBT--EESB---HHHHH-HHTT-S-
T ss_pred eeEEccCCcccch---HHHHH-HHccCCC
Confidence 3579999999977 58888 7776544
No 333
>TIGR01459 HAD-SF-IIA-hyp4 HAD-superfamily class IIA hydrolase, TIGR01459. 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 negative and primarily alpha proteobacteria. Only one sequence hase been annotated as other than "hypothetical." That one, from Brucella, is annotated as related to NagD, but only by sequence similarity and should be treated with some skepticism. (See comments for Class IIA subfamily)
Probab=33.86 E-value=65 Score=28.86 Aligned_cols=67 Identities=18% Similarity=0.208 Sum_probs=37.7
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccE-E--EEEeCCcchHHHHHH-HHHcCC---cEEEEccCC
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVEC-L--VIVSDDSDFVDVLQE-AKYRCL---KTVVVGDIN 185 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~-l--vlvsdd~~f~~~l~~-ar~~~~---~tvvvg~~~ 185 (283)
+-..|+.+|+.+..+++++.-. +. +...|.+.|+.. . .+++.+.-....|.. +++.|+ +.++|||..
T Consensus 32 ~L~~L~~~G~~~~ivTN~~~~~--~~---~~~~L~~~gl~~~~~~~Ii~s~~~~~~~l~~~~~~~~~~~~~~~~vGd~~ 105 (242)
T TIGR01459 32 NLNKIIAQGKPVYFVSNSPRNI--FS---LHKTLKSLGINADLPEMIISSGEIAVQMILESKKRFDIRNGIIYLLGHLE 105 (242)
T ss_pred HHHHHHHCCCEEEEEeCCCCCh--HH---HHHHHHHCCCCccccceEEccHHHHHHHHHhhhhhccCCCceEEEeCCcc
Confidence 4456788999999998887621 11 112344567764 1 333333332344444 344444 489999864
No 334
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=33.80 E-value=71 Score=35.26 Aligned_cols=43 Identities=21% Similarity=0.310 Sum_probs=30.2
Q ss_pred ccEEEEEeCCcch--HHHHHHHHHcCCc--EEEEccCCCcccccccc
Q 023366 152 VECLVIVSDDSDF--VDVLQEAKYRCLK--TVVVGDINDGALKRIAD 194 (283)
Q Consensus 152 v~~lvlvsdd~~f--~~~l~~ar~~~~~--tvvvg~~~~~~l~r~ad 194 (283)
...|||+||..+. ..+++.++++|+. ||-+|...+..|.+.|+
T Consensus 405 ~~~IILLTDGedn~~~~~l~~lk~~gVtI~TIg~G~dad~~L~~IA~ 451 (863)
T TIGR00868 405 GSEIVLLTDGEDNTISSCFEEVKQSGAIIHTIALGPSAAKELEELSD 451 (863)
T ss_pred CCEEEEEeCCCCCCHHHHHHHHHHcCCEEEEEEeCCChHHHHHHHHH
Confidence 4689999998865 5778888888887 66666554444444433
No 335
>PRK10725 fructose-1-P/6-phosphogluconate phosphatase; Provisional
Probab=33.78 E-value=2.3e+02 Score=23.61 Aligned_cols=20 Identities=25% Similarity=0.298 Sum_probs=11.4
Q ss_pred HHHHHHHHcCCc---EEEEccCC
Q 023366 166 DVLQEAKYRCLK---TVVVGDIN 185 (283)
Q Consensus 166 ~~l~~ar~~~~~---tvvvg~~~ 185 (283)
.+++.+++.|+. +|+|||+.
T Consensus 147 ~~~~~~~~~~~~~~~~l~igDs~ 169 (188)
T PRK10725 147 TFLRCAQLMGVQPTQCVVFEDAD 169 (188)
T ss_pred HHHHHHHHcCCCHHHeEEEeccH
Confidence 345555555543 67777753
No 336
>TIGR01522 ATPase-IIA2_Ca golgi membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1 the former of which is modelled by TIGR01116.
Probab=33.69 E-value=91 Score=33.97 Aligned_cols=38 Identities=18% Similarity=0.236 Sum_probs=28.6
Q ss_pred chHHHHHHHHHcCCcEEEEccC-CCccccccccccccHH
Q 023366 163 DFVDVLQEAKYRCLKTVVVGDI-NDGALKRIADASFSWR 200 (283)
Q Consensus 163 ~f~~~l~~ar~~~~~tvvvg~~-~~~~l~r~ad~~~sW~ 200 (283)
+=..+++..++.|-.+.+|||+ +|-.--+.||++++|.
T Consensus 605 ~K~~iv~~lq~~g~~v~mvGDGvND~pAl~~AdVGia~g 643 (884)
T TIGR01522 605 HKMKIVKALQKRGDVVAMTGDGVNDAPALKLADIGVAMG 643 (884)
T ss_pred HHHHHHHHHHHCCCEEEEECCCcccHHHHHhCCeeEecC
Confidence 3456788888889888899994 4444557799999884
No 337
>cd02750 MopB_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. Members of the MopB_Nitrate-R-NarG-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=33.63 E-value=67 Score=31.86 Aligned_cols=72 Identities=22% Similarity=0.236 Sum_probs=46.8
Q ss_pred CccEEEEEeCCcc-----hHHHHHHHHHcCCcEEEEccCCCccccccccccccH-----HHHhcchhhhhhhhhhccccc
Q 023366 151 HVECLVIVSDDSD-----FVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW-----RDILMGKAKKEAVSVVGKWED 220 (283)
Q Consensus 151 ~v~~lvlvsdd~~-----f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW-----~~v~~g~~~~~a~~~~~~w~~ 220 (283)
.-++||++.-|.. +...|+.||++|.+-|||.-.- -.....||.|++= ..++.|-++.- ....|-|
T Consensus 170 ~ad~il~~G~N~~~~~~~~~~~l~~ar~~GaklividPr~-s~ta~~Ad~~l~i~PGtD~al~lal~~~i---~~~~~~d 245 (461)
T cd02750 170 NADYIIMWGSNVPVTRTPDAHFLTEARYNGAKVVVVSPDY-SPSAKHADLWVPIKPGTDAALALAMAHVI---IKEKLYD 245 (461)
T ss_pred cCcEEEEECCChHHccCchHHHHHHHHHCCCEEEEEcCCC-CcchhhcCEEeccCCCcHHHHHHHHHHHH---HHcCCcc
Confidence 5679999977742 2345677999999999996653 4567779988853 22333333332 2235777
Q ss_pred hhhhhh
Q 023366 221 RDILKR 226 (283)
Q Consensus 221 ~~~~~~ 226 (283)
.++|++
T Consensus 246 ~~fl~~ 251 (461)
T cd02750 246 EDYLKE 251 (461)
T ss_pred HHHHHH
Confidence 777764
No 338
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=33.62 E-value=1.5e+02 Score=26.28 Aligned_cols=69 Identities=9% Similarity=0.062 Sum_probs=38.6
Q ss_pred chhhhhhhc-CeeeeecCCCchhHHHHHHHHHHHHHhhc-CccEEEEEeCCcchHHHHHHHHHcCCc--EEEEcc
Q 023366 113 GLADELKRA-GFWVRTVSDKPQAADVALRNHMVDMMDKR-HVECLVIVSDDSDFVDVLQEAKYRCLK--TVVVGD 183 (283)
Q Consensus 113 gla~~L~Ra-G~~V~~v~dkp~aaD~al~~~~~~~~~~~-~v~~lvlvsdd~~f~~~l~~ar~~~~~--tvvvg~ 183 (283)
|+...++.+ |+.+..+...+...+.+ ...|.++|... .++ .|+.+.|.-..++|+.++++|+. -.|||-
T Consensus 151 gf~~al~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-ai~~~nd~~A~g~l~al~~~G~~~dv~vvg~ 223 (280)
T cd06303 151 TFIDCVHARNNWTLTSEFYTDATRQKA-YQATSDILSNNPDVD-FIYACSTDIALGASDALKELGREDDILINGW 223 (280)
T ss_pred HHHHHHHhCCCceEEEeecCCCCHHHH-HHHHHHHHHhCCCCc-EEEECCcHHHHHHHHHHHHcCCCCCcEEEec
Confidence 555556665 65543322223333333 34566677321 244 45566666677999999999985 344443
No 339
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=33.58 E-value=59 Score=27.80 Aligned_cols=65 Identities=17% Similarity=0.273 Sum_probs=43.4
Q ss_pred Cchhhhhhhc-CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeC-------CcchHHHHHHHHHcCCcEEE
Q 023366 112 YGLADELKRA-GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSD-------DSDFVDVLQEAKYRCLKTVV 180 (283)
Q Consensus 112 ygla~~L~Ra-G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsd-------d~~f~~~l~~ar~~~~~tvv 180 (283)
-|.+..|+.. |+.|..|-..|...+ .++.+++.+..|+-+|-..| ..|...+.|.|-+.|+--+.
T Consensus 39 ~gTa~~L~~~~Gi~v~~vi~~~~gg~----~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T 111 (142)
T PRK05234 39 GTTGGLIQEATGLDVTRLLSGPLGGD----QQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVAT 111 (142)
T ss_pred ChHHHHHHhccCCeeEEEEcCCCCCc----hhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEc
Confidence 3668889999 999998743332222 34556665777777766654 22556888899998876554
No 340
>PLN02564 6-phosphofructokinase
Probab=33.55 E-value=1.1e+02 Score=31.77 Aligned_cols=60 Identities=25% Similarity=0.272 Sum_probs=46.7
Q ss_pred hhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH---cCCcEEEEcc
Q 023366 118 LKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY---RCLKTVVVGD 183 (283)
Q Consensus 118 L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~---~~~~tvvvg~ 183 (283)
+.+.|-...|-+.++ | ...|.+.|.++||+.||.+-.|--|..+.+++.+ +|++..|||.
T Consensus 149 ~~~GGTiLGTsR~~~---~---~~~iv~~L~~~~Id~LivIGGDGS~~gA~~L~e~~~~~g~~i~VIGI 211 (484)
T PLN02564 149 HKRGGTILGTSRGGH---D---TSKIVDSIQDRGINQVYIIGGDGTQKGASVIYEEIRRRGLKVAVAGI 211 (484)
T ss_pred hhCCCceeccCCCcc---h---HHHHHHHHHHhCCCEEEEECCchHHHHHHHHHHHHHHcCCCceEEEe
Confidence 346676677755544 2 3567788889999999999999999998887764 8999888874
No 341
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=33.53 E-value=25 Score=24.56 Aligned_cols=26 Identities=23% Similarity=0.612 Sum_probs=18.4
Q ss_pred CccCCCCCCccCCc-----hhHhhhhhcccc
Q 023366 41 PYVCGVCGRRFYSN-----EKLVNHFKQIHE 66 (283)
Q Consensus 41 PykC~vCGKsFss~-----ssLkrH~KriHt 66 (283)
--.|..|++.++.. +.|.+|++..|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 46799999987654 588888832454
No 342
>PRK05576 cobalt-precorrin-2 C(20)-methyltransferase; Validated
Probab=33.37 E-value=95 Score=27.83 Aligned_cols=58 Identities=12% Similarity=0.109 Sum_probs=41.3
Q ss_pred HHHHHHHhhcCccEEEEEeCCcch----HHHHHHHHHcCCcEEEEccCCCccccccccccccHH
Q 023366 141 NHMVDMMDKRHVECLVIVSDDSDF----VDVLQEAKYRCLKTVVVGDINDGALKRIADASFSWR 200 (283)
Q Consensus 141 ~~~~~~~~~~~v~~lvlvsdd~~f----~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~ 200 (283)
+.|.+.+ ..|-+..+|+|.|+-| ..+++.+++.|+.--||-+.+ -.-.=.|-+.++|.
T Consensus 81 ~~i~~~~-~~g~~V~~l~~GDP~~y~~~~~l~~~~~~~~~~v~viPGiS-s~~~a~a~~g~~l~ 142 (229)
T PRK05576 81 EEIAAEA-EEGKNVAFITLGDPNLYSTFSHLLEYLKCHDIEVETVPGIS-SFTAIASRAGVPLA 142 (229)
T ss_pred HHHHHHH-HcCCcEEEEeCcCccccccHHHHHHHHHhCCCCEEEeCChh-HHHHHHHHcCCCcc
Confidence 3444434 4677899999999988 677888887788888886654 22334477888897
No 343
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=33.33 E-value=1.1e+02 Score=29.78 Aligned_cols=72 Identities=19% Similarity=0.316 Sum_probs=45.4
Q ss_pred hhhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchHH---HHHHHHHcCCcEEE-EccCCC
Q 023366 114 LADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFVD---VLQEAKYRCLKTVV-VGDIND 186 (283)
Q Consensus 114 la~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~~---~l~~ar~~~~~tvv-vg~~~~ 186 (283)
+..++++.|. .+=.|.|+. .....+...+...|...|+++.+. |..++.... +.+.+|+.+...|| ||+++-
T Consensus 20 l~~~l~~~g~~r~lvvt~~~-~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGGSv 98 (379)
T TIGR02638 20 IVDEVKRRGFKKALVVTDKD-LIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGGSP 98 (379)
T ss_pred HHHHHHhcCCCEEEEEcCcc-hhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChHH
Confidence 3445555563 445566643 333346777888887778887665 344455555 56667788888777 777663
No 344
>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=32.92 E-value=89 Score=29.46 Aligned_cols=61 Identities=10% Similarity=0.162 Sum_probs=40.8
Q ss_pred hhhhhhhcCe----eeeecC-CCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 114 LADELKRAGF----WVRTVS-DKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 114 la~~L~RaG~----~V~~v~-dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
|...+++.|+ .|.... =.+...| +...+..+. ..+.+.|||.+...+...+++.|++.|+.
T Consensus 174 ~~~~~~~~g~~~~~~v~~~~~~~~~~~d--~~~~l~~ik-~~~~~vIvl~~~~~~~~~l~~qa~~~g~~ 239 (377)
T cd06379 174 FETLLEEREIEFKIKVEKVVEFEPGEKN--VTSLLQEAK-ELTSRVILLSASEDDAAVIYRNAGMLNMT 239 (377)
T ss_pred HHHHHHhcCCccceeeeEEEecCCchhh--HHHHHHHHh-hcCCeEEEEEcCHHHHHHHHHHHHHcCCC
Confidence 3346667787 443211 1223333 333444444 56899999999999999999999999985
No 345
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=32.52 E-value=63 Score=31.13 Aligned_cols=84 Identities=20% Similarity=0.235 Sum_probs=49.6
Q ss_pred cCCCCCchhhhhhhcCeeeeecCC---CchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHH-----------
Q 023366 107 TPKIGYGLADELKRAGFWVRTVSD---KPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAK----------- 172 (283)
Q Consensus 107 ~pk~gygla~~L~RaG~~V~~v~d---kp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar----------- 172 (283)
+|+.+..|+..|+..|..|-.++- .|-..+.+|...+.+.. ....+|||+.|-.. ...++...+
T Consensus 18 r~~~a~~la~~L~~~G~~~~~~P~i~i~~~~~~~~~~~~~~~l~-~~~~d~vvfTS~ng-v~~~~~~l~~~~~~~~~~~~ 95 (381)
T PRK07239 18 AARRAEELAALLERRGARVVHAPALRIVPLADDDELRAATRALI-AAPPDIVVATTGIG-FRGWVEAADGWGLADELLEA 95 (381)
T ss_pred ccCCHHHHHHHHHHcCCeEEEecCEEEecCCCcHHHHHHHHHHH-cCCCCEEEEeChHH-HHHHHHHHHHcCChHHHHHH
Confidence 334446678888888988764321 22111223333333333 35799999999765 222232222
Q ss_pred HcCCcEEEEccCCCcccccc
Q 023366 173 YRCLKTVVVGDINDGALKRI 192 (283)
Q Consensus 173 ~~~~~tvvvg~~~~~~l~r~ 192 (283)
-.+++.++||..+..+|.+.
T Consensus 96 l~~~~i~aVG~~Ta~aL~~~ 115 (381)
T PRK07239 96 LSSARLLARGPKATGAIRAA 115 (381)
T ss_pred HcCCeEEEECccHHHHHHHc
Confidence 25788999999887777654
No 346
>PRK11009 aphA acid phosphatase/phosphotransferase; Provisional
Probab=32.42 E-value=1.1e+02 Score=28.42 Aligned_cols=75 Identities=16% Similarity=0.186 Sum_probs=41.6
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCc--c---EEEEEeCCcchHHHHHHHHHcCCcEE
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHV--E---CLVIVSDDSDFVDVLQEAKYRCLKTV 179 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v--~---~lvlvsdd~~f~~~l~~ar~~~~~tv 179 (283)
..|.-| -.+-..|+..|+.+-.|+.+++.--....+.+ +...|+ + .+++-.|+..-.+-...+++.++ ++
T Consensus 113 a~p~~Ga~elL~~L~~~G~~I~iVTnR~~~k~~~t~~~L---lk~~gip~~~~f~vil~gd~~~K~~K~~~l~~~~i-~I 188 (237)
T PRK11009 113 SIPKEVARQLIDMHVKRGDSIYFITGRTATKTETVSKTL---ADDFHIPADNMNPVIFAGDKPGQYTKTQWLKKKNI-RI 188 (237)
T ss_pred CcchHHHHHHHHHHHHCCCeEEEEeCCCCcccHHHHHHH---HHHcCCCcccceeEEEcCCCCCCCCHHHHHHhcCC-eE
Confidence 444444 56667778899999999987642222222332 323566 4 33443332211222334456676 88
Q ss_pred EEccC
Q 023366 180 VVGDI 184 (283)
Q Consensus 180 vvg~~ 184 (283)
.|||.
T Consensus 189 ~IGDs 193 (237)
T PRK11009 189 FYGDS 193 (237)
T ss_pred EEcCC
Confidence 99996
No 347
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=32.13 E-value=1.8e+02 Score=27.97 Aligned_cols=72 Identities=18% Similarity=0.134 Sum_probs=43.2
Q ss_pred hhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCCCcc
Q 023366 116 DELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDINDGA 188 (283)
Q Consensus 116 ~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~~~ 188 (283)
.++++.|. .+-.|.|+-.. ....+.+.+...|++..+. |.-++.+. .+++.+|+.+...|| ||+++-..
T Consensus 16 ~~~~~~g~~~~livtd~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGs~~D 91 (367)
T cd08182 16 SLLKGLGGKRVLLVTGPRSA----IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGGSVLD 91 (367)
T ss_pred HHHHhcCCCeEEEEeCchHH----HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCcHHHH
Confidence 34444443 35566666553 3455666676677776654 44454444 566778888898877 78776333
Q ss_pred ccc
Q 023366 189 LKR 191 (283)
Q Consensus 189 l~r 191 (283)
+++
T Consensus 92 ~aK 94 (367)
T cd08182 92 TAK 94 (367)
T ss_pred HHH
Confidence 333
No 348
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=32.12 E-value=1.2e+02 Score=28.95 Aligned_cols=70 Identities=16% Similarity=0.154 Sum_probs=42.1
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcC-ccEEEEEeCC-----cchHHHHHHHHHcCCc---EEEEc
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRH-VECLVIVSDD-----SDFVDVLQEAKYRCLK---TVVVG 182 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~-v~~lvlvsdd-----~~f~~~l~~ar~~~~~---tvvvg 182 (283)
-+|...|+..|+.|..+..-+. .+.-+...+..+- ..+ .+.||+.+.. .+-..+|+.|++.|+. -+.||
T Consensus 150 ~~l~~~l~~~gi~v~~~~~~~~-~~~d~~~~L~~lk-~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~ 227 (382)
T cd06371 150 QKLASALRAHGLPVGLVTSMGP-DEKGAREALKKVR-SADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIP 227 (382)
T ss_pred HHHHHHHHHCCCcEEEEEEecC-CHHHHHHHHHHHh-cCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEE
Confidence 3466677788987664332221 2234555555544 334 4556654443 3447899999999998 46665
Q ss_pred c
Q 023366 183 D 183 (283)
Q Consensus 183 ~ 183 (283)
.
T Consensus 228 ~ 228 (382)
T cd06371 228 Y 228 (382)
T ss_pred e
Confidence 4
No 349
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. 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 the 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=32.07 E-value=83 Score=28.86 Aligned_cols=68 Identities=16% Similarity=0.228 Sum_probs=46.2
Q ss_pred hhhhhhhcCeeeeecCCC-chhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 114 LADELKRAGFWVRTVSDK-PQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dk-p~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
+...|++.|+.|-..... |...| ....+..++ ..+.+.|++.....+...+++.+++.|+..-++|.+
T Consensus 155 ~~~~~~~~g~~v~~~~~~~~~~~d--~~~~v~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (340)
T cd06349 155 FVKAAEKLGGQVVAHEEYVPGEKD--FRPTITRLR-DANPDAIILISYYNDGAPIARQARAVGLDIPVVASS 223 (340)
T ss_pred HHHHHHHcCCEEEEEEEeCCCCCc--HHHHHHHHH-hcCCCEEEEccccchHHHHHHHHHHcCCCCcEEccC
Confidence 456666788887632221 22223 233444445 678999999999999999999999999986666643
No 350
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=32.03 E-value=1.1e+02 Score=26.34 Aligned_cols=23 Identities=22% Similarity=0.361 Sum_probs=16.1
Q ss_pred CCcchHHHHHHHHHcCCcEEEEccC
Q 023366 160 DDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 160 dd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
||+. .+ +..|++.|++||.|.+.
T Consensus 165 gD~~-~d-i~aA~~aG~~~i~~~~~ 187 (199)
T PRK09456 165 DDNA-DN-IEAANALGITSILVTDK 187 (199)
T ss_pred CCCH-HH-HHHHHHcCCEEEEecCC
Confidence 4543 45 77888888888888664
No 351
>cd01477 vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of mo
Probab=32.03 E-value=76 Score=28.10 Aligned_cols=34 Identities=12% Similarity=0.178 Sum_probs=25.8
Q ss_pred cc-EEEEEeCC------cchHHHHHHHHHcCCcEEEEccCC
Q 023366 152 VE-CLVIVSDD------SDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 152 v~-~lvlvsdd------~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
+. .|||++|+ .+...+.+.+++.|+...+||.++
T Consensus 131 v~kvvIllTDg~~~~~~~~~~~~a~~l~~~GI~i~tVGiG~ 171 (193)
T cd01477 131 YKKVVIVFASDYNDEGSNDPRPIAARLKSTGIAIITVAFTQ 171 (193)
T ss_pred CCeEEEEEecCccCCCCCCHHHHHHHHHHCCCEEEEEEeCC
Confidence 44 47888874 256788888999999977777765
No 352
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=31.88 E-value=23 Score=32.35 Aligned_cols=52 Identities=17% Similarity=0.241 Sum_probs=44.1
Q ss_pred CCccCCCCCCccCCchhHhhhhhc--ccccc--cc---------ccccCchhhhhhhhhhhhhhhh
Q 023366 40 EPYVCGVCGRRFYSNEKLVNHFKQ--IHERE--QK---------KRLNQIESARGKRRVHLVGKYS 92 (283)
Q Consensus 40 KPykC~vCGKsFss~ssLkrH~Kr--iHtGE--K~---------Krf~~~~sl~~hrR~h~~~k~~ 92 (283)
.++.|..|...|.....+..|. + .|+++ ++ +.|.+...+..|..+|+.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~-~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHL-RSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPA 352 (467)
T ss_pred cCCCCccccCCccccccccccc-cccccccccCCceeeeccCCCccccccccccCCcccccCCCcc
Confidence 4789999999999999999999 7 89999 63 6777888888999888776543
No 353
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=31.79 E-value=1.3e+02 Score=29.15 Aligned_cols=72 Identities=22% Similarity=0.371 Sum_probs=44.5
Q ss_pred hhhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCCC
Q 023366 114 LADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDIND 186 (283)
Q Consensus 114 la~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~ 186 (283)
+..++++.|. .+-.|.++.. ....+...+...|...|+++.++ |..++... .+++.+|+.+...|| ||+++-
T Consensus 19 l~~~l~~~g~~~~lvv~~~~~-~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS~ 97 (377)
T cd08176 19 IGDELKNLGFKKALIVTDKGL-VKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGGSP 97 (377)
T ss_pred HHHHHHHhCCCeEEEECCchH-hhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcHH
Confidence 4455566564 4445666433 22456677778887778886554 33356665 455566777888777 887763
No 354
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=31.73 E-value=1.2e+02 Score=29.85 Aligned_cols=67 Identities=9% Similarity=0.172 Sum_probs=41.4
Q ss_pred hhhhhhhcCeeeee---cCCCchhHHHHHHHHHHHHHhhcCccEEEEE--eCCcchHHHHHHHHHcCCc--EEEEcc
Q 023366 114 LADELKRAGFWVRT---VSDKPQAADVALRNHMVDMMDKRHVECLVIV--SDDSDFVDVLQEAKYRCLK--TVVVGD 183 (283)
Q Consensus 114 la~~L~RaG~~V~~---v~dkp~aaD~al~~~~~~~~~~~~v~~lvlv--sdd~~f~~~l~~ar~~~~~--tvvvg~ 183 (283)
|...+++.|+.|.. +...+.+ ..+...+..+. +.+.+..|+| +...+...+|+.|++.|+. .+.||.
T Consensus 206 ~~~~~~~~gi~i~~~~~i~~~~~~--~d~~~~l~~lk-~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~~~~~wi~s 279 (472)
T cd06374 206 FKELAAHEGLCIAHSDKIYSNAGE--QSFDRLLRKLR-SRLPKARVVVCFCEGMTVRGLLMAMRRLGVGGEFQLIGS 279 (472)
T ss_pred HHHHHHHCCeeEEEEEEecCCCch--HHHHHHHHHHH-hcCCCcEEEEEEechHHHHHHHHHHHHhcCCCceEEEEe
Confidence 44567788987763 3333333 33444554444 4445544444 6666788999999999996 466665
No 355
>PRK13222 phosphoglycolate phosphatase; Provisional
Probab=31.68 E-value=2.8e+02 Score=23.70 Aligned_cols=28 Identities=29% Similarity=0.316 Sum_probs=20.1
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
..|.-| ..+-..|+..|+.+-.+++.+.
T Consensus 92 ~~~~~g~~~~l~~l~~~g~~~~i~S~~~~ 120 (226)
T PRK13222 92 SRLYPGVKETLAALKAAGYPLAVVTNKPT 120 (226)
T ss_pred CccCCCHHHHHHHHHHCCCeEEEEeCCCH
Confidence 444445 5566677778999998888875
No 356
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=31.66 E-value=1e+02 Score=23.43 Aligned_cols=61 Identities=18% Similarity=0.209 Sum_probs=39.2
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeC--Cc----chHHHHHHHHHcCCc
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSD--DS----DFVDVLQEAKYRCLK 177 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsd--d~----~f~~~l~~ar~~~~~ 177 (283)
|.+..|+..|+.|+++-.|+.... .++.+++....|+.+|-.++ +. |=..+.|.|-+.++.
T Consensus 21 gTa~~L~~~Gi~~~~~~~ki~~~~----~~i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip 87 (90)
T smart00851 21 GTAKFLREAGLPVKTLHPKVHGGI----LAILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIP 87 (90)
T ss_pred HHHHHHHHCCCcceeccCCCCCCC----HHHHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCC
Confidence 568889999999987666664311 23566676778888877665 22 122466666666653
No 357
>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=31.55 E-value=1.6e+02 Score=27.72 Aligned_cols=62 Identities=8% Similarity=0.011 Sum_probs=45.7
Q ss_pred hhhhhhhcCeeeee---cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE
Q 023366 114 LADELKRAGFWVRT---VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT 178 (283)
Q Consensus 114 la~~L~RaG~~V~~---v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t 178 (283)
+...++..|+.|-. ++-.|.+.|. -.++..+. +.+.+-|++..-..+.+.+++.+++.|+..
T Consensus 152 ~~~~~~~~G~~vv~~~~~~~~~~~~d~--s~~v~~l~-~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~ 216 (360)
T cd06357 152 MRDLLEQRGGEVLGERYLPLGASDEDF--ARIVEEIR-EAQPDFIFSTLVGQSSYAFYRAYAAAGFDP 216 (360)
T ss_pred HHHHHHHcCCEEEEEEEecCCCchhhH--HHHHHHHH-HcCCCEEEEeCCCCChHHHHHHHHHcCCCc
Confidence 56677778888643 2333335664 35555556 779999999998999999999999999984
No 358
>TIGR02477 PFKA_PPi diphosphate--fructose-6-phosphate 1-phosphotransferase. Diphosphate--fructose-6-phosphate 1-phosphotransferase catalyzes the addition of phosphate from diphosphate (PPi) to fructose 6-phosphate to give fructose 1,6-bisphosphate (EC 2.7.1.90). The enzyme is also known as pyrophosphate-dependent phosphofructokinase. The usage of PPi-dependent enzymes in glycolysis presumably frees up ATP for other processes. TIGR02482 represents the ATP-dependent 6-phosphofructokinase enzyme contained within Pfam pfam00365: Phosphofructokinase. This model hits primarily bacterial, plant alpha, and plant beta sequences.
Probab=31.52 E-value=1.1e+02 Score=32.00 Aligned_cols=63 Identities=22% Similarity=0.246 Sum_probs=47.9
Q ss_pred hhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHH---HcCCcEEEEcc
Q 023366 119 KRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAK---YRCLKTVVVGD 183 (283)
Q Consensus 119 ~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar---~~~~~tvvvg~ 183 (283)
...|+ ...+-+.++. +..-.+.+.+.+.+++|+.||.+-+|.-+..+..++. +.|.++-|||.
T Consensus 130 ~~GG~~~LGssR~k~~--~~e~~~~~~~~l~~~~Id~LviIGGdgS~~~A~~Lae~~~~~g~~i~VIGI 196 (539)
T TIGR02477 130 NTGGFDIIGSGRTKIE--TEEQFAKALTTAKKLKLDGLVIIGGDDSNTNAALLAEYFAKHGLKTQVIGV 196 (539)
T ss_pred hCCCchhhcCCCCCCC--CHHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHhcCCCceEEEE
Confidence 35676 6777666642 2445577778888999999999999999988888776 47878888875
No 359
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=31.50 E-value=1.7e+02 Score=25.89 Aligned_cols=44 Identities=16% Similarity=-0.078 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 137 VALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 137 ~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.....++.+.+ +...+..+.|-|. ..+ +..|+..|++||.|.-+
T Consensus 154 p~~~~~~~~~l-~~~p~~~l~IGDs--~~D-i~aA~~aG~~~i~v~~g 197 (229)
T PRK13226 154 PLPLLVAAERI-GVAPTDCVYVGDD--ERD-ILAARAAGMPSVAALWG 197 (229)
T ss_pred HHHHHHHHHHh-CCChhhEEEeCCC--HHH-HHHHHHCCCcEEEEeec
Confidence 44444543334 3333455555555 355 67899999999988544
No 360
>PF00765 Autoind_synth: Autoinducer synthetase; InterPro: IPR001690 Bacterial species have many methods of controlling gene expression and cell growth. Regulation of gene expression in response to changes in cell density is termed quorum sensing [, ]. Quorum-sensing bacteria produce, release and respond to hormone-like molecules (autoinducers) that accumulate in the external environment as the cell population grows. Once a threshold of these molecules is reached, a signal transduction cascade is triggered that ultimately leads to behavioural changes in the bacterium []. Autoinducers are thus clearly important mediators of molecular communication. Conjugal transfer of Agrobacterium octopine-type Ti plasmids is activated by octopine, a metabolite released from plant tumours []. Octopine causes conjugal donors to secrete a pheromone, Agrobacterium autoinducer (AAI), and exogenous AAI further stimulates conjugation. The putative AAI synthase and an AAI-responsive transcriptional regulator have been found to be encoded by the Ti plasmid traI and traR genes, respectively. TraR and TraI are similar to the LuxR and LuxI regulatory proteins of Vibrio fischeri, and AAI is similar in structure to the diffusable V. fischeri autoinducer, the inducing ligand of LuxR. TraR activates target genes in the presence of AAI and also activates traR and traI themselves, creating two positive-feedback loops. TraR-AAI-mediated activation in wild-type Agrobacterium strains is enhanced by culturing on solid media, suggesting a possible role in cell density sensing []. Production of light by the marine bacterium V. fischeri and by recombinant hosts containing cloned lux genes is controlled by the density of the culture []. Density-dependent regulation of lux gene expression has been shown to require a locus consisting of the luxR and luxI genes. In these and other Gram-negative bacteria, N-(3-oxohexanoyl)-L-homoserine lactone (OHHL) acts as the autoinducer by binding to transcriptional regulatory proteins and activating them []. OHHL and related molecules, such as N-butanoyl- (BHL), N-hexanoyl- (HHL) and N-oxododecanoyl- (PAI) homoserine lactones, are produced by a family of proteins that share a high level of sequence similarity. Proteins which currently members of this family include: luxI from V. fischeri. ahyI and asaI from Aeromonas species, which synthesize BHL and whose targets are ahyR and asaR respectively. carI from Erwinia carotovora. The target of OHHL is carR which activates genes involved in the biosynthesis of carbapenem antibiotics. eagI from Enterobacter agglomerans. The target of OHHL is not yet known. esaI from Erwinia stewartii. expI from Erwinia carotovora. lasI from Pseudomonas aeruginosa, which synthesizes PAI and whose target is lasR which activates the transcription of the elastase gene. rhlI (or vsmI) from P. aeruginosa, which synthesizes BHL and HHL and whose target is rhlR. swrI from Serratia liquefaciens, which synthesizes BHL. yenI from Yersinia enterocolitica. ; GO: 0007165 signal transduction; PDB: 3P2H_A 3P2F_A 1KZF_A 1K4J_A 1RO5_A.
Probab=31.46 E-value=1.1e+02 Score=27.10 Aligned_cols=44 Identities=16% Similarity=0.068 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 137 VALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 137 ~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
..|...|.+.....|+++|+-|++ ..|.|..++.|+.-..+|..
T Consensus 115 ~~L~~~~~e~a~~~gi~~~v~V~~----~~~~r~l~r~G~~~~~lG~~ 158 (182)
T PF00765_consen 115 MELLLGMVEFALSNGIRHIVGVVD----PAMERILRRAGWPVRRLGPP 158 (182)
T ss_dssp HHHHHHHHHHHHCTT-SEEEEEEE----HHHHHHHHHCT-EEEESSEE
T ss_pred HHHHHHHHHHHHHCCCCEEEEEEC----hHHHHHHHHcCCceEECCCC
Confidence 567778888877999999999997 56899999999999999874
No 361
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=31.40 E-value=2.3e+02 Score=24.46 Aligned_cols=67 Identities=15% Similarity=0.205 Sum_probs=39.9
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
|+...++..|+.+.+......+. ....+.+.|...+++-|++++.+.+-. ......+++..|+++..
T Consensus 21 ~i~~~~~~~g~~~~~~~~~~~~~---~~~~~~~~l~~~~~dgiii~~~~~~~~--~~~~~~~~ipvv~~~~~ 87 (269)
T cd06288 21 GAQDAAREHGYLLLVVNTGGDDE---LEAEAVEALLDHRVDGIIYATMYHREV--TLPPELLSVPTVLLNCY 87 (269)
T ss_pred HHHHHHHHCCCEEEEEeCCCCHH---HHHHHHHHHHHcCCCEEEEecCCCChh--HHHHHhcCCCEEEEecc
Confidence 55566777888887665444331 222222334478899888887543322 12345678888888754
No 362
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=31.40 E-value=1.4e+02 Score=26.91 Aligned_cols=39 Identities=21% Similarity=0.300 Sum_probs=28.5
Q ss_pred HhhcCccEEEEEeCC------cchHHHHHHHHHcCCcEEEEccCC
Q 023366 147 MDKRHVECLVIVSDD------SDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 147 ~~~~~v~~lvlvsdd------~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
....||.-.++-.+. .+|..+|+.+++.|+..||.|+..
T Consensus 52 A~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~g~~~vv~G~i~ 96 (218)
T TIGR03679 52 AEALGIPLVKIETSGEKEKEVEDLKGALKELKREGVEGIVTGAIA 96 (218)
T ss_pred HHHhCCCEEEEECCCCChHHHHHHHHHHHHHHHcCCCEEEECCcc
Confidence 345688866555441 247788888888899999999975
No 363
>PF14871 GHL6: Hypothetical glycosyl hydrolase 6
Probab=31.10 E-value=1.2e+02 Score=25.61 Aligned_cols=40 Identities=15% Similarity=0.306 Sum_probs=28.8
Q ss_pred HHHHHHhhcCccEEEEEeC--------------------CcchHHHHHHHHHcCCcEEEE
Q 023366 142 HMVDMMDKRHVECLVIVSD--------------------DSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 142 ~~~~~~~~~~v~~lvlvsd--------------------d~~f~~~l~~ar~~~~~tvvv 181 (283)
...++|...+|+++++-+- ..=|.+++++|+++|+++++=
T Consensus 4 ~~~~~lk~~~v~si~i~a~~h~g~ayYPt~~~~~hp~L~~Dllge~v~a~h~~Girv~ay 63 (132)
T PF14871_consen 4 QFVDTLKEAHVNSITIFAKCHGGYAYYPTKVGPRHPGLKRDLLGEQVEACHERGIRVPAY 63 (132)
T ss_pred HHHHHHHHhCCCEEEEEcccccEEEEccCCCCcCCCCCCcCHHHHHHHHHHHCCCEEEEE
Confidence 3455666668887777443 233689999999999998764
No 364
>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=30.94 E-value=1.9e+02 Score=25.29 Aligned_cols=49 Identities=12% Similarity=0.123 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHhhcCccEEEEEeCCcc--hHHHHHHHHHcCCcEEEEcc
Q 023366 135 ADVALRNHMVDMMDKRHVECLVIVSDDSD--FVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 135 aD~al~~~~~~~~~~~~v~~lvlvsdd~~--f~~~l~~ar~~~~~tvvvg~ 183 (283)
....|.+.+.+.+..+|.+++++.++... -..+++...+.++.-|+|-.
T Consensus 13 ~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~ 63 (269)
T cd06281 13 LLAQLFSGAEDRLRAAGYSLLIANSLNDPERELEILRSFEQRRMDGIIIAP 63 (269)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEec
Confidence 34678899999999999998888776433 55778888889999999854
No 365
>cd00765 Pyrophosphate_PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include pyrophosphate-dependent phosphofructokinases. These are found in bacteria as well as plants. These may be dimeric nonallosteric enzymes as in bacteria or allosteric heterotetramers as in plants.
Probab=30.72 E-value=1.2e+02 Score=31.90 Aligned_cols=64 Identities=20% Similarity=0.250 Sum_probs=47.9
Q ss_pred hhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH---cCCcEEEEcc
Q 023366 118 LKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY---RCLKTVVVGD 183 (283)
Q Consensus 118 L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~---~~~~tvvvg~ 183 (283)
....|. ...+-+.++. +..-.+.+.+.+.+++|+.||.+-+|.-+..+..++.. +|.++-|||-
T Consensus 134 ~~~GGsd~LGs~R~k~~--~~e~~~~i~~~l~~~~Id~LviIGGddS~~~A~~Lae~~~~~g~~i~VIGV 201 (550)
T cd00765 134 RNTGGFDMICSGRTKIE--TEDQFKQAEETAKKLDLDALVVIGGDDSNTNAALLAENFRSKGLKTRVIGV 201 (550)
T ss_pred HhCCChhhhcCcCCCCC--CHHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHhcCCCceEEEE
Confidence 345676 6666666652 34455667777889999999999999999888877764 7888888875
No 366
>PRK14988 GMP/IMP nucleotidase; Provisional
Probab=30.70 E-value=1.9e+02 Score=25.70 Aligned_cols=28 Identities=11% Similarity=0.061 Sum_probs=20.0
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCch
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~ 133 (283)
+.|..| .-+-..|+..|+.+-.+++++.
T Consensus 92 ~~~~~g~~e~L~~Lk~~g~~~~i~Tn~~~ 120 (224)
T PRK14988 92 AVLREDTVPFLEALKASGKRRILLTNAHP 120 (224)
T ss_pred CCcCCCHHHHHHHHHhCCCeEEEEeCcCH
Confidence 445545 6667778888888888888764
No 367
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=30.60 E-value=96 Score=28.31 Aligned_cols=44 Identities=11% Similarity=0.249 Sum_probs=30.0
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHH---hhcCccEEEEE
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMM---DKRHVECLVIV 158 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~---~~~~v~~lvlv 158 (283)
-.|+..|++.||.|.+..|... ..+.+.|.+.. +..+.+|+|+|
T Consensus 33 ~~l~~~f~~lgF~V~~~~dlt~---~em~~~l~~~~~~~~~~~~d~~v~~ 79 (241)
T smart00115 33 ENLTELFQSLGYEVHVKNNLTA---EEMLEELKEFAERPEHSDSDSFVCV 79 (241)
T ss_pred HHHHHHHHHCCCEEEEecCCCH---HHHHHHHHHHHhccccCCCCEEEEE
Confidence 6788899999999999999877 33344443333 23367777554
No 368
>PLN02884 6-phosphofructokinase
Probab=30.42 E-value=1.4e+02 Score=30.16 Aligned_cols=61 Identities=16% Similarity=0.247 Sum_probs=46.0
Q ss_pred hhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH---cCCcEEEEc
Q 023366 116 DELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY---RCLKTVVVG 182 (283)
Q Consensus 116 ~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~---~~~~tvvvg 182 (283)
..+...|=...|-+.+|. .+.+.+.|.+++|+.||.+-.|--|..+.+++.+ +|.+.-|||
T Consensus 114 ~i~~~GGt~LGtsR~~~~------~~~i~~~L~~~~Id~LivIGGdgS~~~a~~L~~~~~~~g~~i~vIG 177 (411)
T PLN02884 114 NIHLSGGSLLGVSRGGAK------TSDIVDSIEARGINMLFVLGGNGTHAGANAIHNECRKRKMKVSVVG 177 (411)
T ss_pred HHHhCCCceeccCCCCcc------HHHHHHHHHHcCCCEEEEECCchHHHHHHHHHHHHHHcCCCceEEe
Confidence 344456766777666662 5678888989999999999999999999887775 784444554
No 369
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=30.42 E-value=2e+02 Score=24.06 Aligned_cols=62 Identities=15% Similarity=0.108 Sum_probs=37.2
Q ss_pred hhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHH-HHcCC---cEEEEccCC
Q 023366 115 ADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEA-KYRCL---KTVVVGDIN 185 (283)
Q Consensus 115 a~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~a-r~~~~---~tvvvg~~~ 185 (283)
-..|+..|+.+-.++.+|.. .. ..++...|+..++-- ...-..++..+ .+.|+ .++.|||+.
T Consensus 37 i~~Lk~~G~~i~IvTn~~~~----~~---~~~l~~~gi~~~~~~--~~~k~~~~~~~~~~~~~~~~~~~~vGDs~ 102 (154)
T TIGR01670 37 IRCALKSGIEVAIITGRKAK----LV---EDRCKTLGITHLYQG--QSNKLIAFSDILEKLALAPENVAYIGDDL 102 (154)
T ss_pred HHHHHHCCCEEEEEECCCCH----HH---HHHHHHcCCCEEEec--ccchHHHHHHHHHHcCCCHHHEEEECCCH
Confidence 56777889999988888871 22 224555677655432 22334444444 44443 588899863
No 370
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=30.28 E-value=1.4e+02 Score=24.57 Aligned_cols=45 Identities=13% Similarity=0.248 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhhcCccEE----EEEeCC-----cchHHHHHHHHHc-CCcEEEEc
Q 023366 136 DVALRNHMVDMMDKRHVECL----VIVSDD-----SDFVDVLQEAKYR-CLKTVVVG 182 (283)
Q Consensus 136 D~al~~~~~~~~~~~~v~~l----vlvsdd-----~~f~~~l~~ar~~-~~~tvvvg 182 (283)
...|...+..++ +.|++.| |++.+. +.+..+.+.-+++ |+ .||.|
T Consensus 51 g~~~~~~~~~l~-~~~~d~IHlssC~~~~~~~~~CP~~~~~~~~I~~~~gi-~VV~G 105 (107)
T PF08821_consen 51 GRKLVRRIKKLK-KNGADVIHLSSCMVKGNPHGPCPHIDEIKKIIEEKFGI-EVVEG 105 (107)
T ss_pred hhHHHHHHHHHH-HCCCCEEEEcCCEecCCCCCCCCCHHHHHHHHHHHhCC-CEeee
Confidence 456667777777 8999988 555555 5566677777776 88 77776
No 371
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=30.14 E-value=29 Score=32.06 Aligned_cols=29 Identities=24% Similarity=0.540 Sum_probs=21.6
Q ss_pred CCCCccCCCCCCccCCchhHhhhhhcccc
Q 023366 38 PAEPYVCGVCGRRFYSNEKLVNHFKQIHE 66 (283)
Q Consensus 38 GEKPykC~vCGKsFss~ssLkrH~KriHt 66 (283)
.+..|.|..|+|.|.......+|+..-|+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 45679999999999999999999933343
No 372
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=29.62 E-value=2.1e+02 Score=24.41 Aligned_cols=51 Identities=18% Similarity=0.279 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHHh---hcCccEEEEEeCCcc-------hHHHHHHHHHcCCcEEEEccC
Q 023366 134 AADVALRNHMVDMMD---KRHVECLVIVSDDSD-------FVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 134 aaD~al~~~~~~~~~---~~~v~~lvlvsdd~~-------f~~~l~~ar~~~~~tvvvg~~ 184 (283)
+...||..-...+.. ......|||+||... ...+++.+++.|+...+||-+
T Consensus 89 ~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~gi~i~~vgig 149 (186)
T cd01480 89 FTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSPDGGIEKAVNEADHLGIKIFFVAVG 149 (186)
T ss_pred cHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCcchhHHHHHHHHHHCCCEEEEEecC
Confidence 344566554443331 123457899999853 456678889999998888765
No 373
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=29.60 E-value=79 Score=25.93 Aligned_cols=34 Identities=15% Similarity=0.189 Sum_probs=25.3
Q ss_pred cEEEEEeCCcc---hHHHHHHHHH-cCCcEEEEccCCC
Q 023366 153 ECLVIVSDDSD---FVDVLQEAKY-RCLKTVVVGDIND 186 (283)
Q Consensus 153 ~~lvlvsdd~~---f~~~l~~ar~-~~~~tvvvg~~~~ 186 (283)
..+||+||... -..+.+..+. .|+.+++||.+++
T Consensus 105 ~~villTDG~~~~~~~~~~~~l~~~~~v~v~~vg~g~~ 142 (163)
T cd01476 105 KVVVVLTDGRSHDDPEKQARILRAVPNIETFAVGTGDP 142 (163)
T ss_pred eEEEEECCCCCCCchHHHHHHHhhcCCCEEEEEECCCc
Confidence 46899999633 3456677777 8999999988753
No 374
>PRK00046 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=29.54 E-value=48 Score=32.40 Aligned_cols=32 Identities=22% Similarity=0.365 Sum_probs=18.4
Q ss_pred EEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 154 CLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 154 ~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
+++.+.+-.++..+++.|++.++...|||.++
T Consensus 23 ~~~~p~~~~el~~~~~~~~~~~~p~~vlG~GS 54 (334)
T PRK00046 23 HLVEAESEEQLLEALADARAAGLPVLVLGGGS 54 (334)
T ss_pred EEEeeCCHHHHHHHHHHHHHcCCCEEEEeceE
Confidence 45555555666666666666665555555543
No 375
>PHA02597 30.2 hypothetical protein; Provisional
Probab=29.48 E-value=1.2e+02 Score=25.87 Aligned_cols=53 Identities=23% Similarity=0.089 Sum_probs=31.4
Q ss_pred HhhcCccEEEEEeCCcchHHHHHHHHHc--CCcEEEEccCCCcccccc--ccccccHHHHhc
Q 023366 147 MDKRHVECLVIVSDDSDFVDVLQEAKYR--CLKTVVVGDINDGALKRI--ADASFSWRDILM 204 (283)
Q Consensus 147 ~~~~~v~~lvlvsdd~~f~~~l~~ar~~--~~~tvvvg~~~~~~l~r~--ad~~~sW~~v~~ 204 (283)
+...|-++ +|+-||+.+- +..|+++ |++||.|..+. + ..-+ .=.-=||+|+.+
T Consensus 140 ~~~~~~~~-~v~vgDs~~d--i~aA~~a~~Gi~~i~~~~~~-~-~~~~~~~~~~~~~~~~~~ 196 (197)
T PHA02597 140 KEKYGDRV-VCFVDDLAHN--LDAAHEALSQLPVIHMLRGE-R-DHIPKLAHRVKSWNDIEN 196 (197)
T ss_pred HHHhCCCc-EEEeCCCHHH--HHHHHHHHcCCcEEEecchh-h-ccccchhhhhccHHHHhc
Confidence 33445333 6666777666 7889998 99999995553 2 2211 112236777654
No 376
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=29.42 E-value=1.4e+02 Score=29.23 Aligned_cols=66 Identities=17% Similarity=0.365 Sum_probs=43.5
Q ss_pred hhhhhc-Ceeeee---cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE--EEEcc
Q 023366 116 DELKRA-GFWVRT---VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT--VVVGD 183 (283)
Q Consensus 116 ~~L~Ra-G~~V~~---v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t--vvvg~ 183 (283)
..+++. |+-|.+ ++..+.+.| +...+..+....+.+.|||.+...+-..+|+.|++.|+-- +.||.
T Consensus 194 ~~~~~~g~~~v~~~~~i~~~~~~~d--~~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a~~~~~~g~~~wig~ 265 (463)
T cd06376 194 QISREAGGVCIAQSIKIPREPRPGE--FDKIIKRLLETPNARAVIIFANEDDIRRVLEAAKRANQVGHFLWVGS 265 (463)
T ss_pred HHHHHcCCceEEEEEecCCCCCHHH--HHHHHHHHhccCCCeEEEEecChHHHHHHHHHHHhcCCcCceEEEEe
Confidence 344454 455533 344554444 4455555542358999999999999999999999988753 55553
No 377
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=29.38 E-value=64 Score=27.99 Aligned_cols=41 Identities=22% Similarity=0.338 Sum_probs=27.2
Q ss_pred HHHhhcCccEEEEEeCCcchH-----HHHHH-HHHcCCcEEEEccCC
Q 023366 145 DMMDKRHVECLVIVSDDSDFV-----DVLQE-AKYRCLKTVVVGDIN 185 (283)
Q Consensus 145 ~~~~~~~v~~lvlvsdd~~f~-----~~l~~-ar~~~~~tvvvg~~~ 185 (283)
+++.++||++++++.=+.+|. +.++. ....+++.||||.-.
T Consensus 63 ~~l~~l~vd~v~~~~f~~~~~~~s~~~Fi~~il~~~~~~~ivvG~Df 109 (180)
T cd02064 63 ELLESLGVDYLLVLPFDKEFASLSAEEFVEDLLVKLNAKHVVVGFDF 109 (180)
T ss_pred HHHHHcCCCEEEEeCCCHHHHcCCHHHHHHHHHhhcCCeEEEEccCC
Confidence 456678999999987554433 23332 123389999999854
No 378
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=29.37 E-value=1.6e+02 Score=28.52 Aligned_cols=78 Identities=18% Similarity=0.207 Sum_probs=48.1
Q ss_pred hhhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCCC
Q 023366 114 LADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDIND 186 (283)
Q Consensus 114 la~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~ 186 (283)
+..++++.|. .|-.|.|+. .....+...+...|...|+++.+. |--++.+. .+++.+++.+...|| ||+++-
T Consensus 17 l~~~l~~~g~~~~lvvt~~~-~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS~ 95 (374)
T cd08189 17 LPAAISQLGVKKVLIVTDKG-LVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGGSV 95 (374)
T ss_pred HHHHHHhcCCCeEEEEeCcc-hhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccH
Confidence 4455556563 555666644 333445566777786778876544 22234444 677778889998888 888774
Q ss_pred cccccc
Q 023366 187 GALKRI 192 (283)
Q Consensus 187 ~~l~r~ 192 (283)
...++.
T Consensus 96 ~D~aK~ 101 (374)
T cd08189 96 IDCAKA 101 (374)
T ss_pred HHHHHH
Confidence 444444
No 379
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=29.32 E-value=96 Score=29.77 Aligned_cols=78 Identities=15% Similarity=0.220 Sum_probs=46.0
Q ss_pred hhhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCCC
Q 023366 114 LADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDIND 186 (283)
Q Consensus 114 la~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~ 186 (283)
+..+|++.|. .+-.|.++.- .+..+...+.+.|...|++..++ +..++... .+++.+|+.+...|| ||+++-
T Consensus 14 l~~~l~~~~~~~~lvv~~~~~-~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~ 92 (370)
T cd08551 14 LGEEIKNLGGRKALIVTDPGL-VKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGGSV 92 (370)
T ss_pred HHHHHHHcCCCeEEEEeCcch-hhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCchH
Confidence 4445555553 4445556433 33455667777786778876654 33345554 566667778888777 777654
Q ss_pred cccccc
Q 023366 187 GALKRI 192 (283)
Q Consensus 187 ~~l~r~ 192 (283)
..+++.
T Consensus 93 ~D~AK~ 98 (370)
T cd08551 93 LDTAKA 98 (370)
T ss_pred HHHHHH
Confidence 444444
No 380
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=29.25 E-value=2.5e+02 Score=22.51 Aligned_cols=41 Identities=7% Similarity=-0.150 Sum_probs=29.1
Q ss_pred HHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc-EEEEccC
Q 023366 142 HMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK-TVVVGDI 184 (283)
Q Consensus 142 ~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~-tvvvg~~ 184 (283)
.+...|.+.|+.+.+-.+ ..+..-++.|.+.|.+ .|+||+.
T Consensus 46 ~la~~LR~~gi~v~~d~~--~sl~kqlk~A~k~g~~~~iiiG~~ 87 (121)
T cd00858 46 EISEELRELGFSVKYDDS--GSIGRRYARQDEIGTPFCVTVDFD 87 (121)
T ss_pred HHHHHHHHCCCEEEEeCC--CCHHHHHHHhHhcCCCEEEEECcC
Confidence 334445456777777666 6899999999999998 5555754
No 381
>PRK11587 putative phosphatase; Provisional
Probab=29.21 E-value=66 Score=28.10 Aligned_cols=34 Identities=12% Similarity=0.082 Sum_probs=22.6
Q ss_pred hcCc--cEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 149 KRHV--ECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 149 ~~~v--~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
..|+ +..+.| +|+. .+ +..|+.+|+.||.|..+.
T Consensus 150 ~~g~~p~~~l~i-gDs~-~d-i~aA~~aG~~~i~v~~~~ 185 (218)
T PRK11587 150 LLGLAPQECVVV-EDAP-AG-VLSGLAAGCHVIAVNAPA 185 (218)
T ss_pred HcCCCcccEEEE-ecch-hh-hHHHHHCCCEEEEECCCC
Confidence 3454 333444 5553 44 689999999999997643
No 382
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=29.19 E-value=51 Score=24.43 Aligned_cols=26 Identities=35% Similarity=0.445 Sum_probs=21.5
Q ss_pred EEEEEeCCcchHHHHHHHHHcCCcEE
Q 023366 154 CLVIVSDDSDFVDVLQEAKYRCLKTV 179 (283)
Q Consensus 154 ~lvlvsdd~~f~~~l~~ar~~~~~tv 179 (283)
-+|.+++|+||..++..+++.+-+++
T Consensus 52 D~V~i~sd~Dl~~a~~~~~~~~~~~l 77 (84)
T PF00564_consen 52 DLVTISSDEDLQEAIEQAKESGSKTL 77 (84)
T ss_dssp SEEEESSHHHHHHHHHHHHHCTTSCE
T ss_pred CEEEeCCHHHHHHHHHHHHhcCCCcE
Confidence 56999999999999999998654443
No 383
>TIGR02247 HAD-1A3-hyp Epoxide hydrolase N-terminal domain-like phosphatase. These appear to be members of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases by general homology and the conservation of all of the recognized catalytic motifs (although the first motif is unusual in the replacement of the more common aspartate with glycine...). The variable domain is found in between motifs 1 and 2, indicating membership in subfamily I and phylogeny and prediction of the alpha helical nature of the variable domain (by PSI-PRED) indicate membership in subfamily IA.
Probab=29.17 E-value=99 Score=26.57 Aligned_cols=17 Identities=29% Similarity=0.261 Sum_probs=12.1
Q ss_pred HHHHHHcCCcEEEEccC
Q 023366 168 LQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 168 l~~ar~~~~~tvvvg~~ 184 (283)
+..|++.|++||.|.+.
T Consensus 182 i~aA~~aG~~~i~v~~~ 198 (211)
T TIGR02247 182 LKPAAALGITTIKVSDE 198 (211)
T ss_pred HHHHHHcCCEEEEECCH
Confidence 56777788887777653
No 384
>PRK13582 thrH phosphoserine phosphatase; Provisional
Probab=28.94 E-value=1.5e+02 Score=25.13 Aligned_cols=85 Identities=21% Similarity=0.218 Sum_probs=48.6
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEE----EEEe-----------CCcchHHHHH
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECL----VIVS-----------DDSDFVDVLQ 169 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~l----vlvs-----------dd~~f~~~l~ 169 (283)
+.|.-| .-+-..|+.. +.+..|++++.. ..+. ++...|+..+ +.++ .......+++
T Consensus 67 ~~~~pg~~e~L~~L~~~-~~~~IvS~~~~~----~~~~---~l~~~gl~~~f~~~~~~~~~~~i~~~~~~~p~~k~~~l~ 138 (205)
T PRK13582 67 LDPLPGAVEFLDWLRER-FQVVILSDTFYE----FAGP---LMRQLGWPTLFCHSLEVDEDGMITGYDLRQPDGKRQAVK 138 (205)
T ss_pred CCCCCCHHHHHHHHHhc-CCEEEEeCCcHH----HHHH---HHHHcCCchhhcceEEECCCCeEECccccccchHHHHHH
Confidence 344444 3556667777 888899999983 2222 2333454311 1111 1123446677
Q ss_pred HHHHcCCcEEEEccCCCc-ccccccccccc
Q 023366 170 EAKYRCLKTVVVGDINDG-ALKRIADASFS 198 (283)
Q Consensus 170 ~ar~~~~~tvvvg~~~~~-~l~r~ad~~~s 198 (283)
.....+-.+|+|||+.-. ...+.|++.+.
T Consensus 139 ~~~~~~~~~v~iGDs~~D~~~~~aa~~~v~ 168 (205)
T PRK13582 139 ALKSLGYRVIAAGDSYNDTTMLGEADAGIL 168 (205)
T ss_pred HHHHhCCeEEEEeCCHHHHHHHHhCCCCEE
Confidence 777778899999997521 13556666553
No 385
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=28.58 E-value=1.4e+02 Score=22.58 Aligned_cols=54 Identities=15% Similarity=0.098 Sum_probs=36.6
Q ss_pred CCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHH--HHHHHcCCcEEEEcc
Q 023366 129 SDKPQAADVALRNHMVDMMDKRHVECLVIVSDDS-DFVDVL--QEAKYRCLKTVVVGD 183 (283)
Q Consensus 129 ~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~-~f~~~l--~~ar~~~~~tvvvg~ 183 (283)
....+-.|..+.....+.+ .....-++||+... .-++.| +-|+++||..|+.-.
T Consensus 9 ~GgR~~~D~~~i~~~Ld~~-~~~~~~~~lvhGga~~GaD~iA~~wA~~~gv~~~~~~a 65 (71)
T PF10686_consen 9 TGGRDWTDHELIWAALDKV-HARHPDMVLVHGGAPKGADRIAARWARERGVPVIRFPA 65 (71)
T ss_pred EECCccccHHHHHHHHHHH-HHhCCCEEEEECCCCCCHHHHHHHHHHHCCCeeEEeCc
Confidence 3344455667666655555 34556688999988 888766 568889998887643
No 386
>TIGR02815 agaS_fam putative sugar isomerase, AgaS family. Some members of this protein family are found in regions associated with N-acetyl-galactosamine and galactosamine untilization and are suggested to be isomerases.
Probab=28.49 E-value=67 Score=31.32 Aligned_cols=42 Identities=24% Similarity=0.134 Sum_probs=34.5
Q ss_pred cEEEEEeCC---cchHHHHHHHHHc--CCcEEEEccCCCcccccccc
Q 023366 153 ECLVIVSDD---SDFVDVLQEAKYR--CLKTVVVGDINDGALKRIAD 194 (283)
Q Consensus 153 ~~lvlvsdd---~~f~~~l~~ar~~--~~~tvvvg~~~~~~l~r~ad 194 (283)
..+|.+|=+ .|=..+++.||++ |.+||.|.+..++.|.+.||
T Consensus 94 ~lvi~iSqSGeT~etv~a~~~ak~~~~g~~~i~it~~~~s~la~~ad 140 (372)
T TIGR02815 94 TLLVSFARSGNSPESVAAVELADQLLPECYHLVLTCNEEGALYRNAI 140 (372)
T ss_pred eEEEEEeCCcCcHHHHHHHHHHHHhCCCCcEEEEEcCCCCHHHHhhc
Confidence 455677753 4677778999998 89999999988889999999
No 387
>PRK13057 putative lipid kinase; Reviewed
Probab=28.39 E-value=1.1e+02 Score=28.33 Aligned_cols=56 Identities=23% Similarity=0.214 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCCCcccccccc
Q 023366 138 ALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDINDGALKRIAD 194 (283)
Q Consensus 138 al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad 194 (283)
+...++...|...|++..+..+...+-+.-+-..-..+..+|||..+ ||.+.+.++
T Consensus 13 ~~~~~i~~~l~~~g~~~~~~~t~~~~~a~~~~~~~~~~~d~iiv~GG-DGTv~~v~~ 68 (287)
T PRK13057 13 AALAAARAALEAAGLELVEPPAEDPDDLSEVIEAYADGVDLVIVGGG-DGTLNAAAP 68 (287)
T ss_pred hhHHHHHHHHHHcCCeEEEEecCCHHHHHHHHHHHHcCCCEEEEECc-hHHHHHHHH
No 388
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=28.36 E-value=2.7e+02 Score=25.10 Aligned_cols=71 Identities=11% Similarity=0.013 Sum_probs=38.8
Q ss_pred CchhhhhhhcCe---eeeecCCCchhHHHHHHHHHHHHHhhc-CccEEEEEeCCcchHHHHHHHHHcCCc--EEEEccC
Q 023366 112 YGLADELKRAGF---WVRTVSDKPQAADVALRNHMVDMMDKR-HVECLVIVSDDSDFVDVLQEAKYRCLK--TVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~---~V~~v~dkp~aaD~al~~~~~~~~~~~-~v~~lvlvsdd~~f~~~l~~ar~~~~~--tvvvg~~ 184 (283)
-|+...|+++|+ .+..+...+...+.+ ...+.++|.+. .++ .|++..|.--.++++.++++|++ --|||-.
T Consensus 143 ~Gf~~~l~~~g~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-ai~~~~D~~A~g~~~al~~~g~~~dv~vvG~D 219 (298)
T cd06302 143 DAAKAYQKEKYYPMLELVDRQYGDDDADKS-YQTAQELLKAYPDLK-GIIGPTSVGIPGAARAVEEAGLKGKVAVTGLG 219 (298)
T ss_pred HHHHHHHhhcCCCCeEEeCcccCCCCHHHH-HHHHHHHHHhCCCce-EEEECCCcchhHHHHHHHhcCCCCCEEEEEeC
Confidence 456667777773 221122222222222 23455566332 344 45555566777899999999983 3466654
No 389
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=28.35 E-value=1.2e+02 Score=27.89 Aligned_cols=97 Identities=14% Similarity=0.120 Sum_probs=57.0
Q ss_pred hhhccCCCCCchhhhhhhcCeeee-ecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEE
Q 023366 103 RAILTPKIGYGLADELKRAGFWVR-TVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTV 179 (283)
Q Consensus 103 ~~~l~pk~gygla~~L~RaG~~V~-~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tv 179 (283)
..+..+.+=||....|.-..-... .+...|-..|....+.+... ..|-++.||.|.|+-|.++.+..++..- ..-
T Consensus 21 ~~I~~A~vV~G~kr~L~~~~~~~~~~~~~~~~~~~~~~l~~i~~~--~~g~~v~VLasGDP~f~G~g~~l~~~~~~~~v~ 98 (210)
T COG2241 21 EAIRRADVVAGSKRHLELLPPLIKAERIIWPYPFDAESLEEILAE--RKGRDVVVLASGDPLFSGVGRLLRRKFSCEEVE 98 (210)
T ss_pred HHHHhCCEEeecHHHHHhhhccccceEEEeccccchHHHHHHHHH--hCCCCeEEEecCCcchhhhHHHHHHhcCccceE
Confidence 345556666777777766554442 22223333334223332111 1288999999999999999999888433 344
Q ss_pred EE-ccCCCccccccccccccHHHHh
Q 023366 180 VV-GDINDGALKRIADASFSWRDIL 203 (283)
Q Consensus 180 vv-g~~~~~~l~r~ad~~~sW~~v~ 203 (283)
|| |.++ .=--.|.+..+|+++.
T Consensus 99 iIPgiSS--~q~a~ARlg~~~~~~~ 121 (210)
T COG2241 99 IIPGISS--VQLAAARLGWPLQDTE 121 (210)
T ss_pred EecChhH--HHHHHHHhCCChHHeE
Confidence 44 3343 0112288899998764
No 390
>cd02751 MopB_DMSOR-like The MopB_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. Members of the MopB_DMSOR-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=28.35 E-value=82 Score=32.45 Aligned_cols=48 Identities=13% Similarity=0.101 Sum_probs=35.3
Q ss_pred CccEEEEEeCCcc-------------hHHHHHHHHHcCCcEEEEccCCCccccc-cccccccH
Q 023366 151 HVECLVIVSDDSD-------------FVDVLQEAKYRCLKTVVVGDINDGALKR-IADASFSW 199 (283)
Q Consensus 151 ~v~~lvlvsdd~~-------------f~~~l~~ar~~~~~tvvvg~~~~~~l~r-~ad~~~sW 199 (283)
.-+|||++.-+.- +...++.||++|.+-|||.-.- -.... .||.|++=
T Consensus 169 ~ad~il~wG~N~~~~~~~~~~~~~~~~~~~~~~a~~~GakiivIDPr~-s~ta~~~AD~~l~i 230 (609)
T cd02751 169 HSDLVVLFGANPLKTRQGGGGGPDHGSYYYLKQAKDAGVRFICIDPRY-TDTAAVLAAEWIPI 230 (609)
T ss_pred cCCEEEEECCCHHHhcCCCCCccCcchHHHHHHHHHCCCeEEEECCCC-CccccccCCEEECC
Confidence 4789999976532 2367888999999999997653 23454 79998873
No 391
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=28.21 E-value=1.3e+02 Score=21.81 Aligned_cols=40 Identities=20% Similarity=0.388 Sum_probs=26.9
Q ss_pred ccEEEEEeC--CcchHHHHHHHHHcCCcEEEEccCCCcccccccc
Q 023366 152 VECLVIVSD--DSDFVDVLQEAKYRCLKTVVVGDINDGALKRIAD 194 (283)
Q Consensus 152 v~~lvlvsd--d~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad 194 (283)
+..|++-.+ +..+.+++..|+++|++...|.. ..|.+.++
T Consensus 18 i~~l~~~~~~~~~~~~~i~~~~~~~~i~v~~v~~---~~l~~ls~ 59 (76)
T PF08032_consen 18 IKKLFVTEEKADKRIKEILKLAKKKGIPVYEVSK---KVLDKLSD 59 (76)
T ss_dssp EEEEEEETT---CCTHHHHHHHHHCT-EEEEE-H---HHHHHCTT
T ss_pred ccEEEEEcCccchhHHHHHHHHHHcCCeEEEeCH---HHHHHHcC
Confidence 556655544 35688999999999999999944 34555554
No 392
>PF11495 Regulator_TrmB: Archaeal transcriptional regulator TrmB; InterPro: IPR021586 TrmB is an alpha-glucoside sensing transcriptional regulator. The protein is the transcriptional repressor for gene cluster encoding trehalose/maltose ABC transporter in T.litoralis and P.furiosus []. TrmB has lost its DNA binding domain but retained its sugar recognition site. A nonreducing glucosyl residue is shared by all substrates bound to TrmB which suggests that its a common recognition motif []. ; PDB: 3QPH_A 2F5T_X.
Probab=28.18 E-value=1.3e+02 Score=27.19 Aligned_cols=48 Identities=15% Similarity=0.227 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhcCccEEEEEeCC--cchHHHHHHHHHcCCcEEEEccC
Q 023366 137 VALRNHMVDMMDKRHVECLVIVSDD--SDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 137 ~al~~~~~~~~~~~~v~~lvlvsdd--~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
..+.+++.+||.+..-+-++-+..+ ..|.+.|+.|.++||+-+++-.+
T Consensus 9 ~~I~~~i~elI~~Ae~eI~is~~~~~l~~l~~~L~~a~~rGV~V~li~~~ 58 (233)
T PF11495_consen 9 ETILERIRELIENAESEIYISIPPEFLEELRDELEEAVDRGVKVKLIVFG 58 (233)
T ss_dssp HHHHHHHHHHHHC-SSEEEEEE-GGGHHHHHHHHHHHHHTT-EEEEEESS
T ss_pred HHHHHHHHHHHHHhheEEEEEcCHHHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 4678888899965444444444332 34667788899999988888665
No 393
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=28.16 E-value=2.1e+02 Score=24.26 Aligned_cols=66 Identities=12% Similarity=0.097 Sum_probs=34.7
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccE---EEEEeCCcc-----hHHHHHHHHHcCC---cEEE
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVEC---LVIVSDDSD-----FVDVLQEAKYRCL---KTVV 180 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~---lvlvsdd~~-----f~~~l~~ar~~~~---~tvv 180 (283)
.-+-..|+..|+.+-.+++.+. .+... .+...|+.. .|+.|++.. =.-++..+++.|+ .+|+
T Consensus 98 ~~~L~~L~~~g~~~~i~Sn~~~----~~~~~---~l~~~gl~~~fd~i~~s~~~~~~KP~~~~~~~~~~~~~~~p~~~~~ 170 (198)
T TIGR01428 98 PAGLRALKERGYRLAILSNGSP----AMLKS---LVKHAGLDDPFDAVLSADAVRAYKPAPQVYQLALEALGVPPDEVLF 170 (198)
T ss_pred HHHHHHHHHCCCeEEEEeCCCH----HHHHH---HHHHCCChhhhheeEehhhcCCCCCCHHHHHHHHHHhCCChhhEEE
Confidence 4455567777888888888776 22222 233345431 244454432 1223344445555 3677
Q ss_pred EccC
Q 023366 181 VGDI 184 (283)
Q Consensus 181 vg~~ 184 (283)
|||+
T Consensus 171 vgD~ 174 (198)
T TIGR01428 171 VASN 174 (198)
T ss_pred EeCC
Confidence 7775
No 394
>TIGR01467 cobI_cbiL precorrin-2 C20-methyltransferase. This model represents precorrin-2 C20-methyltransferase, one of several closely related S-adenosylmethionine-dependent methyltransferases involved in cobalamin (vitamin B12) biosynthesis.
Probab=28.00 E-value=1.3e+02 Score=26.83 Aligned_cols=58 Identities=12% Similarity=0.110 Sum_probs=39.5
Q ss_pred HHHHHHhhcCccEEEEEeCCcch----HHHHHHHHHcCCcEEEEccCCCccccccccccccHHH
Q 023366 142 HMVDMMDKRHVECLVIVSDDSDF----VDVLQEAKYRCLKTVVVGDINDGALKRIADASFSWRD 201 (283)
Q Consensus 142 ~~~~~~~~~~v~~lvlvsdd~~f----~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~~ 201 (283)
.|.+.+ ..|-...+|++.|+-| ..+++.+.+.|+..-||-+.+ -...=.|.+.++|..
T Consensus 82 ~i~~~~-~~g~~Vv~l~~GDP~~y~~~~~l~~~~~~~~~~veviPGiS-s~~~a~a~~g~~l~~ 143 (230)
T TIGR01467 82 AVAAEL-EEGRDVAFLTLGDPSLYSTFSYLLQRLQGMGIEVEVVPGIT-SFAACASAAGLPLVE 143 (230)
T ss_pred HHHHHH-HCCCcEEEEeCCCCCcccCHHHHHHHHHHCCCcEEEeCChh-HHHHHHHHhCCCccc
Confidence 343444 4577899999999977 456677777788888885544 233444778888754
No 395
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=27.96 E-value=1.6e+02 Score=28.32 Aligned_cols=77 Identities=14% Similarity=0.150 Sum_probs=45.4
Q ss_pred hhhhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCCCc
Q 023366 115 ADELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDINDG 187 (283)
Q Consensus 115 a~~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~~ 187 (283)
...+++.|. .+-.|.++-- ....+.+++.+.|...|++..++ |..++.+. .++..+|+.+...|| ||+++-.
T Consensus 16 ~~~l~~~g~~~~liv~~~~~-~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGSvi 94 (370)
T cd08192 16 PAECAELGIKRPLIVTDPGL-AALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGGSAL 94 (370)
T ss_pred HHHHHHcCCCeEEEEcCcch-hhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCchHH
Confidence 334444453 3445555432 22334556777786678887655 44455555 556667888888888 8887644
Q ss_pred ccccc
Q 023366 188 ALKRI 192 (283)
Q Consensus 188 ~l~r~ 192 (283)
.+++.
T Consensus 95 D~aK~ 99 (370)
T cd08192 95 DLAKA 99 (370)
T ss_pred HHHHH
Confidence 44444
No 396
>COG0205 PfkA 6-phosphofructokinase [Carbohydrate transport and metabolism]
Probab=27.85 E-value=2.8e+02 Score=27.41 Aligned_cols=73 Identities=16% Similarity=0.242 Sum_probs=54.9
Q ss_pred CCCCCchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 023366 108 PKIGYGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 108 pk~gygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvv 181 (283)
|-.......-+.+.|....+-+-++...... +..+.+-|.++||+.||.+-.|--+.+...+|.+-++..|-|
T Consensus 52 ~l~~~~v~~~~~~GGT~lgssR~~~~~~~e~-~~~~~~~l~~~gId~LvvIGGDgS~~gA~~Lae~~~i~vVGv 124 (347)
T COG0205 52 PLTREDVDDLINRGGTFLGSARFPEFKTEEG-RKVAAENLKKLGIDALVVIGGDGSYTGAALLAEEGGIPVVGV 124 (347)
T ss_pred eccccchhHHHhcCCeEEeeCCCCCcccHHH-HHHHHHHHHHcCCCEEEEECCCChHHHHHHHHHhcCCcEEec
Confidence 3334455666778999999976665544333 335556666999999999999999999999999998776655
No 397
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=27.78 E-value=2.1e+02 Score=27.73 Aligned_cols=74 Identities=18% Similarity=0.175 Sum_probs=44.1
Q ss_pred hhhhhcC-eeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCCCcc
Q 023366 116 DELKRAG-FWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDINDGA 188 (283)
Q Consensus 116 ~~L~RaG-~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~~~ 188 (283)
.++++.| -.+-.|.++-- ...-+.+.+...|...|++..++ |..++.+. .+++.+|+.+...|| ||+++-..
T Consensus 16 ~~~~~~~~~r~livt~~~~-~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~~D 94 (375)
T cd08194 16 AVLADLGGKRPLIVTDKVM-VKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGGSPID 94 (375)
T ss_pred HHHHHcCCCeEEEEcCcch-hhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHHH
Confidence 3444333 24555666433 23335567778887778887655 44566665 556667778888777 77766333
Q ss_pred cc
Q 023366 189 LK 190 (283)
Q Consensus 189 l~ 190 (283)
.+
T Consensus 95 ~A 96 (375)
T cd08194 95 TA 96 (375)
T ss_pred HH
Confidence 33
No 398
>TIGR02009 PGMB-YQAB-SF beta-phosphoglucomutase family hydrolase. All of these are members of the larger Haloacid dehalogenase (HAD) subfamily IA and include the "variant 3" glu-asp version of the third conserved HAD domain (TIGR01509).
Probab=27.75 E-value=71 Score=26.50 Aligned_cols=71 Identities=20% Similarity=0.207 Sum_probs=40.5
Q ss_pred ccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccE---EEEEeCCcc----hHHHH-HHHHHcCC
Q 023366 106 LTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVEC---LVIVSDDSD----FVDVL-QEAKYRCL 176 (283)
Q Consensus 106 l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~---lvlvsdd~~----f~~~l-~~ar~~~~ 176 (283)
..|.-| --+-..|+..|+.+-+++.. ..+. ..|...|+.. .|+.|++.. ..+++ +..++.|+
T Consensus 87 ~~~~~g~~~~l~~l~~~g~~i~i~S~~-~~~~--------~~l~~~~l~~~f~~v~~~~~~~~~kp~~~~~~~~~~~~~~ 157 (185)
T TIGR02009 87 AEVLPGIENFLKRLKKKGIAVGLGSSS-KNAD--------RILAKLGLTDYFDAIVDADEVKEGKPHPETFLLAAELLGV 157 (185)
T ss_pred CCCCcCHHHHHHHHHHcCCeEEEEeCc-hhHH--------HHHHHcChHHHCCEeeehhhCCCCCCChHHHHHHHHHcCC
Confidence 344445 45667788899999999987 3222 2333345442 244454432 33343 34444554
Q ss_pred ---cEEEEccCC
Q 023366 177 ---KTVVVGDIN 185 (283)
Q Consensus 177 ---~tvvvg~~~ 185 (283)
++|+|||+.
T Consensus 158 ~~~~~v~IgD~~ 169 (185)
T TIGR02009 158 SPNECVVFEDAL 169 (185)
T ss_pred CHHHeEEEeCcH
Confidence 589999974
No 399
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily (variant 3, TIGR01509).
Probab=27.73 E-value=1.5e+02 Score=24.95 Aligned_cols=14 Identities=43% Similarity=0.451 Sum_probs=9.1
Q ss_pred HHHHHHcCCcEEEE
Q 023366 168 LQEAKYRCLKTVVV 181 (283)
Q Consensus 168 l~~ar~~~~~tvvv 181 (283)
+..|++.|++||.|
T Consensus 171 i~aA~~~G~~~i~v 184 (184)
T TIGR01993 171 IAAAKALGMKTVLV 184 (184)
T ss_pred HHHHHHcCCEEeeC
Confidence 56667777766654
No 400
>PRK14649 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=27.58 E-value=55 Score=31.11 Aligned_cols=33 Identities=15% Similarity=0.087 Sum_probs=27.5
Q ss_pred cEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 153 ECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 153 ~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
+.+|.+.+-.++..+|+.|++.++...|+|.++
T Consensus 22 ~~~v~p~~~~dl~~~l~~~~~~~ip~~vlG~GS 54 (295)
T PRK14649 22 RYFVEPTTPDEAIAAAAWAEQRQLPLFWLGGGS 54 (295)
T ss_pred eEEEEcCCHHHHHHHHHHHHHCCCCEEEEecce
Confidence 467778888888888888888888888888765
No 401
>PLN02625 uroporphyrin-III C-methyltransferase
Probab=27.48 E-value=1.2e+02 Score=27.86 Aligned_cols=62 Identities=10% Similarity=0.146 Sum_probs=42.3
Q ss_pred HHHHHHHHHHhhcCccEEEEEeCCcchHH----HHHHHHHcCCcEEEEccCCCccccccccccccHHH
Q 023366 138 ALRNHMVDMMDKRHVECLVIVSDDSDFVD----VLQEAKYRCLKTVVVGDINDGALKRIADASFSWRD 201 (283)
Q Consensus 138 al~~~~~~~~~~~~v~~lvlvsdd~~f~~----~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~~ 201 (283)
.+.+.|.+.+ ..|-+.++|+|.|+-|.+ +++.+++.|+...||-+.+ -...=.|-+.++|..
T Consensus 80 ~~~~~i~~~~-~~g~~Vvvl~~GDP~~ys~~~~l~~~l~~~~~~veiiPGIS-S~~aaaA~lg~pl~~ 145 (263)
T PLN02625 80 EIHELLLSFA-EAGKTVVRLKGGDPLVFGRGGEEMDALRKNGIPVTVVPGIT-AAIGAPAELGIPLTH 145 (263)
T ss_pred HHHHHHHHHH-HCCCeEEEEcCCCchhhhhHHHHHHHHHHCCCCEEEECCcc-HHHHHHHHcCCCccc
Confidence 3444454445 456678899999997755 4558888899988886654 233444888888863
No 402
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=27.42 E-value=3.1e+02 Score=23.67 Aligned_cols=69 Identities=12% Similarity=0.058 Sum_probs=38.6
Q ss_pred chhhhhhhc-CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE-EEEcc
Q 023366 113 GLADELKRA-GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT-VVVGD 183 (283)
Q Consensus 113 gla~~L~Ra-G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t-vvvg~ 183 (283)
|+...++.. |+.+....... ..+.+ ...+.++|....--..|++++|.-..++++..+++|++. .|||-
T Consensus 141 gf~~~~~~~~~~~~~~~~~~~-~~~~~-~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~di~vvg~ 211 (267)
T cd06322 141 GFKEALADYPNIKIVAVQPGI-TRAEA-LTAAQNILQANPDLDGIFAFGDDAALGAVSAIKAAGRDNVKVIGF 211 (267)
T ss_pred HHHHHHHhCCCcEEEEecCCC-ChHHH-HHHHHHHHHhCCCCCEEEEcCCcHHHHHHHHHHHCCCCCeEEEEe
Confidence 444455555 66654332221 12333 334566664322124566677777789999999999844 44444
No 403
>PRK06555 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated
Probab=27.37 E-value=1.7e+02 Score=29.55 Aligned_cols=63 Identities=17% Similarity=0.111 Sum_probs=44.0
Q ss_pred hcCeeeeecCCCc--hh---------HHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH---cCCcEEEEc
Q 023366 120 RAGFWVRTVSDKP--QA---------ADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY---RCLKTVVVG 182 (283)
Q Consensus 120 RaG~~V~~v~dkp--~a---------aD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~---~~~~tvvvg 182 (283)
..|-...|-+.+| .+ ......+.+.+.|.+.+|+.||.+-.|--|..+.+++.. .|...-|||
T Consensus 70 ~GGt~LGtsR~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~Id~Li~IGGdgS~~~a~~L~~~~~~~g~~i~vvg 146 (403)
T PRK06555 70 YGGSPIGNSRVKLTNVADCVKRGLVKEGENPLKVAAERLAADGVDILHTIGGDDTNTTAADLAAYLAENGYDLTVVG 146 (403)
T ss_pred CCCceeccCCCCccccchhccccccccchHHHHHHHHHHHHcCCCEEEEECChhHHHHHHHHHHHHHHhCCCceEEE
Confidence 3666666655555 11 113455688888889999999999999999999888763 644444444
No 404
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=27.18 E-value=1.9e+02 Score=25.96 Aligned_cols=81 Identities=10% Similarity=0.065 Sum_probs=0.0
Q ss_pred hhhhhcCee-eeecCCCchh----HHHHHHHHHHHHHhhcCccEEEE-----------EeCCc--------chHHHHHHH
Q 023366 116 DELKRAGFW-VRTVSDKPQA----ADVALRNHMVDMMDKRHVECLVI-----------VSDDS--------DFVDVLQEA 171 (283)
Q Consensus 116 ~~L~RaG~~-V~~v~dkp~a----aD~al~~~~~~~~~~~~v~~lvl-----------vsdd~--------~f~~~l~~a 171 (283)
..+++.||. |....+.|.. .+....+.+.+.++..|+....+ .+.+. .+..+++.|
T Consensus 20 ~~~~~~G~~~vEl~~~~~~~~~~~~~~~~~~~l~~~~~~~gl~v~s~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~i~~a 99 (275)
T PRK09856 20 RDASELGYDGIEIWGGRPHAFAPDLKAGGIKQIKALAQTYQMPIIGYTPETNGYPYNMMLGDEHMRRESLDMIKLAMDMA 99 (275)
T ss_pred HHHHHcCCCEEEEccCCccccccccCchHHHHHHHHHHHcCCeEEEecCcccCcCccccCCCHHHHHHHHHHHHHHHHHH
Q ss_pred HHcCCcEEEEccCCCcccccccccc
Q 023366 172 KYRCLKTVVVGDINDGALKRIADAS 196 (283)
Q Consensus 172 r~~~~~tvvvg~~~~~~l~r~ad~~ 196 (283)
.+.|.++|||..+..+......+.+
T Consensus 100 ~~lGa~~i~~~~~~~~~~~~~~~~~ 124 (275)
T PRK09856 100 KEMNAGYTLISAAHAGYLTPPNVIW 124 (275)
T ss_pred HHhCCCEEEEcCCCCCCCCCHHHHH
No 405
>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=27.16 E-value=3e+02 Score=23.94 Aligned_cols=68 Identities=16% Similarity=0.131 Sum_probs=35.3
Q ss_pred chhhhhhhcC-eeeeecCC-CchhHHHHHHHHHHHHHhhc-CccEEEEEeCCcchHHHHHHHHHcCCcE-EEEccC
Q 023366 113 GLADELKRAG-FWVRTVSD-KPQAADVALRNHMVDMMDKR-HVECLVIVSDDSDFVDVLQEAKYRCLKT-VVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG-~~V~~v~d-kp~aaD~al~~~~~~~~~~~-~v~~lvlvsdd~~f~~~l~~ar~~~~~t-vvvg~~ 184 (283)
|+...+...| +.+..+.. ..+. +.+ .+-+.+++.+. .++.|+ ++.|. -.++++.++++|++. .|||..
T Consensus 146 g~~~a~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~i~-~~~d~-A~g~~~al~~~g~~~p~v~g~d 217 (272)
T cd06300 146 GAKEVLKEYPGIKIVGEVYGDWDQ-AVA-QKAVADFLASNPDVDGIW-TQGGD-AVGAVQAFEQAGRDIPPVTGED 217 (272)
T ss_pred HHHHHHHHCCCcEEEeecCCCCCH-HHH-HHHHHHHHHhCCCcCEEE-ecCCC-cHHHHHHHHHcCCCCcEEEeeC
Confidence 4444555555 55432222 2222 112 34455556332 345444 44444 779999999999863 445554
No 406
>PF01565 FAD_binding_4: FAD binding domain This is only a subset of the Pfam family; InterPro: IPR006094 Various enzymes use FAD as a co-factor, most of these enzymes are oxygen-dependent oxidoreductases, containing a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. One of the enzymes Vanillyl-alcohol oxidase (VAO, 1.1.3.38 from EC) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 []. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging from aromatic amines to 4-alkylphenols. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZR6_A 3HSU_A 2AXR_A 3D2J_A 3D2H_A 3FW9_A 3FW8_A 3FW7_A 3GSY_A 3FWA_A ....
Probab=27.10 E-value=83 Score=25.32 Aligned_cols=32 Identities=13% Similarity=0.062 Sum_probs=28.7
Q ss_pred EEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 154 CLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 154 ~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
++|-..+-.++..+++.|++.+++-.+.|.+.
T Consensus 3 ~vv~P~s~~ev~~~v~~a~~~~~~v~~~g~G~ 34 (139)
T PF01565_consen 3 AVVRPKSVEEVQAIVKFANENGVPVRVRGGGH 34 (139)
T ss_dssp EEEEESSHHHHHHHHHHHHHTTSEEEEESSST
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCcEEEEcCCC
Confidence 57778888899999999999999999999865
No 407
>COG2362 DppA D-aminopeptidase [Amino acid transport and metabolism]
Probab=27.07 E-value=74 Score=30.52 Aligned_cols=72 Identities=28% Similarity=0.214 Sum_probs=44.3
Q ss_pred cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH--cCCcEEEEccCCCcccccccccccc
Q 023366 121 AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY--RCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 121 aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~--~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
.|+ |+-|.=.-+-+-+.+.+-+ ++-..||-. .|||.|.. +++++++ =++.||.+ ..+.+|.|++.+|
T Consensus 119 ~G~-v~~v~Ing~e~gE~gLNa~--laG~ygVPV-~~~sGDd~---~~~E~~~l~P~i~tv~~----K~~~s~~a~isls 187 (274)
T COG2362 119 SGF-VRRVRINGVEVGEYGLNAY--LAGEYGVPV-ALVSGDDV---AAREARELTPWIETVAV----KEASSRSAAISLS 187 (274)
T ss_pred ece-eEEEEECCEEhHHHHHHHH--HhhccCCcE-EEeeCcHH---HhhhhhhhCCCeeEEEe----ccccCcccccCCC
Confidence 454 4433333332225555554 232346654 56677654 4567777 58888888 3568999999999
Q ss_pred HHHHh
Q 023366 199 WRDIL 203 (283)
Q Consensus 199 W~~v~ 203 (283)
|..++
T Consensus 188 ~~~a~ 192 (274)
T COG2362 188 PAKAE 192 (274)
T ss_pred HHHHH
Confidence 98765
No 408
>cd02766 MopB_3 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=26.89 E-value=89 Score=31.45 Aligned_cols=72 Identities=29% Similarity=0.335 Sum_probs=48.3
Q ss_pred CccEEEEEeCCc-----chHHHHHHHHHcCCcEEEEccCCCccccccccccccHH-----HHhcchhhhhhhhhhccccc
Q 023366 151 HVECLVIVSDDS-----DFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSWR-----DILMGKAKKEAVSVVGKWED 220 (283)
Q Consensus 151 ~v~~lvlvsdd~-----~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~-----~v~~g~~~~~a~~~~~~w~~ 220 (283)
.-+|||++--+. .+...++.||++|.+-|||.-.- -...+.||.|++-. .++.|-+.... ...|-|
T Consensus 157 ~ad~il~~G~Np~~s~p~~~~~~~~a~~~GaklivvDPr~-t~ta~~Ad~~l~i~PGtD~al~~al~~~ii---~~~~~d 232 (501)
T cd02766 157 NADLIVIWGINPAATNIHLMRIIQEARKRGAKVVVIDPYR-TATAARADLHIQIRPGTDGALALGVAKVLF---REGLYD 232 (501)
T ss_pred cCCEEEEECCChhhhchhHHHHHHHHHHCCCEEEEECCCC-CccHHHhCeeeccCCCcHHHHHHHHHHHHH---HCCCcc
Confidence 567898886553 24456778999999999997653 45778899998752 34444444332 345777
Q ss_pred hhhhhh
Q 023366 221 RDILKR 226 (283)
Q Consensus 221 ~~~~~~ 226 (283)
++++++
T Consensus 233 ~~fv~~ 238 (501)
T cd02766 233 RDFLAR 238 (501)
T ss_pred HHHHHH
Confidence 777653
No 409
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=26.89 E-value=65 Score=26.31 Aligned_cols=25 Identities=32% Similarity=0.235 Sum_probs=22.1
Q ss_pred CCcchHHHHHHHHHcCCcEEEEccC
Q 023366 160 DDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 160 dd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
+..|+..++.+|++.++.-||||-.
T Consensus 47 ~~~d~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 47 DITDPEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp -TT-HHHHHHHHHHTTESEEEESSH
T ss_pred CCCCHHHHHHHHHHcCCCEEEECCh
Confidence 8899999999999999999999985
No 410
>PRK11175 universal stress protein UspE; Provisional
Probab=26.87 E-value=1.9e+02 Score=26.19 Aligned_cols=48 Identities=13% Similarity=0.036 Sum_probs=31.1
Q ss_pred HHHHHHhhcCccE--EEEEeCCcchHHHHHHHHHcCCcEEEEccCCCcccc
Q 023366 142 HMVDMMDKRHVEC--LVIVSDDSDFVDVLQEAKYRCLKTVVVGDINDGALK 190 (283)
Q Consensus 142 ~~~~~~~~~~v~~--lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~~~~l~ 190 (283)
.+...+...++.. .++++++ --..+++.|++.+...||+|....+.+.
T Consensus 227 ~l~~~~~~~~~~~~~~~v~~G~-~~~~I~~~a~~~~~DLIVmG~~~~~~~~ 276 (305)
T PRK11175 227 AMKALRQKFGIDEEQTHVEEGL-PEEVIPDLAEHLDAELVILGTVGRTGLS 276 (305)
T ss_pred HHHHHHHHhCCChhheeeccCC-HHHHHHHHHHHhCCCEEEECCCccCCCc
Confidence 3444444456653 3444443 3456889999999999999996544443
No 411
>TIGR02254 YjjG/YfnB HAD superfamily (subfamily IA) hydrolase, TIGR02254. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549). Most likely, these enzymes are phosphatases.
Probab=26.71 E-value=2.9e+02 Score=23.51 Aligned_cols=20 Identities=20% Similarity=0.388 Sum_probs=13.9
Q ss_pred chhhhhhhcCeeeeecCCCch
Q 023366 113 GLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~ 133 (283)
.+-..|++. +.+-.+++.+.
T Consensus 104 ~~L~~l~~~-~~~~i~Sn~~~ 123 (224)
T TIGR02254 104 ELMENLQQK-FRLYIVTNGVR 123 (224)
T ss_pred HHHHHHHhc-CcEEEEeCCch
Confidence 455566666 78888888765
No 412
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=26.65 E-value=2.2e+02 Score=27.63 Aligned_cols=79 Identities=16% Similarity=0.167 Sum_probs=47.9
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCc---chHHHHHHHHHcCCcEEE-EccCCCc
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDS---DFVDVLQEAKYRCLKTVV-VGDINDG 187 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~---~f~~~l~~ar~~~~~tvv-vg~~~~~ 187 (283)
+..++++-|-.+-.|.+.....-..+..++...|...|++..+. |.-++ .-..+++++++.+..-|| ||+++-.
T Consensus 20 l~~~~~~~~~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~i 99 (382)
T cd08187 20 LGKELKKYGKKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAVGGGSVI 99 (382)
T ss_pred HHHHHHHhCCEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCChHHH
Confidence 33445554555666777655433445677777886678875443 22233 344667888888888777 8877644
Q ss_pred ccccc
Q 023366 188 ALKRI 192 (283)
Q Consensus 188 ~l~r~ 192 (283)
.+++.
T Consensus 100 D~aK~ 104 (382)
T cd08187 100 DSAKA 104 (382)
T ss_pred HHHHH
Confidence 44444
No 413
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase. This model represents precorrin-4 C11-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-3B C17-methyltransferase, EC 2.1.1.131). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products.
Probab=26.57 E-value=1.1e+02 Score=27.12 Aligned_cols=59 Identities=12% Similarity=0.080 Sum_probs=41.6
Q ss_pred HHHHHHHHHhhcCccEEEEEeCCcchH----HHHHHHHHcCCcEEEEccCCCccccccccccccH
Q 023366 139 LRNHMVDMMDKRHVECLVIVSDDSDFV----DVLQEAKYRCLKTVVVGDINDGALKRIADASFSW 199 (283)
Q Consensus 139 l~~~~~~~~~~~~v~~lvlvsdd~~f~----~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW 199 (283)
..+.|.+.+ ..|-+..+|+|.|+-|. .+++.+++.|+...||-+.+ -...=.|.+.++|
T Consensus 60 ~~~~i~~~~-~~g~~V~~L~~GDP~~~~~~~~l~~~~~~~g~~veviPGiS-S~~aa~a~~g~~l 122 (229)
T TIGR01465 60 IVDIMSDAH-REGKLVVRLHTGDPSIYGAIAEQMQLLEALGIPYEVVPGVS-SFFAAAAALGAEL 122 (229)
T ss_pred HHHHHHHHH-HCCCeEEEEeCcCccccccHHHHHHHHHHCCCCEEEECChh-HHHHHHHHcCCCc
Confidence 344555555 45778889999998654 45668888999988886654 2344448889998
No 414
>cd02753 MopB_Formate-Dh-H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. Members of the MopB_Formate-Dh-H CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=26.56 E-value=92 Score=31.02 Aligned_cols=48 Identities=17% Similarity=0.288 Sum_probs=35.5
Q ss_pred CccEEEEEeCCc-----chHHHHHHHHHcCCcEEEEccCCCccccccccccccH
Q 023366 151 HVECLVIVSDDS-----DFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW 199 (283)
Q Consensus 151 ~v~~lvlvsdd~-----~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW 199 (283)
.-++||++..|. .+..-|+.|+++|.+.|||+-.. -.....||.|++-
T Consensus 156 ~ad~il~~G~n~~~~~~~~~~~i~~a~~~G~k~i~Idp~~-s~ta~~Ad~~l~i 208 (512)
T cd02753 156 EADVILVIGSNTTEAHPVIARRIKRAKRNGAKLIVADPRR-TELARFADLHLQL 208 (512)
T ss_pred hCCEEEEECCChhhhhHHHHHHHHHHHHCCCeEEEEcCCC-ccchHhhCeeeCC
Confidence 567888887664 34455678889999999998754 3456779998864
No 415
>TIGR00338 serB phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins.
Probab=26.52 E-value=3.1e+02 Score=23.58 Aligned_cols=85 Identities=21% Similarity=0.233 Sum_probs=0.0
Q ss_pred HHHHHHHhhhccCCCC-CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHH--------
Q 023366 96 EKYKRAARAILTPKIG-YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVD-------- 166 (283)
Q Consensus 96 ~KY~~AA~~~l~pk~g-ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~-------- 166 (283)
..+.......+.|..| -.+-..|+..|+.+-.|+..+. .....+.+.+.-..+=+-.+.+|+..|.+
T Consensus 74 ~~~~~~~~~~~~~~~g~~~~l~~l~~~g~~~~IvS~~~~----~~~~~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 149 (219)
T TIGR00338 74 VELLKEVRENLPLTEGAEELVKTLKEKGYKVAVISGGFD----LFAEHVKDKLGLDAAFANRLEVEDGKLTGLVEGPIVD 149 (219)
T ss_pred HHHHHHHHhcCCcCCCHHHHHHHHHHCCCEEEEECCCcH----HHHHHHHHHcCCCceEeeEEEEECCEEEEEecCcccC
Q ss_pred -------HHHHHHHcCC---cEEEEccC
Q 023366 167 -------VLQEAKYRCL---KTVVVGDI 184 (283)
Q Consensus 167 -------~l~~ar~~~~---~tvvvg~~ 184 (283)
+.+.+++.++ .+|+|||+
T Consensus 150 ~~~k~~~~~~~~~~~~~~~~~~i~iGDs 177 (219)
T TIGR00338 150 ASYKGKTLLILLRKEGISPENTVAVGDG 177 (219)
T ss_pred CcccHHHHHHHHHHcCCCHHHEEEEECC
No 416
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=26.47 E-value=1e+02 Score=29.27 Aligned_cols=63 Identities=11% Similarity=0.137 Sum_probs=38.8
Q ss_pred hhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE
Q 023366 114 LADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT 178 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t 178 (283)
|...++..|+.|..+.-.+..+...+...+..+. ..+ +.||+.....+...+|+.|++.|+..
T Consensus 166 ~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~ik-~~~-~vii~~~~~~~~~~~~~qa~~~g~~~ 228 (396)
T cd06373 166 VYTVLKEENITVSDFPFDEDKELDDYKELLRDIS-KKG-RVVIMCASPDTVREIMLAAHRLGLTS 228 (396)
T ss_pred HHHHHhhcCceeeEEeecCCccccCHHHHHHHHH-hcC-cEEEEecCHHHHHHHHHHHHHcCCCC
Confidence 4455666787765443333210122223444444 445 88888888888999999999999864
No 417
>cd06344 PBP1_ABC_ligand_binding_like_9 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. 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=26.26 E-value=1.3e+02 Score=27.65 Aligned_cols=68 Identities=19% Similarity=0.225 Sum_probs=42.7
Q ss_pred hhhhhhh-cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 114 LADELKR-AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 114 la~~L~R-aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
+...+++ .|..|-...+ +...|......+.+++ ..+.+-|++.....++..+++.+++.+.+.-++|.
T Consensus 155 ~~~~~~~~~g~~v~~~~~-~~~~~~~~~~~v~~i~-~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 223 (332)
T cd06344 155 FTSALLERGGGIVVTPCD-LSSPDFNANTAVSQAI-NNGATVLVLFPDTDTLDKALEVAKANKGRLTLLGG 223 (332)
T ss_pred HHHHHHHhcCCeeeeecc-CCCCCCCHHHHHHHHH-hcCCCEEEEeCChhHHHHHHHHHHhcCCCceEEec
Confidence 3344555 4666543222 2212222333444456 56889999888877899999999999887777764
No 418
>PRK07085 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=26.20 E-value=1.3e+02 Score=31.59 Aligned_cols=63 Identities=22% Similarity=0.327 Sum_probs=47.7
Q ss_pred hhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH---cCCcEEEEcc
Q 023366 119 KRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY---RCLKTVVVGD 183 (283)
Q Consensus 119 ~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~---~~~~tvvvg~ 183 (283)
...|+ ...+-+.++. +..-.+.+.+.+.+++|+.||.+-+|.-+..+..++.. ++.++-|||-
T Consensus 133 ~~GG~~~LGssR~k~~--~~e~~~~i~~~l~~~~Id~LviIGGd~S~~~A~~Lae~~~~~~~~i~VIGI 199 (555)
T PRK07085 133 NTGGFDMIGSGRTKIE--TEEQKEACLETVKKLKLDGLVIIGGDDSNTNAAILAEYFAKHGCKTQVIGV 199 (555)
T ss_pred hCCChhhhcCCCCCCC--CHHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHHhCCCccEEEE
Confidence 35777 6777676652 23355677778889999999999999999998887764 6667777764
No 419
>PF13460 NAD_binding_10: NADH(P)-binding ; PDB: 3OH8_A 3E8X_A 3GPI_A 3QVO_A 2Q46_B 1YBM_B 1XQ6_B 2Q4B_B 3EW7_A 3IUS_B ....
Probab=26.15 E-value=44 Score=27.71 Aligned_cols=72 Identities=21% Similarity=0.280 Sum_probs=47.9
Q ss_pred CCCchhhhhhhcCeeeeecCCCchhHH-----------HHHHHHHHHHHhhcCccEEEEEeC-----CcchHHHHHHHHH
Q 023366 110 IGYGLADELKRAGFWVRTVSDKPQAAD-----------VALRNHMVDMMDKRHVECLVIVSD-----DSDFVDVLQEAKY 173 (283)
Q Consensus 110 ~gygla~~L~RaG~~V~~v~dkp~aaD-----------~al~~~~~~~~~~~~v~~lvlvsd-----d~~f~~~l~~ar~ 173 (283)
+|..+...|.+.|+.|..+...|+.++ .-=...|...| + |++.++.+-. ......+++.+++
T Consensus 10 vG~~l~~~L~~~~~~V~~~~R~~~~~~~~~~~~~~~~d~~d~~~~~~al-~-~~d~vi~~~~~~~~~~~~~~~~~~a~~~ 87 (183)
T PF13460_consen 10 VGRALAKQLLRRGHEVTALVRSPSKAEDSPGVEIIQGDLFDPDSVKAAL-K-GADAVIHAAGPPPKDVDAAKNIIEAAKK 87 (183)
T ss_dssp HHHHHHHHHHHTTSEEEEEESSGGGHHHCTTEEEEESCTTCHHHHHHHH-T-TSSEEEECCHSTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCEEEEEecCchhcccccccccceeeehhhhhhhhhh-h-hcchhhhhhhhhcccccccccccccccc
Confidence 457788888888899987766666433 22224455556 3 8887765543 2225667888899
Q ss_pred cCCcEEEEcc
Q 023366 174 RCLKTVVVGD 183 (283)
Q Consensus 174 ~~~~tvvvg~ 183 (283)
.|++.+|+-.
T Consensus 88 ~~~~~~v~~s 97 (183)
T PF13460_consen 88 AGVKRVVYLS 97 (183)
T ss_dssp TTSSEEEEEE
T ss_pred cccccceeee
Confidence 9998777633
No 420
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=26.10 E-value=70 Score=23.57 Aligned_cols=43 Identities=23% Similarity=0.251 Sum_probs=33.7
Q ss_pred CchhhhhhhcCeeeeecCCCch---hHHHHHHHHHHHHHhhcCccE
Q 023366 112 YGLADELKRAGFWVRTVSDKPQ---AADVALRNHMVDMMDKRHVEC 154 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~---aaD~al~~~~~~~~~~~~v~~ 154 (283)
-.++..|.+.|..|..+...|. ..|..+...+.+.|.++||+-
T Consensus 12 ~E~A~~l~~~g~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v 57 (80)
T PF00070_consen 12 IELAEALAELGKEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEV 57 (80)
T ss_dssp HHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEE
T ss_pred HHHHHHHHHhCcEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEE
Confidence 4577888899998887766665 567888888888888888873
No 421
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=25.88 E-value=2e+02 Score=24.72 Aligned_cols=63 Identities=13% Similarity=0.200 Sum_probs=35.3
Q ss_pred chhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhc-CccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 113 GLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKR-HVECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 113 gla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~-~v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
|+...|+..|+.+..+...+...+.+ .+.+..+|... .++ .|+.++|.-..++++.+++.|++
T Consensus 138 gf~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-ai~~~~d~~a~g~~~al~~~g~~ 201 (266)
T cd06282 138 GYRAAMRAAGLAPLPPVEIPFNTAAL-PSALLALLTAHPAPT-AIFCSNDLLALAVIRALRRLGLR 201 (266)
T ss_pred HHHHHHHHcCCCCCccccCCCcHHHH-HHHHHHHhcCCCCCC-EEEECCcHHHHHHHHHHHHcCCC
Confidence 44455666666543222222222222 44566666332 233 45556677777999999999985
No 422
>PRK08942 D,D-heptose 1,7-bisphosphate phosphatase; Validated
Probab=25.68 E-value=2e+02 Score=24.37 Aligned_cols=43 Identities=19% Similarity=0.179 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 137 VALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 137 ~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
..+..++...+ ....+..+.|.|.. .+ +..|++.|+.+|.|..
T Consensus 106 p~~~~~~~~~l-~~~~~~~~~VgDs~--~D-i~~A~~aG~~~i~v~~ 148 (181)
T PRK08942 106 PGMLLSIAERL-NIDLAGSPMVGDSL--RD-LQAAAAAGVTPVLVRT 148 (181)
T ss_pred HHHHHHHHHHc-CCChhhEEEEeCCH--HH-HHHHHHCCCeEEEEcC
Confidence 44444543333 22334455566543 34 4567777777666643
No 423
>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=25.66 E-value=2.4e+02 Score=24.14 Aligned_cols=48 Identities=21% Similarity=0.240 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHHcCCcEEEEcc
Q 023366 136 DVALRNHMVDMMDKRHVECLVIVSDDS-DFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 136 D~al~~~~~~~~~~~~v~~lvlvsdd~-~f~~~l~~ar~~~~~tvvvg~ 183 (283)
-..+...+.+.+...|..++++.+++. +...+++.+...++.-++|..
T Consensus 14 ~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~ 62 (266)
T cd06278 14 YSELLEALSRALQARGYQPLLINTDDDEDLDAALRQLLQYRVDGVIVTS 62 (266)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEcCCCCHHHHHHHHHHHHcCCCEEEEec
Confidence 356777788888889999998877654 677888889999999999854
No 424
>cd08188 Fe-ADH4 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=25.61 E-value=2.2e+02 Score=27.65 Aligned_cols=69 Identities=17% Similarity=0.150 Sum_probs=41.2
Q ss_pred hhhhhcC-eeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHHcCCcEEE-EccCC
Q 023366 116 DELKRAG-FWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI--VSDDSDFV---DVLQEAKYRCLKTVV-VGDIN 185 (283)
Q Consensus 116 ~~L~RaG-~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl--vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~ 185 (283)
..+++-| -.+-.|.|+ ...+..+...+...+...|+++.+. |.-++... .++..+|+.+...|| ||+++
T Consensus 21 ~~l~~~g~~~~livt~~-~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 96 (377)
T cd08188 21 RYARRLGAKKVLLVSDP-GVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGGS 96 (377)
T ss_pred HHHHHcCCCeEEEEeCc-chhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 3444445 244456663 3334445667777786778887654 33344454 456777888887766 77765
No 425
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=25.56 E-value=2e+02 Score=22.91 Aligned_cols=49 Identities=20% Similarity=0.285 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhhc--CccEEEEEeCCcchH---HHHHHHHHcCCcEEEEccCCC
Q 023366 137 VALRNHMVDMMDKR--HVECLVIVSDDSDFV---DVLQEAKYRCLKTVVVGDIND 186 (283)
Q Consensus 137 ~al~~~~~~~~~~~--~v~~lvlvsdd~~f~---~~l~~ar~~~~~tvvvg~~~~ 186 (283)
.||..-+ +++... .-..|||+||..+-. .+++.++..|+...+||-+.+
T Consensus 84 ~al~~a~-~~~~~~~~~~~~iv~iTDG~~~~~~~~~~~~~~~~~i~i~~v~~~~~ 137 (172)
T PF13519_consen 84 DALQEAA-KMLASSDNRRRAIVLITDGEDNSSDIEAAKALKQQGITIYTVGIGSD 137 (172)
T ss_dssp HHHHHHH-HHHHC-SSEEEEEEEEES-TTHCHHHHHHHHHHCTTEEEEEEEES-T
T ss_pred HHHHHHH-HHHHhCCCCceEEEEecCCCCCcchhHHHHHHHHcCCeEEEEEECCC
Confidence 4444333 344333 345889999976543 678888889998888877653
No 426
>PRK10725 fructose-1-P/6-phosphogluconate phosphatase; Provisional
Probab=25.54 E-value=1.4e+02 Score=24.88 Aligned_cols=43 Identities=16% Similarity=0.017 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 137 VALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 137 ~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
.....++.+.+ ....+..|.| +|+ . .=++.|++.|++||.|++
T Consensus 145 p~~~~~~~~~~-~~~~~~~l~i-gDs-~-~di~aA~~aG~~~i~~~~ 187 (188)
T PRK10725 145 PDTFLRCAQLM-GVQPTQCVVF-EDA-D-FGIQAARAAGMDAVDVRL 187 (188)
T ss_pred hHHHHHHHHHc-CCCHHHeEEE-ecc-H-hhHHHHHHCCCEEEeecC
Confidence 44444443333 2222223334 665 3 345899999999999875
No 427
>CHL00194 ycf39 Ycf39; Provisional
Probab=25.40 E-value=1.1e+02 Score=28.27 Aligned_cols=71 Identities=17% Similarity=0.242 Sum_probs=40.4
Q ss_pred CCchhhhhhhcCeeeeecCCCchhH-------------HHHHHHHHHHHHhhcCccEEEEEeC-----Ccch--------
Q 023366 111 GYGLADELKRAGFWVRTVSDKPQAA-------------DVALRNHMVDMMDKRHVECLVIVSD-----DSDF-------- 164 (283)
Q Consensus 111 gygla~~L~RaG~~V~~v~dkp~aa-------------D~al~~~~~~~~~~~~v~~lvlvsd-----d~~f-------- 164 (283)
|..+...|...|+.|+.+...+..+ |..=...+...+ .|++.++-.+. ...|
T Consensus 13 G~~lv~~Ll~~g~~V~~l~R~~~~~~~l~~~~v~~v~~Dl~d~~~l~~al--~g~d~Vi~~~~~~~~~~~~~~~~~~~~~ 90 (317)
T CHL00194 13 GRQIVRQALDEGYQVRCLVRNLRKASFLKEWGAELVYGDLSLPETLPPSF--KGVTAIIDASTSRPSDLYNAKQIDWDGK 90 (317)
T ss_pred HHHHHHHHHHCCCeEEEEEcChHHhhhHhhcCCEEEECCCCCHHHHHHHH--CCCCEEEECCCCCCCCccchhhhhHHHH
Confidence 4567777777888887554333321 111112233445 37887765422 1122
Q ss_pred HHHHHHHHHcCCcEEEEcc
Q 023366 165 VDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 165 ~~~l~~ar~~~~~tvvvg~ 183 (283)
..+++.|++.||+.+|.-.
T Consensus 91 ~~l~~aa~~~gvkr~I~~S 109 (317)
T CHL00194 91 LALIEAAKAAKIKRFIFFS 109 (317)
T ss_pred HHHHHHHHHcCCCEEEEec
Confidence 4688999999997776533
No 428
>cd02172 RfaE_N N-terminal domain of RfaE. RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in Escherichia coli, and separate proteins in other organisms. Domain I is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose .
Probab=25.29 E-value=1.3e+02 Score=25.40 Aligned_cols=35 Identities=11% Similarity=0.193 Sum_probs=24.8
Q ss_pred HHhhcC-ccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 146 MMDKRH-VECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 146 ~~~~~~-v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
+|.++| |+.+++.. ...-.++| ++.+++.||+|.-
T Consensus 61 ~l~~lg~VD~vi~~~-~~~~~~fi---~~l~~~~vv~G~d 96 (144)
T cd02172 61 VLAALGFVDYVVLFD-NPTALEII---DALQPNIYVKGGD 96 (144)
T ss_pred HHHccCCccEEEECC-CCCHHHHH---HHhCCCEEEECCC
Confidence 345788 99998874 22344444 4689999999974
No 429
>COG0241 HisB Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]
Probab=25.20 E-value=2.7e+02 Score=25.01 Aligned_cols=81 Identities=23% Similarity=0.222 Sum_probs=54.4
Q ss_pred hhhhhcCeeeeecCC--------CchhHHHHHHHHHHHHHhhcCcc-EEEEEeCCc-----c----hHHHHHHHHH-cC-
Q 023366 116 DELKRAGFWVRTVSD--------KPQAADVALRNHMVDMMDKRHVE-CLVIVSDDS-----D----FVDVLQEAKY-RC- 175 (283)
Q Consensus 116 ~~L~RaG~~V~~v~d--------kp~aaD~al~~~~~~~~~~~~v~-~lvlvsdd~-----~----f~~~l~~ar~-~~- 175 (283)
..|+++|+.+-.|++ -|+++=.++-..|...+.+.||. +-||.+-.. + =.+|+..+.+ .+
T Consensus 41 ~~l~~~gy~lVvvTNQsGi~rgyf~~~~f~~~~~~m~~~l~~~gv~id~i~~Cph~p~~~c~cRKP~~gm~~~~~~~~~i 120 (181)
T COG0241 41 LKLQRAGYKLVVVTNQSGIGRGYFTEADFDKLHNKMLKILASQGVKIDGILYCPHHPEDNCDCRKPKPGMLLSALKEYNI 120 (181)
T ss_pred HHHHhCCCeEEEEECCCCccccCccHHHHHHHHHHHHHHHHHcCCccceEEECCCCCCCCCcccCCChHHHHHHHHHhCC
Confidence 356688888887776 34566667888898899888975 335544222 2 2456555544 56
Q ss_pred --CcEEEEccC-CCcccccccccc
Q 023366 176 --LKTVVVGDI-NDGALKRIADAS 196 (283)
Q Consensus 176 --~~tvvvg~~-~~~~l~r~ad~~ 196 (283)
-+++||||. +|.-++..|.+.
T Consensus 121 D~~~s~~VGD~~~Dlq~a~n~gi~ 144 (181)
T COG0241 121 DLSRSYVVGDRLTDLQAAENAGIK 144 (181)
T ss_pred CccceEEecCcHHHHHHHHHCCCC
Confidence 689999997 566666666666
No 430
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=25.16 E-value=2.1e+02 Score=24.61 Aligned_cols=65 Identities=14% Similarity=0.248 Sum_probs=35.0
Q ss_pred CchhhhhhhcCeee--eecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 112 YGLADELKRAGFWV--RTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 112 ygla~~L~RaG~~V--~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
-|+...++..|... ..+...+.. .......|.++|....--..|++++|.-..++++.++++|++
T Consensus 137 ~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ 203 (267)
T cd06283 137 EGFKEALAEHGIGVNEELIEIDDED-ADELDERLRQLLNKPKKKTAIFAANGLILLEVLKALKELGIR 203 (267)
T ss_pred HHHHHHHHHcCCCCCcceeEecccc-hHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCC
Confidence 35566666666321 112111111 123355666667332212345555666667999999999984
No 431
>PF09338 Gly_reductase: Glycine/sarcosine/betaine reductase component B subunits; InterPro: IPR015417 This is a family of glycine reductase, sarcosine reductase and betaine reductases. These enzymes catalyse the following reactions: sarcosine reductase: Acetyl phosphate + methylamine + thioredoxin disulphide = N-methylglycine + phosphate + thioredoxin. glycine reductase: Acetyl phosphate + NH3 + thioredoxin disulphide = glycine + phosphate + thioredoxin. betaine reductase: Acetyl phosphate + trimethylamine + thioredoxin disulphide = N,N,N-trimethylglycine + phosphate + thioredoxin. ; GO: 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process
Probab=24.97 E-value=1.5e+02 Score=30.25 Aligned_cols=38 Identities=24% Similarity=0.323 Sum_probs=32.9
Q ss_pred HhhcCccEEEEEeC-----CcchHHHHHHHHHcCCcEEEEccC
Q 023366 147 MDKRHVECLVIVSD-----DSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 147 ~~~~~v~~lvlvsd-----d~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
+..+|+|.+|+..+ |.||.-.++.+-++|++||.|.+.
T Consensus 299 a~~LgaDGaIvs~eG~GN~d~D~~~~~~~~e~~GIktV~it~e 341 (428)
T PF09338_consen 299 AEMLGADGAIVSEEGFGNPDVDFAMNIEEIEKRGIKTVGITDE 341 (428)
T ss_pred HHHhCCCEEEEEecCCCchhHHHHHHHHHHHHCCCCEEEecce
Confidence 33569999988875 789999999999999999999874
No 432
>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=24.96 E-value=2e+02 Score=24.19 Aligned_cols=38 Identities=11% Similarity=0.175 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhhcC--ccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 138 ALRNHMVDMMDKRH--VECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 138 al~~~~~~~~~~~~--v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
.....+..++ ..+ ++.|+ +++|.....+++.++++|++
T Consensus 164 ~~~~~~~~~l-~~~~~~~~i~-~~~~~~a~~~~~~~~~~g~~ 203 (264)
T cd01537 164 KGYQAAEELL-TAHPDPTAIF-AANDDMALGALRALREAGLR 203 (264)
T ss_pred HHHHHHHHHH-hcCCCCCEEE-EcCcHHHHHHHHHHHHhCCC
Confidence 3455666677 444 44444 44555666799999999995
No 433
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=24.89 E-value=1.8e+02 Score=25.84 Aligned_cols=61 Identities=8% Similarity=-0.067 Sum_probs=46.1
Q ss_pred hcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCC--cchHHHHHHHHHcCCcEEEEcc
Q 023366 120 RAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDD--SDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 120 RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd--~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
++||....+.+ |. -..+.+.|.+.+...|+..++.-+++ ......++.+..+++.-|+|-.
T Consensus 1 ~~~~~~~~~~~-~f--~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~~~~vdgiii~~ 63 (272)
T cd06313 1 KAAFSNIGLQA-TW--CAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMASQGWDFIAVDP 63 (272)
T ss_pred CcceeecccCC-hH--HHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcC
Confidence 36888877654 33 34688899998888999999887753 3456778888899999999943
No 434
>cd06324 PBP1_ABC_sugar_binding_like_13 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 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=24.85 E-value=2.9e+02 Score=25.01 Aligned_cols=79 Identities=16% Similarity=0.122 Sum_probs=43.6
Q ss_pred HHHHHHHHhh-cCccEEEEEeCCcchHHHHHHHHHcCCc----EEEEccCCCccccccccccccHHHHhcchhhhhh--h
Q 023366 140 RNHMVDMMDK-RHVECLVIVSDDSDFVDVLQEAKYRCLK----TVVVGDINDGALKRIADASFSWRDILMGKAKKEA--V 212 (283)
Q Consensus 140 ~~~~~~~~~~-~~v~~lvlvsdd~~f~~~l~~ar~~~~~----tvvvg~~~~~~l~r~ad~~~sW~~v~~g~~~~~a--~ 212 (283)
...+.++|.. ..++. |+++.|.--.++++.++++|++ -.|||-.. - . .....+..|...... .
T Consensus 190 ~~~~~~~l~~~~~~~a-i~~~~d~~A~g~~~al~~~g~~vp~di~vig~D~-~-~-------~~~~~~~~~~lttv~~~~ 259 (305)
T cd06324 190 YEQAENLLKRYPDVRL-IWAANDQMAFGALRAAKEAGRKPGRDVLFGGVNW-S-P-------EALRAIKDGRLSVSAGGH 259 (305)
T ss_pred HHHHHHHHHHCCCccE-EEECCchHHHHHHHHHHHcCCCcCCCEEEEecCC-C-H-------HHHHHHHcCceEEEecCC
Confidence 3455566643 23554 4455666667899999999986 34555321 0 0 112344444433322 2
Q ss_pred hhhccccchhhhhhhc
Q 023366 213 SVVGKWEDRDILKRLE 228 (283)
Q Consensus 213 ~~~~~w~~~~~~~~~~ 228 (283)
...|++.-+-++++++
T Consensus 260 ~~~g~~a~~~l~~~i~ 275 (305)
T cd06324 260 FTEGGWALVLLYDYAH 275 (305)
T ss_pred cccHHHHHHHHHHHHc
Confidence 2356677777777775
No 435
>PRK14652 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=24.82 E-value=73 Score=30.44 Aligned_cols=33 Identities=15% Similarity=0.197 Sum_probs=28.6
Q ss_pred cEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 153 ECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 153 ~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
+.+|...+-.|+..+++.|++.++..+|+|.++
T Consensus 37 ~~~v~p~~~edl~~~v~~a~~~~ip~~vlGgGS 69 (302)
T PRK14652 37 DLLVRPADPDALSALLRAVRELGVPLSILGGGA 69 (302)
T ss_pred eEEEEcCCHHHHHHHHHHHHHCCCcEEEEcCCc
Confidence 367888888999999999999999999999876
No 436
>PRK11609 nicotinamidase/pyrazinamidase; Provisional
Probab=24.71 E-value=1.7e+02 Score=25.68 Aligned_cols=45 Identities=13% Similarity=0.156 Sum_probs=35.6
Q ss_pred HHHHHHHhhcCccEEEEEeCCcchH--HHHHHHHHcCCcEEEEccCC
Q 023366 141 NHMVDMMDKRHVECLVIVSDDSDFV--DVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 141 ~~~~~~~~~~~v~~lvlvsdd~~f~--~~l~~ar~~~~~tvvvg~~~ 185 (283)
..+...|..+||+.|||+--..++- .-.+.|..+|.+++||.|..
T Consensus 131 T~L~~~L~~~gi~~lii~G~~T~~CV~~Ta~dA~~~gy~v~v~~Da~ 177 (212)
T PRK11609 131 TALDDWLREHGITELIVMGLATDYCVKFTVLDALALGYQVNVITDGC 177 (212)
T ss_pred ccHHHHHHHcCCCEEEEEEeccCHHHHHHHHHHHHCCCEEEEEeecc
Confidence 3456667789999999987776653 44578899999999999865
No 437
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=24.62 E-value=2.5e+02 Score=27.13 Aligned_cols=75 Identities=9% Similarity=0.104 Sum_probs=37.3
Q ss_pred hhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEE-EEeCCcchH---HHHHHHHHcCCcEEE-EccCCCcccc
Q 023366 116 DELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLV-IVSDDSDFV---DVLQEAKYRCLKTVV-VGDINDGALK 190 (283)
Q Consensus 116 ~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lv-lvsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~~~l~ 190 (283)
.+|++.|-.+-.|.|+--. + .+...+...+...|+++++ .|..++... .+++.+++.+...|| ||+++-..++
T Consensus 23 ~~l~~~g~~~livtd~~~~-~-~~~~~v~~~l~~~~~~~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGsv~D~a 100 (366)
T PRK09423 23 EYLKPLGKRALVIADEFVL-G-IVGDRVEASLKEAGLTVVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIGGGKTLDTA 100 (366)
T ss_pred HHHHHcCCEEEEEEChhHH-H-HHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecChHHHHHH
Confidence 3344444334445554332 2 2556666666556666532 344444443 444555666665555 6665544444
Q ss_pred cc
Q 023366 191 RI 192 (283)
Q Consensus 191 r~ 192 (283)
+.
T Consensus 101 K~ 102 (366)
T PRK09423 101 KA 102 (366)
T ss_pred HH
Confidence 44
No 438
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=24.60 E-value=1.1e+02 Score=23.85 Aligned_cols=47 Identities=19% Similarity=0.244 Sum_probs=29.7
Q ss_pred cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC
Q 023366 121 AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL 176 (283)
Q Consensus 121 aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~ 176 (283)
.|--|-|..|.++.. .. .+ ..++.||||+.+..-=..++++|++.++
T Consensus 40 ~~~lvIt~gdR~di~----~~----a~-~~~i~~iIltg~~~~~~~v~~la~~~~i 86 (105)
T PF07085_consen 40 PGDLVITPGDREDIQ----LA----AI-EAGIACIILTGGLEPSEEVLELAKELGI 86 (105)
T ss_dssp TTEEEEEETT-HHHH----HH----HC-CTTECEEEEETT----HHHHHHHHHHT-
T ss_pred CCeEEEEeCCcHHHH----HH----HH-HhCCCEEEEeCCCCCCHHHHHHHHHCCC
Confidence 477777777776621 11 23 5678999999888888889999999884
No 439
>PF14488 DUF4434: Domain of unknown function (DUF4434)
Probab=24.59 E-value=1.8e+02 Score=25.40 Aligned_cols=80 Identities=18% Similarity=0.202 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHhhcCccEEEEE--------eCCcch-------------HHHHHHHHHcCCcEEEEccCCCccccccccc
Q 023366 137 VALRNHMVDMMDKRHVECLVIV--------SDDSDF-------------VDVLQEAKYRCLKTVVVGDINDGALKRIADA 195 (283)
Q Consensus 137 ~al~~~~~~~~~~~~v~~lvlv--------sdd~~f-------------~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~ 195 (283)
.+-++...++|...|+++|||- .-.+.+ ..+|++|.+.|++ |+||-..++.--. +-
T Consensus 19 ~~~W~~~~~~m~~~GidtlIlq~~~~~~~~~yps~~~~~~~~~~~~d~l~~~L~~A~~~Gmk-v~~Gl~~~~~~w~--~~ 95 (166)
T PF14488_consen 19 PAQWREEFRAMKAIGIDTLILQWTGYGGFAFYPSKLSPGGFYMPPVDLLEMILDAADKYGMK-VFVGLYFDPDYWD--QG 95 (166)
T ss_pred HHHHHHHHHHHHHcCCcEEEEEEeecCCcccCCccccCccccCCcccHHHHHHHHHHHcCCE-EEEeCCCCchhhh--cc
Confidence 3556666777878899999874 123433 6789999999998 6677664433333 24
Q ss_pred cccHHHHhcchhhhhhhhhhccccchh
Q 023366 196 SFSWRDILMGKAKKEAVSVVGKWEDRD 222 (283)
Q Consensus 196 ~~sW~~v~~g~~~~~a~~~~~~w~~~~ 222 (283)
-.+| + .-..+..|.++..+|...-
T Consensus 96 ~~~~-~--~~~~~~v~~el~~~yg~h~ 119 (166)
T PF14488_consen 96 DLDW-E--AERNKQVADELWQRYGHHP 119 (166)
T ss_pred CHHH-H--HHHHHHHHHHHHHHHcCCC
Confidence 4556 2 2222334555555555543
No 440
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=24.55 E-value=1.8e+02 Score=25.52 Aligned_cols=60 Identities=15% Similarity=0.168 Sum_probs=41.1
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.|+...++..|+.+-.... +. + .. .+ ..+++-||+++..+. +.++.+.++++..|+++..
T Consensus 24 ~gi~~~~~~~g~~~~~~~~-~~--~--~~-----~~-~~~vdgii~~~~~~~--~~~~~~~~~~~pvV~~~~~ 83 (270)
T cd01544 24 LGIEKRAQELGIELTKFFR-DD--D--LL-----EI-LEDVDGIIAIGKFSQ--EQLAKLAKLNPNLVFVDSN 83 (270)
T ss_pred HHHHHHHHHcCCEEEEEec-cc--h--hH-----Hh-ccCcCEEEEecCCCH--HHHHHHHhhCCCEEEECCC
Confidence 4667777778888765433 21 1 11 13 578999998875544 7788888899999999653
No 441
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=24.54 E-value=1.5e+02 Score=22.88 Aligned_cols=35 Identities=9% Similarity=0.224 Sum_probs=28.1
Q ss_pred CccEEEEEeCCcc------hHHHHHHHHHcCCcEEEEccCC
Q 023366 151 HVECLVIVSDDSD------FVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 151 ~v~~lvlvsdd~~------f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
....||++||... ...++..+++.+++..+||-++
T Consensus 101 ~~~~lvvitDg~~~~~~~~~~~~~~~~~~~~v~v~~v~~g~ 141 (161)
T cd00198 101 ARRVIILLTDGEPNDGPELLAEAARELRKLGITVYTIGIGD 141 (161)
T ss_pred CceEEEEEeCCCCCCCcchhHHHHHHHHHcCCEEEEEEcCC
Confidence 4567899998765 5577899999999998888774
No 442
>PF03411 Peptidase_M74: Penicillin-insensitive murein endopeptidase; InterPro: IPR005073 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of peptidases belong to MEROPS peptidase family M74 (murein endopeptidase family, clan MD). The type example is murein endopeptidase from Escherichia coli (MepA). The entry represents a family of penicillin-insensitive murein endopeptidases involved in the removal of murein from the sacculus by cleaving the peptide bonds between neighbouring strands in mature murein. The crystal structure of MepA has been determined revealing similarities to the D-Ala-D-Ala carboxypeptidases in MEROPS peptidase family M15 []. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis, 0030288 outer membrane-bounded periplasmic space; PDB: 1U10_F 1TZP_A.
Probab=24.39 E-value=75 Score=30.01 Aligned_cols=30 Identities=23% Similarity=0.327 Sum_probs=15.3
Q ss_pred HHHHHcCCcEEEEccCCC---ccc---------ccccccccc
Q 023366 169 QEAKYRCLKTVVVGDIND---GAL---------KRIADASFS 198 (283)
Q Consensus 169 ~~ar~~~~~tvvvg~~~~---~~l---------~r~ad~~~s 198 (283)
+.++..|+.+++|||.+- |.+ +.-||+||.
T Consensus 49 ~~~~~~g~~~llIGDiS~prGG~m~sgH~SHQ~GLDvDIwl~ 90 (240)
T PF03411_consen 49 REAAQAGWPGLLIGDISQPRGGPMSSGHASHQSGLDVDIWLR 90 (240)
T ss_dssp HHHHHTTS--EEE---B-TT----SSS-S--TTS-EEEEES-
T ss_pred HHHHHcCCCceEEeecCCcCCCCCCCCccccccCccceeeee
Confidence 677889999999999652 222 122899997
No 443
>PRK13903 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=24.31 E-value=75 Score=31.39 Aligned_cols=33 Identities=18% Similarity=0.223 Sum_probs=28.2
Q ss_pred cEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 153 ECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 153 ~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
+.++.+.+-.|+..+|+.|++.++...|+|.++
T Consensus 34 ~~~~~p~s~edl~~~l~~a~~~~~p~~vlGgGS 66 (363)
T PRK13903 34 RRLVTCTSTEELVAAVRELDAAGEPLLVLGGGS 66 (363)
T ss_pred eEEEEeCCHHHHHHHHHHHHHCCCCEEEEeCCe
Confidence 377888899999999999999999888888765
No 444
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=24.27 E-value=3.1e+02 Score=24.56 Aligned_cols=51 Identities=18% Similarity=0.201 Sum_probs=40.4
Q ss_pred hHHHHHHHHHHHHHhhcCccEE-EEEeCCcchH---HHHHHHHHcCCcEEEEccC
Q 023366 134 AADVALRNHMVDMMDKRHVECL-VIVSDDSDFV---DVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 134 aaD~al~~~~~~~~~~~~v~~l-vlvsdd~~f~---~~l~~ar~~~~~tvvvg~~ 184 (283)
..|+...++..++|+..||.-- -.||...-=. ...+.|+++|++.++-|.+
T Consensus 12 ~SD~~~mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAG 66 (162)
T COG0041 12 KSDWDTMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAG 66 (162)
T ss_pred cchHHHHHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCc
Confidence 5789999999999999999965 5667766544 4456678899999888775
No 445
>PRK14071 6-phosphofructokinase; Provisional
Probab=24.24 E-value=2.4e+02 Score=27.74 Aligned_cols=44 Identities=11% Similarity=0.154 Sum_probs=36.9
Q ss_pred HHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 023366 138 ALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 138 al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvv 181 (283)
...+.|.+.|.+.+|+.||.+-.|--|..+.++++..++..|.|
T Consensus 94 ~~~~~~~~~l~~~~Id~Li~IGGdgS~~~a~~L~~~~~i~vIgi 137 (360)
T PRK14071 94 DRSQEIIDGYHSLGLDALIGIGGDGSLAILRRLAQQGGINLVGI 137 (360)
T ss_pred HHHHHHHHHHHHcCCCEEEEECChhHHHHHHHHHHhcCCcEEEe
Confidence 45567888888999999999999999999999887667776665
No 446
>TIGR00179 murB UDP-N-acetylenolpyruvoylglucosamine reductase. This model describes MurB, UDP-N-acetylenolpyruvoylglucosamine reductase, which is also called UDP-N-acetylmuramate dehydrogenase. It is part of the pathway for the biosynthesis of the UDP-N-acetylmuramoyl-pentapeptide that is a precursor of bacterial peptidoglycan.
Probab=24.21 E-value=77 Score=29.90 Aligned_cols=32 Identities=22% Similarity=0.270 Sum_probs=27.6
Q ss_pred EEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 154 CLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 154 ~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.++.+.+-.|+..+|+.|++.++..+|+|.++
T Consensus 15 ~~v~p~s~edl~~~l~~a~~~~~p~~vlGgGS 46 (284)
T TIGR00179 15 HIVCPESIEQLVNVLDNAKEEDQPLLILGEGS 46 (284)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCCEEEEecce
Confidence 56778888899999999999999999998876
No 447
>TIGR01469 cobA_cysG_Cterm uroporphyrin-III C-methyltransferase. This model represents enzymes, or enzyme domains, with uroporphyrin-III C-methyltransferase activity. This enzyme catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). Cobalamin contains cobalt while siroheme contains iron. Siroheme is a cofactor for nitrite and sulfite reductases and therefore plays a role in cysteine biosynthesis; many members of this family are CysG, siroheme synthase, with an additional N-terminal domain and with additional oxidation and iron insertion activities.
Probab=24.05 E-value=1.3e+02 Score=26.57 Aligned_cols=61 Identities=11% Similarity=0.133 Sum_probs=40.7
Q ss_pred HHHHHHHHHHhhcCccEEEEEeCCcchH----HHHHHHHHcCCcEEEEccCCCccccccccccccHH
Q 023366 138 ALRNHMVDMMDKRHVECLVIVSDDSDFV----DVLQEAKYRCLKTVVVGDINDGALKRIADASFSWR 200 (283)
Q Consensus 138 al~~~~~~~~~~~~v~~lvlvsdd~~f~----~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~ 200 (283)
.+...|.+.+ ..|-..++|+|.|+-|. .+++.+++.++...||=+.+ -.-.=.|-+.++|.
T Consensus 65 ~~~~~i~~~~-~~g~~V~~l~~GDP~~~~~~~~l~~~~~~~~~~v~viPGiS-s~~~a~a~~g~~l~ 129 (236)
T TIGR01469 65 EINRLLVELA-REGKKVVRLKGGDPFVFGRGGEEAEALAEAGIPFEVVPGVT-SAIAAAAYAGIPLT 129 (236)
T ss_pred HHHHHHHHHH-HCCCeEEEEeCcCcccccCHHHHHHHHHHCCCCEEEECCcc-HHHHHHHHcCCCcc
Confidence 3444444445 45777888999998775 45578888888888885544 12333477888886
No 448
>TIGR03614 RutB pyrimidine utilization protein B. RL Proc Natl Acad Sci U S A. 2006 Mar 28;103(13):5114-9. Epub 2006 Mar 15.
Probab=23.72 E-value=1.7e+02 Score=26.21 Aligned_cols=44 Identities=18% Similarity=0.195 Sum_probs=33.8
Q ss_pred HHHHHHhhcCccEEEEEeCCcchH--HHHHHHHHcCCcEEEEccCC
Q 023366 142 HMVDMMDKRHVECLVIVSDDSDFV--DVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 142 ~~~~~~~~~~v~~lvlvsdd~~f~--~~l~~ar~~~~~tvvvg~~~ 185 (283)
.+..+|.++||+.||++--..++- .-.+.|-.+|.+++||.|..
T Consensus 141 ~L~~~Lr~~gI~~lvi~Gv~T~~CV~sTar~A~~~Gy~v~vv~Da~ 186 (226)
T TIGR03614 141 PLDSMLRARGIRNLVFTGIATNVCVESTLRDGFHLEYFGVVLEDAT 186 (226)
T ss_pred CHHHHHHHCCCCEEEEeccCccHhHHHHHHHHHHCCCEEEEechhc
Confidence 355567789999999876655542 34588999999999999875
No 449
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=23.69 E-value=2e+02 Score=23.57 Aligned_cols=70 Identities=19% Similarity=0.366 Sum_probs=39.0
Q ss_pred chhHHHHHHHHHHHHH------hhcCccEEEEEeCCcch---------H-HHHHHHH--HcCCcEEEEccCCCccccccc
Q 023366 132 PQAADVALRNHMVDMM------DKRHVECLVIVSDDSDF---------V-DVLQEAK--YRCLKTVVVGDINDGALKRIA 193 (283)
Q Consensus 132 p~aaD~al~~~~~~~~------~~~~v~~lvlvsdd~~f---------~-~~l~~ar--~~~~~tvvvg~~~~~~l~r~a 193 (283)
|.++|..++.++..+. +.|-|-.++++.+...- + .+.+.-+ ..+...|+||= ||..+..-
T Consensus 18 ps~~d~~~~~q~~~L~~~~~~l~eRdi~v~~i~~~~~~~~~~~~~~~~~~~lr~~l~~~~~~f~~vLiGK--DG~vK~r~ 95 (118)
T PF13778_consen 18 PSADDPRYQQQLEELQNNRCGLDERDIVVIVITGDGARSPGKPLSPEDIQALRKRLRIPPGGFTVVLIGK--DGGVKLRW 95 (118)
T ss_pred CCCCCHHHHHHHHHHHhhhhccccCceEEEEEeCCccccccCcCCHHHHHHHHHHhCCCCCceEEEEEeC--CCcEEEec
Confidence 4455555555443333 24455566665444322 1 3333333 35666778875 47777777
Q ss_pred cccccHHHHh
Q 023366 194 DASFSWRDIL 203 (283)
Q Consensus 194 d~~~sW~~v~ 203 (283)
+.-++|++|-
T Consensus 96 ~~p~~~~~lf 105 (118)
T PF13778_consen 96 PEPIDPEELF 105 (118)
T ss_pred CCCCCHHHHH
Confidence 7778888764
No 450
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=23.53 E-value=3.6e+02 Score=25.96 Aligned_cols=62 Identities=16% Similarity=0.305 Sum_probs=42.1
Q ss_pred hcCeeeeecCCCch----hHHHHHHHHHHHHHhhcCccEEEEEeCCcch---HHHHHHHHHcCCcEEEEccCC
Q 023366 120 RAGFWVRTVSDKPQ----AADVALRNHMVDMMDKRHVECLVIVSDDSDF---VDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 120 RaG~~V~~v~dkp~----aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f---~~~l~~ar~~~~~tvvvg~~~ 185 (283)
|.++.|+++...+. -++..+.. +++..+-+-+|.||-+.-. ...=..-...|+-+|||||.+
T Consensus 29 RedI~vrv~gsGaKm~pe~~~~~~~~----~~~~~~pDf~i~isPN~a~PGP~~ARE~l~~~~iP~IvI~D~p 97 (277)
T PRK00994 29 REDIDVRVVGSGAKMGPEEVEEVVKK----MLEEWKPDFVIVISPNPAAPGPKKAREILKAAGIPCIVIGDAP 97 (277)
T ss_pred ccCceEEEeccCCCCCHHHHHHHHHH----HHHhhCCCEEEEECCCCCCCCchHHHHHHHhcCCCEEEEcCCC
Confidence 78999999887654 33322322 3455688888999987543 233344455799999999986
No 451
>cd02765 MopB_4 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=23.46 E-value=1.2e+02 Score=31.12 Aligned_cols=76 Identities=17% Similarity=0.209 Sum_probs=50.7
Q ss_pred CccEEEEEeCCc-----chHHHHHHHHHcCCcEEEEccCCCccccccccccccH-----HHHhcchhhhhhhhhhccccc
Q 023366 151 HVECLVIVSDDS-----DFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFSW-----RDILMGKAKKEAVSVVGKWED 220 (283)
Q Consensus 151 ~v~~lvlvsdd~-----~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW-----~~v~~g~~~~~a~~~~~~w~~ 220 (283)
.-++||++.-+. .+...+..||++|.+.|||.-.- -..+..||.|++= .-+++|-+.... ...|-|
T Consensus 159 ~ad~il~~G~Np~~s~~~~~~~~~~a~~~GakliviDPr~-s~ta~~Ad~~l~irPGTD~al~~am~~~ii---~~~l~D 234 (567)
T cd02765 159 NAKTIIIWGSNILETQFQDAEFFLDARENGAKIVVIDPVY-STTAAKADQWVPIRPGTDPALALGMINYIL---EHNWYD 234 (567)
T ss_pred cCcEEEEECCChHHccchhHHHHHHHHHcCCeEEEECCCC-CcchhhcCEEeccCCCchHHHHHHHHHHHH---hcCccc
Confidence 567888887764 24456678999999999997653 4567789998864 233444433332 235778
Q ss_pred hhhhhhhccccC
Q 023366 221 RDILKRLEWTYS 232 (283)
Q Consensus 221 ~~~~~~~~~~~~ 232 (283)
++++++ ||+-
T Consensus 235 ~~Fi~~--~t~~ 244 (567)
T cd02765 235 EAFLKS--NTSA 244 (567)
T ss_pred HHHHHh--cCCC
Confidence 888874 6643
No 452
>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=23.44 E-value=2.3e+02 Score=26.63 Aligned_cols=61 Identities=13% Similarity=0.084 Sum_probs=41.3
Q ss_pred hhhhhhhcCeeeeecCCCc-hhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCc
Q 023366 114 LADELKRAGFWVRTVSDKP-QAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLK 177 (283)
Q Consensus 114 la~~L~RaG~~V~~v~dkp-~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~ 177 (283)
+...+++.|+.|-...--| .+.|.. .++.+++ ..+.+-|++.....+-+.+++.+++.|+.
T Consensus 154 ~~~~~~~~G~~vv~~~~~~~~~~D~s--~~v~~l~-~~~pDav~~~~~~~~~~~~~~~~~~~G~~ 215 (359)
T TIGR03407 154 IKAYLKSLGGTVVGEDYTPLGHTDFQ--TIINKIK-AFKPDVVFNTLNGDSNVAFFKQLKNAGIT 215 (359)
T ss_pred HHHHHHHcCCEEEeeEEecCChHhHH--HHHHHHH-HhCCCEEEEeccCCCHHHHHHHHHHcCCC
Confidence 4566778898875433232 355543 6666667 67899776554555667899999999996
No 453
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=23.43 E-value=1.3e+02 Score=26.72 Aligned_cols=33 Identities=18% Similarity=0.216 Sum_probs=25.2
Q ss_pred cEEEEEeCCcc---hHHHHHHHHHcCCcEEEEccCC
Q 023366 153 ECLVIVSDDSD---FVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 153 ~~lvlvsdd~~---f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.-|||++|... ...+.+.+|+.|+...+||-++
T Consensus 110 kvvillTDG~s~~~~~~~a~~lk~~gv~i~~VgvG~ 145 (224)
T cd01475 110 RVGIVVTDGRPQDDVSEVAAKARALGIEMFAVGVGR 145 (224)
T ss_pred eEEEEEcCCCCcccHHHHHHHHHHCCcEEEEEeCCc
Confidence 35789998733 5566788889999988888753
No 454
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=23.39 E-value=2.3e+02 Score=23.89 Aligned_cols=58 Identities=17% Similarity=0.200 Sum_probs=42.3
Q ss_pred HHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCC--cEEEEccCCCcccccccccccc
Q 023366 138 ALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCL--KTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 138 al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~--~tvvvg~~~~~~l~r~ad~~~s 198 (283)
++..++.+.- ++|+.-|+.||-|+-|+ ..+.+.+.++ ...++.|.+ +.+.+--++.+.
T Consensus 52 ~~~~~~~~f~-~~g~~~V~~iS~D~~~~-~~~~~~~~~~~~~f~lLsD~~-~~~~~~ygv~~~ 111 (155)
T cd03013 52 GYVENADELK-AKGVDEVICVSVNDPFV-MKAWGKALGAKDKIRFLADGN-GEFTKALGLTLD 111 (155)
T ss_pred HHHHhHHHHH-HCCCCEEEEEECCCHHH-HHHHHHhhCCCCcEEEEECCC-HHHHHHcCCCcc
Confidence 4566654444 78887799999999997 6667888887 678999964 677776666543
No 455
>PF10727 Rossmann-like: Rossmann-like domain; InterPro: IPR019665 This entry represents an NAD/NADP-binding domain with a core Rossmann-type fold, found in an uncharacterised protein family thought to be putative NADP oxidoreductase coenzyme F420-dependent proteins and/or NAD-dependent glycerol-3-phosphate dehydrogenase-like proteins. This Rossmann-fold domain consists of 3-layers alpha/beta/alpha, where the six beta strands are parallel in the order 321456.; PDB: 3DFU_A 3C24_A.
Probab=23.32 E-value=73 Score=26.78 Aligned_cols=71 Identities=27% Similarity=0.384 Sum_probs=39.4
Q ss_pred cCCCCCchhhhhhhcCeeeeecCCCch-hHHHHHHHHH--------HHHHhhcCccEEEE-EeCCcchHHHHHHHHHc--
Q 023366 107 TPKIGYGLADELKRAGFWVRTVSDKPQ-AADVALRNHM--------VDMMDKRHVECLVI-VSDDSDFVDVLQEAKYR-- 174 (283)
Q Consensus 107 ~pk~gygla~~L~RaG~~V~~v~dkp~-aaD~al~~~~--------~~~~~~~~v~~lvl-vsdd~~f~~~l~~ar~~-- 174 (283)
.-++|+.|+..|.++|+.|..|..... .++.|- ..+ .+.+ ...|-++| |+|| ....+...-...
T Consensus 18 aGrVG~~La~aL~~ag~~v~~v~srs~~sa~~a~-~~~~~~~~~~~~~~~--~~aDlv~iavpDd-aI~~va~~La~~~~ 93 (127)
T PF10727_consen 18 AGRVGTALARALARAGHEVVGVYSRSPASAERAA-AFIGAGAILDLEEIL--RDADLVFIAVPDD-AIAEVAEQLAQYGA 93 (127)
T ss_dssp TSCCCCHHHHHHHHTTSEEEEESSCHH-HHHHHH-C--TT-----TTGGG--CC-SEEEE-S-CC-HHHHHHHHHHCC--
T ss_pred CCHHHHHHHHHHHHCCCeEEEEEeCCcccccccc-ccccccccccccccc--ccCCEEEEEechH-HHHHHHHHHHHhcc
Confidence 457889999999999999998876554 333332 221 1112 34555544 5555 555555544433
Q ss_pred -CCcEEEE
Q 023366 175 -CLKTVVV 181 (283)
Q Consensus 175 -~~~tvvv 181 (283)
.=+++||
T Consensus 94 ~~~g~iVv 101 (127)
T PF10727_consen 94 WRPGQIVV 101 (127)
T ss_dssp S-TT-EEE
T ss_pred CCCCcEEE
Confidence 2245555
No 456
>PRK11263 cardiolipin synthase 2; Provisional
Probab=23.25 E-value=2.6e+02 Score=27.86 Aligned_cols=61 Identities=10% Similarity=0.117 Sum_probs=45.2
Q ss_pred CeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEe----CCcchHHHHHHHHHcCCcEEEEcc
Q 023366 122 GFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVS----DDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 122 G~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvs----dd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
...+..|.+.|......+...+.++|. .-=..|.|.+ -+..+...|+.|.++||+--+|-+
T Consensus 190 ~~~~~~v~~~p~~~~~~i~~~~~~~i~-~A~~~I~I~tpYf~p~~~l~~aL~~Aa~RGV~V~ii~~ 254 (411)
T PRK11263 190 EAQALLVWRDNEEHRDDIERHYLKALR-QARREVIIANAYFFPGYRLLRALRNAARRGVRVRLILQ 254 (411)
T ss_pred CeEEEEEECCCcchHHHHHHHHHHHHH-HhceEEEEEecCcCCCHHHHHHHHHHHHCCCEEEEEeC
Confidence 346788888887666677888888883 3344666665 367789999999999998766643
No 457
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=23.17 E-value=3.2e+02 Score=20.35 Aligned_cols=36 Identities=8% Similarity=0.076 Sum_probs=16.7
Q ss_pred HHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEE
Q 023366 143 MVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTV 179 (283)
Q Consensus 143 ~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tv 179 (283)
+.+.|.+.|+.+.+-. .+..+..-|+.|...|...+
T Consensus 21 l~~~L~~~gi~v~~d~-~~~~~~k~~~~a~~~g~p~~ 56 (94)
T PF03129_consen 21 LANKLRKAGIRVELDD-SDKSLGKQIKYADKLGIPFI 56 (94)
T ss_dssp HHHHHHHTTSEEEEES-SSSTHHHHHHHHHHTTESEE
T ss_pred HHHHHHHCCCEEEEEC-CCCchhHHHHHHhhcCCeEE
Confidence 3333434444444433 44445555555555555543
No 458
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=22.90 E-value=1.9e+02 Score=27.65 Aligned_cols=64 Identities=6% Similarity=0.219 Sum_probs=43.5
Q ss_pred hhhcCeeee-----ecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEE----EEccC
Q 023366 118 LKRAGFWVR-----TVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTV----VVGDI 184 (283)
Q Consensus 118 L~RaG~~V~-----~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tv----vvg~~ 184 (283)
++..|..|. .+++.+.+.| ....+.+ |.+.+.+.|||.+-..+-..+|+.|++.|+.+- ++|+.
T Consensus 141 ~~~~g~~V~~~~~~~i~~~~~~~d--~~~~L~~-ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~ 213 (370)
T cd06389 141 AAEKKWQVTAINVGNINNDRKDEA--YRSLFQD-LENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANL 213 (370)
T ss_pred hccCCceEEEEEeecCCCccchHH--HHHHHHH-hccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccC
Confidence 445675544 2233332333 3334333 457799999999999999999999999999766 67663
No 459
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.81 E-value=3.5e+02 Score=23.47 Aligned_cols=70 Identities=10% Similarity=0.131 Sum_probs=37.3
Q ss_pred chhhhhhhcCeeeeec-CCCchhHHHHHHHHHHHHHhhcCcc-EEEEEeCCcchHHHHHHHHHcCCc--EEEEccC
Q 023366 113 GLADELKRAGFWVRTV-SDKPQAADVALRNHMVDMMDKRHVE-CLVIVSDDSDFVDVLQEAKYRCLK--TVVVGDI 184 (283)
Q Consensus 113 gla~~L~RaG~~V~~v-~dkp~aaD~al~~~~~~~~~~~~v~-~lvlvsdd~~f~~~l~~ar~~~~~--tvvvg~~ 184 (283)
|+...+...|..+..+ ...+-..+.+ ...+.+++ ..+-+ ..|+.+.|.--.++++.+++.|++ --|||-.
T Consensus 146 gf~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l-~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~di~vvg~d 219 (277)
T cd06319 146 GFKEAMKEAGCDLAGIRQQKDFSYQET-FDYTNDLL-TANPDIRAIWLQGSDRYQGALDAIATAGKTGKVLLICFD 219 (277)
T ss_pred HHHHHHHhcCCceEeeccCCCCCHHHH-HHHHHHHH-HhCCCCCEEEECCCccchHHHHHHHHcCCCCCEEEEEcC
Confidence 5556666777654322 1122122333 34555666 33333 233444455556999999999986 3355543
No 460
>TIGR00676 fadh2 5,10-methylenetetrahydrofolate reductase, prokaryotic form. This protein is an FAD-containing flavoprotein.
Probab=22.81 E-value=2.8e+02 Score=25.82 Aligned_cols=17 Identities=12% Similarity=0.346 Sum_probs=8.7
Q ss_pred hHHHHHHHHHcCCcEEE
Q 023366 164 FVDVLQEAKYRCLKTVV 180 (283)
Q Consensus 164 f~~~l~~ar~~~~~tvv 180 (283)
+...|..+.+.|++.|+
T Consensus 75 l~~~L~~~~~~Gi~nvL 91 (272)
T TIGR00676 75 IREILREYRELGIRHIL 91 (272)
T ss_pred HHHHHHHHHHCCCCEEE
Confidence 44445555555555443
No 461
>TIGR00246 tRNA_RlmH_YbeA rRNA large subunit m3Psi methyltransferase RlmH. This protein, in the SPOUT methyltransferase family, previously designated YbeA in E. coli, was shown to be responsible for a further modification, a methylation, to a pseudouridine base in ribosomal large subunit RNA.
Probab=22.77 E-value=3.4e+02 Score=23.56 Aligned_cols=77 Identities=16% Similarity=0.159 Sum_probs=42.7
Q ss_pred CeeeeecCCCch----hHHHHHHHHHHHHHhhcCccEEEEEe------CCcchHHHHHHHHHcCC-cEEEEccCC--Ccc
Q 023366 122 GFWVRTVSDKPQ----AADVALRNHMVDMMDKRHVECLVIVS------DDSDFVDVLQEAKYRCL-KTVVVGDIN--DGA 188 (283)
Q Consensus 122 G~~V~~v~dkp~----aaD~al~~~~~~~~~~~~v~~lvlvs------dd~~f~~~l~~ar~~~~-~tvvvg~~~--~~~ 188 (283)
.+.+.-+++.+. .+...+.+.-...+....-+++|+.. |+.+|++.|......|- =+.|||+.. +..
T Consensus 31 ~~ei~el~~~~~~~~~~~~~~~~~E~~~il~~~~~~~~i~LDe~Gk~~sS~~fA~~l~~~~~~g~~i~FvIGGa~G~~~~ 110 (153)
T TIGR00246 31 PFELIEIPAGKRGKNADIKRILDKEGDRILAAIGKAHVVTLDIPGKPWTTPQLADTLEKWKTDGRDVTLLIGGPEGLSPT 110 (153)
T ss_pred CeEEEEeCCccccccccHHHHHHHHHHHHHHhCCCCeEEEEcCCCCcCCHHHHHHHHHHHhccCCeEEEEEcCCCcCCHH
Confidence 344444555442 22344455455556555535555442 56789999998877773 255788742 123
Q ss_pred cccccccccc
Q 023366 189 LKRIADASFS 198 (283)
Q Consensus 189 l~r~ad~~~s 198 (283)
+..-||.-+|
T Consensus 111 v~~~a~~~lS 120 (153)
T TIGR00246 111 CKAAAEQSWS 120 (153)
T ss_pred HHHhcCceEE
Confidence 4444775555
No 462
>PF10740 DUF2529: Protein of unknown function (DUF2529); InterPro: IPR019676 This entry represents a protein family conserved in the Bacillales. Their function is not known. ; PDB: 3JX9_A.
Probab=22.76 E-value=1.6e+02 Score=26.59 Aligned_cols=48 Identities=15% Similarity=0.136 Sum_probs=27.5
Q ss_pred CccEEEEEeCCcchHHHHHH---HHHcCCcEEEEc-cC-CCcccccccccccc
Q 023366 151 HVECLVIVSDDSDFVDVLQE---AKYRCLKTVVVG-DI-NDGALKRIADASFS 198 (283)
Q Consensus 151 ~v~~lvlvsdd~~f~~~l~~---ar~~~~~tvvvg-~~-~~~~l~r~ad~~~s 198 (283)
..|.++|+|-.++=.++++. ..++|+..|+|. .. .+..|..+||+.++
T Consensus 81 ~~DRVllfs~~~~~~e~~~~a~~L~~~gi~~v~Vs~~~~~~~~l~~~~~~~Id 133 (172)
T PF10740_consen 81 ETDRVLLFSPFSTDEEAVALAKQLIEQGIPFVGVSPNKPDEEDLEDLADVHID 133 (172)
T ss_dssp TT-EEEEEES-S--HHHHHHHHHHHHHT--EEEEE-SS---TTGGG-SSS-EE
T ss_pred ccceEEEEeCCCCCHHHHHHHHHHHHCCCCEEEEEecCCCCCchhhhhhheee
Confidence 67899999988888555554 456999999998 21 22357777777765
No 463
>cd02759 MopB_Acetylene-hydratase The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=22.76 E-value=1.2e+02 Score=30.04 Aligned_cols=47 Identities=26% Similarity=0.157 Sum_probs=35.1
Q ss_pred CccEEEEEeCCc------chHHHHHHHHHcCCcEEEEccCCCcccccccccccc
Q 023366 151 HVECLVIVSDDS------DFVDVLQEAKYRCLKTVVVGDINDGALKRIADASFS 198 (283)
Q Consensus 151 ~v~~lvlvsdd~------~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~s 198 (283)
..++||++.-|. .+...++.||++|.+-|||.-.- -.....||.|++
T Consensus 160 ~ad~Il~~G~n~~~~~~~~~~~~~~~ar~~g~klividpr~-s~ta~~Ad~~l~ 212 (477)
T cd02759 160 NPECIVLWGKNPLNSNLDLQGHWLVAAMKRGAKLIVVDPRL-TWLAARADLWLP 212 (477)
T ss_pred cCCEEEEEccChhhhCcHHHHHHHHHHHHCCCEEEEECCCC-ChhhHhhCeeec
Confidence 567898888764 34456778889999999996643 456778999886
No 464
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=22.71 E-value=1.7e+02 Score=19.56 Aligned_cols=32 Identities=19% Similarity=0.198 Sum_probs=26.9
Q ss_pred EEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 154 CLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 154 ~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
-++.|+.+....++++..++.++..+.|-|.+
T Consensus 8 ~~~~v~~~~~l~~~~~~~~~~~~~~~~V~d~~ 39 (57)
T PF00571_consen 8 PPITVSPDDSLEEALEIMRKNGISRLPVVDED 39 (57)
T ss_dssp SSEEEETTSBHHHHHHHHHHHTSSEEEEESTT
T ss_pred CCEEEcCcCcHHHHHHHHHHcCCcEEEEEecC
Confidence 45678888999999999999999998887754
No 465
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=22.67 E-value=2.6e+02 Score=22.75 Aligned_cols=64 Identities=11% Similarity=0.225 Sum_probs=41.4
Q ss_pred Cchhhhhhh-cCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeC--Cc-----chHHHHHHHHHcCCcEE
Q 023366 112 YGLADELKR-AGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSD--DS-----DFVDVLQEAKYRCLKTV 179 (283)
Q Consensus 112 ygla~~L~R-aG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsd--d~-----~f~~~l~~ar~~~~~tv 179 (283)
-|.+..|+. .|+.|..|.-.|.--| .++.++|.+..|+-+|-.++ +. |--.+.|.|.+.++--+
T Consensus 34 ~gTa~~L~~~~Gi~v~~vk~~~~~g~----~~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~ 105 (115)
T cd01422 34 GTTGLLIQEATGLTVNRMKSGPLGGD----QQIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLA 105 (115)
T ss_pred chHHHHHHHhhCCcEEEEecCCCCch----hHHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEE
Confidence 466788999 9999998821123333 44666665777887777776 32 34456677777776543
No 466
>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=22.66 E-value=1.9e+02 Score=26.28 Aligned_cols=49 Identities=18% Similarity=0.275 Sum_probs=31.9
Q ss_pred CCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 130 DKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 130 dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
.||. ..+.+.+.+.+ +...+.++.|.|+ -+.|+ ..|+..|++||.|..+
T Consensus 177 gKP~---~~~~~~~~~~~-~~~~~~~~~VGD~-~~~Di-~~a~~~G~~~v~v~~G 225 (249)
T TIGR01457 177 GKPN---AIIMEKAVEHL-GTEREETLMVGDN-YLTDI-RAGIDAGIDTLLVHTG 225 (249)
T ss_pred CCCh---HHHHHHHHHHc-CCCcccEEEECCC-chhhH-HHHHHcCCcEEEEcCC
Confidence 4775 55666654444 3445667777765 33443 4799999999999643
No 467
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=22.66 E-value=1.6e+02 Score=26.70 Aligned_cols=44 Identities=14% Similarity=0.243 Sum_probs=30.3
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHH--hhcCccEEEEE
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMM--DKRHVECLVIV 158 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~--~~~~v~~lvlv 158 (283)
..|+..|++.||.|.+..|.-. ..+.+.+.+.. +..+.+|+|+|
T Consensus 35 ~~l~~~f~~lgF~V~~~~nlt~---~~~~~~l~~f~~~~~~~~d~~v~~ 80 (243)
T cd00032 35 ENLTKLFESLGYEVEVKNNLTA---EEILEELKEFASPDHSDSDSFVCV 80 (243)
T ss_pred HHHHHHHHHCCCEEEEeCCCCH---HHHHHHHHHHHhccCCCCCeeEEE
Confidence 6788899999999999888776 23344443334 34577777554
No 468
>PRK09492 treR trehalose repressor; Provisional
Probab=22.62 E-value=3.1e+02 Score=24.63 Aligned_cols=66 Identities=11% Similarity=0.096 Sum_probs=38.2
Q ss_pred CchhhhhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEcc
Q 023366 112 YGLADELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~ 183 (283)
.|+..++...|+.+-......+ ......+.+.|..++|+-+|+++.+..-.+.| +..+...|+|+.
T Consensus 82 ~~i~~~~~~~gy~~~~~~~~~~---~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~l---~~~~~pvv~i~~ 147 (315)
T PRK09492 82 RTMLPAFYEQGYDPIIMESQFS---PEKVNEHLGVLKRRNVDGVILFGFTGITEEML---APWQDKLVLLAR 147 (315)
T ss_pred HHHHHHHHHcCCeEEEEecCCC---hHHHHHHHHHHHhcCCCEEEEeCCCcccHHHH---HhcCCCEEEEec
Confidence 4666778888988865433221 11222333344478999999987432222333 344667788874
No 469
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=22.61 E-value=2.6e+02 Score=24.63 Aligned_cols=71 Identities=18% Similarity=0.270 Sum_probs=41.5
Q ss_pred CchhhhhhhcCeeeeecCCCch---hHHHHHHHHHHHHHhhc-CccE-EEEEeCCcchHHHHHHHHHcCCc---EEEEcc
Q 023366 112 YGLADELKRAGFWVRTVSDKPQ---AADVALRNHMVDMMDKR-HVEC-LVIVSDDSDFVDVLQEAKYRCLK---TVVVGD 183 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~---aaD~al~~~~~~~~~~~-~v~~-lvlvsdd~~f~~~l~~ar~~~~~---tvvvg~ 183 (283)
-|+...|++.|+.+..+-..+. ..+.+ .+.+.++|.+. .++. .|+.+.|.-..++++.++++|++ -.|||-
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~ 228 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKTTDTEGA-FDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGI 228 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccCcchhhH-HHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEec
Confidence 4666677777765332222221 12333 34556666332 2342 56777777888999999999985 345554
No 470
>PRK13368 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional
Probab=22.54 E-value=2.1e+02 Score=24.99 Aligned_cols=42 Identities=17% Similarity=0.187 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHhhc-CccEEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 023366 137 VALRNHMVDMMDKR-HVECLVIVSDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 137 ~al~~~~~~~~~~~-~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvv 181 (283)
.-|..|+.+.+.+. +++.+|+++++.. +...++..|++.+..
T Consensus 27 kPli~~~i~~l~~~~~~~~ivv~t~~~~---i~~~~~~~~~~v~~~ 69 (238)
T PRK13368 27 KPMIQHVYERAAQAAGVEEVYVATDDQR---IEDAVEAFGGKVVMT 69 (238)
T ss_pred cCHHHHHHHHHHhcCCCCeEEEECChHH---HHHHHHHcCCeEEec
Confidence 34566666666555 7888888887643 444455567765443
No 471
>COG5405 HslV ATP-dependent protease HslVU (ClpYQ), peptidase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=22.53 E-value=81 Score=28.46 Aligned_cols=58 Identities=21% Similarity=0.267 Sum_probs=42.0
Q ss_pred HHHHHHcCCcEEEEccCCCccccccccccccHHHH------hcchhhhhhhhhhccccchhhhhhhccc
Q 023366 168 LQEAKYRCLKTVVVGDINDGALKRIADASFSWRDI------LMGKAKKEAVSVVGKWEDRDILKRLEWT 230 (283)
Q Consensus 168 l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~~v------~~g~~~~~a~~~~~~w~~~~~~~~~~~~ 230 (283)
-|.-|+.....|++|=- +-.||+.-=.+.+ -.|...+.|++.+..|++.+.|++||=.
T Consensus 35 arKvRkl~~gkvlaGFA-----GstADaftLfe~fe~kle~~~g~L~raavelaKdwr~Dk~lr~LEAm 98 (178)
T COG5405 35 ARKVRRLYNGKVLAGFA-----GSTADAFTLFERFEAKLEQYQGDLFRAAVELAKDWRTDKYLRKLEAM 98 (178)
T ss_pred HHHHHHHcCCcEEEEec-----ccchhHHHHHHHHHHHHHHccCcHHHHHHHHHHhhhhhhHHHHHhhh
Confidence 46667777777777652 4567873223332 2478889999999999999999999854
No 472
>TIGR00010 hydrolase, TatD family. Several genomes have multiple paralogs related to this family. However, a set of 17 proteins can be found, one each from 17 of the first 20 genomes, such that each member forms a bidirectional best hit across genomes with all other members of the set. This core set (and one other near-perfect member), but not the other paralogs, form the seed for this model. Additionally, members of the seed alignment and all trusted hits, but not all paralogs, have a conserved motif DxHxH near the amino end. The member from E. coli was recently shown to have DNase activity.
Probab=22.46 E-value=1.4e+02 Score=25.98 Aligned_cols=29 Identities=28% Similarity=0.313 Sum_probs=21.1
Q ss_pred HhhcCccEEEEEeCC-cchHHHHHHHHHcC
Q 023366 147 MDKRHVECLVIVSDD-SDFVDVLQEAKYRC 175 (283)
Q Consensus 147 ~~~~~v~~lvlvsdd-~~f~~~l~~ar~~~ 175 (283)
|+..|++.+|++|-+ .++..+++.+++.+
T Consensus 24 ~~~~Gv~~~v~~~~~~~~~~~~~~~~~~~~ 53 (252)
T TIGR00010 24 AKAAGVTAVVAVGTDLEDFLRALELAEKYP 53 (252)
T ss_pred HHHcCCCEEEEecCCHHHHHHHHHHHHHCC
Confidence 446788888888766 56677777777777
No 473
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=22.41 E-value=6.4e+02 Score=23.47 Aligned_cols=69 Identities=14% Similarity=0.041 Sum_probs=43.9
Q ss_pred CchhhhhhhcCeeeeec-----CCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTV-----SDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v-----~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
-.|..-.++-|+.+..+ ...|.+.+.+ .+.+.|...+|.||+.-+.-+. ..+=..|++.|++.+++...
T Consensus 187 ~af~Yl~~~~gl~~~~~~~~~~~~eps~~~l~---~l~~~ik~~~v~~If~e~~~~~-~~~~~ia~~~g~~v~~l~~l 260 (286)
T cd01019 187 DAYGYFEKRYGLTQAGVFTIDPEIDPGAKRLA---KIRKEIKEKGATCVFAEPQFHP-KIAETLAEGTGAKVGELDPL 260 (286)
T ss_pred ccHHHHHHHcCCceeeeecCCCCCCCCHHHHH---HHHHHHHHcCCcEEEecCCCCh-HHHHHHHHhcCceEEEeccc
Confidence 34667778889886642 2445555554 3333466789999987655332 34445578899988777543
No 474
>PRK00923 sirohydrochlorin cobaltochelatase; Reviewed
Probab=22.38 E-value=3.8e+02 Score=21.50 Aligned_cols=23 Identities=9% Similarity=0.150 Sum_probs=21.0
Q ss_pred CCcchHHHHHHHHHcCCcEEEEc
Q 023366 160 DDSDFVDVLQEAKYRCLKTVVVG 182 (283)
Q Consensus 160 dd~~f~~~l~~ar~~~~~tvvvg 182 (283)
...++.+.|....+.|.++|+|=
T Consensus 44 ~~P~l~~~l~~l~~~g~~~v~vv 66 (126)
T PRK00923 44 NEPTIPEALKKLIGTGADKIIVV 66 (126)
T ss_pred CCCCHHHHHHHHHHcCCCEEEEE
Confidence 68999999999999999999983
No 475
>PF11814 DUF3335: Peptidase_C39 like family; InterPro: IPR021770 This family of proteins are functionally uncharacterised. This family is only found in bacteria. This presumed domain is typically between 226 to 230 amino acids in length.
Probab=22.32 E-value=1.6e+02 Score=27.22 Aligned_cols=22 Identities=32% Similarity=0.392 Sum_probs=18.0
Q ss_pred CchhhhhhhcCeeeeecCCCch
Q 023366 112 YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~ 133 (283)
||||....|.||.|+..-+.+.
T Consensus 57 ~GLAlAA~rrG~~vev~~~~~~ 78 (207)
T PF11814_consen 57 FGLALAAARRGFKVEVWVSTDG 78 (207)
T ss_pred HHHHHHHHHcCCceEEEECCCC
Confidence 9999999999999986555443
No 476
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=22.28 E-value=2.5e+02 Score=26.86 Aligned_cols=74 Identities=14% Similarity=0.162 Sum_probs=37.1
Q ss_pred hhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEE--EEeCCcchHHH---HHHHHHcCCcEEE-EccCCCcccc
Q 023366 117 ELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLV--IVSDDSDFVDV---LQEAKYRCLKTVV-VGDINDGALK 190 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lv--lvsdd~~f~~~---l~~ar~~~~~tvv-vg~~~~~~l~ 190 (283)
++++.|-.+-.|.|+.-.. .....+.+.+...|++..+ .|..++.+..+ .+.+++.+...|| ||+++-..++
T Consensus 17 ~~~~~~~r~liv~d~~~~~--~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs~~D~a 94 (345)
T cd08171 17 VCEKYGKKVVVIGGKTALA--AAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGKAIDTV 94 (345)
T ss_pred HHHhcCCEEEEEeCHHHHH--HHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcHHHHHH
Confidence 3333344444555543321 2355666666555666543 34455555543 3444555665555 6665544444
Q ss_pred cc
Q 023366 191 RI 192 (283)
Q Consensus 191 r~ 192 (283)
+.
T Consensus 95 K~ 96 (345)
T cd08171 95 KV 96 (345)
T ss_pred HH
Confidence 44
No 477
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=22.24 E-value=55 Score=20.33 Aligned_cols=19 Identities=26% Similarity=0.558 Sum_probs=15.0
Q ss_pred ccCCCCCCccCCchhHhhhh
Q 023366 42 YVCGVCGRRFYSNEKLVNHF 61 (283)
Q Consensus 42 ykC~vCGKsFss~ssLkrH~ 61 (283)
..|++|++.+ ....++.|.
T Consensus 2 v~CPiC~~~v-~~~~in~HL 20 (26)
T smart00734 2 VQCPVCFREV-PENLINSHL 20 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHH
Confidence 3699999988 557777886
No 478
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=22.21 E-value=2.2e+02 Score=21.28 Aligned_cols=42 Identities=14% Similarity=0.181 Sum_probs=33.7
Q ss_pred cCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCCCccccc
Q 023366 150 RHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDINDGALKR 191 (283)
Q Consensus 150 ~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~~~~l~r 191 (283)
.+...-+.+...+-+..++..+.+.+...||+|....+.+.+
T Consensus 77 ~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~ 118 (140)
T PF00582_consen 77 GGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLER 118 (140)
T ss_dssp TTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTT
T ss_pred ccceeEEEEEeeccchhhhhccccccceeEEEeccCCCCccC
Confidence 356666777788899999999999999999999976444443
No 479
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.17 E-value=4.6e+02 Score=22.73 Aligned_cols=70 Identities=16% Similarity=0.150 Sum_probs=37.3
Q ss_pred Cchhhhhhhc-CeeeeecCCCchhHHHHHHHHHHHHHhhc-CccEEEEEeCCcchHHHHHHHHHcCCc--EEEEcc
Q 023366 112 YGLADELKRA-GFWVRTVSDKPQAADVALRNHMVDMMDKR-HVECLVIVSDDSDFVDVLQEAKYRCLK--TVVVGD 183 (283)
Q Consensus 112 ygla~~L~Ra-G~~V~~v~dkp~aaD~al~~~~~~~~~~~-~v~~lvlvsdd~~f~~~l~~ar~~~~~--tvvvg~ 183 (283)
-|+...+..+ |+.+......+...+.+. .-+..++... .+ ..|..+.|.-..++++.+++.|.+ -.|||-
T Consensus 143 ~gf~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~-~~i~~~~d~~a~g~~~~l~~~g~~~di~vig~ 216 (273)
T cd06310 143 EGFLEGLKEYPGIEIVATQYSDSDYAKAL-DITEDLLTANPDL-KGIFGANEGSAVGAARAVRQAGKAGKVKVVGF 216 (273)
T ss_pred HHHHHHHHhCCCcEEEecccCCcCHHHHH-HHHHHHHHhCCCc-eEEEecCchhHHHHHHHHHhcCCCCCeEEEEe
Confidence 3455566666 765443222221122222 2444455332 23 345566677788899999999983 344443
No 480
>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=22.15 E-value=1.5e+02 Score=28.47 Aligned_cols=61 Identities=10% Similarity=0.025 Sum_probs=42.8
Q ss_pred hhhhhhcCeeeee-cCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcE
Q 023366 115 ADELKRAGFWVRT-VSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKT 178 (283)
Q Consensus 115 a~~L~RaG~~V~~-v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~t 178 (283)
...+++.|+.|-. ..-.+-+.| +-..|..+. ..+.+.|++.....+.+.+++.+++.|++.
T Consensus 154 ~~~~~~~G~~vv~~~~~~~g~~D--f~~~l~~i~-~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~ 215 (374)
T TIGR03669 154 RVIAKENGAEVVGEEFIPLSVSQ--FSSTIQNIQ-KADPDFVMSMLVGANHASFYEQAASANLNL 215 (374)
T ss_pred HHHHHHcCCeEEeEEecCCCcch--HHHHHHHHH-HcCCCEEEEcCcCCcHHHHHHHHHHcCCCC
Confidence 3556788887642 222223444 334454556 678999999998999999999999999974
No 481
>cd00363 PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases. Some members evolved by gene duplication and thus have a large C-terminal/N-terminal extension comprising a second PFK domain. Generally, ATP-PFKs are allosteric homotetramers, and PPi-PFKs are dimeric and nonallosteric except for plant PPi-PFKs which are allosteric heterotetramers.
Probab=22.13 E-value=1.8e+02 Score=28.28 Aligned_cols=66 Identities=15% Similarity=0.199 Sum_probs=47.3
Q ss_pred hhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHH---cCCcEEEEcc
Q 023366 117 ELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKY---RCLKTVVVGD 183 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~---~~~~tvvvg~ 183 (283)
.....|....|-+.+|.. |..-.+.|.+.|.+.+|+.||.+-+|--+..+..++.. ++..+-|||.
T Consensus 59 ~~~~gGs~LgtsR~~~~~-~~~~~~~~~~~l~~~~I~~Lv~IGGd~s~~~a~~L~e~~~~~~~~i~vigi 127 (338)
T cd00363 59 IINRGGTIIGSARCKEFR-TEEGRAKAAENLKKHGIDALVVIGGDGSYTGADLLTEEWPSKYQGFNVIGL 127 (338)
T ss_pred hhhCCCeecccCCCCccC-CHHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHHHHHHHHHhcCCCccEEEe
Confidence 344577777776666622 23445677788889999999999999999888777654 5555666653
No 482
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=22.07 E-value=4.4e+02 Score=21.98 Aligned_cols=12 Identities=8% Similarity=0.083 Sum_probs=6.0
Q ss_pred cCccEEEEEeCC
Q 023366 150 RHVECLVIVSDD 161 (283)
Q Consensus 150 ~~v~~lvlvsdd 161 (283)
.|++.++++.++
T Consensus 57 ~G~d~v~~~~~~ 68 (164)
T PF01012_consen 57 YGADKVYHIDDP 68 (164)
T ss_dssp TTESEEEEEE-G
T ss_pred cCCcEEEEecCc
Confidence 555555555544
No 483
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=22.06 E-value=2.7e+02 Score=22.03 Aligned_cols=16 Identities=13% Similarity=0.248 Sum_probs=7.6
Q ss_pred HHHHHHHHcCCcEEEE
Q 023366 166 DVLQEAKYRCLKTVVV 181 (283)
Q Consensus 166 ~~l~~ar~~~~~tvvv 181 (283)
.+++.+...|++-+++
T Consensus 86 ~~~~~l~~~gi~l~~~ 101 (137)
T cd00338 86 ELLELLEAHGVRVVTA 101 (137)
T ss_pred HHHHHHHHCCCEEEEe
Confidence 4444444455544444
No 484
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=21.96 E-value=91 Score=22.87 Aligned_cols=27 Identities=30% Similarity=0.397 Sum_probs=21.3
Q ss_pred EEEEEeCCcchHHHHHHHHHcCCcEEE
Q 023366 154 CLVIVSDDSDFVDVLQEAKYRCLKTVV 180 (283)
Q Consensus 154 ~lvlvsdd~~f~~~l~~ar~~~~~tvv 180 (283)
-+|.+++|.||..+++.+++.+-+++-
T Consensus 51 d~v~l~sd~Dl~~a~~~~~~~~~~~l~ 77 (81)
T cd05992 51 DLVTISSDEDLEEAIEEARRSGSKKLR 77 (81)
T ss_pred CEEEeCCHHHHHHHHHHHhhcCCccEE
Confidence 668888899999999999975544443
No 485
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=21.93 E-value=1.8e+02 Score=25.15 Aligned_cols=35 Identities=23% Similarity=0.197 Sum_probs=21.8
Q ss_pred CccEEEEEeCCcchH------HHHHHHHH----cCCcEEEEccCC
Q 023366 151 HVECLVIVSDDSDFV------DVLQEAKY----RCLKTVVVGDIN 185 (283)
Q Consensus 151 ~v~~lvlvsdd~~f~------~~l~~ar~----~~~~tvvvg~~~ 185 (283)
.+..|||+||..+-. .+...+++ .++...+||-++
T Consensus 134 ~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~~~i~i~~igiG~ 178 (206)
T cd01456 134 RVNVVVLITDGEDTCGPDPCEVARELAKRRTPAPPIKVNVIDFGG 178 (206)
T ss_pred CcceEEEEcCCCccCCCCHHHHHHHHHHhcCCCCCceEEEEEecC
Confidence 457999999976532 23333444 377776776654
No 486
>PRK06136 uroporphyrin-III C-methyltransferase; Reviewed
Probab=21.61 E-value=2e+02 Score=25.71 Aligned_cols=61 Identities=16% Similarity=0.156 Sum_probs=40.7
Q ss_pred HHHHHHHHHHhhcCccEEEEEeCCcchHHH----HHHHHHcCCcEEEEccCCCccccccccccccHH
Q 023366 138 ALRNHMVDMMDKRHVECLVIVSDDSDFVDV----LQEAKYRCLKTVVVGDINDGALKRIADASFSWR 200 (283)
Q Consensus 138 al~~~~~~~~~~~~v~~lvlvsdd~~f~~~----l~~ar~~~~~tvvvg~~~~~~l~r~ad~~~sW~ 200 (283)
.+.+.|.+.+ ..|-+..+|+|.|+-|.+. ++.+++.|+...||=+.+ -...=.|-+.++|.
T Consensus 68 ~~~~~i~~~~-~~g~~V~~l~~GDP~~ys~~~~l~~~l~~~~~~veviPGIS-S~~aaaa~~g~~l~ 132 (249)
T PRK06136 68 EINRLLVDYA-RKGKVVVRLKGGDPFVFGRGGEELEALEAAGIPYEVVPGIT-AAIAAAAYAGIPLT 132 (249)
T ss_pred HHHHHHHHHH-HCCCeEEEEeCCCchhhhcHHHHHHHHHHCCCCEEEEcCcc-HHHHHHHHcCCCcc
Confidence 3444454445 4566777889999877655 467787898888885543 22334488888885
No 487
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=21.61 E-value=70 Score=27.52 Aligned_cols=24 Identities=29% Similarity=0.625 Sum_probs=21.4
Q ss_pred CCCCccCCCCCCccCCchhHhhhh
Q 023366 38 PAEPYVCGVCGRRFYSNEKLVNHF 61 (283)
Q Consensus 38 GEKPykC~vCGKsFss~ssLkrH~ 61 (283)
|-..|.|..|.+-|.+...|..|+
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~ 77 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHF 77 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHH
Confidence 345689999999999999999999
No 488
>PF10758 DUF2586: Protein of unknown function (DUF2586); InterPro: IPR019694 This entry is represented by Bacteriophage HP1, Orf23. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family of proteins has currently has no known function but is thought to be a tail sheath protein.
Probab=21.61 E-value=2e+02 Score=28.86 Aligned_cols=62 Identities=23% Similarity=0.205 Sum_probs=46.0
Q ss_pred eeeeecCCCch---hHHHHHHHHHHHHHhhcCccEE---EEEeCCcchHHHHHHHHH-cCCcEEEEccC
Q 023366 123 FWVRTVSDKPQ---AADVALRNHMVDMMDKRHVECL---VIVSDDSDFVDVLQEAKY-RCLKTVVVGDI 184 (283)
Q Consensus 123 ~~V~~v~dkp~---aaD~al~~~~~~~~~~~~v~~l---vlvsdd~~f~~~l~~ar~-~~~~tvvvg~~ 184 (283)
+.|.+-+|-.. ++|.+||.++...+.+.|-+|- ..+..+.++.++++.|-+ .-+..|||-+.
T Consensus 38 ~~~~~~sdld~~lg~~ds~lk~~v~aa~~n~gqnw~a~~~~~~~~~~~~~Av~~a~~~~s~E~Vvi~~~ 106 (363)
T PF10758_consen 38 LPVNTQSDLDAVLGAADSALKTNVKAAQLNAGQNWTAYVAPLASNADWQDAVDKANEVISFEFVVIVGP 106 (363)
T ss_pred EEecCCCcHHHHhCCcchHHHHHHHHHHHcCCCCeEEEEEecCCCchHHHHHHHhhccCCeEEEEEeCC
Confidence 34444444444 7999999999999988888754 555667778888888866 67888888763
No 489
>COG2084 MmsB 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]
Probab=21.58 E-value=1.5e+02 Score=28.57 Aligned_cols=72 Identities=19% Similarity=0.216 Sum_probs=49.3
Q ss_pred CCCchhhhhhhcCeeeeecCCCchhHHHHHHH-H------HHHHHhhcCccEE-EEEeCCcchHHHHH----HHHHcCCc
Q 023366 110 IGYGLADELKRAGFWVRTVSDKPQAADVALRN-H------MVDMMDKRHVECL-VIVSDDSDFVDVLQ----EAKYRCLK 177 (283)
Q Consensus 110 ~gygla~~L~RaG~~V~~v~dkp~aaD~al~~-~------~~~~~~~~~v~~l-vlvsdd~~f~~~l~----~ar~~~~~ 177 (283)
.|+.++.-|.++|+.|..---+|.+|-.-|.. . ..+. -.+.|+| .+|+|+.+-..++- .+.-..-+
T Consensus 11 MG~pmA~~L~~aG~~v~v~~r~~~ka~~~~~~~Ga~~a~s~~ea--a~~aDvVitmv~~~~~V~~V~~g~~g~~~~~~~G 88 (286)
T COG2084 11 MGSPMAANLLKAGHEVTVYNRTPEKAAELLAAAGATVAASPAEA--AAEADVVITMLPDDAAVRAVLFGENGLLEGLKPG 88 (286)
T ss_pred hhHHHHHHHHHCCCEEEEEeCChhhhhHHHHHcCCcccCCHHHH--HHhCCEEEEecCCHHHHHHHHhCccchhhcCCCC
Confidence 46889999999999999988888885444443 1 1112 2366665 67888888777774 44445567
Q ss_pred EEEEcc
Q 023366 178 TVVVGD 183 (283)
Q Consensus 178 tvvvg~ 183 (283)
+|||=-
T Consensus 89 ~i~IDm 94 (286)
T COG2084 89 AIVIDM 94 (286)
T ss_pred CEEEEC
Confidence 787743
No 490
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=21.57 E-value=2.1e+02 Score=26.88 Aligned_cols=73 Identities=22% Similarity=0.338 Sum_probs=37.5
Q ss_pred hhhhcCe-eeeecCCCchhHHHHHHHHHHHHHhhcCccEEE--EEeCCcchH---HHHHHHHHcCCcEEE-EccCCCccc
Q 023366 117 ELKRAGF-WVRTVSDKPQAADVALRNHMVDMMDKRHVECLV--IVSDDSDFV---DVLQEAKYRCLKTVV-VGDINDGAL 189 (283)
Q Consensus 117 ~L~RaG~-~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lv--lvsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~~~l 189 (283)
++++.|. .+-.|.|+.. .+ .+...+...|... +++.+ .+-.++.+. .++..+++.+...|| ||+++-..+
T Consensus 17 ~~~~~g~~~~liv~~~~~-~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs~~D~ 93 (332)
T cd07766 17 EIKRGGFDRALVVSDEGV-VK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGSTLDT 93 (332)
T ss_pred HHHhcCCCeEEEEeCCch-hh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCchHHHH
Confidence 3444442 2444555333 33 5556666666443 44433 333345554 445555666666666 777665555
Q ss_pred ccc
Q 023366 190 KRI 192 (283)
Q Consensus 190 ~r~ 192 (283)
++.
T Consensus 94 aK~ 96 (332)
T cd07766 94 AKA 96 (332)
T ss_pred HHH
Confidence 555
No 491
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=21.54 E-value=4.1e+02 Score=21.09 Aligned_cols=42 Identities=10% Similarity=0.029 Sum_probs=30.8
Q ss_pred HHHHHhhcCccE-EEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 143 MVDMMDKRHVEC-LVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 143 ~~~~~~~~~v~~-lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
+...+...|+.. .+++....-...+++.|.+.+..-||+|..
T Consensus 70 l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~ 112 (144)
T PRK15118 70 LTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHH 112 (144)
T ss_pred HHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCc
Confidence 333444457664 345555566899999999999999999986
No 492
>PF00289 CPSase_L_chain: Carbamoyl-phosphate synthase L chain, N-terminal domain; InterPro: IPR005481 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the large subunit of carbamoyl phosphate synthase. This domain can also be found in certain other related proteins. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VA7_A 3OUU_A 3OUZ_B 1W96_B 1W93_A 1ULZ_A 3HB9_C 3HO8_A 3BG5_C 3HBL_A ....
Probab=21.34 E-value=94 Score=25.34 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=17.5
Q ss_pred HHHHHHHHHcCCcEEEEccCC
Q 023366 165 VDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 165 ~~~l~~ar~~~~~tvvvg~~~ 185 (283)
..++|.+|+.|++||+|=..+
T Consensus 15 ~r~~ra~r~~Gi~tv~v~s~~ 35 (110)
T PF00289_consen 15 VRIIRALRELGIETVAVNSNP 35 (110)
T ss_dssp HHHHHHHHHTTSEEEEEEEGG
T ss_pred HHHHHHHHHhCCcceeccCch
Confidence 457899999999999996644
No 493
>PF03622 IBV_3B: IBV 3B protein ; InterPro: IPR005295 These proteins are the product of ORF 3B from Infectious bronchitis virus). Currently, the function of this protein remains unknown [].
Probab=21.34 E-value=45 Score=25.32 Aligned_cols=12 Identities=50% Similarity=1.099 Sum_probs=9.7
Q ss_pred CCccccccCCcc
Q 023366 269 GAWWELESSDAE 280 (283)
Q Consensus 269 ~~~~~~~~~~~~ 280 (283)
|.+|+|||.|+.
T Consensus 45 GsfwEieSad~~ 56 (64)
T PF03622_consen 45 GSFWEIESADEF 56 (64)
T ss_pred CcEEEeeccccc
Confidence 789999996654
No 494
>PRK13906 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=21.32 E-value=88 Score=29.97 Aligned_cols=34 Identities=9% Similarity=0.160 Sum_probs=28.6
Q ss_pred ccEEEEEeCCcchHHHHHHHHHcCCcEEEEccCC
Q 023366 152 VECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 152 v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.+.+|...+-.|+..+++.|++.++..+|+|.++
T Consensus 37 A~~~v~p~~~edv~~~v~~a~~~~ip~~vlGgGS 70 (307)
T PRK13906 37 ADFYITPTKNEEVQAVVKYAYQNEIPVTYLGNGS 70 (307)
T ss_pred eEEEEEcCCHHHHHHHHHHHHHcCCCEEEEcCce
Confidence 4577888888889999999999999888888876
No 495
>PLN02940 riboflavin kinase
Probab=21.31 E-value=4.1e+02 Score=25.96 Aligned_cols=22 Identities=27% Similarity=0.350 Sum_probs=16.2
Q ss_pred CchhhhhhhcCeeeeecCCCch
Q 023366 112 YGLADELKRAGFWVRTVSDKPQ 133 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~dkp~ 133 (283)
..+-..|+..|+.+-.+++++.
T Consensus 99 ~elL~~Lk~~g~~l~IvTn~~~ 120 (382)
T PLN02940 99 NRLIKHLKSHGVPMALASNSPR 120 (382)
T ss_pred HHHHHHHHHCCCcEEEEeCCcH
Confidence 4455677778888888888775
No 496
>PF01301 Glyco_hydro_35: Glycosyl hydrolases family 35; InterPro: IPR001944 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 35 GH35 from CAZY comprises enzymes with only one known activity; beta-galactosidase (3.2.1.23 from EC). Mammalian beta-galactosidase is a lysosomal enzyme (gene GLB1) which cleaves the terminal galactose from gangliosides, glycoproteins, and glycosaminoglycans and whose deficiency is the cause of the genetic disease Gm(1) gangliosidosis (Morquio disease type B).; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3OGS_A 3OGV_A 3OGR_A 3OG2_A 1TG7_A 1XC6_A 3THC_C 3THD_D 3D3A_A 4E8D_B ....
Probab=21.25 E-value=1.4e+02 Score=28.58 Aligned_cols=44 Identities=16% Similarity=0.185 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhhcCccEEEE-E--------------eCCcchHHHHHHHHHcCCcEEEE
Q 023366 137 VALRNHMVDMMDKRHVECLVI-V--------------SDDSDFVDVLQEAKYRCLKTVVV 181 (283)
Q Consensus 137 ~al~~~~~~~~~~~~v~~lvl-v--------------sdd~~f~~~l~~ar~~~~~tvvv 181 (283)
.+++++..+.|...|++||-. | |...|...+|++|++.|+. |++
T Consensus 23 ~~~W~~~l~k~ka~G~n~v~~yv~W~~he~~~g~~df~g~~dl~~f~~~a~~~gl~-vil 81 (319)
T PF01301_consen 23 PEYWRDRLQKMKAAGLNTVSTYVPWNLHEPEEGQFDFTGNRDLDRFLDLAQENGLY-VIL 81 (319)
T ss_dssp GGGHHHHHHHHHHTT-SEEEEE--HHHHSSBTTB---SGGG-HHHHHHHHHHTT-E-EEE
T ss_pred hhHHHHHHHHHHhCCcceEEEeccccccCCCCCcccccchhhHHHHHHHHHHcCcE-EEe
Confidence 367888888888899998843 2 5667888999999999999 554
No 497
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=21.24 E-value=1.5e+02 Score=24.58 Aligned_cols=32 Identities=13% Similarity=0.196 Sum_probs=24.1
Q ss_pred EEEEEeCCc---chHHHHHHHHHcCCcEEEEccCC
Q 023366 154 CLVIVSDDS---DFVDVLQEAKYRCLKTVVVGDIN 185 (283)
Q Consensus 154 ~lvlvsdd~---~f~~~l~~ar~~~~~tvvvg~~~ 185 (283)
.|||+||.. +...+.+.+|+.|+..++||-+.
T Consensus 106 ~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g~ 140 (164)
T cd01482 106 VVILITDGKSQDDVELPARVLRNLGVNVFAVGVKD 140 (164)
T ss_pred EEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecCc
Confidence 578888843 34556677888999999998753
No 498
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=21.22 E-value=3.6e+02 Score=26.08 Aligned_cols=71 Identities=13% Similarity=0.134 Sum_probs=40.8
Q ss_pred hhhhcCeeeeecCCCchhHHHHHHHHHHHHHhhcCccEEEE-EeCCcchH---HHHHHHHHcCCcEEE-EccCCCccccc
Q 023366 117 ELKRAGFWVRTVSDKPQAADVALRNHMVDMMDKRHVECLVI-VSDDSDFV---DVLQEAKYRCLKTVV-VGDINDGALKR 191 (283)
Q Consensus 117 ~L~RaG~~V~~v~dkp~aaD~al~~~~~~~~~~~~v~~lvl-vsdd~~f~---~~l~~ar~~~~~tvv-vg~~~~~~l~r 191 (283)
++++.|-.+-.|.|+-.. +...+...|...|+++.+. +..++... .+++.+|+.+...|| ||+++-...++
T Consensus 17 ~l~~~~~r~livtd~~~~----~~~~v~~~L~~~g~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~~D~aK 92 (374)
T cd08183 17 LAAELGRRVLLVTGASSL----RAAWLIEALRAAGIEVTHVVVAGEPSVELVDAAVAEARNAGCDVVIAIGGGSVIDAGK 92 (374)
T ss_pred HHHHcCCcEEEEECCchH----HHHHHHHHHHHcCCeEEEecCCCCcCHHHHHHHHHHHHhcCCCEEEEecCchHHHHHH
Confidence 344444455566665443 5566777787778887654 44555544 455666676776543 56655333333
No 499
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=21.21 E-value=6e+02 Score=22.76 Aligned_cols=69 Identities=22% Similarity=0.271 Sum_probs=41.9
Q ss_pred CchhhhhhhcCeeeeecC-----CCchhHHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHHcCCcEEEEccC
Q 023366 112 YGLADELKRAGFWVRTVS-----DKPQAADVALRNHMVDMMDKRHVECLVIVSDDSDFVDVLQEAKYRCLKTVVVGDI 184 (283)
Q Consensus 112 ygla~~L~RaG~~V~~v~-----dkp~aaD~al~~~~~~~~~~~~v~~lvlvsdd~~f~~~l~~ar~~~~~tvvvg~~ 184 (283)
-.+..-.++-|+.+..+. ..|.+.+.+ .+.+.|...+|.||+.-+-.+. .-+-..|++.|++.|.+-..
T Consensus 158 ~~~~Y~~~~~gl~~~~~~~~~~~~~ps~~~l~---~l~~~ik~~~v~~i~~e~~~~~-~~~~~la~~~g~~vv~ld~l 231 (256)
T PF01297_consen 158 DAFQYFAKRYGLKVIGVIEISPGEEPSPKDLA---ELIKLIKENKVKCIFTEPQFSS-KLAEALAKETGVKVVYLDPL 231 (256)
T ss_dssp STTHHHHHHTT-EEEEEESSSSSSSS-HHHHH---HHHHHHHHTT-SEEEEETTS-T-HHHHHHHHCCT-EEEESSTT
T ss_pred hHHHHHHHhcCCceeeeeccccccCCCHHHHH---HHHHHhhhcCCcEEEecCCCCh-HHHHHHHHHcCCcEEEeCCC
Confidence 567777888999887544 234555554 4444577889999887554333 23344489999999777444
No 500
>TIGR02128 G6PI_arch bifunctional phosphoglucose/phosphomannose isomerase. This bifunctional isomerase is a member of the larger PGI superfamily and only distantly related to other glucose-6-phosphate isomerases. The family is limited to the archaea.
Probab=21.16 E-value=1.1e+02 Score=29.24 Aligned_cols=41 Identities=24% Similarity=0.320 Sum_probs=27.9
Q ss_pred CccEEEEEeCCc---chHHHHHHHHHcCCcEEEEccCCCccccccc
Q 023366 151 HVECLVIVSDDS---DFVDVLQEAKYRCLKTVVVGDINDGALKRIA 193 (283)
Q Consensus 151 ~v~~lvlvsdd~---~f~~~l~~ar~~~~~tvvvg~~~~~~l~r~a 193 (283)
.-+.|+.+|.+- +-..+++.|+++|.++|+|++. +.|.+.|
T Consensus 66 ~~dlvI~iS~SG~t~e~~~a~~~A~~~g~~ii~iT~~--g~L~~~a 109 (308)
T TIGR02128 66 GKTLLIAVSYSGNTEETLSAVEEAKKKGAKVIAITSG--GRLEEMA 109 (308)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHcCCEEEEECCC--cHHHHHH
Confidence 344667777553 4555677888888888888853 4577766
Done!