Query 046085
Match_columns 230
No_of_seqs 39 out of 41
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 08:34:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046085.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046085hhsearch_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 99.4 1.6E-12 3.6E-17 101.6 8.3 84 104-187 55-145 (149)
2 TIGR00288 conserved hypothetic 99.4 1.8E-12 4E-17 109.4 7.8 79 105-186 70-150 (160)
3 PF01936 NYN: NYN domain; Int 99.3 7.9E-12 1.7E-16 95.9 7.6 83 105-187 51-141 (146)
4 COG1432 Uncharacterized conser 98.4 1.2E-06 2.6E-11 73.9 7.2 81 107-187 66-156 (181)
5 PF00096 zf-C2H2: Zinc finger, 96.3 0.0025 5.4E-08 36.6 1.5 23 33-57 1-23 (23)
6 PF13894 zf-C2H2_4: C2H2-type 96.2 0.0029 6.3E-08 35.4 1.6 23 34-57 2-24 (24)
7 cd01545 PBP1_SalR Ligand-bindi 95.4 0.058 1.3E-06 44.1 6.6 71 104-176 19-89 (270)
8 cd06305 PBP1_methylthioribose_ 95.2 0.11 2.4E-06 42.6 7.9 70 104-176 19-89 (273)
9 PF13913 zf-C2HC_2: zinc-finge 95.2 0.014 3E-07 35.7 1.8 22 32-55 2-23 (25)
10 cd05013 SIS_RpiR RpiR-like pro 94.5 0.26 5.7E-06 36.7 7.7 73 106-186 31-106 (139)
11 cd06295 PBP1_CelR Ligand bindi 94.5 0.18 3.9E-06 41.8 7.2 66 105-176 31-96 (275)
12 TIGR02634 xylF D-xylose ABC tr 94.4 0.23 5E-06 43.1 8.1 70 105-177 19-89 (302)
13 cd01542 PBP1_TreR_like Ligand- 94.4 0.2 4.3E-06 40.9 7.3 69 104-176 19-87 (259)
14 cd06312 PBP1_ABC_sugar_binding 94.3 0.19 4.1E-06 41.8 7.1 71 104-176 20-91 (271)
15 cd06318 PBP1_ABC_sugar_binding 94.1 0.27 5.9E-06 40.7 7.7 70 104-176 19-89 (282)
16 cd06324 PBP1_ABC_sugar_binding 94.0 0.22 4.7E-06 42.9 7.1 70 104-176 20-91 (305)
17 cd06281 PBP1_LacI_like_5 Ligan 93.9 0.29 6.2E-06 40.5 7.3 71 104-177 19-89 (269)
18 cd06282 PBP1_GntR_like_2 Ligan 93.9 0.3 6.6E-06 39.7 7.3 70 104-176 19-88 (266)
19 PF13407 Peripla_BP_4: Peripla 93.9 0.32 7E-06 40.0 7.6 70 104-176 18-89 (257)
20 cd06270 PBP1_GalS_like Ligand 93.8 0.31 6.7E-06 40.2 7.4 69 104-176 19-87 (268)
21 PF13912 zf-C2H2_6: C2H2-type 93.8 0.03 6.6E-07 33.2 1.0 23 31-55 1-23 (27)
22 cd05014 SIS_Kpsf KpsF-like pro 93.5 0.15 3.3E-06 38.7 4.7 79 106-192 18-100 (128)
23 cd01539 PBP1_GGBP Periplasmic 93.4 0.43 9.4E-06 41.2 7.9 70 104-176 19-91 (303)
24 cd01541 PBP1_AraR Ligand-bindi 93.4 0.41 8.8E-06 39.6 7.4 70 104-176 19-92 (273)
25 cd06306 PBP1_TorT-like TorT-li 93.4 0.41 9E-06 40.1 7.5 70 104-176 19-90 (268)
26 cd06294 PBP1_ycjW_transcriptio 93.3 0.39 8.5E-06 39.3 7.2 69 104-176 24-92 (270)
27 cd06302 PBP1_LsrB_Quorum_Sensi 93.2 0.44 9.5E-06 40.9 7.6 70 104-176 19-90 (298)
28 cd06313 PBP1_ABC_sugar_binding 93.2 0.43 9.3E-06 40.2 7.4 70 104-176 19-89 (272)
29 smart00355 ZnF_C2H2 zinc finge 93.2 0.071 1.5E-06 29.6 1.9 23 34-58 2-24 (26)
30 cd01540 PBP1_arabinose_binding 93.2 0.47 1E-05 39.6 7.5 68 105-176 20-88 (289)
31 cd01538 PBP1_ABC_xylose_bindin 93.1 0.55 1.2E-05 39.9 7.9 70 104-176 19-89 (288)
32 cd06299 PBP1_LacI_like_13 Liga 93.0 0.5 1.1E-05 38.6 7.4 69 104-176 19-87 (265)
33 cd06316 PBP1_ABC_sugar_binding 92.9 0.35 7.7E-06 40.9 6.6 71 104-176 19-90 (294)
34 cd06320 PBP1_allose_binding Pe 92.9 0.3 6.5E-06 40.5 6.0 73 103-176 18-91 (275)
35 PF00532 Peripla_BP_1: Peripla 92.9 0.44 9.5E-06 41.7 7.3 68 104-176 21-88 (279)
36 PRK10653 D-ribose transporter 92.9 0.45 9.7E-06 40.5 7.1 71 103-176 45-116 (295)
37 cd06303 PBP1_LuxPQ_Quorum_Sens 92.9 0.32 7E-06 41.0 6.2 71 104-175 20-92 (280)
38 PRK15408 autoinducer 2-binding 92.8 0.35 7.5E-06 43.8 6.7 71 104-176 43-114 (336)
39 cd06323 PBP1_ribose_binding Pe 92.8 0.69 1.5E-05 37.7 7.8 70 104-176 19-89 (268)
40 cd06289 PBP1_MalI_like Ligand- 92.7 0.63 1.4E-05 37.9 7.5 70 104-176 19-88 (268)
41 PHA00616 hypothetical protein 92.7 0.054 1.2E-06 37.9 1.0 27 31-59 1-27 (44)
42 cd06314 PBP1_tmGBP Periplasmic 92.6 0.54 1.2E-05 39.1 7.2 72 102-176 16-88 (271)
43 cd06322 PBP1_ABC_sugar_binding 92.6 0.64 1.4E-05 38.2 7.4 70 104-176 19-89 (267)
44 cd06321 PBP1_ABC_sugar_binding 92.5 0.68 1.5E-05 38.2 7.5 71 104-177 19-92 (271)
45 PRK15482 transcriptional regul 92.4 0.51 1.1E-05 41.4 7.0 92 87-186 122-228 (285)
46 cd06311 PBP1_ABC_sugar_binding 92.4 0.91 2E-05 37.7 8.2 70 104-176 19-94 (274)
47 cd06317 PBP1_ABC_sugar_binding 92.4 0.75 1.6E-05 37.7 7.6 70 104-176 20-90 (275)
48 cd06308 PBP1_sensor_kinase_lik 92.3 0.65 1.4E-05 38.5 7.2 70 104-176 19-90 (270)
49 PRK10014 DNA-binding transcrip 92.3 0.64 1.4E-05 40.1 7.4 70 104-176 84-153 (342)
50 cd06310 PBP1_ABC_sugar_binding 92.2 0.48 1E-05 39.1 6.3 72 104-176 19-91 (273)
51 cd06285 PBP1_LacI_like_7 Ligan 92.1 0.76 1.6E-05 37.8 7.4 69 104-176 19-87 (265)
52 cd06292 PBP1_LacI_like_10 Liga 92.0 0.75 1.6E-05 37.9 7.2 70 104-176 19-92 (273)
53 cd06273 PBP1_GntR_like_1 This 92.0 0.81 1.8E-05 37.5 7.4 69 104-176 19-87 (268)
54 TIGR02637 RhaS rhamnose ABC tr 92.0 0.48 1E-05 40.4 6.3 71 104-176 18-90 (302)
55 cd06301 PBP1_rhizopine_binding 91.9 1 2.3E-05 37.1 7.9 70 104-176 19-90 (272)
56 cd06315 PBP1_ABC_sugar_binding 91.9 0.8 1.7E-05 38.7 7.4 70 104-176 20-90 (280)
57 cd06296 PBP1_CatR_like Ligand- 91.8 0.74 1.6E-05 37.8 6.9 69 104-176 19-87 (270)
58 cd06277 PBP1_LacI_like_1 Ligan 91.8 0.78 1.7E-05 37.8 7.1 68 104-176 22-89 (268)
59 cd01575 PBP1_GntR Ligand-bindi 91.7 0.96 2.1E-05 36.8 7.4 69 104-176 19-87 (268)
60 cd06309 PBP1_YtfQ_like Peripla 91.6 0.91 2E-05 37.7 7.3 70 104-176 19-89 (273)
61 cd06319 PBP1_ABC_sugar_binding 91.4 0.99 2.1E-05 37.2 7.3 70 104-176 19-89 (277)
62 cd06298 PBP1_CcpA_like Ligand- 91.4 1 2.2E-05 36.8 7.2 68 105-176 20-87 (268)
63 TIGR02417 fruct_sucro_rep D-fr 91.2 1 2.2E-05 38.8 7.4 70 104-176 80-149 (327)
64 PF09237 GAGA: GAGA factor; I 91.1 0.14 3E-06 37.5 1.7 34 23-58 16-49 (54)
65 cd06278 PBP1_LacI_like_2 Ligan 91.1 1.2 2.6E-05 36.2 7.4 68 104-176 19-86 (266)
66 PF01380 SIS: SIS domain SIS d 90.9 0.54 1.2E-05 35.2 4.9 44 143-186 53-99 (131)
67 PRK12342 hypothetical protein; 90.9 1.2 2.6E-05 40.3 7.9 83 107-193 44-140 (254)
68 PRK10355 xylF D-xylose transpo 90.9 1.2 2.5E-05 39.8 7.8 69 105-176 46-115 (330)
69 PF05605 zf-Di19: Drought indu 90.8 0.13 2.7E-06 35.7 1.3 25 34-60 4-28 (54)
70 cd06297 PBP1_LacI_like_12 Liga 90.6 1.2 2.6E-05 37.2 7.2 69 104-176 19-87 (269)
71 cd06283 PBP1_RegR_EndR_KdgR_li 90.3 1.5 3.3E-05 35.6 7.4 69 104-176 19-87 (267)
72 smart00451 ZnF_U1 U1-like zinc 90.3 0.26 5.7E-06 30.4 2.3 33 30-64 2-34 (35)
73 cd06271 PBP1_AglR_RafR_like Li 90.3 1.3 2.8E-05 36.1 6.9 69 104-176 23-91 (268)
74 PRK11557 putative DNA-binding 90.2 1.2 2.6E-05 38.7 7.0 93 86-186 114-221 (278)
75 cd06274 PBP1_FruR Ligand bindi 89.9 1.4 3.1E-05 36.2 6.9 69 104-176 19-87 (264)
76 cd05008 SIS_GlmS_GlmD_1 SIS (S 89.8 0.74 1.6E-05 34.8 4.8 72 106-186 17-92 (126)
77 PRK09701 D-allose transporter 89.7 1.1 2.5E-05 38.9 6.5 72 104-176 44-116 (311)
78 PHA00732 hypothetical protein 89.6 0.19 4.1E-06 38.2 1.4 26 31-58 1-26 (79)
79 cd06293 PBP1_LacI_like_11 Liga 89.4 2 4.4E-05 35.4 7.5 69 104-176 19-87 (269)
80 cd01536 PBP1_ABC_sugar_binding 89.3 2.9 6.3E-05 33.7 8.1 69 105-176 20-89 (267)
81 PRK10936 TMAO reductase system 89.3 1.1 2.3E-05 39.9 6.2 69 104-176 66-137 (343)
82 PRK11303 DNA-binding transcrip 88.8 2 4.3E-05 36.9 7.3 70 104-176 81-150 (328)
83 cd05005 SIS_PHI Hexulose-6-pho 88.8 0.81 1.8E-05 37.5 4.7 68 106-186 51-121 (179)
84 PF05605 zf-Di19: Drought indu 88.6 0.64 1.4E-05 32.2 3.4 39 14-57 15-53 (54)
85 TIGR00147 lipid kinase, YegS/R 88.5 2.1 4.6E-05 37.5 7.4 21 143-163 57-77 (293)
86 PRK14987 gluconate operon tran 88.4 2.4 5.1E-05 36.7 7.6 69 104-176 83-151 (331)
87 cd06291 PBP1_Qymf_like Ligand 88.4 1.8 3.9E-05 35.5 6.5 66 104-176 19-84 (265)
88 cd06267 PBP1_LacI_sugar_bindin 88.4 2.8 6.1E-05 33.5 7.5 70 104-177 19-88 (264)
89 cd06300 PBP1_ABC_sugar_binding 88.2 3 6.5E-05 34.5 7.7 70 104-176 19-94 (272)
90 cd06290 PBP1_LacI_like_9 Ligan 87.8 2.3 5.1E-05 34.9 6.9 68 104-176 19-86 (265)
91 cd01574 PBP1_LacI Ligand-bindi 87.4 2.7 5.8E-05 34.4 6.9 71 103-176 18-88 (264)
92 TIGR00441 gmhA phosphoheptose 87.4 1.7 3.6E-05 35.3 5.7 86 110-197 39-139 (154)
93 PF12874 zf-met: Zinc-finger o 87.3 0.26 5.6E-06 28.6 0.7 20 34-54 2-21 (25)
94 cd06307 PBP1_uncharacterized_s 87.2 1.5 3.3E-05 36.4 5.4 72 104-176 19-92 (275)
95 cd06284 PBP1_LacI_like_6 Ligan 86.8 3.7 7.9E-05 33.4 7.4 69 103-176 18-86 (267)
96 cd05710 SIS_1 A subgroup of th 86.6 1.5 3.2E-05 34.0 4.8 43 144-186 48-93 (120)
97 PRK15395 methyl-galactoside AB 86.6 3.6 7.7E-05 36.5 7.8 70 104-176 44-115 (330)
98 TIGR02955 TMAO_TorT TMAO reduc 86.3 2.1 4.5E-05 36.8 5.9 69 104-176 19-90 (295)
99 PRK11337 DNA-binding transcrip 86.2 3.3 7.2E-05 36.3 7.3 91 88-186 128-233 (292)
100 TIGR03127 RuMP_HxlB 6-phospho 86.1 1.5 3.2E-05 35.8 4.8 66 108-186 50-118 (179)
101 cd01537 PBP1_Repressors_Sugar_ 85.9 4.9 0.00011 32.0 7.5 71 104-177 19-89 (264)
102 PF02310 B12-binding: B12 bind 85.5 4 8.6E-05 30.6 6.5 67 104-176 18-89 (121)
103 cd06361 PBP1_GPC6A_like Ligand 85.2 4.2 9.1E-05 37.7 7.8 71 106-176 192-267 (403)
104 PF13465 zf-H2C2_2: Zinc-finge 85.1 0.39 8.4E-06 29.1 0.7 17 27-45 10-26 (26)
105 PRK07239 bifunctional uroporph 85.0 1.8 3.9E-05 39.7 5.3 83 100-184 19-115 (381)
106 cd06275 PBP1_PurR Ligand-bindi 84.9 4.7 0.0001 33.1 7.2 70 104-176 19-88 (269)
107 TIGR01481 ccpA catabolite cont 84.9 4.7 0.0001 34.7 7.4 69 104-176 79-147 (329)
108 cd05006 SIS_GmhA Phosphoheptos 84.7 1.8 3.9E-05 35.4 4.7 43 144-186 102-147 (177)
109 PHA02768 hypothetical protein; 84.6 0.6 1.3E-05 34.0 1.6 25 31-58 5-29 (55)
110 PF12171 zf-C2H2_jaz: Zinc-fin 84.6 0.31 6.8E-06 29.3 0.1 21 34-55 3-23 (27)
111 PF00702 Hydrolase: haloacid d 84.2 2.4 5.2E-05 33.8 5.1 75 105-186 134-215 (215)
112 TIGR03590 PseG pseudaminic aci 84.2 4.1 9E-05 36.0 7.0 73 107-186 46-120 (279)
113 cd06347 PBP1_ABC_ligand_bindin 83.9 2.2 4.9E-05 36.2 5.0 67 106-175 156-223 (334)
114 cd06279 PBP1_LacI_like_3 Ligan 83.9 4.7 0.0001 34.0 6.9 65 104-176 24-88 (283)
115 PRK13937 phosphoheptose isomer 83.8 2.1 4.5E-05 36.0 4.8 44 143-186 106-152 (188)
116 PRK00414 gmhA phosphoheptose i 83.8 6 0.00013 33.6 7.6 75 111-186 73-157 (192)
117 COG1609 PurR Transcriptional r 83.4 4.5 9.8E-05 36.7 7.0 69 105-177 79-147 (333)
118 cd06360 PBP1_alkylbenzenes_lik 83.2 3.6 7.8E-05 35.2 6.0 69 105-176 153-224 (336)
119 cd06280 PBP1_LacI_like_4 Ligan 83.0 6.3 0.00014 32.5 7.2 67 105-176 20-86 (263)
120 PRK09552 mtnX 2-hydroxy-3-keto 82.9 15 0.00033 30.7 9.6 95 88-186 63-180 (219)
121 cd06342 PBP1_ABC_LIVBP_like Ty 82.9 3.2 6.9E-05 35.4 5.6 67 107-176 156-223 (334)
122 PRK13936 phosphoheptose isomer 82.7 8.4 0.00018 32.7 8.1 44 143-186 111-160 (197)
123 cd01391 Periplasmic_Binding_Pr 82.5 11 0.00023 29.4 7.9 71 104-177 20-92 (269)
124 PRK10423 transcriptional repre 82.4 6.3 0.00014 33.7 7.2 69 104-175 76-144 (327)
125 PRK10703 DNA-binding transcrip 82.0 7.1 0.00015 33.8 7.5 69 104-176 79-148 (341)
126 cd06272 PBP1_hexuronate_repres 81.6 6.7 0.00015 32.2 6.9 65 104-176 19-83 (261)
127 PF12756 zf-C2H2_2: C2H2 type 81.3 1 2.2E-05 32.3 1.7 25 31-57 50-74 (100)
128 cd01464 vWA_subfamily VWA subf 80.7 4.1 8.8E-05 32.9 5.2 42 145-186 109-159 (176)
129 TIGR02137 HSK-PSP phosphoserin 80.5 9 0.0002 32.8 7.5 74 105-186 75-164 (203)
130 cd06304 PBP1_BmpA_like Peripla 80.3 9 0.00019 32.0 7.3 68 104-176 21-89 (260)
131 PHA00733 hypothetical protein 80.1 1.3 2.8E-05 36.0 2.2 24 29-54 71-94 (128)
132 cd06330 PBP1_Arsenic_SBP_like 80.0 3 6.6E-05 36.2 4.5 67 105-174 157-228 (346)
133 PLN02770 haloacid dehalogenase 79.7 17 0.00038 31.2 9.0 101 87-195 96-214 (248)
134 PRK11914 diacylglycerol kinase 79.4 7.3 0.00016 34.6 6.8 73 111-186 9-82 (306)
135 COG0560 SerB Phosphoserine pho 79.4 5.8 0.00012 34.4 6.0 88 104-196 83-189 (212)
136 PF15608 PELOTA_1: PELOTA RNA 79.3 5.1 0.00011 32.3 5.3 43 134-177 46-90 (100)
137 cd06375 PBP1_mGluR_groupII Lig 79.2 6.5 0.00014 37.1 6.8 67 108-176 196-265 (458)
138 cd04509 PBP1_ABC_transporter_G 78.8 4.9 0.00011 32.5 5.1 69 105-176 155-226 (299)
139 PF04123 DUF373: Domain of unk 78.6 4.6 9.9E-05 38.4 5.6 74 103-176 53-135 (344)
140 PRK09860 putative alcohol dehy 78.6 7.2 0.00016 36.4 6.8 78 106-184 22-106 (383)
141 cd06286 PBP1_CcpB_like Ligand- 78.4 11 0.00024 30.9 7.1 68 104-176 19-86 (260)
142 PF04423 Rad50_zn_hook: Rad50 78.3 1.6 3.4E-05 30.3 1.8 22 34-56 22-45 (54)
143 cd08185 Fe-ADH1 Iron-containin 78.3 10 0.00022 35.0 7.7 80 106-185 17-102 (380)
144 cd06276 PBP1_FucR_like Ligand- 78.1 10 0.00022 31.9 7.0 67 104-176 18-85 (247)
145 cd08189 Fe-ADH5 Iron-containin 78.1 8 0.00017 35.7 6.9 79 106-185 17-102 (374)
146 KOG1074 Transcriptional repres 78.0 0.38 8.2E-06 50.7 -1.9 38 27-66 377-414 (958)
147 TIGR01490 HAD-SF-IB-hyp1 HAD-s 77.8 18 0.00039 29.2 8.1 73 107-186 96-191 (202)
148 cd06268 PBP1_ABC_transporter_L 77.7 5.7 0.00012 32.1 5.2 68 106-176 155-223 (298)
149 cd08188 Fe-ADH4 Iron-containin 77.6 8.3 0.00018 35.7 6.9 89 95-184 2-103 (377)
150 cd01987 USP_OKCHK USP domain i 77.3 27 0.00058 25.9 9.0 50 133-183 52-101 (124)
151 PF02602 HEM4: Uroporphyrinoge 77.1 1.3 2.9E-05 36.7 1.4 77 104-182 130-211 (231)
152 TIGR01525 ATPase-IB_hvy heavy 77.1 8.4 0.00018 37.5 7.0 87 106-199 392-481 (556)
153 cd06288 PBP1_sucrose_transcrip 76.9 13 0.00028 30.4 7.1 67 105-176 21-87 (269)
154 PRK06921 hypothetical protein; 76.9 46 0.00099 29.8 11.1 78 104-183 135-231 (266)
155 COG1879 RbsB ABC-type sugar tr 76.5 6.2 0.00013 34.4 5.4 69 104-176 53-125 (322)
156 cd06269 PBP1_glutamate_recepto 76.1 15 0.00033 29.8 7.2 68 107-176 161-231 (298)
157 cd05017 SIS_PGI_PMI_1 The memb 76.1 5.9 0.00013 30.5 4.7 42 143-186 43-87 (119)
158 cd06335 PBP1_ABC_ligand_bindin 75.4 5.9 0.00013 34.9 5.1 66 106-174 158-224 (347)
159 PRK11543 gutQ D-arabinose 5-ph 75.3 5.4 0.00012 35.3 4.8 73 106-186 60-135 (321)
160 cd06363 PBP1_Taste_receptor Li 75.2 10 0.00022 34.6 6.7 68 107-175 197-267 (410)
161 TIGR03649 ergot_EASG ergot alk 75.1 4.6 0.0001 34.4 4.2 75 101-175 10-104 (285)
162 cd06332 PBP1_aromatic_compound 75.1 8.8 0.00019 32.6 5.9 60 114-176 160-221 (333)
163 cd06354 PBP1_BmpA_PnrA_like Pe 74.9 12 0.00026 31.7 6.6 68 104-176 22-90 (265)
164 PRK13938 phosphoheptose isomer 74.8 5.8 0.00012 34.3 4.7 44 143-186 113-159 (196)
165 cd06333 PBP1_ABC-type_HAAT_lik 74.8 6.3 0.00014 33.7 4.9 67 106-175 153-220 (312)
166 PF00072 Response_reg: Respons 74.7 27 0.0006 24.7 8.8 84 104-196 12-106 (112)
167 TIGR01512 ATPase-IB2_Cd heavy 74.6 7.3 0.00016 37.9 5.9 87 106-199 370-460 (536)
168 PF13909 zf-H2C2_5: C2H2-type 74.6 2.4 5.2E-05 24.5 1.7 23 33-57 1-23 (24)
169 PF14336 DUF4392: Domain of un 74.4 12 0.00027 34.2 7.0 79 105-186 67-195 (291)
170 TIGR00393 kpsF KpsF/GutQ famil 74.3 5 0.00011 34.3 4.2 78 106-191 18-99 (268)
171 COG1597 LCB5 Sphingosine kinas 74.1 15 0.00033 33.4 7.5 73 111-186 3-76 (301)
172 PRK13055 putative lipid kinase 74.1 14 0.0003 33.7 7.3 73 111-186 3-77 (334)
173 PRK11302 DNA-binding transcrip 73.7 6.2 0.00013 34.1 4.7 91 87-186 115-220 (284)
174 cd06340 PBP1_ABC_ligand_bindin 73.6 6.7 0.00014 34.5 5.0 61 107-170 165-226 (347)
175 PRK13337 putative lipid kinase 73.6 16 0.00035 32.6 7.4 51 135-186 24-75 (304)
176 cd06346 PBP1_ABC_ligand_bindin 73.6 8 0.00017 33.4 5.3 66 106-174 157-223 (312)
177 PRK02947 hypothetical protein; 73.5 9.2 0.0002 33.7 5.8 45 142-186 105-163 (246)
178 cd06337 PBP1_ABC_ligand_bindin 73.3 6.7 0.00015 34.9 4.9 63 108-174 170-234 (357)
179 PF05368 NmrA: NmrA-like famil 73.3 4.8 0.0001 33.4 3.8 73 102-176 10-103 (233)
180 cd06362 PBP1_mGluR Ligand bind 73.1 12 0.00027 34.2 6.7 67 107-175 193-264 (452)
181 cd06287 PBP1_LacI_like_8 Ligan 73.0 9.7 0.00021 32.4 5.6 62 104-176 27-88 (269)
182 PF12013 DUF3505: Protein of u 72.9 2.9 6.3E-05 32.3 2.3 26 31-58 80-109 (109)
183 COG1737 RpiR Transcriptional r 72.8 11 0.00024 33.6 6.2 139 34-186 56-223 (281)
184 cd06350 PBP1_GPCR_family_C_lik 72.7 12 0.00026 32.3 6.2 67 107-176 181-252 (348)
185 cd06338 PBP1_ABC_ligand_bindin 72.6 9.3 0.0002 33.1 5.5 63 108-173 163-226 (345)
186 cd00861 ProRS_anticodon_short 72.6 22 0.00048 25.4 6.7 46 130-176 18-64 (94)
187 cd06355 PBP1_FmdD_like Peripla 72.6 13 0.00028 33.0 6.5 66 108-176 155-224 (348)
188 cd06331 PBP1_AmiC_like Type I 72.5 11 0.00024 32.7 5.9 74 108-184 154-232 (333)
189 cd06311 PBP1_ABC_sugar_binding 72.0 27 0.00059 29.0 7.9 51 135-186 176-230 (274)
190 COG0546 Gph Predicted phosphat 72.0 6.8 0.00015 33.1 4.4 84 104-193 95-193 (220)
191 smart00734 ZnF_Rad18 Rad18-lik 71.9 2.9 6.3E-05 25.8 1.7 20 33-54 2-21 (26)
192 PRK13059 putative lipid kinase 71.8 18 0.00039 32.2 7.3 25 142-166 55-79 (295)
193 TIGR01491 HAD-SF-IB-PSPlk HAD- 71.5 20 0.00043 28.6 6.8 81 99-186 80-183 (201)
194 cd08192 Fe-ADH7 Iron-containin 71.4 15 0.00033 33.7 6.9 79 106-185 15-100 (370)
195 PRK09484 3-deoxy-D-manno-octul 71.3 12 0.00025 31.1 5.6 77 101-186 52-132 (183)
196 TIGR00522 dph5 diphthine synth 71.2 6.7 0.00015 34.9 4.4 79 96-176 77-167 (257)
197 TIGR01261 hisB_Nterm histidino 71.1 13 0.00029 30.7 5.9 79 97-176 27-129 (161)
198 PRK10892 D-arabinose 5-phospha 70.5 6.3 0.00014 35.1 4.1 73 106-186 65-140 (326)
199 PF00781 DAGK_cat: Diacylglyce 70.1 24 0.00052 27.4 6.8 68 114-186 3-72 (130)
200 cd06336 PBP1_ABC_ligand_bindin 70.0 9.5 0.00021 33.6 5.1 66 106-174 158-225 (347)
201 PRK13054 lipid kinase; Reviewe 69.8 19 0.00041 32.0 7.0 23 142-164 55-77 (300)
202 cd05007 SIS_Etherase N-acetylm 69.6 8.9 0.00019 34.2 4.9 44 143-186 118-164 (257)
203 cd06348 PBP1_ABC_ligand_bindin 69.3 8.4 0.00018 33.5 4.5 67 107-176 158-225 (344)
204 cd06334 PBP1_ABC_ligand_bindin 69.2 13 0.00029 33.4 5.9 66 107-175 161-227 (351)
205 PF02602 HEM4: Uroporphyrinoge 69.1 4.6 0.0001 33.5 2.8 78 106-184 3-90 (231)
206 PRK13582 thrH phosphoserine ph 69.0 23 0.00051 28.6 6.8 75 104-186 74-164 (205)
207 PRK05441 murQ N-acetylmuramic 69.0 8.7 0.00019 35.1 4.8 44 143-186 131-177 (299)
208 PRK08116 hypothetical protein; 68.8 44 0.00096 29.9 9.1 26 158-183 202-227 (268)
209 TIGR01511 ATPase-IB1_Cu copper 68.6 19 0.0004 35.4 7.2 85 107-199 414-500 (562)
210 TIGR00274 N-acetylmuramic acid 68.6 9 0.00019 35.1 4.8 44 143-186 126-172 (291)
211 cd06368 PBP1_iGluR_non_NMDA_li 68.5 17 0.00038 31.1 6.2 58 109-169 149-206 (324)
212 PHA00733 hypothetical protein 68.1 5.8 0.00013 32.3 3.1 26 30-57 98-123 (128)
213 cd08186 Fe-ADH8 Iron-containin 67.9 23 0.0005 32.9 7.4 80 106-185 14-103 (383)
214 TIGR01422 phosphonatase phosph 67.8 66 0.0014 27.3 9.6 93 97-193 97-205 (253)
215 PRK10624 L-1,2-propanediol oxi 67.8 19 0.0004 33.5 6.7 78 106-184 21-105 (382)
216 cd06329 PBP1_SBP_like_3 Peripl 67.5 12 0.00025 32.9 5.1 68 106-176 163-234 (342)
217 cd06343 PBP1_ABC_ligand_bindin 67.2 13 0.00029 32.5 5.4 68 106-176 164-233 (362)
218 PRK14101 bifunctional glucokin 67.0 20 0.00044 35.6 7.2 92 86-186 454-560 (638)
219 PRK13288 pyrophosphatase PpaX; 67.0 25 0.00053 29.0 6.6 91 97-196 80-189 (214)
220 cd06326 PBP1_STKc_like Type I 66.9 12 0.00025 32.2 4.8 67 106-175 156-223 (336)
221 PRK09189 uroporphyrinogen-III 66.8 4.8 0.0001 34.3 2.5 75 104-182 131-215 (240)
222 cd06366 PBP1_GABAb_receptor Li 66.8 23 0.0005 30.9 6.7 61 106-169 155-218 (350)
223 cd01391 Periplasmic_Binding_Pr 66.7 17 0.00037 28.2 5.3 42 133-175 171-216 (269)
224 PRK15454 ethanol dehydrogenase 66.7 16 0.00034 34.5 6.1 78 106-184 40-124 (395)
225 TIGR01489 DKMTPPase-SF 2,3-dik 66.7 14 0.00031 29.0 5.0 75 104-186 78-182 (188)
226 PRK15404 leucine ABC transport 66.5 14 0.00031 33.4 5.6 67 107-176 182-249 (369)
227 PF13458 Peripla_BP_6: Peripla 66.2 19 0.0004 30.8 6.0 79 105-186 154-237 (343)
228 cd08187 BDH Butanol dehydrogen 66.2 23 0.0005 32.8 7.0 80 106-185 20-105 (382)
229 cd08551 Fe-ADH iron-containing 65.9 19 0.00041 32.9 6.3 79 106-185 14-99 (370)
230 PF13419 HAD_2: Haloacid dehal 65.7 24 0.00053 26.5 5.9 76 96-176 74-159 (176)
231 PRK13222 phosphoglycolate phos 65.6 31 0.00067 28.1 6.9 101 89-194 83-198 (226)
232 cd08180 PDD 1,3-propanediol de 65.6 28 0.00061 31.5 7.3 84 99-184 4-96 (332)
233 PF10727 Rossmann-like: Rossma 65.2 10 0.00022 30.9 4.0 64 101-166 20-91 (127)
234 cd01543 PBP1_XylR Ligand-bindi 65.2 21 0.00044 29.6 5.9 62 104-176 18-80 (265)
235 PRK09492 treR trehalose repres 64.3 28 0.0006 29.7 6.7 67 104-176 82-148 (315)
236 cd01477 vWA_F09G8-8_type VWA F 64.3 11 0.00024 32.1 4.3 33 145-177 133-171 (193)
237 cd06327 PBP1_SBP_like_1 Peripl 64.3 13 0.00027 32.4 4.6 67 106-175 155-224 (334)
238 PF12756 zf-C2H2_2: C2H2 type 64.3 2.2 4.8E-05 30.5 0.0 25 35-60 2-26 (100)
239 TIGR01449 PGP_bact 2-phosphogl 63.6 28 0.00061 28.2 6.3 103 87-194 73-190 (213)
240 cd06345 PBP1_ABC_ligand_bindin 63.5 15 0.00033 32.0 5.0 65 107-174 165-230 (344)
241 PF03129 HGTP_anticodon: Antic 63.4 54 0.0012 23.7 7.7 54 116-171 3-56 (94)
242 PF14258 DUF4350: Domain of un 63.4 21 0.00045 25.1 4.9 57 104-173 8-69 (70)
243 COG0074 SucD Succinyl-CoA synt 63.3 18 0.00039 34.2 5.7 61 113-182 66-129 (293)
244 TIGR03702 lip_kinase_YegS lipi 63.1 27 0.0006 30.9 6.6 52 134-186 18-70 (293)
245 cd08194 Fe-ADH6 Iron-containin 63.1 29 0.00064 32.0 7.1 78 106-184 14-98 (375)
246 PF13580 SIS_2: SIS domain; PD 62.9 11 0.00025 30.0 3.8 32 142-173 102-136 (138)
247 PRK11382 frlB fructoselysine-6 62.9 13 0.00029 34.0 4.8 42 145-186 94-138 (340)
248 PRK10727 DNA-binding transcrip 62.9 44 0.00096 29.1 7.8 68 104-176 79-147 (343)
249 cd06357 PBP1_AmiC Periplasmic 62.8 38 0.00082 30.3 7.5 62 106-170 152-216 (360)
250 smart00614 ZnF_BED BED zinc fi 62.4 4.3 9.3E-05 27.7 1.2 27 31-58 17-48 (50)
251 TIGR01664 DNA-3'-Pase DNA 3'-p 62.3 37 0.00081 28.0 6.9 72 106-177 50-137 (166)
252 cd04795 SIS SIS domain. SIS (S 62.3 15 0.00033 25.6 4.0 62 106-174 16-81 (87)
253 PRK11041 DNA-binding transcrip 62.2 43 0.00093 28.3 7.4 68 104-176 55-123 (309)
254 PRK13226 phosphoglycolate phos 61.9 46 0.001 28.1 7.5 100 88-193 84-199 (229)
255 PRK05752 uroporphyrinogen-III 61.8 3.7 7.9E-05 35.6 0.9 85 97-184 8-100 (255)
256 PF02892 zf-BED: BED zinc fing 61.2 5.7 0.00012 25.9 1.6 28 29-57 13-44 (45)
257 cd08176 LPO Lactadehyde:propan 61.2 27 0.00058 32.4 6.4 78 106-184 19-103 (377)
258 PRK10886 DnaA initiator-associ 60.7 16 0.00035 31.6 4.7 44 143-186 109-158 (196)
259 TIGR02638 lactal_redase lactal 60.6 24 0.00053 32.7 6.1 77 106-183 20-103 (379)
260 cd08182 HEPD Hydroxyethylphosp 60.1 41 0.00089 30.9 7.4 75 106-184 14-95 (367)
261 PRK13478 phosphonoacetaldehyde 60.1 1.1E+02 0.0025 26.3 9.9 101 89-193 91-207 (267)
262 COG4634 Uncharacterized protei 60.1 10 0.00022 31.5 3.1 49 105-160 12-62 (113)
263 cd01453 vWA_transcription_fact 60.0 21 0.00045 29.9 5.1 41 146-186 110-156 (183)
264 cd01536 PBP1_ABC_sugar_binding 59.9 52 0.0011 26.4 7.2 43 134-176 171-215 (267)
265 cd01467 vWA_BatA_type VWA BatA 59.7 44 0.00096 26.4 6.7 48 129-177 87-142 (180)
266 cd02065 B12-binding_like B12 b 59.7 60 0.0013 24.2 7.1 65 106-176 19-88 (125)
267 cd06380 PBP1_iGluR_AMPA N-term 59.7 25 0.00053 31.4 5.7 67 108-175 147-219 (382)
268 cd07766 DHQ_Fe-ADH Dehydroquin 59.6 31 0.00067 30.9 6.4 77 106-185 14-97 (332)
269 cd01450 vWFA_subfamily_ECM Von 59.5 19 0.00042 27.1 4.4 42 145-186 105-153 (161)
270 cd06352 PBP1_NPR_GC_like Ligan 59.3 25 0.00053 31.2 5.7 66 106-175 158-229 (389)
271 PRK10401 DNA-binding transcrip 59.1 50 0.0011 28.8 7.4 68 104-176 79-147 (346)
272 PF13380 CoA_binding_2: CoA bi 58.9 27 0.00059 27.4 5.3 72 101-176 14-109 (116)
273 PRK10671 copA copper exporting 58.8 30 0.00065 35.5 6.9 85 108-199 660-746 (834)
274 cd01544 PBP1_GalR Ligand-bindi 58.6 23 0.00051 29.5 5.1 60 104-176 24-83 (270)
275 PF04244 DPRP: Deoxyribodipyri 58.4 29 0.00064 30.8 6.0 116 106-224 54-178 (224)
276 cd06358 PBP1_NHase Type I peri 58.0 29 0.00063 30.2 5.8 62 106-170 152-214 (333)
277 PRK06849 hypothetical protein; 58.0 15 0.00031 33.7 4.1 80 103-186 17-116 (389)
278 TIGR03830 CxxCG_CxxCG_HTH puta 57.9 29 0.00062 26.6 5.2 54 29-83 28-88 (127)
279 PRK08811 uroporphyrinogen-III 57.5 8.8 0.00019 34.2 2.6 78 103-184 30-112 (266)
280 PRK12570 N-acetylmuramic acid- 57.3 19 0.00042 32.9 4.8 52 144-195 128-183 (296)
281 cd01473 vWA_CTRP CTRP for CS 57.2 19 0.00041 30.3 4.4 42 145-186 110-160 (192)
282 KOG1074 Transcriptional repres 57.1 4 8.7E-05 43.5 0.4 25 28-54 630-654 (958)
283 cd06578 HemD Uroporphyrinogen- 56.8 9 0.00019 31.1 2.3 84 95-183 123-218 (239)
284 TIGR02726 phenyl_P_delta pheny 56.7 47 0.001 28.0 6.7 76 102-186 39-118 (169)
285 PRK07239 bifunctional uroporph 56.6 22 0.00047 32.7 5.0 79 105-184 161-253 (381)
286 PRK06294 coproporphyrinogen II 56.6 53 0.0012 30.5 7.6 62 121-182 66-130 (370)
287 PRK10339 DNA-binding transcrip 56.5 23 0.0005 30.7 4.9 59 104-176 87-145 (327)
288 PRK10490 sensor protein KdpD; 56.4 40 0.00087 35.1 7.4 47 129-177 300-346 (895)
289 PRK00075 cbiD cobalt-precorrin 56.4 42 0.00092 32.2 7.0 90 91-186 151-263 (361)
290 cd01988 Na_H_Antiporter_C The 56.3 45 0.00097 24.4 5.8 47 133-180 59-107 (132)
291 PRK12361 hypothetical protein; 56.2 50 0.0011 32.2 7.6 72 111-186 243-315 (547)
292 PRK05928 hemD uroporphyrinogen 56.2 8.1 0.00018 31.9 2.0 78 106-184 140-224 (249)
293 cd01476 VWA_integrin_invertebr 55.9 26 0.00057 27.4 4.8 34 145-178 105-142 (163)
294 PF03720 UDPG_MGDP_dh_C: UDP-g 55.7 13 0.00029 28.4 3.0 51 104-158 20-81 (106)
295 PRK08674 bifunctional phosphog 55.7 20 0.00044 32.6 4.6 40 145-186 80-122 (337)
296 cd01461 vWA_interalpha_trypsin 55.5 23 0.00051 27.4 4.4 44 143-186 99-150 (171)
297 cd01482 vWA_collagen_alphaI-XI 55.4 24 0.00053 28.1 4.6 42 145-186 105-151 (164)
298 PF09397 Ftsk_gamma: Ftsk gamm 55.3 7.7 0.00017 28.8 1.6 19 14-32 38-56 (65)
299 COG0124 HisS Histidyl-tRNA syn 54.9 69 0.0015 31.4 8.3 81 89-176 294-395 (429)
300 PF13519 VWA_2: von Willebrand 54.7 31 0.00068 26.1 4.9 53 134-186 88-149 (172)
301 PRK00861 putative lipid kinase 54.6 53 0.0012 29.1 7.0 71 112-186 4-75 (300)
302 cd06356 PBP1_Amide_Urea_BP_lik 54.4 42 0.00091 29.5 6.3 59 107-168 153-212 (334)
303 TIGR00640 acid_CoA_mut_C methy 54.2 70 0.0015 26.0 7.1 65 106-176 22-92 (132)
304 COG0683 LivK ABC-type branched 53.9 28 0.0006 31.6 5.2 67 108-177 170-237 (366)
305 cd06409 PB1_MUG70 The MUG70 pr 53.9 18 0.0004 28.2 3.5 27 147-173 55-81 (86)
306 PRK11263 cardiolipin synthase 53.4 67 0.0015 30.8 7.9 70 114-184 190-264 (411)
307 cd06376 PBP1_mGluR_groupIII Li 52.7 50 0.0011 30.8 6.8 66 108-175 194-265 (463)
308 cd06325 PBP1_ABC_uncharacteriz 52.6 44 0.00095 27.6 5.8 67 104-175 18-89 (281)
309 cd06371 PBP1_sensory_GC_DEF_li 52.0 46 0.001 30.3 6.3 69 105-175 151-228 (382)
310 PRK09423 gldA glycerol dehydro 51.9 77 0.0017 29.2 7.8 78 106-185 21-103 (366)
311 smart00851 MGS MGS-like domain 51.9 28 0.00061 25.6 4.1 44 105-152 21-64 (90)
312 PLN03243 haloacid dehalogenase 51.8 78 0.0017 28.0 7.5 30 97-126 107-137 (260)
313 smart00843 Ftsk_gamma This dom 51.8 14 0.00031 27.4 2.5 20 13-32 36-55 (63)
314 PF02633 Creatininase: Creatin 51.7 31 0.00067 29.9 4.9 77 96-176 56-138 (237)
315 TIGR01509 HAD-SF-IA-v3 haloaci 51.6 46 0.00099 25.9 5.4 23 105-127 92-114 (183)
316 cd06379 PBP1_iGluR_NMDA_NR1 N- 51.5 39 0.00086 30.2 5.7 61 107-170 175-240 (377)
317 PRK06975 bifunctional uroporph 51.4 9 0.00019 38.7 1.8 83 99-184 10-98 (656)
318 KOG3456 NADH:ubiquinone oxidor 51.4 5.4 0.00012 33.2 0.2 15 29-45 102-116 (120)
319 PRK13057 putative lipid kinase 51.3 57 0.0012 28.8 6.6 72 106-183 18-90 (287)
320 PF04780 DUF629: Protein of un 51.2 10 0.00022 37.7 2.1 31 34-65 59-89 (466)
321 PRK05579 bifunctional phosphop 50.9 43 0.00093 32.1 6.2 97 13-122 135-236 (399)
322 TIGR02405 trehalos_R_Ecol treh 50.5 65 0.0014 27.8 6.7 66 104-176 79-145 (311)
323 cd06364 PBP1_CaSR Ligand-bindi 50.5 32 0.00069 33.2 5.3 72 96-170 191-271 (510)
324 PRK11009 aphA acid phosphatase 50.4 36 0.00078 30.4 5.3 89 104-196 120-218 (237)
325 PRK13982 bifunctional SbtC-lik 50.4 25 0.00054 34.8 4.6 126 13-158 199-349 (475)
326 COG2185 Sbm Methylmalonyl-CoA 50.3 82 0.0018 26.9 7.1 79 96-180 14-107 (143)
327 cd02068 radical_SAM_B12_BD B12 50.2 87 0.0019 24.1 6.8 64 106-176 8-76 (127)
328 cd02750 MopB_Nitrate-R-NarG-li 50.2 32 0.0007 32.5 5.2 43 143-186 170-217 (461)
329 cd00532 MGS-like MGS-like doma 50.2 39 0.00085 26.1 4.8 67 101-171 23-103 (112)
330 KOG2462 C2H2-type Zn-finger pr 50.2 11 0.00024 35.3 2.1 26 28-55 212-237 (279)
331 PF13945 NST1: Salt tolerance 50.1 5.1 0.00011 35.4 -0.1 9 33-42 142-150 (190)
332 PF13377 Peripla_BP_3: Peripla 50.0 57 0.0012 24.8 5.7 31 146-176 70-106 (160)
333 cd06365 PBP1_Pheromone_recepto 49.8 85 0.0018 29.7 7.9 70 106-176 192-265 (469)
334 TIGR01522 ATPase-IIA2_Ca golgi 49.4 56 0.0012 34.1 7.1 39 154-192 604-644 (884)
335 cd01994 Alpha_ANH_like_IV This 49.3 1.1E+02 0.0023 26.3 7.8 56 141-196 56-128 (194)
336 cd01422 MGS Methylglyoxal synt 49.3 61 0.0013 25.6 5.9 61 105-171 35-105 (115)
337 PRK03359 putative electron tra 49.1 66 0.0014 29.3 6.7 81 107-192 45-142 (256)
338 cd06324 PBP1_ABC_sugar_binding 48.8 1E+02 0.0022 26.6 7.6 53 133-186 191-249 (305)
339 PRK14649 UDP-N-acetylenolpyruv 48.6 17 0.00036 33.3 2.9 34 144-177 21-54 (295)
340 COG1592 Rubrerythrin [Energy p 48.3 15 0.00033 31.9 2.5 25 8-39 117-141 (166)
341 cd01465 vWA_subgroup VWA subgr 48.3 50 0.0011 25.6 5.2 45 142-186 95-151 (170)
342 PRK00843 egsA NAD(P)-dependent 48.0 92 0.002 28.7 7.6 74 108-184 26-105 (350)
343 PF13460 NAD_binding_10: NADH( 47.9 13 0.00029 29.2 2.0 74 101-176 9-99 (183)
344 PF01565 FAD_binding_4: FAD bi 47.8 30 0.00065 26.7 3.8 33 145-177 2-34 (139)
345 PF12076 Wax2_C: WAX2 C-termin 47.6 24 0.00052 30.9 3.6 76 99-194 7-86 (164)
346 cd06320 PBP1_allose_binding Pe 47.5 1.1E+02 0.0023 25.4 7.3 43 134-176 172-216 (275)
347 PF12813 XPG_I_2: XPG domain c 47.3 16 0.00035 32.6 2.6 41 107-157 10-53 (246)
348 TIGR03436 acidobact_VWFA VWFA- 47.2 73 0.0016 28.0 6.6 44 143-186 164-229 (296)
349 PF13242 Hydrolase_like: HAD-h 47.0 91 0.002 22.0 6.0 47 122-176 3-51 (75)
350 CHL00194 ycf39 Ycf39; Provisio 46.9 30 0.00065 30.4 4.2 70 102-173 12-107 (317)
351 cd03134 GATase1_PfpI_like A ty 46.9 12 0.00025 29.7 1.4 72 105-176 17-103 (165)
352 TIGR00868 hCaCC calcium-activa 46.5 49 0.0011 35.3 6.2 43 144-186 405-451 (863)
353 cd01480 vWA_collagen_alpha_1-V 46.0 85 0.0019 25.7 6.5 68 126-194 89-169 (186)
354 PRK09456 ?-D-glucose-1-phospha 46.0 50 0.0011 27.1 5.1 17 160-176 171-187 (199)
355 TIGR02370 pyl_corrinoid methyl 45.4 82 0.0018 26.9 6.5 64 106-176 104-175 (197)
356 PRK00046 murB UDP-N-acetylenol 45.4 19 0.00042 33.9 2.9 34 144-177 21-54 (334)
357 cd08170 GlyDH Glycerol dehydro 45.4 1.3E+02 0.0028 27.4 8.1 78 106-185 14-96 (351)
358 PF11495 Regulator_TrmB: Archa 45.3 55 0.0012 28.3 5.5 47 130-176 10-58 (233)
359 PRK01122 potassium-transportin 45.3 55 0.0012 33.8 6.3 71 108-186 455-527 (679)
360 TIGR01459 HAD-SF-IIA-hyp4 HAD- 45.2 46 0.00099 28.5 4.9 67 105-176 31-104 (242)
361 TIGR01304 IMP_DH_rel_2 IMP deh 45.1 68 0.0015 30.7 6.5 71 99-176 117-196 (369)
362 cd06303 PBP1_LuxPQ_Quorum_Sens 44.8 1.1E+02 0.0024 25.7 7.1 53 133-186 179-235 (280)
363 PF03622 IBV_3B: IBV 3B protei 44.5 12 0.00026 28.3 1.1 15 215-229 44-58 (64)
364 cd06389 PBP1_iGluR_AMPA_GluR2 44.5 53 0.0011 30.0 5.5 65 109-176 140-213 (370)
365 PF11814 DUF3335: Peptidase_C3 44.4 20 0.00044 32.2 2.7 37 87-123 36-76 (207)
366 PRK05967 cystathionine beta-ly 44.4 60 0.0013 30.9 6.0 71 96-176 105-186 (395)
367 TIGR01501 MthylAspMutase methy 44.0 1.4E+02 0.003 24.8 7.4 64 106-176 21-91 (134)
368 cd00338 Ser_Recombinase Serine 44.0 64 0.0014 24.4 5.1 23 154-176 52-74 (137)
369 cd01472 vWA_collagen von Wille 43.9 67 0.0015 25.3 5.4 43 144-186 104-151 (164)
370 PRK14328 (dimethylallyl)adenos 43.7 35 0.00076 32.4 4.4 71 104-186 244-321 (439)
371 cd06367 PBP1_iGluR_NMDA N-term 43.7 43 0.00094 29.6 4.7 37 141-177 192-232 (362)
372 PF02769 AIRS_C: AIR synthase 43.6 1.5E+02 0.0033 22.9 7.9 73 103-177 66-143 (153)
373 PRK14332 (dimethylallyl)adenos 43.6 38 0.00083 32.6 4.6 137 34-186 167-325 (449)
374 cd08171 GlyDH-like2 Glycerol d 43.6 78 0.0017 29.0 6.4 78 106-185 14-97 (345)
375 PRK00002 aroB 3-dehydroquinate 43.5 1.1E+02 0.0024 28.2 7.5 76 107-184 23-110 (358)
376 TIGR02482 PFKA_ATP 6-phosphofr 43.5 70 0.0015 29.7 6.2 65 108-173 57-121 (301)
377 cd05009 SIS_GlmS_GlmD_2 SIS (S 43.3 46 0.00099 25.6 4.2 40 145-186 63-106 (153)
378 PF09338 Gly_reductase: Glycin 42.6 81 0.0018 31.3 6.7 47 140-186 300-354 (428)
379 PF02318 FYVE_2: FYVE-type zin 42.6 31 0.00068 27.3 3.3 39 4-43 20-64 (118)
380 cd08179 NADPH_BDH NADPH-depend 42.5 1.2E+02 0.0026 28.1 7.6 68 117-184 26-99 (375)
381 PF08032 SpoU_sub_bind: RNA 2' 42.4 88 0.0019 21.8 5.3 40 144-186 18-59 (76)
382 cd06385 PBP1_NPR_A Ligand-bind 42.4 74 0.0016 28.8 6.0 63 105-170 167-229 (405)
383 PRK13368 3-deoxy-manno-octulos 42.4 96 0.0021 25.9 6.3 46 128-176 26-72 (238)
384 TIGR01210 conserved hypothetic 42.3 25 0.00055 32.1 3.1 54 103-169 116-170 (313)
385 cd08183 Fe-ADH2 Iron-containin 42.2 1.1E+02 0.0024 28.3 7.3 75 106-184 14-93 (374)
386 cd08178 AAD_C C-terminal alcoh 42.2 81 0.0017 29.5 6.4 67 118-185 25-97 (398)
387 KOG2231 Predicted E3 ubiquitin 42.0 14 0.00031 38.3 1.5 24 34-58 101-139 (669)
388 cd06388 PBP1_iGluR_AMPA_GluR4 42.0 53 0.0012 30.2 5.2 70 103-176 136-215 (371)
389 cd02067 B12-binding B12 bindin 41.8 1.5E+02 0.0033 22.4 7.4 65 106-176 19-89 (119)
390 PF09538 FYDLN_acid: Protein o 41.7 9.8 0.00021 30.7 0.3 11 34-45 11-21 (108)
391 smart00418 HTH_ARSR helix_turn 41.6 32 0.00069 21.9 2.7 39 12-55 26-64 (66)
392 PRK01642 cls cardiolipin synth 41.4 1.1E+02 0.0024 29.6 7.4 67 114-181 302-373 (483)
393 smart00115 CASc Caspase, inter 41.4 51 0.0011 28.9 4.7 45 103-150 32-79 (241)
394 cd06328 PBP1_SBP_like_2 Peripl 41.4 70 0.0015 28.1 5.6 67 106-175 156-225 (333)
395 PF13768 VWA_3: von Willebrand 41.4 69 0.0015 24.9 5.0 44 142-185 95-146 (155)
396 PF03604 DNA_RNApol_7kD: DNA d 41.3 16 0.00035 23.8 1.2 13 26-39 12-24 (32)
397 COG2237 Predicted membrane pro 41.3 62 0.0014 31.5 5.6 74 103-176 53-135 (364)
398 PF07279 DUF1442: Protein of u 41.3 38 0.00083 30.8 4.0 47 142-191 114-161 (218)
399 TIGR02026 BchE magnesium-proto 41.2 73 0.0016 30.8 6.2 72 100-176 21-100 (497)
400 cd06349 PBP1_ABC_ligand_bindin 41.2 55 0.0012 28.4 4.8 68 106-176 155-223 (340)
401 PF03129 HGTP_anticodon: Antic 40.9 39 0.00084 24.4 3.3 44 104-153 19-62 (94)
402 TIGR03471 HpnJ hopanoid biosyn 40.9 99 0.0021 29.4 6.9 50 133-183 264-315 (472)
403 TIGR02247 HAD-1A3-hyp Epoxide 40.8 59 0.0013 26.6 4.8 17 160-176 182-198 (211)
404 cd08190 HOT Hydroxyacid-oxoaci 40.8 94 0.002 29.4 6.7 78 106-184 14-98 (414)
405 PRK00331 glucosamine--fructose 40.6 44 0.00096 32.8 4.6 42 145-186 338-382 (604)
406 TIGR01162 purE phosphoribosyla 40.5 1.2E+02 0.0026 26.2 6.7 58 126-183 8-69 (156)
407 cd06302 PBP1_LsrB_Quorum_Sensi 40.4 1.5E+02 0.0033 25.4 7.4 43 134-176 175-219 (298)
408 cd00858 GlyRS_anticodon GlyRS 40.4 1.7E+02 0.0037 22.6 7.1 42 133-176 45-87 (121)
409 cd01481 vWA_collagen_alpha3-VI 40.4 51 0.0011 27.0 4.3 31 146-176 109-142 (165)
410 PRK14652 UDP-N-acetylenolpyruv 40.4 30 0.00066 31.8 3.3 34 144-177 36-69 (302)
411 cd06373 PBP1_NPR_like Ligand b 40.4 39 0.00084 30.4 3.9 61 106-170 166-228 (396)
412 cd01567 NAPRTase_PncB Nicotina 40.3 77 0.0017 29.2 5.9 47 130-176 276-328 (343)
413 PRK10713 2Fe-2S ferredoxin Yfa 40.3 21 0.00045 26.6 1.9 22 14-39 20-43 (84)
414 PF00465 Fe-ADH: Iron-containi 40.1 85 0.0018 28.7 6.1 77 106-184 14-96 (366)
415 PF10686 DUF2493: Protein of u 40.0 1E+02 0.0022 22.9 5.5 54 120-174 8-64 (71)
416 cd01475 vWA_Matrilin VWA_Matri 40.0 53 0.0011 27.8 4.5 42 145-186 110-156 (224)
417 cd06359 PBP1_Nba_like Type I p 39.9 96 0.0021 27.0 6.2 50 124-176 170-221 (333)
418 cd01451 vWA_Magnesium_chelatas 39.9 62 0.0013 26.3 4.7 43 144-186 99-155 (178)
419 PRK13903 murB UDP-N-acetylenol 39.8 30 0.00066 32.9 3.3 35 143-177 32-66 (363)
420 TIGR03333 salvage_mtnX 2-hydro 39.8 2.2E+02 0.0048 23.7 11.6 95 88-186 59-176 (214)
421 cd06322 PBP1_ABC_sugar_binding 39.7 1.9E+02 0.004 23.8 7.5 44 133-176 168-212 (267)
422 cd06344 PBP1_ABC_ligand_bindin 39.6 53 0.0011 28.6 4.5 41 134-175 183-223 (332)
423 cd01989 STK_N The N-terminal d 39.5 1.1E+02 0.0024 23.2 5.9 40 142-181 77-117 (146)
424 PF01927 Mut7-C: Mut7-C RNAse 39.1 40 0.00088 27.6 3.5 71 104-188 10-81 (147)
425 PF00564 PB1: PB1 domain; Int 39.1 30 0.00065 24.6 2.5 23 145-167 51-73 (84)
426 PF04959 ARS2: Arsenite-resist 39.1 20 0.00043 32.2 1.8 42 34-85 79-120 (214)
427 TIGR03679 arCOG00187 arCOG0018 39.0 1E+02 0.0022 26.7 6.2 37 141-177 54-96 (218)
428 COG1358 RPL8A Ribosomal protei 39.0 86 0.0019 25.6 5.4 51 133-186 33-87 (116)
429 cd00859 HisRS_anticodon HisRS 38.9 60 0.0013 22.1 3.9 16 104-119 18-33 (91)
430 PRK08811 uroporphyrinogen-III 38.8 35 0.00077 30.4 3.4 70 104-177 151-229 (266)
431 cd01454 vWA_norD_type norD typ 38.8 1.2E+02 0.0026 24.3 6.1 35 143-177 103-152 (174)
432 PRK05613 O-acetylhomoserine am 38.8 98 0.0021 29.8 6.5 70 96-172 110-190 (437)
433 TIGR00521 coaBC_dfp phosphopan 38.8 1.3E+02 0.0027 28.9 7.2 134 13-159 131-281 (390)
434 TIGR00111 pelota probable tran 38.6 88 0.0019 29.4 6.1 73 105-178 238-332 (351)
435 PTZ00436 60S ribosomal protein 38.6 49 0.0011 32.0 4.4 61 4-65 93-155 (357)
436 PRK15138 aldehyde reductase; P 38.5 1.1E+02 0.0024 28.7 6.8 76 106-184 22-103 (387)
437 PRK04175 rpl7ae 50S ribosomal 38.5 89 0.0019 25.3 5.4 68 104-186 19-90 (122)
438 TIGR00179 murB UDP-N-acetyleno 38.4 33 0.00072 31.1 3.2 34 144-177 13-46 (284)
439 TIGR00312 cbiD cobalamin biosy 38.3 1.2E+02 0.0027 29.0 7.1 90 91-186 138-250 (347)
440 cd02755 MopB_Thiosulfate-R-lik 38.3 64 0.0014 30.4 5.2 43 143-186 156-204 (454)
441 TIGR01497 kdpB K+-transporting 38.2 86 0.0019 32.4 6.4 72 108-186 456-528 (675)
442 cd06301 PBP1_rhizopine_binding 38.0 1.8E+02 0.004 23.9 7.3 43 133-176 172-218 (272)
443 TIGR01672 AphA HAD superfamily 37.9 74 0.0016 28.4 5.2 105 87-196 102-218 (237)
444 PRK12452 cardiolipin synthetas 37.8 1.4E+02 0.003 29.4 7.6 70 114-184 328-402 (509)
445 PRK09526 lacI lac repressor; R 37.8 1.4E+02 0.0031 25.7 6.9 67 104-175 83-152 (342)
446 COG5200 LUC7 U1 snRNP componen 37.8 26 0.00057 32.4 2.4 47 7-55 159-210 (258)
447 COG0041 PurE Phosphoribosylcar 37.8 1.2E+02 0.0027 26.6 6.4 51 126-176 12-66 (162)
448 cd03174 DRE_TIM_metallolyase D 37.7 1.8E+02 0.0038 24.7 7.3 49 128-176 113-168 (265)
449 TIGR01470 cysG_Nterm siroheme 37.6 75 0.0016 27.4 5.1 72 103-176 21-103 (205)
450 cd06341 PBP1_ABC_ligand_bindin 37.5 43 0.00093 29.0 3.6 62 106-170 153-215 (341)
451 cd02765 MopB_4 The MopB_4 CD i 37.4 59 0.0013 31.8 4.9 43 143-186 159-206 (567)
452 COG1712 Predicted dinucleotide 37.2 1.4E+02 0.0031 27.9 7.1 92 75-174 24-119 (255)
453 cd06310 PBP1_ABC_sugar_binding 37.2 2.1E+02 0.0045 23.6 7.5 31 146-176 185-217 (273)
454 KOG2071 mRNA cleavage and poly 37.0 26 0.00057 35.9 2.5 38 28-68 415-452 (579)
455 cd06578 HemD Uroporphyrinogen- 37.0 1.5E+02 0.0032 24.1 6.5 73 97-173 79-151 (239)
456 PF07754 DUF1610: Domain of un 36.9 15 0.00032 22.9 0.5 9 30-39 15-23 (24)
457 PTZ00287 6-phosphofructokinase 36.8 70 0.0015 36.1 5.8 69 107-176 892-964 (1419)
458 PF10013 DUF2256: Uncharacteri 36.8 23 0.0005 24.9 1.5 26 27-53 3-28 (42)
459 PTZ00175 diphthine synthase; P 36.8 49 0.0011 30.1 4.0 68 104-176 94-167 (270)
460 PRK13906 murB UDP-N-acetylenol 36.7 34 0.00074 31.5 3.0 34 144-177 37-70 (307)
461 TIGR01454 AHBA_synth_RP 3-amin 36.6 1.6E+02 0.0034 24.1 6.6 89 106-197 83-183 (205)
462 PRK09496 trkA potassium transp 36.6 90 0.0019 28.7 5.7 72 102-173 11-97 (453)
463 TIGR00442 hisS histidyl-tRNA s 36.5 1.9E+02 0.0041 26.6 7.8 39 134-173 340-378 (397)
464 COG1587 HemD Uroporphyrinogen- 36.5 31 0.00066 30.0 2.6 82 97-184 6-96 (248)
465 TIGR01691 enolase-ppase 2,3-di 36.4 1.3E+02 0.0028 26.4 6.4 27 145-174 170-196 (220)
466 cd06382 PBP1_iGluR_Kainate N-t 36.3 75 0.0016 27.5 4.9 37 133-170 172-208 (327)
467 PLN02575 haloacid dehalogenase 36.3 1.7E+02 0.0038 28.2 7.8 39 87-125 204-243 (381)
468 PLN02981 glucosamine:fructose- 36.3 54 0.0012 33.4 4.6 43 144-186 411-456 (680)
469 TIGR00466 kdsB 3-deoxy-D-manno 36.2 1.1E+02 0.0023 26.6 5.9 45 127-174 22-66 (238)
470 COG1533 SplB DNA repair photol 36.2 93 0.002 28.8 5.8 80 112-191 145-238 (297)
471 PRK13225 phosphoglycolate phos 36.1 2.6E+02 0.0056 25.0 8.4 87 104-196 148-246 (273)
472 cd00350 rubredoxin_like Rubred 36.1 19 0.00042 22.9 1.0 9 30-39 16-24 (33)
473 PF10758 DUF2586: Protein of u 36.0 96 0.0021 30.2 6.0 69 115-183 38-114 (363)
474 cd08550 GlyDH-like Glycerol_de 35.9 1.3E+02 0.0028 27.6 6.6 77 106-184 14-95 (349)
475 TIGR01670 YrbI-phosphatas 3-de 35.9 1.6E+02 0.0035 23.7 6.5 72 106-186 36-112 (154)
476 PF13707 RloB: RloB-like prote 35.8 1.4E+02 0.0031 24.2 6.3 62 108-171 20-94 (183)
477 TIGR01524 ATPase-IIIB_Mg magne 35.8 1.3E+02 0.0028 31.5 7.3 30 157-186 592-622 (867)
478 TIGR01548 HAD-SF-IA-hyp1 haloa 35.6 1.5E+02 0.0032 24.2 6.3 68 104-176 112-187 (197)
479 TIGR03772 anch_rpt_subst ancho 35.6 4.6E+02 0.01 26.2 11.0 112 62-176 328-455 (479)
480 cd06283 PBP1_RegR_EndR_KdgR_li 35.5 1.2E+02 0.0026 24.7 5.7 45 132-176 166-214 (267)
481 cd02751 MopB_DMSOR-like The Mo 35.3 57 0.0012 32.0 4.5 43 143-186 169-225 (609)
482 PRK02048 4-hydroxy-3-methylbut 35.3 41 0.00089 34.7 3.6 42 13-58 499-540 (611)
483 cd06384 PBP1_NPR_B Ligand-bind 35.2 1E+02 0.0022 28.0 5.8 63 105-171 167-230 (399)
484 cd08191 HHD 6-hydroxyhexanoate 35.1 1.1E+02 0.0023 28.6 6.1 78 106-184 14-97 (386)
485 cd06374 PBP1_mGluR_groupI Liga 35.1 1.1E+02 0.0024 28.7 6.2 68 106-176 206-280 (472)
486 cd08181 PPD-like 1,3-propanedi 35.0 1.5E+02 0.0032 27.4 6.9 78 107-184 18-101 (357)
487 cd02071 MM_CoA_mut_B12_BD meth 35.0 1.5E+02 0.0031 23.2 5.9 64 107-176 20-89 (122)
488 TIGR00010 hydrolase, TatD fami 34.9 93 0.002 25.8 5.1 36 136-172 21-57 (252)
489 KOG3576 Ovo and related transc 34.9 14 0.00031 34.1 0.3 33 27-61 169-201 (267)
490 cd02766 MopB_3 The MopB_3 CD i 34.8 68 0.0015 30.8 4.8 46 143-189 157-208 (501)
491 TIGR00676 fadh2 5,10-methylene 34.8 91 0.002 27.9 5.3 70 107-176 21-97 (272)
492 PF10276 zf-CHCC: Zinc-finger 34.8 15 0.00032 25.2 0.2 11 33-44 30-40 (40)
493 TIGR03407 urea_ABC_UrtA urea A 34.7 1.4E+02 0.003 26.7 6.5 60 107-169 155-215 (359)
494 PRK10725 fructose-1-P/6-phosph 34.6 86 0.0019 24.9 4.7 68 103-176 92-168 (188)
495 PRK09856 fructoselysine 3-epim 34.6 2.3E+02 0.005 24.2 7.6 44 129-172 89-147 (275)
496 PF00070 Pyr_redox: Pyridine n 34.5 27 0.00059 24.8 1.6 44 103-146 11-57 (80)
497 cd03132 GATase1_catalase Type 34.5 18 0.0004 28.1 0.8 72 105-176 19-104 (142)
498 TIGR03026 NDP-sugDHase nucleot 34.4 30 0.00065 32.3 2.3 51 105-159 337-392 (411)
499 cd01455 vWA_F11C1-5a_type Von 34.4 84 0.0018 27.7 4.9 62 124-186 91-163 (191)
500 cd01985 ETF The electron trans 34.4 2.6E+02 0.0056 22.9 7.9 84 107-195 28-121 (181)
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=99.38 E-value=1.6e-12 Score=101.63 Aligned_cols=84 Identities=27% Similarity=0.335 Sum_probs=77.1
Q ss_pred CchhhhhhhhcEEEEEccc-----cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC--
Q 046085 104 YSLVVKLKRVWFWVRTMSD-----KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-- 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~d-----KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-- 176 (230)
-.+..+|++.||.|..++. .++++|++|..+|++.+..++++++||||.|+||+++++.+|++|.+++|+|-.
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 4577899999999999884 568999999999999999889999999999999999999999999999999986
Q ss_pred CCchhhhhhhc
Q 046085 177 NDGTLKRIADR 187 (230)
Q Consensus 177 ~~~aL~r~AD~ 187 (230)
+...|.+.||.
T Consensus 135 ~s~~L~~~~d~ 145 (149)
T cd06167 135 TSRELRKAADR 145 (149)
T ss_pred ChHHHHHhCCc
Confidence 77899999983
No 2
>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=99.36 E-value=1.8e-12 Score=109.44 Aligned_cols=79 Identities=20% Similarity=0.233 Sum_probs=71.9
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC--CCchhh
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM--NDGTLK 182 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~--~~~aL~ 182 (230)
+|...|++.||.+..+.. +.|++|.-++|+++.+..+|+|||||.|+||++++..+|++|.+++|||-. ++.+|.
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 467789999999775533 999999999999998889999999999999999999999999999999944 888999
Q ss_pred hhhh
Q 046085 183 RIAD 186 (230)
Q Consensus 183 r~AD 186 (230)
+.||
T Consensus 147 ~acd 150 (160)
T TIGR00288 147 NSAD 150 (160)
T ss_pred HhcC
Confidence 9999
No 3
>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=99.30 E-value=7.9e-12 Score=95.90 Aligned_cols=83 Identities=25% Similarity=0.281 Sum_probs=58.9
Q ss_pred chhhhhhhhcEEEEEccc------cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC--C
Q 046085 105 SLVVKLKRVWFWVRTMSD------KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY--M 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~d------KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd--~ 176 (230)
.+-..|++.||.|..++. ..+++|++|..+|+..+.+...+.+||||.|+||+++++.+|++|.+++|+|. .
T Consensus 51 ~~~~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~v~~l~~~g~~V~v~~~~~~ 130 (146)
T PF01936_consen 51 SFQEALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTIVLVSGDSDFAPLVRKLRERGKRVIVVGAEDS 130 (146)
T ss_dssp HHHHHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEEEEE---GGGHHHHHHHHHH--EEEEEE-GGG
T ss_pred hHHHHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEEEEEECcHHHHHHHHHHHHcCCEEEEEEeCCC
Confidence 345678999999987765 56899999999999999877789999999999999999999999999999993 3
Q ss_pred CCchhhhhhhc
Q 046085 177 NDGTLKRIADR 187 (230)
Q Consensus 177 ~~~aL~r~AD~ 187 (230)
....|.+.||.
T Consensus 131 ~s~~L~~~ad~ 141 (146)
T PF01936_consen 131 ASEALRSAADE 141 (146)
T ss_dssp S-HHHHHHSSE
T ss_pred CCHHHHHhcCE
Confidence 77899999993
No 4
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=98.36 E-value=1.2e-06 Score=73.91 Aligned_cols=81 Identities=26% Similarity=0.292 Sum_probs=66.5
Q ss_pred hhhhhhhcEEEEEccccch--------HHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC--
Q 046085 107 VVKLKRVWFWVRTMSDKLQ--------AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-- 176 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpq--------AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-- 176 (230)
-.+++.-|+-|.+.+-+.- .=|+-+.-+|+..+++-.+|+++|||.|.||.++++.|+++|.+|+|+|-+
T Consensus 66 ~~~~~~~g~~v~~~~~~~~~~~~~~k~~vDv~la~D~~~l~~~~~~D~ivl~SgD~DF~p~v~~~~~~G~rv~v~~~~~~ 145 (181)
T COG1432 66 EYELRSDGFTVVTSNLDGFTDLRITKGDVDVELAVDAMELADKKNVDTIVLFSGDGDFIPLVEAARDKGKRVEVAGIEPM 145 (181)
T ss_pred HHHHhhcCcEEEeccccccCcccccccCcchhhHHHHHHhhcccCCCEEEEEcCCccHHHHHHHHHHcCCEEEEEecCCc
Confidence 3466777777765544221 337778889999998889999999999999999999999999999999987
Q ss_pred CCchhhhhhhc
Q 046085 177 NDGTLKRIADR 187 (230)
Q Consensus 177 ~~~aL~r~AD~ 187 (230)
+..+|++.||.
T Consensus 146 ~s~~L~~~aD~ 156 (181)
T COG1432 146 TSSDLRNAADY 156 (181)
T ss_pred CHHHHHHhhcc
Confidence 66899999993
No 5
>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=96.25 E-value=0.0025 Score=36.62 Aligned_cols=23 Identities=17% Similarity=0.322 Sum_probs=20.8
Q ss_pred ccccccCCCcccCchHHHHHHHHHh
Q 046085 33 VLVIVEGDLRLYNNDKLVNHFKQIH 57 (230)
Q Consensus 33 ~~C~VCGdrkf~t~~kL~kHFkqlH 57 (230)
-.|+.|| ..|.+...|.+|-+. |
T Consensus 1 y~C~~C~-~~f~~~~~l~~H~~~-H 23 (23)
T PF00096_consen 1 YKCPICG-KSFSSKSNLKRHMRR-H 23 (23)
T ss_dssp EEETTTT-EEESSHHHHHHHHHH-H
T ss_pred CCCCCCC-CccCCHHHHHHHHhH-C
Confidence 0799999 999999999999987 6
No 6
>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=96.21 E-value=0.0029 Score=35.42 Aligned_cols=23 Identities=17% Similarity=0.300 Sum_probs=19.8
Q ss_pred cccccCCCcccCchHHHHHHHHHh
Q 046085 34 LVIVEGDLRLYNNDKLVNHFKQIH 57 (230)
Q Consensus 34 ~C~VCGdrkf~t~~kL~kHFkqlH 57 (230)
.|++|| ..|.+...|..|.++-|
T Consensus 2 ~C~~C~-~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 2 QCPICG-KSFRSKSELRQHMRTHH 24 (24)
T ss_dssp E-SSTS--EESSHHHHHHHHHHHS
T ss_pred CCcCCC-CcCCcHHHHHHHHHhhC
Confidence 799999 99999999999999876
No 7
>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=95.37 E-value=0.058 Score=44.12 Aligned_cols=71 Identities=8% Similarity=-0.033 Sum_probs=54.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+|+..+++..|+.+.++...-..+ .....+.+.+...+++.|++++.+.+...++..+.+.|+..|+||-.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~ 89 (270)
T cd01545 19 LGALDACRDTGYQLVIEPCDSGSP--DLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPG 89 (270)
T ss_pred HHHHHHHHhCCCeEEEEeCCCCch--HHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecC
Confidence 578888999999988664332221 25566666666689999999987655678899999999999999854
No 8
>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=95.22 E-value=0.11 Score=42.63 Aligned_cols=70 Identities=4% Similarity=-0.080 Sum_probs=52.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+..+....+. ....+..+.+.+.++|.|++.+.+++ ..++++.+.++|+..|.++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~ 89 (273)
T cd06305 19 AGTKAEAEALGGDLRVYDAGGDD---AKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVD 89 (273)
T ss_pred HHHHHHHHHcCCEEEEECCCCCH---HHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCC
Confidence 46788899999998876543332 33444555444689999999876654 578899999999999999875
No 9
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.15 E-value=0.014 Score=35.69 Aligned_cols=22 Identities=32% Similarity=0.369 Sum_probs=18.7
Q ss_pred cccccccCCCcccCchHHHHHHHH
Q 046085 32 YVLVIVEGDLRLYNNDKLVNHFKQ 55 (230)
Q Consensus 32 y~~C~VCGdrkf~t~~kL~kHFkq 55 (230)
.+.|+.|| |+| +.+.|.+|.+.
T Consensus 2 l~~C~~Cg-R~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 2 LVPCPICG-RKF-NPDRLEKHEKI 23 (25)
T ss_pred CCcCCCCC-CEE-CHHHHHHHHHh
Confidence 45799999 999 88999999763
No 10
>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=94.54 E-value=0.26 Score=36.69 Aligned_cols=73 Identities=23% Similarity=0.124 Sum_probs=52.0
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhh
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLK 182 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~ 182 (230)
++.-|.+.|..+.++++-- ........+ ..-+|++++|-. .+...+++.|+++|.++|+|.+.....+.
T Consensus 31 ~~~~l~~~~~~~~~~~~~~------~~~~~~~~~--~~~~~~i~iS~~g~~~~~~~~~~~a~~~g~~iv~iT~~~~~~l~ 102 (139)
T cd05013 31 LAYKLLRLGKPVVLLSDPH------LQLMSAANL--TPGDVVIAISFSGETKETVEAAEIAKERGAKVIAITDSANSPLA 102 (139)
T ss_pred HHHHHHHcCCceEEecCHH------HHHHHHHcC--CCCCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEEcCCCCChhH
Confidence 4556788888888775521 111111123 234888888854 44777899999999999999998778899
Q ss_pred hhhh
Q 046085 183 RIAD 186 (230)
Q Consensus 183 r~AD 186 (230)
+.||
T Consensus 103 ~~~d 106 (139)
T cd05013 103 KLAD 106 (139)
T ss_pred HhcC
Confidence 9999
No 11
>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=94.46 E-value=0.18 Score=41.75 Aligned_cols=66 Identities=11% Similarity=0.067 Sum_probs=49.3
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
|+..+++..|+.+..+.-.++ + ...+.+++...++|+|++++.+.+ ...++.+.+.|..+|++|-.
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 567888899999886654444 1 234556665679999999886654 56789999999999999854
No 12
>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=94.44 E-value=0.23 Score=43.06 Aligned_cols=70 Identities=14% Similarity=0.068 Sum_probs=54.6
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~~ 177 (230)
|+..+++..|+.+...+.-. |.+...++.+.|-+.++|.|++++.+++ ..+.++.+++.|...|+++...
T Consensus 19 ~i~~~a~~~g~~v~~~~~~~---~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~ 89 (302)
T TIGR02634 19 IFVAAAESLGAKVFVQSANG---NEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLI 89 (302)
T ss_pred HHHHHHHhcCCEEEEEeCCC---CHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcC
Confidence 77888999999987654322 3355556666666899999999998765 5789999999999999998653
No 13
>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=94.40 E-value=0.2 Score=40.89 Aligned_cols=69 Identities=7% Similarity=0.072 Sum_probs=49.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+......... +-...+.+.|.+.++|.|++++.+.+ ..+++.+++.|..+|++|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~~~~ipvv~~~~~ 87 (259)
T cd01542 19 KGILAALYENGYQMLLMNTNFSI---EKEIEALELLARQKVDGIILLATTIT-DEHREAIKKLNVPVVVVGQD 87 (259)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCH---HHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHhcCCCCEEEEecc
Confidence 57788899999999866554433 22223333344689999999987643 57888889999999999865
No 14
>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=94.29 E-value=0.19 Score=41.78 Aligned_cols=71 Identities=11% Similarity=-0.055 Sum_probs=51.8
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+-.+++..|+.|....... .|..-...+.+.|...+++.+++++.+.+ +...++.++++|..+|+++..
T Consensus 20 ~g~~~~~~~~g~~v~~~~~~~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 91 (271)
T cd06312 20 NGAEDAAKDLGVDVEYRGPET--FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAG 91 (271)
T ss_pred HHHHHHHHHhCCEEEEECCCC--CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCC
Confidence 467778888999998764432 12233334444454689999999987765 678899999999999999864
No 15
>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=94.14 E-value=0.27 Score=40.71 Aligned_cols=70 Identities=11% Similarity=0.024 Sum_probs=51.2
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.|.......+. +......+.|-..++|.|++.+.+++ +.++++.|.++|...|+++..
T Consensus 19 ~~i~~~~~~~g~~v~~~~~~~~~---~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (282)
T cd06318 19 EAAKAHAKALGYELISTDAQGDL---TKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSS 89 (282)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCH---HHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHHHCCCCEEEecCC
Confidence 58888999999998765433232 33333444445789999999876654 357889999999999999864
No 16
>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=93.98 E-value=0.22 Score=42.89 Aligned_cols=70 Identities=14% Similarity=0.043 Sum_probs=52.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhc--CcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKR--RFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r--~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+..+.... |..-...+.+.|.+. ++|.|++.+.++....+++.++++|+.+|+++..
T Consensus 20 ~gi~~~~~~~g~~v~~~~~~~---~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~~~giPvV~~~~~ 91 (305)
T cd06324 20 RFMQAAADDLGIELEVLYAER---DRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLAEGAGVKLFLVNSG 91 (305)
T ss_pred HHHHHHHHhcCCeEEEEeCCC---CHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHHHhCCCeEEEEecC
Confidence 478888999999987664322 233344455555578 9999999876655678899999999999999865
No 17
>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=93.88 E-value=0.29 Score=40.55 Aligned_cols=71 Identities=8% Similarity=0.008 Sum_probs=50.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.|+..+++..|+.|-.....-+. .....+.+.|...+++++++++.+.+-..+++.++++|...|+++...
T Consensus 19 ~~i~~~a~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~ 89 (269)
T cd06281 19 SGAEDRLRAAGYSLLIANSLNDP---ERELEILRSFEQRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRDM 89 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCh---HHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEeccc
Confidence 47788899999998755332222 222233333446799999999876665678889999999999998653
No 18
>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=93.87 E-value=0.3 Score=39.69 Aligned_cols=70 Identities=10% Similarity=0.041 Sum_probs=50.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.|.......+..+ ...+.+.|-..++|.+++.+.+.+...+++.++++|..+|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~---~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~ 88 (266)
T cd06282 19 QGIQEEARAAGYSLLLATTDYDAER---EADAVETLLRQRVDGLILTVADAATSPALDLLDAERVPYVLAYND 88 (266)
T ss_pred HHHHHHHHHCCCEEEEeeCCCCHHH---HHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhCCCCEEEEecc
Confidence 3677888899999987655433322 222333343579999999887766566889999999999999754
No 19
>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=93.86 E-value=0.32 Score=39.96 Aligned_cols=70 Identities=7% Similarity=0.017 Sum_probs=52.5
Q ss_pred CchhhhhhhhcEEEEEc-cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCc-chHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTM-SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS-DFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV-~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS-DF~~lLr~ARer~l~TVVVGd~ 176 (230)
-|+...++..|+.+.++ ....+. ......+..++ +.++|.|++.+-|+ ....++++|.+.|+.+|.+...
T Consensus 18 ~g~~~~a~~~g~~~~~~~~~~~d~--~~q~~~i~~~i-~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~ 89 (257)
T PF13407_consen 18 KGAKAAAKELGYEVEIVFDAQNDP--EEQIEQIEQAI-SQGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD 89 (257)
T ss_dssp HHHHHHHHHHTCEEEEEEESTTTH--HHHHHHHHHHH-HTTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST
T ss_pred HHHHHHHHHcCCEEEEeCCCCCCH--HHHHHHHHHHH-HhcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc
Confidence 46778889999999987 333222 23345555556 58999999996665 6889999999999999998765
No 20
>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=93.79 E-value=0.31 Score=40.20 Aligned_cols=69 Identities=9% Similarity=0.003 Sum_probs=50.7
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+..+.... |.+...++.+.|.++++|.+++++.+.+. ..++.+.+.|...|+++..
T Consensus 19 ~g~~~~a~~~g~~~~~~~~~~---~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~~ipvV~~~~~ 87 (268)
T cd06270 19 SGVESVARKAGKHLIITAGHH---SAEKEREAIEFLLERRCDALILHSKALSD-DELIELAAQVPPLVLINRH 87 (268)
T ss_pred HHHHHHHHHCCCEEEEEeCCC---chHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhCCCCEEEEecc
Confidence 477888999999998665433 23445566666657899999998864332 2388899999999999864
No 21
>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=93.77 E-value=0.03 Score=33.20 Aligned_cols=23 Identities=17% Similarity=0.177 Sum_probs=20.9
Q ss_pred CcccccccCCCcccCchHHHHHHHH
Q 046085 31 PYVLVIVEGDLRLYNNDKLVNHFKQ 55 (230)
Q Consensus 31 py~~C~VCGdrkf~t~~kL~kHFkq 55 (230)
|| .|.+|+ ..|.+...|..|-+.
T Consensus 1 ~~-~C~~C~-~~F~~~~~l~~H~~~ 23 (27)
T PF13912_consen 1 PF-ECDECG-KTFSSLSALREHKRS 23 (27)
T ss_dssp SE-EETTTT-EEESSHHHHHHHHCT
T ss_pred CC-CCCccC-CccCChhHHHHHhHH
Confidence 78 999999 999999999999743
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=93.49 E-value=0.15 Score=38.71 Aligned_cols=79 Identities=13% Similarity=0.090 Sum_probs=55.2
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcC---CcchHHHHHHHHHcCCeEEEecCCCCchhh
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYMNDGTLK 182 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~~~~aL~ 182 (230)
++..|.+.|+.+..+.+. . .+. +....+ ..-|+++++|- ..+...+++.|+++|+++++|-+..+..|.
T Consensus 18 ~~~~l~~~g~~~~~~~~~-~----~~~-~~~~~~--~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la 89 (128)
T cd05014 18 IAATLSSTGTPAFFLHPT-E----ALH-GDLGMV--TPGDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPNSTLA 89 (128)
T ss_pred HHHHhhcCCCceEEcccc-h----hhc-cccCcC--CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCchh
Confidence 455567778888866442 1 111 111112 23488888884 478999999999999999999998778999
Q ss_pred hhhh-cccccc
Q 046085 183 RIAD-RLKWAY 192 (230)
Q Consensus 183 r~AD-~leW~~ 192 (230)
+.|| .|....
T Consensus 90 ~~ad~~l~~~~ 100 (128)
T cd05014 90 KLSDVVLDLPV 100 (128)
T ss_pred hhCCEEEECCC
Confidence 9999 455443
No 23
>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=93.42 E-value=0.43 Score=41.16 Aligned_cols=70 Identities=13% Similarity=-0.049 Sum_probs=52.2
Q ss_pred Cchhhhhhh--hcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKR--VWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrR--AGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++.. .|+.+...+.. .|.+-...+++.|.+.+++.|++.+.|++ +.++++.|++.|..+|+++..
T Consensus 19 ~gi~~~a~~~~~g~~~~~~~~~---~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~~ 91 (303)
T cd01539 19 KNLEDIQKENGGKVEFTFYDAK---NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNRE 91 (303)
T ss_pred HHHHHHHHhhCCCeeEEEecCC---CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCCC
Confidence 467788888 88888755432 23344555555555789999999887766 678999999999999999764
No 24
>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=93.38 E-value=0.41 Score=39.62 Aligned_cols=70 Identities=7% Similarity=-0.046 Sum_probs=49.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc----hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD----FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD----F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-+....-+. ....++.+.|...++|+|++.+.+++ ....++.+.+.|+.+|.+|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 92 (273)
T cd01541 19 RGIESVLSEKGYSLLLASTNNDP---ERERKCLENMLSQGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINAS 92 (273)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCH---HHHHHHHHHHHHcCCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecC
Confidence 47788999999999755432222 22233333344689999999876543 457889999999999999864
No 25
>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=93.38 E-value=0.41 Score=40.08 Aligned_cols=70 Identities=7% Similarity=-0.010 Sum_probs=50.3
Q ss_pred CchhhhhhhhcEEEEEcccc--chHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDK--LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dK--pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-.+... +++ ....+..+.+.+.++|.|++++-+.+....+..++.+|..+|+++..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~~---~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~~giPvV~~~~~ 90 (268)
T cd06306 19 YGMVEEAKRLGVSLKLLEAGGYPNL---AKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVAASIPVIALVND 90 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCCH---HHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHHCCCCEEEeccC
Confidence 47888999999999866432 222 22323344444689999999987776544678899999999999754
No 26
>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=93.34 E-value=0.39 Score=39.27 Aligned_cols=69 Identities=9% Similarity=0.069 Sum_probs=50.1
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+...++..|+.+..... .. +......+...+...++|+|++++.+.+ ..+++.+.++|..+|.++..
T Consensus 24 ~~~~~~~~~~g~~~~~~~~-~~--~~~~~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 92 (270)
T cd06294 24 RGISAVANENGYDISLATG-KN--EEELLEEVKKMIQQKRVDGFILLYSRED-DPIIDYLKEEKFPFVVIGKP 92 (270)
T ss_pred HHHHHHHHHCCCEEEEecC-CC--cHHHHHHHHHHHHHcCcCEEEEecCcCC-cHHHHHHHhcCCCEEEECCC
Confidence 4778889999998874432 22 1234456666665567999999975544 57788999999999999864
No 27
>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=93.21 E-value=0.44 Score=40.91 Aligned_cols=70 Identities=13% Similarity=0.036 Sum_probs=52.0
Q ss_pred CchhhhhhhhcEEEEEc-cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTM-SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV-~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.|..+ +...+. ....++.+.+...++|.|++++-+++ |..+++.+++.|+.+|.|+..
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~~d~---~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~ 90 (298)
T cd06302 19 EGAKEAAKELGVDAIYVGPTTADA---AGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSD 90 (298)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCH---HHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCC
Confidence 47888899999999865 333333 23334444444689999999986655 778899999999999999864
No 28
>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=93.21 E-value=0.43 Score=40.19 Aligned_cols=70 Identities=14% Similarity=0.039 Sum_probs=51.6
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.|.......+. .-..+..+.|..+++|.|++.+.+++ ..++++.+.++|+.+|+++..
T Consensus 19 ~gi~~~~~~~G~~~~~~~~~~d~---~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (272)
T cd06313 19 QAADEAGKLLGVDVTWYGGALDA---VKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTL 89 (272)
T ss_pred HHHHHHHHHcCCEEEEecCCCCH---HHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCC
Confidence 57778888899999876544333 22233333344689999999987766 467889999999999999865
No 29
>smart00355 ZnF_C2H2 zinc finger.
Probab=93.19 E-value=0.071 Score=29.64 Aligned_cols=23 Identities=17% Similarity=0.186 Sum_probs=20.7
Q ss_pred cccccCCCcccCchHHHHHHHHHhH
Q 046085 34 LVIVEGDLRLYNNDKLVNHFKQIHK 58 (230)
Q Consensus 34 ~C~VCGdrkf~t~~kL~kHFkqlHe 58 (230)
.|..|| ..|.+...|..|.+ +|.
T Consensus 2 ~C~~C~-~~f~~~~~l~~H~~-~H~ 24 (26)
T smart00355 2 RCPECG-KVFKSKSALKEHMR-THX 24 (26)
T ss_pred CCCCCc-chhCCHHHHHHHHH-Hhc
Confidence 799999 99999999999987 664
No 30
>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=93.18 E-value=0.47 Score=39.61 Aligned_cols=68 Identities=10% Similarity=0.006 Sum_probs=48.9
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch-HHHHHHHHHcCCeEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF-VEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF-~~lLr~ARer~l~TVVVGd~ 176 (230)
|+..+++..|+.+..+... +. + .....+..++ ..++|.|++.+.|+++ ..+++.+...|+.+|+++..
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 6778888899998866332 32 1 1222333344 5899999999988765 45789999999999999854
No 31
>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=93.08 E-value=0.55 Score=39.89 Aligned_cols=70 Identities=11% Similarity=0.034 Sum_probs=51.6
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+..+....+. .-...+.+.+...+++.|++++.+++ ...+++.+++.|..+|+++..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~---~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~ 89 (288)
T cd01538 19 PNFEAALKELGAEVIVQNANGDP---AKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRL 89 (288)
T ss_pred HHHHHHHHHcCCEEEEECCCCCH---HHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCC
Confidence 57888999999999976553322 22233333344689999999987655 578999999999999999865
No 32
>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=93.02 E-value=0.5 Score=38.65 Aligned_cols=69 Identities=10% Similarity=0.038 Sum_probs=49.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.|.+++..- |..-...+.+.+.+.++|.|++.+.+.+- ..++.++++|..+|++|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~~ipvV~~~~~ 87 (265)
T cd06299 19 TAIQDAASAAGYSTIIGNSDE---NPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLLKRGIPVVFVDRE 87 (265)
T ss_pred HHHHHHHHHcCCEEEEEeCCC---CHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHHhCCCCEEEEecc
Confidence 378888899999998775421 22223334444447899999998876553 5689999999999999875
No 33
>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=92.93 E-value=0.35 Score=40.91 Aligned_cols=71 Identities=6% Similarity=-0.045 Sum_probs=50.5
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+..+.....-+ ....++.+.+...++|.|++++.+.+ ..+++..++++|+..|+++..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~--~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 90 (294)
T cd06316 19 RGAKDEFAKLGIEVVATTDAQFDP--AKQVADIETTISQKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNV 90 (294)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCH--HHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCC
Confidence 477888999999887554322212 22323333333689999999887765 478899999999999999875
No 34
>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=92.92 E-value=0.3 Score=40.46 Aligned_cols=73 Identities=11% Similarity=0.026 Sum_probs=50.2
Q ss_pred CCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
-.|+..+++..|+.+..+.- +...|......+.+.+-..+++++|+++.+++ ....+..++++|+.+|.+|..
T Consensus 18 ~~gi~~~~~~~g~~~~~~~~-~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~ 91 (275)
T cd06320 18 KEGYENEAKKLGVSVDIQAA-PSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDK 91 (275)
T ss_pred HHHHHHHHHHhCCeEEEEcc-CCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCC
Confidence 35888899999999885531 11112223334444444679999999876654 457789999999999999864
No 35
>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=92.92 E-value=0.44 Score=41.69 Aligned_cols=68 Identities=7% Similarity=0.070 Sum_probs=53.6
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.+-.+....+. | .. +..++|.+++||.|++.|...++..+.+.++. +.-.|+++..
T Consensus 21 ~gIe~~a~~~Gy~l~l~~t~~~~-~--~e-~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~ 88 (279)
T PF00532_consen 21 RGIEQEAREHGYQLLLCNTGDDE-E--KE-EYIELLLQRRVDGIILASSENDDEELRRLIKS-GIPVVLIDRY 88 (279)
T ss_dssp HHHHHHHHHTTCEEEEEEETTTH-H--HH-HHHHHHHHTTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS-
T ss_pred HHHHHHHHHcCCEEEEecCCCch-H--HH-HHHHHHHhcCCCEEEEecccCChHHHHHHHHc-CCCEEEEEec
Confidence 58889999999999865544443 2 22 45556668999999999999998888888877 9999999987
No 36
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=92.87 E-value=0.45 Score=40.55 Aligned_cols=71 Identities=10% Similarity=-0.032 Sum_probs=52.2
Q ss_pred CCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch-HHHHHHHHHcCCeEEEecCC
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF-VEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF-~~lLr~ARer~l~TVVVGd~ 176 (230)
-.|+..++++.|+.+-......+. .-.....+.+...+++.+++.+.+++. ...+..+++.|+.+|+++..
T Consensus 45 ~~~i~~~~~~~G~~~~~~~~~~d~---~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 116 (295)
T PRK10653 45 KDGAQKEADKLGYNLVVLDSQNNP---AKELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRG 116 (295)
T ss_pred HHHHHHHHHHcCCeEEEecCCCCH---HHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccC
Confidence 368899999999998865443322 223344444446899999999877655 57899999999999999864
No 37
>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=92.87 E-value=0.32 Score=40.97 Aligned_cols=71 Identities=11% Similarity=0.067 Sum_probs=46.9
Q ss_pred CchhhhhhhhcEEEEEc--cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC
Q 046085 104 YSLVVKLKRVWFWVRTM--SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV--~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd 175 (230)
.|+..+|+..|+.+... ...++ .|..-...+.+.|..+++|.|++.+++......++.+.+.+...|++++
T Consensus 20 ~~i~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l~~~~~p~V~i~~ 92 (280)
T cd06303 20 ASFTARLEELNIPYELTQFSSRPG-IDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVLASGKTKIILQN 92 (280)
T ss_pred HHHHHHHHHcCCcEEEEEeccCcc-cCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHHHhCCCCeEEEeC
Confidence 47888999999777643 22221 1112222333334468999999987665567888888888887788855
No 38
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=92.82 E-value=0.35 Score=43.82 Aligned_cols=71 Identities=11% Similarity=0.006 Sum_probs=51.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+.+..|+.|.... |..+|.+-+..+.+.|-.++++.|++++-|++ +.+.++.|+++|+.+|.+...
T Consensus 43 ~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~ 114 (336)
T PRK15408 43 NGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSD 114 (336)
T ss_pred HHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCC
Confidence 477788889999997522 33334444444444444799999999885544 689999999999999999765
No 39
>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=92.81 E-value=0.69 Score=37.67 Aligned_cols=70 Identities=16% Similarity=0.134 Sum_probs=50.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch-HHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF-VEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF-~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.|.......+..+ ....+..++ ..+++.+++++.+++. ..+++.+++.|+..|.++..
T Consensus 19 ~~i~~~~~~~g~~v~~~~~~~~~~~--~~~~~~~~~-~~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~ 89 (268)
T cd06323 19 DGAQKEAKELGYELTVLDAQNDAAK--QLNDIEDLI-TRGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDRE 89 (268)
T ss_pred HHHHHHHHHcCceEEecCCCCCHHH--HHHHHHHHH-HcCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccC
Confidence 4788889999999987665433321 122333334 5789999999877665 36788999999999999875
No 40
>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=92.69 E-value=0.63 Score=37.89 Aligned_cols=70 Identities=9% Similarity=0.030 Sum_probs=49.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.+...+...+ ......+.+.+.+.++|.|++++.+++-...++.+...|+.+|.++..
T Consensus 19 ~g~~~~a~~~g~~~~~~~~~~~---~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~ 88 (268)
T cd06289 19 AGLEEVLEEAGYTVFLANSGED---VERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVARE 88 (268)
T ss_pred HHHHHHHHHcCCeEEEecCCCC---hHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEecc
Confidence 4666778888988875543322 233444445555789999999986654345889999999999999754
No 41
>PHA00616 hypothetical protein
Probab=92.67 E-value=0.054 Score=37.87 Aligned_cols=27 Identities=19% Similarity=0.379 Sum_probs=24.4
Q ss_pred CcccccccCCCcccCchHHHHHHHHHhHH
Q 046085 31 PYVLVIVEGDLRLYNNDKLVNHFKQIHKR 59 (230)
Q Consensus 31 py~~C~VCGdrkf~t~~kL~kHFkqlHeR 59 (230)
|| .|+-|| ..|.....|.+|-+.-|-.
T Consensus 1 pY-qC~~CG-~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 1 MY-QCLRCG-GIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CC-ccchhh-HHHhhHHHHHHHHHHhcCC
Confidence 88 999999 9999999999999887743
No 42
>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=92.64 E-value=0.54 Score=39.08 Aligned_cols=72 Identities=11% Similarity=-0.004 Sum_probs=52.1
Q ss_pred cCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 102 VGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 102 vgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
+..|+..++++.|+.+..+.+.. .|........+.+.+.++|.|++.+.+.+ +.++++.+.+ +..+|++|..
T Consensus 16 ~~~gi~~~~~~~g~~~~~~~~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~-~ipvV~~~~~ 88 (271)
T cd06314 16 AEAGVKAAGKELGVDVEFVVPQQ--GTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAAA-GIKLITTDSD 88 (271)
T ss_pred HHHHHHHHHHHcCCeEEEeCCCC--CCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHhc-CCCEEEecCC
Confidence 45788899999999998764221 12233334444455789999999987654 5688999988 9999999864
No 43
>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=92.57 E-value=0.64 Score=38.20 Aligned_cols=70 Identities=10% Similarity=0.016 Sum_probs=49.8
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+....... |......+.+.+.++++|.|++.+.+++ +.+.++.+++.|..+|.++..
T Consensus 19 ~~i~~~~~~~g~~~~i~~~~~---~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 89 (267)
T cd06322 19 NAMKEEAKKQKVNLIVSIANQ---DLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDIA 89 (267)
T ss_pred HHHHHHHHhcCCEEEEecCCC---CHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEccc
Confidence 577888889999887443222 2233334444444689999999876654 678899999999999999754
No 44
>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=92.50 E-value=0.68 Score=38.24 Aligned_cols=71 Identities=10% Similarity=0.009 Sum_probs=50.5
Q ss_pred Cchhhhhhh--hcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCCC
Q 046085 104 YSLVVKLKR--VWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 104 ygLa~eLrR--AGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~~ 177 (230)
.|+..+++. .|+.+.++....+. .-...+.+.|...+++.|++.+.+++ ..++++.+.++|...|+++...
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~~ 92 (271)
T cd06321 19 KGAEAAAKKLNPGVKVTVVSADYDL---NKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVAA 92 (271)
T ss_pred HHHHHHHHHhCCCeEEEEccCCCCH---HHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCCC
Confidence 577888888 88888765443222 22233444444689999999886654 5788899999999999998753
No 45
>PRK15482 transcriptional regulator MurR; Provisional
Probab=92.42 E-value=0.51 Score=41.42 Aligned_cols=92 Identities=15% Similarity=0.178 Sum_probs=63.7
Q ss_pred hHHHHHHHhhhcCCcc----CCc--------hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcC--
Q 046085 87 METYKMASKATLTPKV----GYS--------LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSD-- 152 (230)
Q Consensus 87 ~~KY~~AAr~vl~pkv----gyg--------La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSD-- 152 (230)
.+.+++|+..+...+. |.| ++--|.+.|..|....|.. +...+...+ +. =|+++++|-
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-KK-GDVQIAISYSG 193 (285)
T ss_pred HHHHHHHHHHHHhCCeeEEEEeChhHHHHHHHHHHHHhCCCeeEEeccHh------HHHHHHhcC-CC-CCEEEEEeCCC
Confidence 4567777776655543 333 3445668899988765432 222222233 23 389999995
Q ss_pred -CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 153 -DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 153 -DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
..+...+++.|+++|+++|.|-+.....|.+.||
T Consensus 194 ~t~~~~~~~~~a~~~g~~iI~IT~~~~s~la~~ad 228 (285)
T PRK15482 194 SKKEIVLCAEAARKQGATVIAITSLADSPLRRLAH 228 (285)
T ss_pred CCHHHHHHHHHHHHCCCEEEEEeCCCCCchHHhCC
Confidence 4677788999999999999999987778999999
No 46
>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=92.37 E-value=0.91 Score=37.69 Aligned_cols=70 Identities=13% Similarity=0.079 Sum_probs=49.0
Q ss_pred Cchhhhhhhh-----cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRV-----WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRA-----Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+-.++++. |+.+......-.+ .-..++.+.|-..++|.|++++.|++ +...+..|+++|+.+|.++..
T Consensus 19 ~gi~~~a~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~~ 94 (274)
T cd06311 19 WHAQAAAKKLEAAYPDVEFILVTASNDT---EQQNAQQDLLINRKIDALVILPFESAPLTQPVAKAKKAGIFVVVVDRG 94 (274)
T ss_pred HHHHHHHHHhhhhCCCeEEEEEcCCCCH---HHHHHHHHHHHHcCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcCC
Confidence 3566666665 6777765443222 33445555454689999999986644 678899999999999999764
No 47
>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=92.37 E-value=0.75 Score=37.73 Aligned_cols=70 Identities=7% Similarity=0.008 Sum_probs=49.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch-HHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF-VEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF-~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++.+.|+.+.......+. .......+.+...+++.|++.+.+++. .+.+..++++|..+|.++..
T Consensus 20 ~g~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~ 90 (275)
T cd06317 20 KAFQAAAEEDGVEVIVLDANGDV---ARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSN 90 (275)
T ss_pred HHHHHHHHhcCCEEEEEcCCcCH---HHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCC
Confidence 36677788889999876543222 222333343446799999999877664 68889999999999999864
No 48
>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=92.31 E-value=0.65 Score=38.46 Aligned_cols=70 Identities=6% Similarity=-0.017 Sum_probs=49.0
Q ss_pred Cchhhhhhhh-cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRV-WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRA-Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++.+. |+.|-+... ....+ -...+.+.+.+.++|.|++++.+++ +.+.+..+.+.|+..|+++..
T Consensus 19 ~~i~~~~~~~~g~~~~~~~~-~~~~~--~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 90 (270)
T cd06308 19 DEIQREASNYPDVELIIADA-ADDNS--KQVADIENFIRQGVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDRK 90 (270)
T ss_pred HHHHHHHHhcCCcEEEEEcC-CCCHH--HHHHHHHHHHHhCCCEEEEecCchhhchHHHHHHHHCCCCEEEeCCC
Confidence 5778888885 888875533 22221 1122333344689999999987754 578889999999999999864
No 49
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=92.27 E-value=0.64 Score=40.13 Aligned_cols=70 Identities=9% Similarity=-0.065 Sum_probs=50.8
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-.+...... .......+.|.+.++|.|++++.+.....++..+++.|+.+|.++..
T Consensus 84 ~gi~~~a~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~ 153 (342)
T PRK10014 84 AGLTEALEAQGRMVFLLQGGKDG---EQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAEEKGIPVVFASRA 153 (342)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCH---HHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEEEecC
Confidence 36778888999888765443332 22234444455689999999987666678899999999999999764
No 50
>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=92.20 E-value=0.48 Score=39.08 Aligned_cols=72 Identities=14% Similarity=0.033 Sum_probs=51.1
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+..+.... ..|.+....+.+.+-..+++.+++++.+.+ ..++++.+++.|...|+++..
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 578888999999999763210 113334445555455679999999875543 357889999999999999764
No 51
>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=92.13 E-value=0.76 Score=37.84 Aligned_cols=69 Identities=14% Similarity=0.044 Sum_probs=52.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+|+..+++..|+.+...... .|......+.+++...++|.+++.+.+++ ...++.+.+.|..+|++|..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~~~~~~~~~~iPvv~~~~~ 87 (265)
T cd06285 19 EGIEEAAAERGYSTFVANTG---DNPDAQRRAIEMLLDRRVDGLILGDARSD-DHFLDELTRRGVPFVLVLRH 87 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEecCCCC-hHHHHHHHHcCCCEEEEccC
Confidence 58899999999998754332 23345556666666899999999875544 35689999999999999875
No 52
>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=92.05 E-value=0.75 Score=37.94 Aligned_cols=70 Identities=13% Similarity=-0.025 Sum_probs=50.5
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCc----chHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS----DFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS----DF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.+.......+ ......+.+.+...++|++++.+... .....+..+..+|..+|+||-.
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 5888899999999875543322 23444555666678999999986332 2445678889999999999864
No 53
>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=92.04 E-value=0.81 Score=37.50 Aligned_cols=69 Identities=10% Similarity=-0.059 Sum_probs=50.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-...+.-+. .....+.+.+.+.++|++++++.++ -..+++.++++|+..|.+|..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~~iPvv~~~~~ 87 (268)
T cd06273 19 QAFQETLAAHGYTLLVASSGYDL---DREYAQARKLLERGVDGLALIGLDH-SPALLDLLARRGVPYVATWNY 87 (268)
T ss_pred HHHHHHHHHCCCEEEEecCCCCH---HHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhCCCCEEEEcCC
Confidence 58899999999998865443322 3333444445567899999987664 357788999999999999864
No 54
>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=92.02 E-value=0.48 Score=40.39 Aligned_cols=71 Identities=13% Similarity=0.018 Sum_probs=48.1
Q ss_pred CchhhhhhhhcEE-EEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFW-VRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~-VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|++ +........ |.+-...+.+.|-..++|.|++++-|++ +...++.|+++|+.+|+++..
T Consensus 18 ~gi~~~a~~~g~~~~i~~~~~~~--d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~ 90 (302)
T TIGR02637 18 KGAEEAAKELGSVYIIYTGPTGT--TAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSG 90 (302)
T ss_pred HHHHHHHHHhCCeeEEEECCCCC--CHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCC
Confidence 4778888999954 332211111 1233334455555689999999987654 567899999999999999854
No 55
>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=91.89 E-value=1 Score=37.08 Aligned_cols=70 Identities=9% Similarity=-0.030 Sum_probs=51.2
Q ss_pred Cchhhhhhh-hcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch-HHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKR-VWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF-VEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrR-AGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF-~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++. .|+.+......-+. +-..++.+.+.+.++|.|++.+.+++. ..+++.+.++|+.+|.++..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~---~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~ 90 (272)
T cd06301 19 NAMKEHAKVLGGVELQFEDAKNDV---ATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRR 90 (272)
T ss_pred HHHHHHHHHcCCcEEEEeCCCCCH---HHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCC
Confidence 578888888 89998865432222 333334444446899999999887764 57889999999999999875
No 56
>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=91.86 E-value=0.8 Score=38.74 Aligned_cols=70 Identities=10% Similarity=-0.049 Sum_probs=50.2
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-......+.+. ...+.+.|..+++|+|+|++.+.+ ....+..+++.+...|+++..
T Consensus 20 ~gi~~~a~~~gy~~~~~~~~~~~~~---~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~~~~~iPvV~~d~~ 90 (280)
T cd06315 20 EGVREAAKAIGWNLRILDGRGSEAG---QAAALNQAIALKPDGIVLGGVDAAELQAELELAQKAGIPVVGWHAG 90 (280)
T ss_pred HHHHHHHHHcCcEEEEECCCCCHHH---HHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHHHCCCCEEEecCC
Confidence 5777889999999876544333322 223444455789999999987755 356778888899999999864
No 57
>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=91.83 E-value=0.74 Score=37.79 Aligned_cols=69 Identities=9% Similarity=-0.036 Sum_probs=50.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+......-+. .....+.+.|-..++|.|++++.+.+ ...++.+.++++.+|.|+-.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~i~~~ 87 (270)
T cd06296 19 RGVEEAAAAAGYDVVLSESGRRT---SPERQWVERLSARRTDGVILVTPELT-SAQRAALRRTGIPFVVVDPA 87 (270)
T ss_pred HHHHHHHHHcCCeEEEecCCCch---HHHHHHHHHHHHcCCCEEEEecCCCC-hHHHHHHhcCCCCEEEEecc
Confidence 57888999999998866544333 22333334444688999999887654 36689999999999999864
No 58
>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=91.77 E-value=0.78 Score=37.85 Aligned_cols=68 Identities=6% Similarity=-0.023 Sum_probs=49.1
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+.....-.+. .....+.+.|...++|.|++.+.+++ .+++.++++|..+|+++..
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 36778888999988765443443 22334444454689999999987654 4589999999999999864
No 59
>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=91.69 E-value=0.96 Score=36.83 Aligned_cols=69 Identities=7% Similarity=-0.064 Sum_probs=48.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++...|+.|......-+. +-...+.+.+...++|.+++++.+.+ ...+..+.+.|+..|++++.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvv~~~~~ 87 (268)
T cd01575 19 QGISDVLEAAGYQLLLGNTGYSP---EREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAAGIPVVEIMDL 87 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCCc---hhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhcCCCEEEEecC
Confidence 47788899999988765443222 22233444444689999999987655 56778888899999999874
No 60
>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=91.60 E-value=0.91 Score=37.67 Aligned_cols=70 Identities=9% Similarity=-0.008 Sum_probs=50.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.|......-+. .....+.+.|-..++|.|++.+.+++ +...++.+.+.|+..|+++..
T Consensus 19 ~~~~~~a~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (273)
T cd06309 19 KSIKDAAEKRGFDLKFADAQQKQ---ENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRG 89 (273)
T ss_pred HHHHHHHHhcCCEEEEeCCCCCH---HHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecC
Confidence 47788889999999865443332 23333333334578999999887765 578899999999999999864
No 61
>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=91.40 E-value=0.99 Score=37.18 Aligned_cols=70 Identities=13% Similarity=0.021 Sum_probs=49.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.+..+...-+. .-...+.+.+.+.++|.+++.+.+++ ...+++.+.+.|+.+|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 89 (277)
T cd06319 19 RGVKSKAKALGYDAVELSAENSA---KKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIG 89 (277)
T ss_pred HHHHHHHHhcCCeEEEecCCCCH---HHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecC
Confidence 57778888999998866543222 11122333233579999999888876 457899999999999999854
No 62
>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=91.36 E-value=1 Score=36.84 Aligned_cols=68 Identities=7% Similarity=-0.017 Sum_probs=46.1
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
|+..++++.|+.+..++...+. .-...+.+.+...++|.+++++.+.+ .++++.+...|...|+++..
T Consensus 20 ~~~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~vdgiii~~~~~~-~~~~~~l~~~~ipvV~~~~~ 87 (268)
T cd06298 20 GIDDIATMYKYNIILSNSDNDK---EKELKVLNNLLAKQVDGIIFMGGKIS-EEHREEFKRSPTPVVLAGSV 87 (268)
T ss_pred HHHHHHHHcCCeEEEEeCCCCH---HHHHHHHHHHHHhcCCEEEEeCCCCc-HHHHHHHhcCCCCEEEEccc
Confidence 5667788889988866543222 22223333344689999999875433 46788888889999999864
No 63
>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=91.22 E-value=1 Score=38.81 Aligned_cols=70 Identities=9% Similarity=-0.041 Sum_probs=48.8
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++...|+.+-......+. .-..++.+.|..+++|.|++.+.+.+..+.+..+...|+.+|+++..
T Consensus 80 ~~i~~~~~~~gy~~~i~~~~~~~---~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~ 149 (327)
T TIGR02417 80 KELEQQCREAGYQLLIACSDDNP---DQEKVVIENLLARQVDALIVASCMPPEDAYYQKLQNEGLPVVALDRS 149 (327)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCH---HHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHHHhcCCCEEEEccc
Confidence 37888889999998755432222 22233444455689999999876653456778888899999999864
No 64
>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=91.09 E-value=0.14 Score=37.48 Aligned_cols=34 Identities=18% Similarity=0.215 Sum_probs=24.1
Q ss_pred cCccCCCCCcccccccCCCcccCchHHHHHHHHHhH
Q 046085 23 KGVIRPAEPYVLVIVEGDLRLYNNDKLVNHFKQIHK 58 (230)
Q Consensus 23 ~g~i~p~epy~~C~VCGdrkf~t~~kL~kHFkqlHe 58 (230)
+---+-..|- .|++|| +-++...+|.+|.+--|.
T Consensus 16 k~~~~S~~Pa-tCP~C~-a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 16 KSKSQSEQPA-TCPICG-AVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp CCCCTTS--E-E-TTT---EESSHHHHHHHHHHHTT
T ss_pred HHhhccCCCC-CCCcch-hhccchhhHHHHHHHHhc
Confidence 3445567788 999999 999999999999988875
No 65
>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=91.06 E-value=1.2 Score=36.23 Aligned_cols=68 Identities=10% Similarity=0.092 Sum_probs=49.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+..+....+. +. ...+..++ ..+++.|++++.+.+ ..+++.+.+.|+..|.++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~-~~--~~~i~~~~-~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 86 (266)
T cd06278 19 EALSRALQARGYQPLLINTDDDE-DL--DAALRQLL-QYRVDGVIVTSGTLS-SELAEECRRNGIPVVLINRY 86 (266)
T ss_pred HHHHHHHHHCCCeEEEEcCCCCH-HH--HHHHHHHH-HcCCCEEEEecCCCC-HHHHHHHhhcCCCEEEECCc
Confidence 46788899999999876544333 32 23333334 689999999976644 25588899999999999865
No 66
>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=90.94 E-value=0.54 Score=35.24 Aligned_cols=44 Identities=20% Similarity=0.232 Sum_probs=37.4
Q ss_pred CcceEEEEcC---CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.-++++++|- ..+...+++.|+++|.++|+|-+..+..+.+.||
T Consensus 53 ~~d~vi~is~sg~~~~~~~~~~~ak~~g~~vi~iT~~~~~~l~~~ad 99 (131)
T PF01380_consen 53 PDDLVIIISYSGETRELIELLRFAKERGAPVILITSNSESPLARLAD 99 (131)
T ss_dssp TTEEEEEEESSSTTHHHHHHHHHHHHTTSEEEEEESSTTSHHHHHSS
T ss_pred ccceeEeeeccccchhhhhhhHHHHhcCCeEEEEeCCCCCchhhhCC
Confidence 4588888884 3466778899999999999999887789999999
No 67
>PRK12342 hypothetical protein; Provisional
Probab=90.93 E-value=1.2 Score=40.32 Aligned_cols=83 Identities=12% Similarity=-0.045 Sum_probs=59.2
Q ss_pred hhhhhhhcEEEEEccccchHHHHH-HHHHHHHHHhhcCcceEEEEcCC----cch---HHHHHHHHH-cCCeEEEecCCC
Q 046085 107 VVKLKRVWFWVRTMSDKLQAADVL-LRNYMVDMMDKRRFGCLVFVSDD----SDF---VEVLQEATL-RCLKTGVAGYMN 177 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpqAAD~A-L~~~m~~~m~~r~vdclvLVSDD----SDF---~~lLr~ARe-r~l~TVVVGd~~ 177 (230)
|..||+.|-.|..++..|..|+.+ |++++ | ..|+|-.+||||+ +|- +.+|..|-+ .+..-|+.|..+
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 556776788999999999876665 76666 5 4799999999988 566 566666555 478889999774
Q ss_pred Cch-----hhhhhhccccccc
Q 046085 178 DGT-----LKRIADRLKWAYN 193 (230)
Q Consensus 178 ~~a-----L~r~AD~leW~~~ 193 (230)
-+. -...|-+|.|-+-
T Consensus 120 ~D~~tgqvg~~lA~~Lg~P~v 140 (254)
T PRK12342 120 GDLYAQQVGLLLGELLQLPVI 140 (254)
T ss_pred ccCCCCCHHHHHHHHhCCCcE
Confidence 222 5556666655543
No 68
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=90.90 E-value=1.2 Score=39.81 Aligned_cols=69 Identities=19% Similarity=0.115 Sum_probs=52.0
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
|+-.+++..|+.+..+....+. ....++.+.|.++++|.|++++.+++ +.+.+..+.++|+.+|+++..
T Consensus 46 gi~~~a~~~g~~l~i~~~~~~~---~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~~ 115 (330)
T PRK10355 46 IFVKKAESLGAKVFVQSANGNE---ETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDRM 115 (330)
T ss_pred HHHHHHHHcCCEEEEECCCCCH---HHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECCC
Confidence 6677888899999876543333 33444444455789999999987654 678899999999999999864
No 69
>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=90.77 E-value=0.13 Score=35.69 Aligned_cols=25 Identities=24% Similarity=0.329 Sum_probs=14.2
Q ss_pred cccccCCCcccCchHHHHHHHHHhHHH
Q 046085 34 LVIVEGDLRLYNNDKLVNHFKQIHKRE 60 (230)
Q Consensus 34 ~C~VCGdrkf~t~~kL~kHFkqlHeRE 60 (230)
.||+|| . -.+...|..|+.+-|..+
T Consensus 4 ~CP~C~-~-~~~~~~L~~H~~~~H~~~ 28 (54)
T PF05605_consen 4 TCPYCG-K-GFSESSLVEHCEDEHRSE 28 (54)
T ss_pred CCCCCC-C-ccCHHHHHHHHHhHCcCC
Confidence 566666 3 344556666666666544
No 70
>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=90.59 E-value=1.2 Score=37.18 Aligned_cols=69 Identities=10% Similarity=-0.073 Sum_probs=48.7
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.+-+....... .....+...|...++|++++.+.+.+ ..++..+++.|+.+|++|..
T Consensus 19 ~~i~~~~~~~gy~~~~~~~~~~~---~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l~~~~iPvv~~~~~ 87 (269)
T cd06297 19 EGIEGALLEQRYDLALFPLLSLA---RLKRYLESTTLAYLTDGLLLASYDLT-ERLAERRLPTERPVVLVDAE 87 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCcH---HHHHHHHHHHHhcCCCEEEEecCccC-hHHHHHHhhcCCCEEEEccC
Confidence 48888999999888865332211 12222323354678999999997766 46778889999999999864
No 71
>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=90.33 E-value=1.5 Score=35.61 Aligned_cols=69 Identities=6% Similarity=-0.060 Sum_probs=47.2
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+.......+. .......+.|.+.++|.|++.+.+.+- ..++.+.+.|...|+++..
T Consensus 19 ~~i~~~a~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~~~~ipvV~~~~~ 87 (267)
T cd06283 19 KGIEDVCRAHGYQVLVCNSDNDP---EKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLAKNGKPVVLVDRK 87 (267)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCH---HHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHhcCCCCEEEEcCC
Confidence 36667777888888655443322 222333444446899999998866554 3578889999999999875
No 72
>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=90.32 E-value=0.26 Score=30.41 Aligned_cols=33 Identities=9% Similarity=0.190 Sum_probs=27.0
Q ss_pred CCcccccccCCCcccCchHHHHHHHHHhHHHHHHH
Q 046085 30 EPYVLVIVEGDLRLYNNDKLVNHFKQIHKREQKKR 64 (230)
Q Consensus 30 epy~~C~VCGdrkf~t~~kL~kHFkqlHeREr~Kr 64 (230)
.|| .|.+|+ .-|.+...+..|++.-.-+++.++
T Consensus 2 ~~~-~C~~C~-~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 2 GGF-YCKLCN-VTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred cCe-EccccC-CccCCHHHHHHHHChHHHHHHHHc
Confidence 368 999999 999999999999988766655543
No 73
>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=90.29 E-value=1.3 Score=36.06 Aligned_cols=69 Identities=7% Similarity=-0.067 Sum_probs=47.8
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+.......+. .....+..++...+++++++.+.+.+ ...+..+.+.+..+|+++..
T Consensus 23 ~~i~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 91 (268)
T cd06271 23 SGLSEALAEHGYDLVLLPVDPDE---DPLEVYRRLVESGLVDGVIISRTRPD-DPRVALLLERGFPFVTHGRT 91 (268)
T ss_pred HHHHHHHHHCCceEEEecCCCcH---HHHHHHHHHHHcCCCCEEEEecCCCC-ChHHHHHHhcCCCEEEECCc
Confidence 47788899999888755433221 22244455565567999999876543 34567888899999999764
No 74
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=90.21 E-value=1.2 Score=38.70 Aligned_cols=93 Identities=14% Similarity=0.013 Sum_probs=63.1
Q ss_pred hhHHHHHHHhhhcCCcc----CCc--------hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC
Q 046085 86 RMETYKMASKATLTPKV----GYS--------LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD 153 (230)
Q Consensus 86 k~~KY~~AAr~vl~pkv----gyg--------La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD 153 (230)
..++.+.++..+...+- |.| ++-.|.+.|+.|...+|. .....+...| ..=|+++.+|-.
T Consensus 114 ~~~~l~~~~~~i~~a~~I~i~G~G~s~~~A~~~~~~l~~~g~~~~~~~d~------~~~~~~~~~~--~~~Dv~I~iS~s 185 (278)
T PRK11557 114 SEEKLHECVTMLRSARRIILTGIGASGLVAQNFAWKLMKIGINAVAERDM------HALLATVQAL--SPDDLLLAISYS 185 (278)
T ss_pred CHHHHHHHHHHHhcCCeEEEEecChhHHHHHHHHHHHhhCCCeEEEcCCh------HHHHHHHHhC--CCCCEEEEEcCC
Confidence 34667777776665554 444 344578899998865442 1112222234 234777777743
Q ss_pred ---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 154 ---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 154 ---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.+...+++.|+++|+++|+|-+.....+.+.||
T Consensus 186 g~~~~~~~~~~~ak~~ga~iI~IT~~~~s~la~~ad 221 (278)
T PRK11557 186 GERRELNLAADEALRVGAKVLAITGFTPNALQQRAS 221 (278)
T ss_pred CCCHHHHHHHHHHHHcCCCEEEEcCCCCCchHHhCC
Confidence 455678999999999999999987789999999
No 75
>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=89.86 E-value=1.4 Score=36.23 Aligned_cols=69 Identities=7% Similarity=-0.098 Sum_probs=46.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.|....-..+. .-...+.+.+.+.++|.+++++.+.+-.. ++.+++.|..+|+++-.
T Consensus 19 ~~~~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~vdgiii~~~~~~~~~-~~~~~~~~ipvV~~~~~ 87 (264)
T cd06274 19 KRLEALARERGYQLLIACSDDDP---ETERETVETLIARQVDALIVAGSLPPDDP-YYLCQKAGLPVVALDRP 87 (264)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCH---HHHHHHHHHHHHcCCCEEEEcCCCCchHH-HHHHHhcCCCEEEecCc
Confidence 46677788899887644322221 22234444455789999999987654333 77889999999999775
No 76
>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=89.79 E-value=0.74 Score=34.82 Aligned_cols=72 Identities=19% Similarity=0.122 Sum_probs=48.8
Q ss_pred hhhhhhhhc-EEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchh
Q 046085 106 LVVKLKRVW-FWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTL 181 (230)
Q Consensus 106 La~eLrRAG-v~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL 181 (230)
++..|.+.| +.+...+ |. +... .+ ..+ ..-|.++.+|-. .+-..+++.|+++|.++|.|-+..+..|
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 555677776 7777554 22 1111 11 112 245778888754 4566778899999999999999866799
Q ss_pred hhhhh
Q 046085 182 KRIAD 186 (230)
Q Consensus 182 ~r~AD 186 (230)
.+.||
T Consensus 88 a~~ad 92 (126)
T cd05008 88 AREAD 92 (126)
T ss_pred HHhCC
Confidence 99999
No 77
>PRK09701 D-allose transporter subunit; Provisional
Probab=89.71 E-value=1.1 Score=38.95 Aligned_cols=72 Identities=10% Similarity=0.017 Sum_probs=50.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.|..+. .|...|..-.....+.+...++|.|++.+.+++ -...+..+.+.|+.+|+++..
T Consensus 44 ~gi~~~a~~~g~~v~~~~-~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~ 116 (311)
T PRK09701 44 KGIEDEAKTLGVSVDIFA-SPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEK 116 (311)
T ss_pred HHHHHHHHHcCCeEEEec-CCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCC
Confidence 678889999999998652 111122233344444455689999999886654 235577888999999999865
No 78
>PHA00732 hypothetical protein
Probab=89.56 E-value=0.19 Score=38.20 Aligned_cols=26 Identities=15% Similarity=0.142 Sum_probs=22.9
Q ss_pred CcccccccCCCcccCchHHHHHHHHHhH
Q 046085 31 PYVLVIVEGDLRLYNNDKLVNHFKQIHK 58 (230)
Q Consensus 31 py~~C~VCGdrkf~t~~kL~kHFkqlHe 58 (230)
|| .|..|| ..|.+...|.+|-+..|.
T Consensus 1 py-~C~~Cg-k~F~s~s~Lk~H~r~~H~ 26 (79)
T PHA00732 1 MF-KCPICG-FTTVTLFALKQHARRNHT 26 (79)
T ss_pred Cc-cCCCCC-CccCCHHHHHHHhhcccC
Confidence 78 999999 999999999999775554
No 79
>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=89.42 E-value=2 Score=35.42 Aligned_cols=69 Identities=9% Similarity=-0.049 Sum_probs=48.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++.|+.|....... |..-...+.+.|-..++|.|++++.+.+.. .++.+...+..+|+||..
T Consensus 19 ~gi~~~~~~~gy~v~~~~~~~---~~~~~~~~i~~~~~~~~dgiii~~~~~~~~-~~~~~~~~~~pvV~i~~~ 87 (269)
T cd06293 19 DAVEEEADARGLSLVLCATRN---RPERELTYLRWLDTNHVDGLIFVTNRPDDG-ALAKLINSYGNIVLVDED 87 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCC---CHHHHHHHHHHHHHCCCCEEEEeCCCCCHH-HHHHHHhcCCCEEEECCC
Confidence 578889999999887553322 223444555556678999999998665544 345556779999999964
No 80
>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=89.26 E-value=2.9 Score=33.68 Aligned_cols=69 Identities=9% Similarity=0.048 Sum_probs=47.5
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchH-HHHHHHHHcCCeEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFV-EVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~-~lLr~ARer~l~TVVVGd~ 176 (230)
|+..++...|+.+.++....+... + ...+.+++ ..+++.+++++.+++.. .++..+++.+...|.++..
T Consensus 20 ~~~~~a~~~g~~~~~~~~~~~~~~-~-~~~~~~l~-~~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~ 89 (267)
T cd01536 20 GAEAAAKELGVELIVLDAQNDVSK-Q-IQQIEDLI-AQGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSD 89 (267)
T ss_pred HHHHHHHhcCceEEEECCCCCHHH-H-HHHHHHHH-HcCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCC
Confidence 455666667888887665433211 1 12333335 57999999998776654 5889999999999999875
No 81
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=89.25 E-value=1.1 Score=39.95 Aligned_cols=69 Identities=10% Similarity=0.022 Sum_probs=48.5
Q ss_pred CchhhhhhhhcEEEEEcccc--chHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDK--LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dK--pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+...... +++ .-...+.+.+-++++|.|+|++.+++ +...+ .+++.|+.+|.+++.
T Consensus 66 ~gi~~aa~~~G~~l~i~~~~~~~~~---~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~ 137 (343)
T PRK10936 66 YGMVEEAKRLGVDLKVLEAGGYYNL---AKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-ELQAANIPVIALVNG 137 (343)
T ss_pred HHHHHHHHHhCCEEEEEcCCCCCCH---HHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCC
Confidence 47888899999998865432 222 22334444455789999999987655 44667 889999999988654
No 82
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=88.75 E-value=2 Score=36.89 Aligned_cols=70 Identities=9% Similarity=-0.085 Sum_probs=47.8
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-.....-.. .-...+.+.+...++|.|++.+.+..-...++.+.+.|..+|+||..
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 37788889999888754322111 12223444455689999999876544456778888899999999864
No 83
>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=88.75 E-value=0.81 Score=37.46 Aligned_cols=68 Identities=18% Similarity=0.187 Sum_probs=51.9
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhh
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLK 182 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~ 182 (230)
++..|.+.|..|..+++- .+ ..+ ..=|+++.+|-. .+...+++.|+++|+++|+|-+.....|.
T Consensus 51 ~~~~l~~~g~~~~~~~~~-~~----------~~~--~~~D~vI~iS~sG~t~~~i~~~~~ak~~g~~iI~IT~~~~s~la 117 (179)
T cd05005 51 FAMRLMHLGLNVYVVGET-TT----------PAI--GPGDLLIAISGSGETSSVVNAAEKAKKAGAKVVLITSNPDSPLA 117 (179)
T ss_pred HHHHHHhCCCeEEEeCCC-CC----------CCC--CCCCEEEEEcCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCchH
Confidence 344677889888877652 10 112 345888888854 67788999999999999999998677899
Q ss_pred hhhh
Q 046085 183 RIAD 186 (230)
Q Consensus 183 r~AD 186 (230)
+.||
T Consensus 118 ~~ad 121 (179)
T cd05005 118 KLAD 121 (179)
T ss_pred HhCC
Confidence 9999
No 84
>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=88.63 E-value=0.64 Score=32.18 Aligned_cols=39 Identities=18% Similarity=0.236 Sum_probs=29.3
Q ss_pred HHHHHHHHhcCccCCCCCcccccccCCCcccCchHHHHHHHHHh
Q 046085 14 KELFNQLEIKGVIRPAEPYVLVIVEGDLRLYNNDKLVNHFKQIH 57 (230)
Q Consensus 14 r~~l~~le~~g~i~p~epy~~C~VCGdrkf~t~~kL~kHFkqlH 57 (230)
..++..++..+.-.+. .+ +||+|. .++. .+|..|+...|
T Consensus 15 ~~L~~H~~~~H~~~~~-~v-~CPiC~-~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 15 SSLVEHCEDEHRSESK-NV-VCPICS-SRVT--DNLIRHLNSQH 53 (54)
T ss_pred HHHHHHHHhHCcCCCC-Cc-cCCCch-hhhh--hHHHHHHHHhc
Confidence 3566777777766544 56 999999 6655 49999999888
No 85
>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=88.52 E-value=2.1 Score=37.45 Aligned_cols=21 Identities=14% Similarity=0.172 Sum_probs=10.5
Q ss_pred CcceEEEEcCCcchHHHHHHH
Q 046085 143 RFGCLVFVSDDSDFVEVLQEA 163 (230)
Q Consensus 143 ~vdclvLVSDDSDF~~lLr~A 163 (230)
+.++|+.+..|=-+..+++.+
T Consensus 57 ~~d~ivv~GGDGTl~~v~~~l 77 (293)
T TIGR00147 57 GVDTVIAGGGDGTINEVVNAL 77 (293)
T ss_pred CCCEEEEECCCChHHHHHHHH
Confidence 445555555555555554444
No 86
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=88.45 E-value=2.4 Score=36.69 Aligned_cols=69 Identities=4% Similarity=-0.088 Sum_probs=46.8
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++...|+.+-......+. .....+.+.+...++|.|++++.+.+ .+.++.+.+.|..+|++++.
T Consensus 83 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~~vdgiI~~~~~~~-~~~~~~l~~~~iPvV~~~~~ 151 (331)
T PRK14987 83 RGIESVTDAHGYQTMLAHYGYKP---EMEQERLESMLSWNIDGLILTERTHT-PRTLKMIEVAGIPVVELMDS 151 (331)
T ss_pred HHHHHHHHHCCCEEEEecCCCCH---HHHHHHHHHHHhcCCCEEEEcCCCCC-HHHHHHHHhCCCCEEEEecC
Confidence 47888999999887654332221 11223344444689999999864432 46788888999999988764
No 87
>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=88.43 E-value=1.8 Score=35.52 Aligned_cols=66 Identities=6% Similarity=-0.026 Sum_probs=45.7
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+........+ .-...+.+.|-+.+++++++.+.|++. +.+++.|..+|.++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~~~~~~~dgiii~~~~~~~----~~~~~~gipvv~~~~~ 84 (265)
T cd06291 19 RAVEKELYKKGYKLILCNSDNDP---EKEREYLEMLRQNQVDGIIAGTHNLGI----EEYENIDLPIVSFDRY 84 (265)
T ss_pred HHHHHHHHHCCCeEEEecCCccH---HHHHHHHHHHHHcCCCEEEEecCCcCH----HHHhcCCCCEEEEeCC
Confidence 47788899999888754332222 122233344557899999999887663 4677889999999865
No 88
>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=88.42 E-value=2.8 Score=33.47 Aligned_cols=70 Identities=9% Similarity=0.010 Sum_probs=48.8
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.|+..+++..|+.+.......+. +-...+.+.+-+.+++.+++...++.=.. ++.+.++|+..|.++...
T Consensus 19 ~g~~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~ 88 (264)
T cd06267 19 RGIEEAAREAGYSVLLCNSDEDP---EKEREALELLLSRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPL 88 (264)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCH---HHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHcCCCEEEecccc
Confidence 46667777788888876655432 22222333333689999999888765544 888999999999998763
No 89
>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=88.19 E-value=3 Score=34.48 Aligned_cols=70 Identities=7% Similarity=-0.053 Sum_probs=46.1
Q ss_pred Cchhhhhhhh---cE--EEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCc-chHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRV---WF--WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS-DFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRA---Gv--~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS-DF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++++. |+ .+..+...-+. .......+.|...++|.|++.+.++ .+.+++..+.++|+..|+++..
T Consensus 19 ~~i~~~~~~~~~~g~~~~l~i~~~~~~~---~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~ 94 (272)
T cd06300 19 DEFKAQAKELKKAGLISEFIVTSADGDV---AQQIADIRNLIAQGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGT 94 (272)
T ss_pred HHHHHHHHhhhccCCeeEEEEecCCCCH---HHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecC
Confidence 3566677777 87 34444333222 2222333334467999999988664 4778899999999999998754
No 90
>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=87.84 E-value=2.3 Score=34.86 Aligned_cols=68 Identities=10% Similarity=0.071 Sum_probs=47.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-..+... |......+.+.|.+.++|.+++++.+.+- +.+...+ .+...|++|..
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 578888999998887654432 33455666666778899999999865443 3344444 58999999864
No 91
>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=87.42 E-value=2.7 Score=34.41 Aligned_cols=71 Identities=8% Similarity=-0.140 Sum_probs=48.4
Q ss_pred CCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
-.|+..++++.|+.+..+..... |........+.|.+.++|.+++++.+.+=.. +..+.++|..+|++|..
T Consensus 18 ~~gi~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~-~~~~~~~~ipvv~~~~~ 88 (264)
T cd01574 18 LAAIESAAREAGYAVTLSMLAEA--DEEALRAAVRRLLAQRVDGVIVNAPLDDADA-ALAAAPADVPVVFVDGS 88 (264)
T ss_pred HHHHHHHHHHCCCeEEEEeCCCC--chHHHHHHHHHHHhcCCCEEEEeCCCCChHH-HHHHHhcCCCEEEEecc
Confidence 46888899999999875543322 2234445555565788999998865433233 45567899999999875
No 92
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=87.36 E-value=1.7 Score=35.33 Aligned_cols=86 Identities=15% Similarity=0.211 Sum_probs=55.5
Q ss_pred hhhhcEEEEEccccchHHHHHH------H---HHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCC
Q 046085 110 LKRVWFWVRTMSDKLQAADVLL------R---NYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 110 LrRAGv~VrtV~dKpqAAD~AL------~---~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
+.|.|..+..+++-|... .++ . ..+...+- ..=|.++++|-. .+-..+++.|+++|+++++|-+..
T Consensus 39 ~~~~g~~~~~~~~~~~~~-~~~~~d~~~~~~~~~~~~~~~-~~~D~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~ 116 (154)
T TIGR00441 39 ENRPGLPAIALSADVSHL-TCVSNDYGYEDVFSRQVEALG-QKGDVLLGISTSGNSKNVLKAIEAAKDKGMKTITLAGKD 116 (154)
T ss_pred cCCCCceEEecCCcHHHH-HHhhccCCHHHHHHHHHHHhC-CCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCC
Confidence 467788887766333211 111 1 11222221 344888999854 556678899999999999999876
Q ss_pred Cchhhhhhh---ccccccchHHH
Q 046085 178 DGTLKRIAD---RLKWAYNSEVE 197 (230)
Q Consensus 178 ~~aL~r~AD---~leW~~~~e~e 197 (230)
...|.+.|| .++-...+-.|
T Consensus 117 ~s~l~~~ad~~l~~~~~~~~~~~ 139 (154)
T TIGR00441 117 GGKMAGLADIELRVPHFYTPRIQ 139 (154)
T ss_pred CCchhhhCCEEEEeCCCCcHHHH
Confidence 778999999 34555445444
No 93
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=87.35 E-value=0.26 Score=28.64 Aligned_cols=20 Identities=10% Similarity=0.202 Sum_probs=18.8
Q ss_pred cccccCCCcccCchHHHHHHH
Q 046085 34 LVIVEGDLRLYNNDKLVNHFK 54 (230)
Q Consensus 34 ~C~VCGdrkf~t~~kL~kHFk 54 (230)
.|.+|+ ..|.+...|..|++
T Consensus 2 ~C~~C~-~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 2 YCDICN-KSFSSENSLRQHLR 21 (25)
T ss_dssp EETTTT-EEESSHHHHHHHHT
T ss_pred CCCCCC-CCcCCHHHHHHHHC
Confidence 699999 99999999999986
No 94
>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=87.18 E-value=1.5 Score=36.40 Aligned_cols=72 Identities=7% Similarity=-0.130 Sum_probs=47.6
Q ss_pred CchhhhhhhhcEEEEEcc-ccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc-hHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMS-DKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD-FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~-dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD-F~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-.+. .-+...|.....+..+.|.. ++|.+++++.+++ +..+++.+.+.|+..|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~~ 92 (275)
T cd06307 19 AALEAAAAAFPDARIRVRIHFVESFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVSD 92 (275)
T ss_pred HHHHHHHhhhhccCceEEEEEccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeCC
Confidence 467788888876544321 11111222334445555556 9999999987754 468899999999999999754
No 95
>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=86.83 E-value=3.7 Score=33.43 Aligned_cols=69 Identities=9% Similarity=-0.003 Sum_probs=47.1
Q ss_pred CCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.+|+...++..|+.+.++...- |.+....+.+.+...+++.|++.+.+.+-. +++ +.+.|...|++++.
T Consensus 18 ~~~i~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~~~-~~~~~ipvv~~~~~ 86 (267)
T cd06284 18 LKGIEDEAREAGYGVLLGDTRS---DPEREQEYLDLLRRKQADGIILLDGSLPPT-ALT-ALAKLPPIVQACEY 86 (267)
T ss_pred HHHHHHHHHHcCCeEEEecCCC---ChHHHHHHHHHHHHcCCCEEEEecCCCCHH-HHH-HHhcCCCEEEEecc
Confidence 3688888999999987655432 223344455556578999999987665533 333 44679999999865
No 96
>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=86.62 E-value=1.5 Score=34.02 Aligned_cols=43 Identities=16% Similarity=0.106 Sum_probs=36.8
Q ss_pred cceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 144 FGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 144 vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
-|.++.+|-. .+-..+++.|+++|++++.|-+..+..|.+.||
T Consensus 48 ~dl~I~iS~SG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad 93 (120)
T cd05710 48 KSVVILASHSGNTKETVAAAKFAKEKGATVIGLTDDEDSPLAKLAD 93 (120)
T ss_pred CcEEEEEeCCCCChHHHHHHHHHHHcCCeEEEEECCCCCcHHHhCC
Confidence 3788888854 577788899999999999999886778999999
No 97
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=86.60 E-value=3.6 Score=36.48 Aligned_cols=70 Identities=10% Similarity=-0.037 Sum_probs=46.1
Q ss_pred Cchhhhhhhhc-EEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch-HHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVW-FWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF-VEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAG-v~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF-~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++...| +.+..+....+ + .......+.|..+++|.|+|+.-++.+ ...++.+++.|..+|+|+..
T Consensus 44 ~gi~~~a~~~g~~~~~~~~~~~~-~--~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~~ 115 (330)
T PRK15395 44 KAIEKDAKAAPDVQLLMNDSQND-Q--SKQNDQIDVLLAKGVKALAINLVDPAAAPTVIEKARGQDVPVVFFNKE 115 (330)
T ss_pred HHHHHHHHhcCCeEEEEecCCCC-H--HHHHHHHHHHHHcCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcCC
Confidence 36677888885 56654332212 1 222233344546899999998755553 44789999999999999874
No 98
>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=86.30 E-value=2.1 Score=36.76 Aligned_cols=69 Identities=6% Similarity=-0.005 Sum_probs=45.1
Q ss_pred CchhhhhhhhcEEEEEcccc--chHHHHHHHHHHHHHHhhcCcceEEEEcCC-cchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDK--LQAADVLLRNYMVDMMDKRRFGCLVFVSDD-SDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dK--pqAAD~AL~~~m~~~m~~r~vdclvLVSDD-SDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.|...+.. .+. .-.....+.|-++++|.|++++.+ +.+...+..+ +.|...|++++.
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~~~~~---~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~-~~~iPvV~~~~~ 90 (295)
T TIGR02955 19 YGMVEQAKHLGVELKVLEAGGYPNL---DKQLAQIEQCKSWGADAILLGTVSPEALNHDLAQL-TKSIPVFALVNQ 90 (295)
T ss_pred HHHHHHHHHhCCEEEEEcCCCCCCH---HHHHHHHHHHHHcCCCEEEEecCChhhhhHHHHHH-hcCCCEEEEecC
Confidence 46778888999998865321 222 112234444447999999999754 4446777766 469998888543
No 99
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=86.20 E-value=3.3 Score=36.29 Aligned_cols=91 Identities=15% Similarity=0.177 Sum_probs=61.9
Q ss_pred HHHHHHHhhhcCCcc----CCc--------hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcC---
Q 046085 88 ETYKMASKATLTPKV----GYS--------LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSD--- 152 (230)
Q Consensus 88 ~KY~~AAr~vl~pkv----gyg--------La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSD--- 152 (230)
+...+++..+...+. |.| ++..|.|.|+.+..+.|.-.. ......+ ..=|+++++|-
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 DEFHRAARFFYQARQRDLYGAGGSAAIARDVQHKFLRIGVRCQAYDDAHIM------LMSAALL--QEGDVVLVVSHSGR 199 (292)
T ss_pred HHHHHHHHHHHcCCeEEEEEecHHHHHHHHHHHHHhhCCCeEEEcCCHHHH------HHHHhcC--CCCCEEEEEeCCCC
Confidence 556666666655442 433 345577899998876543211 1111112 24577888875
Q ss_pred CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 153 DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 153 DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
..+...+++.|+++|+++|+|-+.....|.+.||
T Consensus 200 t~~~~~~~~~ak~~g~~ii~IT~~~~s~la~~ad 233 (292)
T PRK11337 200 TSDVIEAVELAKKNGAKIICITNSYHSPIAKLAD 233 (292)
T ss_pred CHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCC
Confidence 3678889999999999999999987789999999
No 100
>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=86.14 E-value=1.5 Score=35.76 Aligned_cols=66 Identities=18% Similarity=0.222 Sum_probs=50.2
Q ss_pred hhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhh
Q 046085 108 VKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRI 184 (230)
Q Consensus 108 ~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~ 184 (230)
..|.+.|..+..+.+-- ...+ ..=|+++++|-. .+-..+++.|+++|+++++|-+.....|.+.
T Consensus 50 ~~l~~~g~~~~~~~~~~-----------~~~~--~~~Dv~I~iS~sG~t~~~i~~~~~ak~~g~~ii~IT~~~~s~la~~ 116 (179)
T TIGR03127 50 MRLMHLGFNVYVVGETT-----------TPSI--KKGDLLIAISGSGETESLVTVAKKAKEIGATVAAITTNPESTLGKL 116 (179)
T ss_pred HHHHhCCCeEEEeCCcc-----------cCCC--CCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCchHHh
Confidence 34778899998876621 0122 234888888854 6677889999999999999988766789999
Q ss_pred hh
Q 046085 185 AD 186 (230)
Q Consensus 185 AD 186 (230)
||
T Consensus 117 ad 118 (179)
T TIGR03127 117 AD 118 (179)
T ss_pred CC
Confidence 99
No 101
>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=85.93 E-value=4.9 Score=31.97 Aligned_cols=71 Identities=8% Similarity=0.027 Sum_probs=48.5
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.|+...++..|+.+......... | .....+..++ +.+++.+|+.+.+.....++..+.+.++.+|.++...
T Consensus 19 ~g~~~~~~~~g~~l~~~~~~~~~-~-~~~~~~~~~~-~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~ 89 (264)
T cd01537 19 KGIEEAAKAAGYQVLLANSQNDA-E-KQLSALENLI-ARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDI 89 (264)
T ss_pred HHHHHHHHHcCCeEEEEeCCCCH-H-HHHHHHHHHH-HcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCC
Confidence 35556666678777766554332 1 2233333445 5799999998877665557899999999999998764
No 102
>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=85.51 E-value=4 Score=30.62 Aligned_cols=67 Identities=15% Similarity=0.087 Sum_probs=41.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEc-CCcchHHHHHHHH---HcCCe-EEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVS-DDSDFVEVLQEAT---LRCLK-TGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS-DDSDF~~lLr~AR---er~l~-TVVVGd~ 176 (230)
.-+|+.|+++|+.|..+..-... ..+.+.+...+.+.+++-+ ..+.+..+.+.++ +.+-. .+|+|..
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 44789999999999977332212 4455555566788877765 5666655555554 44333 5666665
No 103
>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=85.23 E-value=4.2 Score=37.66 Aligned_cols=71 Identities=6% Similarity=0.077 Sum_probs=50.2
Q ss_pred hhhhhhhhcEEEE---Eccccc--hHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 106 LVVKLKRVWFWVR---TMSDKL--QAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~Vr---tV~dKp--qAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+..+|++.|+-|- +++... +.........+...+...+++.|++.+...+-..+++.|++.|++.+.||..
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 5567888898774 343322 1111123333334344578999999999999999999999999998888865
No 104
>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=85.11 E-value=0.39 Score=29.12 Aligned_cols=17 Identities=24% Similarity=0.280 Sum_probs=13.6
Q ss_pred CCCCCcccccccCCCcccC
Q 046085 27 RPAEPYVLVIVEGDLRLYN 45 (230)
Q Consensus 27 ~p~epy~~C~VCGdrkf~t 45 (230)
+.+.|| .|+.|| .+|.+
T Consensus 10 ~~~k~~-~C~~C~-k~F~~ 26 (26)
T PF13465_consen 10 TGEKPY-KCPYCG-KSFSN 26 (26)
T ss_dssp SSSSSE-EESSSS-EEESS
T ss_pred CCCCCC-CCCCCc-CeeCc
Confidence 356789 999999 88764
No 105
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=85.05 E-value=1.8 Score=39.68 Aligned_cols=83 Identities=17% Similarity=0.082 Sum_probs=52.1
Q ss_pred CccCCchhhhhhhhcEEEEEccc---cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHH-----------H
Q 046085 100 PKVGYSLVVKLKRVWFWVRTMSD---KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEAT-----------L 165 (230)
Q Consensus 100 pkvgygLa~eLrRAGv~VrtV~d---KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~AR-----------e 165 (230)
|.-+..|+..|+..|..|-.+|- .|-..+-++...+.+.. ...++|||+.|-+. ...++..++ -
T Consensus 19 ~~~a~~la~~L~~~G~~~~~~P~i~i~~~~~~~~~~~~~~~l~-~~~~d~vvfTS~ng-v~~~~~~l~~~~~~~~~~~~l 96 (381)
T PRK07239 19 ARRAEELAALLERRGARVVHAPALRIVPLADDDELRAATRALI-AAPPDIVVATTGIG-FRGWVEAADGWGLADELLEAL 96 (381)
T ss_pred cCCHHHHHHHHHHcCCeEEEecCEEEecCCCcHHHHHHHHHHH-cCCCCEEEEeChHH-HHHHHHHHHHcCChHHHHHHH
Confidence 44457789999999999885422 22221223333232323 35799999999776 333333222 2
Q ss_pred cCCeEEEecCCCCchhhhh
Q 046085 166 RCLKTGVAGYMNDGTLKRI 184 (230)
Q Consensus 166 r~l~TVVVGd~~~~aL~r~ 184 (230)
.+++.+.||..|..+|..+
T Consensus 97 ~~~~i~aVG~~Ta~aL~~~ 115 (381)
T PRK07239 97 SSARLLARGPKATGAIRAA 115 (381)
T ss_pred cCCeEEEECccHHHHHHHc
Confidence 5788999999987887753
No 106
>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=84.95 E-value=4.7 Score=33.07 Aligned_cols=70 Identities=10% Similarity=0.022 Sum_probs=43.5
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+..+...-+ .+....+.+.+..+++|.+++.+-+.+-..+.......|..+|+||..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~~~~ipvV~i~~~ 88 (269)
T cd06275 19 RGVEQYCYRQGYNLILCNTEGD---PERQRSYLRMLAQKRVDGLLVMCSEYDQPLLAMLERYRHIPMVVMDWG 88 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCC---hHHHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHhcCCCCEEEEecc
Confidence 4667778888888875432222 233334444455689999999886655332222233468999999865
No 107
>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=84.87 E-value=4.7 Score=34.65 Aligned_cols=69 Identities=6% Similarity=0.023 Sum_probs=45.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+.......+. .......+.+...++|.|++++.+.+ ..++..+.+.|+.+|++|..
T Consensus 79 ~~i~~~~~~~g~~~~i~~~~~~~---~~~~~~~~~l~~~~vdGiIi~~~~~~-~~~~~~l~~~~iPvV~~~~~ 147 (329)
T TIGR01481 79 RGIEDIATMYKYNIILSNSDEDP---EKEVQVLNTLLSKQVDGIIFMGGTIT-EKLREEFSRSPVPVVLAGTV 147 (329)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCH---HHHHHHHHHHHhCCCCEEEEeCCCCC-hHHHHHHHhcCCCEEEEecC
Confidence 46777788889888754332222 22233344444689999999875433 34567777889999999854
No 108
>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=84.74 E-value=1.8 Score=35.39 Aligned_cols=43 Identities=26% Similarity=0.264 Sum_probs=36.0
Q ss_pred cceEEEEcC---CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 144 FGCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 144 vdclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
=|+++++|- ..+-..+++.|+++|++||.|-+.....|.+.||
T Consensus 102 ~Dv~I~iS~SG~t~~~i~~~~~ak~~Ga~vI~IT~~~~s~La~~aD 147 (177)
T cd05006 102 GDVLIGISTSGNSPNVLKALEAAKERGMKTIALTGRDGGKLLELAD 147 (177)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCC
Confidence 477788874 3467788999999999999998876678999999
No 109
>PHA02768 hypothetical protein; Provisional
Probab=84.62 E-value=0.6 Score=34.00 Aligned_cols=25 Identities=16% Similarity=0.384 Sum_probs=21.6
Q ss_pred CcccccccCCCcccCchHHHHHHHHHhH
Q 046085 31 PYVLVIVEGDLRLYNNDKLVNHFKQIHK 58 (230)
Q Consensus 31 py~~C~VCGdrkf~t~~kL~kHFkqlHe 58 (230)
.| .|+.|| .+|.....|..|-+. |.
T Consensus 5 ~y-~C~~CG-K~Fs~~~~L~~H~r~-H~ 29 (55)
T PHA02768 5 GY-ECPICG-EIYIKRKSMITHLRK-HN 29 (55)
T ss_pred cc-CcchhC-CeeccHHHHHHHHHh-cC
Confidence 47 899999 999999999988776 44
No 110
>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=84.56 E-value=0.31 Score=29.33 Aligned_cols=21 Identities=14% Similarity=0.146 Sum_probs=19.1
Q ss_pred cccccCCCcccCchHHHHHHHH
Q 046085 34 LVIVEGDLRLYNNDKLVNHFKQ 55 (230)
Q Consensus 34 ~C~VCGdrkf~t~~kL~kHFkq 55 (230)
.|.+|+ +.|.+...|..|.+.
T Consensus 3 ~C~~C~-k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 3 YCDACD-KYFSSENQLKQHMKS 23 (27)
T ss_dssp BBTTTT-BBBSSHHHHHCCTTS
T ss_pred CcccCC-CCcCCHHHHHHHHcc
Confidence 699999 999999999999764
No 111
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=84.22 E-value=2.4 Score=33.78 Aligned_cols=75 Identities=12% Similarity=0.116 Sum_probs=43.1
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC------cchHHHHHHHHHcCCeEEEecCC-C
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD------SDFVEVLQEATLRCLKTGVAGYM-N 177 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD------SDF~~lLr~ARer~l~TVVVGd~-~ 177 (230)
.+-.+|+.+|+.+..++.-.... +...+...|++..+..+.. .-|..+++.....+-.++.|||+ |
T Consensus 134 ~~l~~L~~~Gi~~~i~TGD~~~~-------a~~~~~~lgi~~~~v~a~~~~kP~~k~~~~~i~~l~~~~~~v~~vGDg~n 206 (215)
T PF00702_consen 134 EALQELKEAGIKVAILTGDNEST-------ASAIAKQLGIFDSIVFARVIGKPEPKIFLRIIKELQVKPGEVAMVGDGVN 206 (215)
T ss_dssp HHHHHHHHTTEEEEEEESSEHHH-------HHHHHHHTTSCSEEEEESHETTTHHHHHHHHHHHHTCTGGGEEEEESSGG
T ss_pred hhhhhhhccCcceeeeecccccc-------ccccccccccccccccccccccccchhHHHHHHHHhcCCCEEEEEccCHH
Confidence 34467888898888777443321 1112233577443333333 14677777777444589999999 5
Q ss_pred Cchhhhhhh
Q 046085 178 DGTLKRIAD 186 (230)
Q Consensus 178 ~~aL~r~AD 186 (230)
|-.-.+.||
T Consensus 207 D~~al~~Ag 215 (215)
T PF00702_consen 207 DAPALKAAG 215 (215)
T ss_dssp HHHHHHHSS
T ss_pred HHHHHHhCc
Confidence 544444443
No 112
>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=84.18 E-value=4.1 Score=35.98 Aligned_cols=73 Identities=18% Similarity=0.159 Sum_probs=42.6
Q ss_pred hhhhhhhcEEEEEccccch-HHHHHHHHHHHHHHhhcCcceEEEEcCCcchH-HHHHHHHHcCCeEEEecCCCCchhhhh
Q 046085 107 VVKLKRVWFWVRTMSDKLQ-AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFV-EVLQEATLRCLKTGVAGYMNDGTLKRI 184 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpq-AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~-~lLr~ARer~l~TVVVGd~~~~aL~r~ 184 (230)
...|+.+|+.|.++++... +.|.+ .+.+.+.+.+.+.+ |.|.-.|. ...+..++.+.++++|-|..++.. .
T Consensus 46 ~~~i~~~g~~v~~~~~~~~~~~d~~---~~~~~l~~~~~d~v--V~D~y~~~~~~~~~~k~~~~~l~~iDD~~~~~~--~ 118 (279)
T TIGR03590 46 IDLLLSAGFPVYELPDESSRYDDAL---ELINLLEEEKFDIL--IVDHYGLDADWEKLIKEFGRKILVIDDLADRPH--D 118 (279)
T ss_pred HHHHHHcCCeEEEecCCCchhhhHH---HHHHHHHhcCCCEE--EEcCCCCCHHHHHHHHHhCCeEEEEecCCCCCc--C
Confidence 4456666666666655432 11222 24445544456644 55655544 344556678999999999865544 7
Q ss_pred hh
Q 046085 185 AD 186 (230)
Q Consensus 185 AD 186 (230)
||
T Consensus 119 ~D 120 (279)
T TIGR03590 119 CD 120 (279)
T ss_pred CC
Confidence 88
No 113
>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=83.91 E-value=2.2 Score=36.22 Aligned_cols=67 Identities=7% Similarity=0.017 Sum_probs=47.3
Q ss_pred hhhhhhhhcEEEEEc-cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC
Q 046085 106 LVVKLKRVWFWVRTM-SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 106 La~eLrRAGv~VrtV-~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd 175 (230)
+...|+.+|+.|-.. .-.+...| ....+.+++ ..+.+.+++.+...+...+++.|++.|++..++|.
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 344566678766433 22333444 444555556 47899999999999999999999999998888864
No 114
>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=83.88 E-value=4.7 Score=33.97 Aligned_cols=65 Identities=8% Similarity=-0.071 Sum_probs=47.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.|..++... +.. +.+.+...++|.+++.+.+.. ...++.++..|+..|.+|..
T Consensus 24 ~gi~~~a~~~g~~~~~~~~~~---~~~----~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 24 AGVAEVLDAAGVNLLLLPASS---EDS----DSALVVSALVDGFIVYGVPRD-DPLVAALLRRGLPVVVVDQP 88 (283)
T ss_pred HHHHHHHHHCCCEEEEecCcc---HHH----HHHHHHhcCCCEEEEeCCCCC-hHHHHHHHHcCCCEEEEecC
Confidence 477889999999998665433 212 222334689999999886533 36789999999999999765
No 115
>PRK13937 phosphoheptose isomerase; Provisional
Probab=83.84 E-value=2.1 Score=35.96 Aligned_cols=44 Identities=20% Similarity=0.204 Sum_probs=37.2
Q ss_pred CcceEEEEc---CCcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVS---DDSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVS---DDSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.=|.++++| ...+-..+++.|+++|++||+|-+..+..|.+.||
T Consensus 106 ~~Dl~i~iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~~s~L~~~ad 152 (188)
T PRK13937 106 PGDVLIGISTSGNSPNVLAALEKARELGMKTIGLTGRDGGKMKELCD 152 (188)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCC
Confidence 348888888 45677889999999999999997766678999999
No 116
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=83.76 E-value=6 Score=33.61 Aligned_cols=75 Identities=17% Similarity=0.192 Sum_probs=50.6
Q ss_pred hhhcEEEEEccccchHH----HHHHHHH---HHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCch
Q 046085 111 KRVWFWVRTMSDKLQAA----DVLLRNY---MVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGT 180 (230)
Q Consensus 111 rRAGv~VrtV~dKpqAA----D~AL~~~---m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~a 180 (230)
-|-|+.+...+|..--. |...... +...+ ...=|+++.+|.. .+-..+++.|+++|++||.|-...+..
T Consensus 73 ~r~g~~~~~~~d~~~~~~~~~d~~~~~~~~~~~~~~-~~~~Dv~I~iS~SG~t~~~i~~~~~ak~~g~~iI~iT~~~~s~ 151 (192)
T PRK00414 73 NRPGYPAIAISDVSHLSCVSNDFGYDYVFSRYVEAV-GREGDVLLGISTSGNSGNIIKAIEAARAKGMKVITLTGKDGGK 151 (192)
T ss_pred CCCCceEEecCcHHHHhhhhccCCHHHHHHHHHHHh-CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCh
Confidence 37788887665431111 1111112 22233 2445888888854 677788999999999999998877789
Q ss_pred hhhhhh
Q 046085 181 LKRIAD 186 (230)
Q Consensus 181 L~r~AD 186 (230)
|.+.||
T Consensus 152 l~~~ad 157 (192)
T PRK00414 152 MAGLAD 157 (192)
T ss_pred hHHhCC
Confidence 999999
No 117
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=83.39 E-value=4.5 Score=36.66 Aligned_cols=69 Identities=7% Similarity=0.024 Sum_probs=48.9
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
|+..++...|+.+-...-.. |....+++.+.|..+++|.|++.+ -..=......+.+.++.+|+||...
T Consensus 79 gi~~~~~~~gy~~~l~~~~~---~~~~e~~~~~~l~~~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~ 147 (333)
T COG1609 79 GIEEAAREAGYSLLLANTDD---DPEKEREYLETLLQKRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSP 147 (333)
T ss_pred HHHHHHHHcCCEEEEECCCC---CHHHHHHHHHHHHHcCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCC
Confidence 78899999999998554443 234445555666689999999998 2222234455566699999999863
No 118
>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=83.21 E-value=3.6 Score=35.23 Aligned_cols=69 Identities=9% Similarity=0.037 Sum_probs=49.2
Q ss_pred chhhhhhhhcEEEEEc-cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTM-SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV-~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
++...|+.+|+.|... .-.+.+.|.+ ..+..+. +.+.|.|++++..++...+++.+++.|+ +..++|..
T Consensus 153 ~~~~~~~~~G~~v~~~~~~~~~~~d~~--~~v~~~~-~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 224 (336)
T cd06360 153 GFKEAFTEAGGKIVKELWVPFGTSDFA--SYLAQIP-DDVPDAVFVFFAGGDAIKFVKQYDAAGLKAKIPLIGSG 224 (336)
T ss_pred HHHHHHHHcCCEEEEEEecCCCCcchH--HHHHHHH-hcCCCEEEEecccccHHHHHHHHHHcCCccCCeEEecc
Confidence 3456677888887532 2234456644 3444445 4789999999999999999999999999 66677643
No 119
>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=83.02 E-value=6.3 Score=32.53 Aligned_cols=67 Identities=9% Similarity=0.066 Sum_probs=44.7
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
|+..+++..|+.+.......+. .....+.+.+-..++|.|++++.+.+.. .. .+...|..+|.|+..
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~~dgiii~~~~~~~~-~~-~~~~~~iPvV~~~~~ 86 (263)
T cd06280 20 AVEDAAYRAGLRVILCNTDEDP---EKEAMYLELMEEERVTGVIFAPTRATLR-RL-AELRLSFPVVLIDRA 86 (263)
T ss_pred HHHHHHHHCCCEEEEEeCCCCH---HHHHHHHHHHHhCCCCEEEEeCCCCCch-HH-HHHhcCCCEEEECCC
Confidence 6778888899888765443333 2233344444467899999998765543 33 456679999999865
No 120
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=82.94 E-value=15 Score=30.75 Aligned_cols=95 Identities=17% Similarity=0.019 Sum_probs=55.1
Q ss_pred HHHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccchH-HHHHHHHHHHHHHhhcCcceEE-EEcCC--------c--
Q 046085 88 ETYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQA-ADVLLRNYMVDMMDKRRFGCLV-FVSDD--------S-- 154 (230)
Q Consensus 88 ~KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqA-AD~AL~~~m~~~m~~r~vdclv-LVSDD--------S-- 154 (230)
+.+.++..+.+.|.-| -.+-..|++.|+.+-.||+++.. +...|... +..-.+-|.- .++++ +
T Consensus 63 ~~~~~~~~~~~~l~pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~----~~~~~i~~n~~~~~~~~~~~~kp~p~~ 138 (219)
T PRK09552 63 EEIIQFLLETAEIREGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGL----IPKEQIYCNGSDFSGEYITITWPHPCD 138 (219)
T ss_pred HHHHHHHHhCCCcCcCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHh----CCcCcEEEeEEEecCCeeEEeccCCcc
Confidence 4444444444555555 46778899999999999999974 22222221 1110111101 12221 1
Q ss_pred ---------chHHHHHHHHHcCCeEEEecCC-CCchhhhhhh
Q 046085 155 ---------DFVEVLQEATLRCLKTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 155 ---------DF~~lLr~ARer~l~TVVVGd~-~~~aL~r~AD 186 (230)
....+++......-.++.|||+ +|-...+.||
T Consensus 139 ~~~~~~~~~~K~~~l~~~~~~~~~~i~iGDs~~Di~aa~~Ag 180 (219)
T PRK09552 139 EHCQNHCGCCKPSLIRKLSDTNDFHIVIGDSITDLEAAKQAD 180 (219)
T ss_pred ccccccCCCchHHHHHHhccCCCCEEEEeCCHHHHHHHHHCC
Confidence 1356666655555689999999 6666777888
No 121
>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=82.93 E-value=3.2 Score=35.42 Aligned_cols=67 Identities=13% Similarity=-0.029 Sum_probs=47.1
Q ss_pred hhhhhhhcEEEEEcc-ccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 107 VVKLKRVWFWVRTMS-DKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 107 a~eLrRAGv~VrtV~-dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
...|++.|+.|-... -.|.+.|+. ..+..+. +.+.+.|++.+...++..+++.|++.|+...++|..
T Consensus 156 ~~~~~~~g~~v~~~~~~~~~~~d~~--~~l~~i~-~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (334)
T cd06342 156 KKALKAAGGKVVAREGTTDGATDFS--AILTKIK-AANPDAVFFGGYYPEAGPLVRQMRQLGLKAPFMGGD 223 (334)
T ss_pred HHHHHHcCCEEEEEecCCCCCccHH--HHHHHHH-hcCCCEEEEcCcchhHHHHHHHHHHcCCCCcEEecC
Confidence 355666787665332 223455542 2233333 578999999999999999999999999998888764
No 122
>PRK13936 phosphoheptose isomerase; Provisional
Probab=82.74 E-value=8.4 Score=32.71 Aligned_cols=44 Identities=16% Similarity=0.222 Sum_probs=37.2
Q ss_pred CcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhh---hh
Q 046085 143 RFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRI---AD 186 (230)
Q Consensus 143 ~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~---AD 186 (230)
.=|+++++|-. .+-..+++.|+++|+++|.|.+.....|.+. ||
T Consensus 111 ~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~~iI~IT~~~~s~l~~l~~~ad 160 (197)
T PRK13936 111 PGDVLLAISTSGNSANVIQAIQAAHEREMHVVALTGRDGGKMASLLLPED 160 (197)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhhhhhccCC
Confidence 44999999954 6678899999999999999998766788885 88
No 123
>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=82.54 E-value=11 Score=29.36 Aligned_cols=71 Identities=7% Similarity=-0.003 Sum_probs=47.8
Q ss_pred Cchhhhhhh--hcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 104 YSLVVKLKR--VWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 104 ygLa~eLrR--AGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.|+...+.. .|+.+.++.......+ ....+..++ ..+++.+++.+.+..-..++..+.+.|+.+|.++...
T Consensus 20 ~~~~~~~~~~g~~~~~~~~~~~~~~~~--~~~~~~~~~-~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~ 92 (269)
T cd01391 20 AGIELAAEEIGRGLEVILADSQSDPER--ALEALRDLI-QQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATA 92 (269)
T ss_pred HHHHHHHHHhCCceEEEEecCCCCHHH--HHHHHHHHH-HcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCC
Confidence 345555666 6777776655443322 222222334 4689999999888776668999999999999998763
No 124
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=82.38 E-value=6.3 Score=33.74 Aligned_cols=69 Identities=6% Similarity=-0.022 Sum_probs=42.2
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd 175 (230)
.|+..++.+.|+.+.......+. .-..++.+.|...++|.|++.+.+.+....--..+..++.+|+||.
T Consensus 76 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~l~~~~vdGiI~~~~~~~~~~~~~l~~~~~iPvV~i~~ 144 (327)
T PRK10423 76 RGVERSCFERGYSLVLCNTEGDE---QRMNRNLETLMQKRVDGLLLLCTETHQPSREIMQRYPSVPTVMMDW 144 (327)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCH---HHHHHHHHHHHHcCCCEEEEeCCCcchhhHHHHHhcCCCCEEEECC
Confidence 47788899999887754332222 2222344445568999999998665443221111235889999975
No 125
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=81.95 E-value=7.1 Score=33.81 Aligned_cols=69 Identities=9% Similarity=0.024 Sum_probs=48.2
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHH-cCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATL-RCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARe-r~l~TVVVGd~ 176 (230)
.|+..++...|+.+......- |..-...+.+.+-+.++|.|++++.+. ....++.+.+ .|+.+|+|+..
T Consensus 79 ~gi~~~~~~~g~~~~~~~~~~---~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~l~~~~~iPvV~~d~~ 148 (341)
T PRK10703 79 EAVEKNCYQKGYTLILCNAWN---NLEKQRAYLSMLAQKRVDGLLVMCSEY-PEPLLAMLEEYRHIPMVVMDWG 148 (341)
T ss_pred HHHHHHHHHCCCEEEEEeCCC---CHHHHHHHHHHHHHcCCCEEEEecCCC-CHHHHHHHHhcCCCCEEEEecc
Confidence 578888999999887664332 222333444555578999999887543 3467788888 89999999754
No 126
>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=81.57 E-value=6.7 Score=32.20 Aligned_cols=65 Identities=8% Similarity=0.024 Sum_probs=44.7
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++.+.|+.+.......+. ...+.|...++|++++++.+.+ ...++.+++.|..+|++|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~-------~~~~~l~~~~vdgii~~~~~~~-~~~~~~~~~~~ipvV~~~~~ 83 (261)
T cd06272 19 TGINQAISKNGYNMNVSITPSLA-------EAEDLFKENRFDGVIIFGESAS-DVEYLYKIKLAIPVVSYGVD 83 (261)
T ss_pred HHHHHHHHHcCCEEEEEecccHH-------HHHHHHHHcCcCEEEEeCCCCC-hHHHHHHHHcCCCEEEEccc
Confidence 47778888899887754322111 1223344679999999976543 33568888999999999875
No 127
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=81.34 E-value=1 Score=32.32 Aligned_cols=25 Identities=12% Similarity=0.218 Sum_probs=21.7
Q ss_pred CcccccccCCCcccCchHHHHHHHHHh
Q 046085 31 PYVLVIVEGDLRLYNNDKLVNHFKQIH 57 (230)
Q Consensus 31 py~~C~VCGdrkf~t~~kL~kHFkqlH 57 (230)
++ .|.+|| ..|.+...|..|++.-|
T Consensus 50 ~~-~C~~C~-~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 50 SF-RCPYCN-KTFRSREALQEHMRSKH 74 (100)
T ss_dssp SE-EBSSSS--EESSHHHHHHHHHHTT
T ss_pred CC-CCCccC-CCCcCHHHHHHHHcCcc
Confidence 67 999999 99999999999998753
No 128
>cd01464 vWA_subfamily VWA subfamily: 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=80.69 E-value=4.1 Score=32.93 Aligned_cols=42 Identities=21% Similarity=0.232 Sum_probs=26.4
Q ss_pred ceEEEEcCCc---chHH---HHHHHHHcCC--eEEEecCC-CCchhhhhhh
Q 046085 145 GCLVFVSDDS---DFVE---VLQEATLRCL--KTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVSDDS---DF~~---lLr~ARer~l--~TVVVGd~-~~~aL~r~AD 186 (230)
..++|+||=. +... .++.+++.++ .++.||.. +...|+..|+
T Consensus 109 ~~iillTDG~~~~~~~~~~~~~~~~~~~~~~i~~igiG~~~~~~~L~~ia~ 159 (176)
T cd01464 109 PWVFLLTDGEPTDDLTAAIERIKEARDSKGRIVACAVGPKADLDTLKQITE 159 (176)
T ss_pred cEEEEEcCCCCCchHHHHHHHHHhhcccCCcEEEEEeccccCHHHHHHHHC
Confidence 4799999833 3443 3455554434 45666643 6667889888
No 129
>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=80.50 E-value=9 Score=32.76 Aligned_cols=74 Identities=22% Similarity=0.173 Sum_probs=46.4
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcc-eEE--EEcCC------------cchHHHHHHHHHcCCe
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFG-CLV--FVSDD------------SDFVEVLQEATLRCLK 169 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vd-clv--LVSDD------------SDF~~lLr~ARer~l~ 169 (230)
.+-..|++.| .+-.||.+++. +...+ +...|++ .++ |..++ .+=..+++...+.|..
T Consensus 75 ell~~lk~~~-~~~IVS~~~~~----~~~~i---l~~lgi~~~~an~l~~~~~g~~tG~~~~~~~~K~~~l~~l~~~~~~ 146 (203)
T TIGR02137 75 EFVDWLRERF-QVVILSDTFYE----FSQPL---MRQLGFPTLLCHKLEIDDSDRVVGYQLRQKDPKRQSVIAFKSLYYR 146 (203)
T ss_pred HHHHHHHhCC-eEEEEeCChHH----HHHHH---HHHcCCchhhceeeEEecCCeeECeeecCcchHHHHHHHHHhhCCC
Confidence 4666777776 77789999884 11222 2222443 121 33333 2233457777788889
Q ss_pred EEEecCC-CCchhhhhhh
Q 046085 170 TGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 170 TVVVGd~-~~~aL~r~AD 186 (230)
++.|||+ ||-.+-+.||
T Consensus 147 ~v~vGDs~nDl~ml~~Ag 164 (203)
T TIGR02137 147 VIAAGDSYNDTTMLSEAH 164 (203)
T ss_pred EEEEeCCHHHHHHHHhCC
Confidence 9999999 8777777777
No 130
>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=80.27 E-value=9 Score=32.04 Aligned_cols=68 Identities=10% Similarity=-0.094 Sum_probs=43.2
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHc-CCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLR-CLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer-~l~TVVVGd~ 176 (230)
.|+..+++..|+.+...... .. .-..++.+.|..+++|.|++++.+.+ ..++..+.+. +...|+++..
T Consensus 21 ~gi~~~~~~~gy~~~~~~~~-~~---~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~~ipvv~~~~~ 89 (260)
T cd06304 21 EGLEKAEKELGVEVKYVESV-ED---ADYEPNLRQLAAQGYDLIFGVGFGFM-DAVEKVAKEYPDVKFAIIDGV 89 (260)
T ss_pred HHHHHHHHhcCceEEEEecC-CH---HHHHHHHHHHHHcCCCEEEECCcchh-HHHHHHHHHCCCCEEEEecCc
Confidence 36777888899998854322 22 22335555565789999999875533 2233444443 7888998865
No 131
>PHA00733 hypothetical protein
Probab=80.08 E-value=1.3 Score=36.05 Aligned_cols=24 Identities=17% Similarity=0.321 Sum_probs=13.6
Q ss_pred CCCcccccccCCCcccCchHHHHHHH
Q 046085 29 AEPYVLVIVEGDLRLYNNDKLVNHFK 54 (230)
Q Consensus 29 ~epy~~C~VCGdrkf~t~~kL~kHFk 54 (230)
..|| .|..|| ..|.+...|..|-.
T Consensus 71 ~kPy-~C~~Cg-k~Fss~s~L~~H~r 94 (128)
T PHA00733 71 VSPY-VCPLCL-MPFSSSVSLKQHIR 94 (128)
T ss_pred CCCc-cCCCCC-CcCCCHHHHHHHHh
Confidence 4455 566666 55555555555544
No 132
>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=79.96 E-value=3 Score=36.16 Aligned_cols=67 Identities=24% Similarity=0.232 Sum_probs=43.4
Q ss_pred chhhhhhhhcEEEEEccc---cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEec
Q 046085 105 SLVVKLKRVWFWVRTMSD---KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAG 174 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~d---KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVG 174 (230)
++...|+++|+-++.|.. .+...| ....+.+++ ..+.+.|++++...+++.+++.|++.|+ ...++|
T Consensus 157 ~~~~~~~~~g~~~~~v~~~~~~~~~~d--~~~~v~~i~-~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 228 (346)
T cd06330 157 DFKAALKRLRPDVEVVSEQWPKLGAPD--YGSEITALL-AAKPDAIFSSLWGGDLVTFVRQANARGLFDGTTVVL 228 (346)
T ss_pred HHHHHHHHhCCCCeecccccCCCCCcc--cHHHHHHHH-hcCCCEEEEecccccHHHHHHHHHhcCcccCceEEe
Confidence 355566777544343332 223333 333444456 5789999999889999999999999999 434443
No 133
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=79.67 E-value=17 Score=31.22 Aligned_cols=101 Identities=13% Similarity=0.057 Sum_probs=56.9
Q ss_pred hHHHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcC----cceEEEEcCC-----cch
Q 046085 87 METYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRR----FGCLVFVSDD-----SDF 156 (230)
Q Consensus 87 ~~KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~----vdclvLVSDD-----SDF 156 (230)
...|+......+.|--| ..+-..|+..|+.+=.+|.++.. .+ ..+ +...+ ++. ++.|+| ++=
T Consensus 96 ~~~y~~~~~~~~~l~pgv~e~L~~L~~~g~~l~I~Tn~~~~---~~-~~~---l~~~gl~~~Fd~-iv~~~~~~~~KP~p 167 (248)
T PLN02770 96 EALFRKLASEQLKPLNGLYKLKKWIEDRGLKRAAVTNAPRE---NA-ELM---ISLLGLSDFFQA-VIIGSECEHAKPHP 167 (248)
T ss_pred HHHHHHHHHhcCCcCccHHHHHHHHHHcCCeEEEEeCCCHH---HH-HHH---HHHcCChhhCcE-EEecCcCCCCCCCh
Confidence 33455544444555545 55667888999999999999875 11 112 22233 343 455554 222
Q ss_pred HHHHHHHHHcCCe---EEEecCC-CCchhhhhhh----ccccccchH
Q 046085 157 VEVLQEATLRCLK---TGVAGYM-NDGTLKRIAD----RLKWAYNSE 195 (230)
Q Consensus 157 ~~lLr~ARer~l~---TVVVGd~-~~~aL~r~AD----~leW~~~~e 195 (230)
..+++-+..-|+. +++|||. ++-.-++.|- ++.|.+.++
T Consensus 168 ~~~~~a~~~~~~~~~~~l~vgDs~~Di~aA~~aGi~~i~v~~g~~~~ 214 (248)
T PLN02770 168 DPYLKALEVLKVSKDHTFVFEDSVSGIKAGVAAGMPVVGLTTRNPES 214 (248)
T ss_pred HHHHHHHHHhCCChhHEEEEcCCHHHHHHHHHCCCEEEEEeCCCCHH
Confidence 3344444445654 8999998 3333334444 778876443
No 134
>PRK11914 diacylglycerol kinase; Reviewed
Probab=79.38 E-value=7.3 Score=34.58 Aligned_cols=73 Identities=15% Similarity=0.112 Sum_probs=33.9
Q ss_pred hhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC-cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 111 KRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD-SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 111 rRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD-SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+|..+.+++.|.+-.+. ..+.++...+...+++..++.+.. .+-..+++.|.+.+..+|||..+ ||++..+++
T Consensus 9 ~~~~iI~NP~sG~g~~~--~~~~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~GG-DGTi~evv~ 82 (306)
T PRK11914 9 GKVTVLTNPLSGHGAAP--HAAERAIARLHHRGVDVVEIVGTDAHDARHLVAAALAKGTDALVVVGG-DGVISNALQ 82 (306)
T ss_pred ceEEEEECCCCCCCcHH--HHHHHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEECC-chHHHHHhH
Confidence 34445555555443322 122333444444555544433333 33444444454555555555544 455655555
No 135
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=79.38 E-value=5.8 Score=34.38 Aligned_cols=88 Identities=20% Similarity=0.077 Sum_probs=59.5
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHH---------------HHHHHHHcCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVE---------------VLQEATLRCL 168 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~---------------lLr~ARer~l 168 (230)
--|...|+.+|..|-.||..|.= |-+.+.+-+-=..+=+..|..+|--|++ +.+.+.+.|+
T Consensus 83 ~elv~~lk~~G~~v~iiSgg~~~----lv~~ia~~lg~d~~~an~l~~~dG~ltG~v~g~~~~~~~K~~~l~~~~~~~g~ 158 (212)
T COG0560 83 EELVAALKAAGAKVVIISGGFTF----LVEPIAERLGIDYVVANELEIDDGKLTGRVVGPICDGEGKAKALRELAAELGI 158 (212)
T ss_pred HHHHHHHHHCCCEEEEEcCChHH----HHHHHHHHhCCchheeeEEEEeCCEEeceeeeeecCcchHHHHHHHHHHHcCC
Confidence 56889999999999999999982 4444444331111223344444411333 4477788899
Q ss_pred e---EEEecCC-CCchhhhhhhccccccchHH
Q 046085 169 K---TGVAGYM-NDGTLKRIADRLKWAYNSEV 196 (230)
Q Consensus 169 ~---TVVVGd~-~~~aL~r~AD~leW~~~~e~ 196 (230)
. |+-+||+ ||-.+=+.|+ +++.++|..
T Consensus 159 ~~~~~~a~gDs~nDlpml~~ag-~~ia~n~~~ 189 (212)
T COG0560 159 PLEETVAYGDSANDLPMLEAAG-LPIAVNPKP 189 (212)
T ss_pred CHHHeEEEcCchhhHHHHHhCC-CCeEeCcCH
Confidence 7 9999999 8777878887 667777643
No 136
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=79.33 E-value=5.1 Score=32.32 Aligned_cols=43 Identities=23% Similarity=0.217 Sum_probs=36.7
Q ss_pred HHHHHHhhcCcceEEEEc--CCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 134 YMVDMMDKRRFGCLVFVS--DDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 134 ~m~~~m~~r~vdclvLVS--DDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.+..+|- |++.+-+||- ||+|...++.+|.++|+...+++|.+
T Consensus 46 EaTRvLL-RRvP~~vLVr~~~~pd~~Hl~~LA~ekgVpVe~~~d~~ 90 (100)
T PF15608_consen 46 EATRVLL-RRVPWKVLVRDPDDPDLAHLLLLAEEKGVPVEVYPDLP 90 (100)
T ss_pred HHHHHHH-hcCCCEEEECCCCCccHHHHHHHHHHcCCcEEEeCCCC
Confidence 3455665 8999999996 67899999999999999999999973
No 137
>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=79.23 E-value=6.5 Score=37.05 Aligned_cols=67 Identities=9% Similarity=0.032 Sum_probs=46.4
Q ss_pred hhhhhhcEEEE---EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 108 VKLKRVWFWVR---TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 108 ~eLrRAGv~Vr---tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.++++.|+-|- .++..|...|. ...+..+....+.+.|+|.+...+...+++.|++.|+..+.||..
T Consensus 196 ~~~~~~gi~i~~~~~i~~~~~~~d~--~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~~~wigs~ 265 (458)
T cd06375 196 QEARLRNICIATSEKVGRSADRKSY--DSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNASFTWVASD 265 (458)
T ss_pred HHHHHCCeeEEEEEEecCCCCHHHH--HHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCcEEEEEec
Confidence 45677897764 34444444443 233333332358899999999999999999999999997777644
No 138
>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=78.85 E-value=4.9 Score=32.51 Aligned_cols=69 Identities=14% Similarity=0.125 Sum_probs=43.1
Q ss_pred chhhhhhhhcEEEEEcccc-chHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDK-LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dK-pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
++...++.+|+.+..+..- +...|. ...+.++. +.+.+.+++.++.++...+++.+++.|+ ...+||-.
T Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~~--~~~~~~l~-~~~~~~v~~~~~~~~~~~~~~~~~~~g~~~~~~~i~~~ 226 (299)
T cd04509 155 AFKAAFKKKGGTVVGEEYYPLGTTDF--TSLLQKLK-AAKPDVIVLCGSGEDAATILKQAAEAGLTGGYPILGIT 226 (299)
T ss_pred HHHHHHHHcCCEEEEEecCCCCCccH--HHHHHHHH-hcCCCEEEEcccchHHHHHHHHHHHcCCCCCCcEEecc
Confidence 4455666777655432221 222232 22223333 4567888888888999999999999999 66777643
No 139
>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=78.59 E-value=4.6 Score=38.44 Aligned_cols=74 Identities=19% Similarity=0.100 Sum_probs=58.4
Q ss_pred CCchhhhhhhhc--EEEEEccccch---HHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHH----cCCeEEEe
Q 046085 103 GYSLVVKLKRVW--FWVRTMSDKLQ---AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATL----RCLKTGVA 173 (230)
Q Consensus 103 gygLa~eLrRAG--v~VrtV~dKpq---AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARe----r~l~TVVV 173 (230)
|.-+.+||++-| |-|-+|+.-|. .||..+.+++-+++...+.+-.++|||-.+=..++---+. .+++-|||
T Consensus 53 avkiydeL~~~GedveVA~VsG~~~~~v~ad~~I~~qld~vl~~~~~~~~i~VsDGaeDE~vlPiIqSr~~V~sV~RVVV 132 (344)
T PF04123_consen 53 AVKIYDELKAEGEDVEVAVVSGSPDVGVEADRKIAEQLDEVLSKFDPDSAIVVSDGAEDERVLPIIQSRVPVDSVKRVVV 132 (344)
T ss_pred HHHHHHHHHhcCCCeEEEEEECCCCCchhhHHHHHHHHHHHHHhCCCCEEEEEecChhhhhhhHhhhccCceEEEEEEEE
Confidence 456789999999 55568888877 7999999999999999999999999997665554444333 57788887
Q ss_pred cCC
Q 046085 174 GYM 176 (230)
Q Consensus 174 Gd~ 176 (230)
=-.
T Consensus 133 kQs 135 (344)
T PF04123_consen 133 KQS 135 (344)
T ss_pred EcC
Confidence 544
No 140
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=78.55 E-value=7.2 Score=36.42 Aligned_cols=78 Identities=6% Similarity=0.003 Sum_probs=53.8
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..+|++-|. .|-.|.| +......+..++.+.|...++.+.++ |..++.+. ..++.+|+.+...|| ||.++.
T Consensus 22 l~~~~~~~g~~~~livt~-~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGGS~ 100 (383)
T PRK09860 22 AMNMMADYGFTRTLIVTD-NMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGGSP 100 (383)
T ss_pred HHHHHHhcCCCEEEEEcC-cchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCchH
Confidence 5567787774 4445666 34444567778999998788886555 55466666 667788899999888 999854
Q ss_pred chhhhh
Q 046085 179 GTLKRI 184 (230)
Q Consensus 179 ~aL~r~ 184 (230)
-...+.
T Consensus 101 iD~AK~ 106 (383)
T PRK09860 101 HDCAKG 106 (383)
T ss_pred HHHHHH
Confidence 444444
No 141
>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=78.43 E-value=11 Score=30.86 Aligned_cols=68 Identities=10% Similarity=0.074 Sum_probs=43.0
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
-|+..+++..|+.+......-.. .-...+.+.|-+.+++.+++.+.+.+ ...++.+++++ .+|+|+..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~i~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~-pvv~~~~~ 86 (260)
T cd06286 19 DGIEKAALKHGYKVVLLQTNYDK---EKELEYLELLKTKQVDGLILCSREND-WEVIEPYTKYG-PIVLCEEY 86 (260)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCh---HHHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHhcCC-CEEEEecc
Confidence 36777788889888654332111 11223333444689999999886544 35677777777 88888754
No 142
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=78.35 E-value=1.6 Score=30.28 Aligned_cols=22 Identities=18% Similarity=0.268 Sum_probs=11.9
Q ss_pred cccccCCCcccCc--hHHHHHHHHH
Q 046085 34 LVIVEGDLRLYNN--DKLVNHFKQI 56 (230)
Q Consensus 34 ~C~VCGdrkf~t~--~kL~kHFkql 56 (230)
.||||| |-|... ..|++++++-
T Consensus 22 ~CPlC~-r~l~~e~~~~li~~~~~~ 45 (54)
T PF04423_consen 22 CCPLCG-RPLDEEHRQELIKKYKSE 45 (54)
T ss_dssp E-TTT---EE-HHHHHHHHHHHHHH
T ss_pred cCCCCC-CCCCHHHHHHHHHHHHHH
Confidence 799999 988744 4566666543
No 143
>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=78.31 E-value=10 Score=34.97 Aligned_cols=80 Identities=10% Similarity=-0.026 Sum_probs=55.7
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCCc
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMNDG 179 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~~ 179 (230)
|..+|++.|=.|-.|.|+-......+..++.+.+...+++..++ |..++.+. .+++.+|+.+...|| ||.++..
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 45566766655666777554334577888999998778887765 55566666 566788888999888 9998655
Q ss_pred hhhhhh
Q 046085 180 TLKRIA 185 (230)
Q Consensus 180 aL~r~A 185 (230)
...+.+
T Consensus 97 D~aK~i 102 (380)
T cd08185 97 DTAKAI 102 (380)
T ss_pred HHHHHH
Confidence 555443
No 144
>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=78.13 E-value=10 Score=31.91 Aligned_cols=67 Identities=12% Similarity=0.002 Sum_probs=43.6
Q ss_pred Cchhhhhhhhc-EEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVW-FWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAG-v~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
-|+...|...| +.+-.....+ | ....+..++ ++++|.++++|...+=......+.+.+..+|++|..
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 47888999999 7776544433 2 223344455 589999999986422111334445578899999975
No 145
>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=78.12 E-value=8 Score=35.70 Aligned_cols=79 Identities=13% Similarity=0.039 Sum_probs=53.7
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..+|++.|. .|-.|.|+- ..+..+...+.+.+...|+++.++ |-.++.+. .++..+++.+...|| ||.++.
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 6677777774 555666643 444456677888887778877655 43345554 777888889998888 999865
Q ss_pred chhhhhh
Q 046085 179 GTLKRIA 185 (230)
Q Consensus 179 ~aL~r~A 185 (230)
....+.+
T Consensus 96 ~D~aK~i 102 (374)
T cd08189 96 IDCAKAI 102 (374)
T ss_pred HHHHHHH
Confidence 5555543
No 146
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=78.02 E-value=0.38 Score=50.74 Aligned_cols=38 Identities=21% Similarity=0.356 Sum_probs=30.0
Q ss_pred CCCCCcccccccCCCcccCchHHHHHHHHHhHHHHHHHhh
Q 046085 27 RPAEPYVLVIVEGDLRLYNNDKLVNHFKQIHKREQKKRLN 66 (230)
Q Consensus 27 ~p~epy~~C~VCGdrkf~t~~kL~kHFkqlHeREr~Krln 66 (230)
+-+-|| .|.||| +||.|.-+|+-||-.=||-+=-+-||
T Consensus 377 TGERPf-qCnvCG-~~FSTkGNLKvH~~rH~e~~p~~~m~ 414 (958)
T KOG1074|consen 377 TGERPF-QCNVCG-NRFSTKGNLKVHFQRHREKYPHVQMN 414 (958)
T ss_pred CCCCCe-eecccc-cccccccceeeeeeeccccCCccccC
Confidence 346799 999999 99999999999997766655444443
No 147
>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=77.79 E-value=18 Score=29.21 Aligned_cols=73 Identities=11% Similarity=0.044 Sum_probs=42.3
Q ss_pred hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEE---EEc-CCcchH--------------H-HHHHHHHcC
Q 046085 107 VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLV---FVS-DDSDFV--------------E-VLQEATLRC 167 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclv---LVS-DDSDF~--------------~-lLr~ARer~ 167 (230)
-..|++.|+.|-.+|..|+. +.+.+.+. .|++.++ ++. +|--|+ . +.+.+.+.+
T Consensus 96 l~~l~~~g~~v~ivS~s~~~----~v~~~~~~---lg~~~~~~~~l~~~~~g~~~g~~~~~~~~g~~K~~~l~~~~~~~~ 168 (202)
T TIGR01490 96 IRWHKAEGHTIVLVSASLTI----LVKPLARI---LGIDNAIGTRLEESEDGIYTGNIDGNNCKGEGKVHALAELLAEEQ 168 (202)
T ss_pred HHHHHHCCCEEEEEeCCcHH----HHHHHHHH---cCCcceEecceEEcCCCEEeCCccCCCCCChHHHHHHHHHHHHcC
Confidence 34567889999999999974 22222222 3554332 333 431222 1 334445567
Q ss_pred C---eEEEecCC-CCchhhhhhh
Q 046085 168 L---KTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 168 l---~TVVVGd~-~~~aL~r~AD 186 (230)
+ .++.|||+ +|--+.+.|+
T Consensus 169 ~~~~~~~~~gDs~~D~~~~~~a~ 191 (202)
T TIGR01490 169 IDLKDSYAYGDSISDLPLLSLVG 191 (202)
T ss_pred CCHHHcEeeeCCcccHHHHHhCC
Confidence 6 57899999 6656666665
No 148
>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=77.71 E-value=5.7 Score=32.08 Aligned_cols=68 Identities=16% Similarity=0.066 Sum_probs=43.3
Q ss_pred hhhhhhhhcEEEEEcccc-chHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 106 LVVKLKRVWFWVRTMSDK-LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dK-pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+...+++.|+.|.....- +...| ....+..++ ..+.+.+++.++..+...+++.+++.|+...++|-.
T Consensus 155 ~~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~-~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (298)
T cd06268 155 FREALKKLGGEVVAEETYPPGATD--FSPLIAKLK-AAGPDAVFLAGYGGDAALFLKQAREAGLKVPIVGGD 223 (298)
T ss_pred HHHHHHHcCCEEEEEeccCCCCcc--HHHHHHHHH-hcCCCEEEEccccchHHHHHHHHHHcCCCCcEEecC
Confidence 344556666544322111 22222 233344444 467899999999899999999999999877777654
No 149
>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=77.61 E-value=8.3 Score=35.73 Aligned_cols=89 Identities=12% Similarity=0.028 Sum_probs=56.2
Q ss_pred hhhcCCccCCc------hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchHH---HHHH
Q 046085 95 KATLTPKVGYS------LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFVE---VLQE 162 (230)
Q Consensus 95 r~vl~pkvgyg------La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~~---lLr~ 162 (230)
|....|++-|| |..+|++-|. .|-.|.| +...+..+..++.+.+...++++.++ |..++.+.. .+..
T Consensus 2 ~~~~~~~i~~G~g~l~~l~~~l~~~g~~~~livt~-~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~ 80 (377)
T cd08188 2 RKFVAPEIIFGRGALKLAGRYARRLGAKKVLLVSD-PGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAEL 80 (377)
T ss_pred CCccCCceEECcCHHHHHHHHHHHcCCCeEEEEeC-cchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHH
Confidence 45667777444 4445666553 3345666 44445456777888887778887665 445556654 4677
Q ss_pred HHHcCCeEEE-ecCCCCchhhhh
Q 046085 163 ATLRCLKTGV-AGYMNDGTLKRI 184 (230)
Q Consensus 163 ARer~l~TVV-VGd~~~~aL~r~ 184 (230)
+++.+...|| ||.++.....+.
T Consensus 81 ~~~~~~d~IIaiGGGsviD~AK~ 103 (377)
T cd08188 81 YLENGCDVIIAVGGGSPIDCAKG 103 (377)
T ss_pred HHhcCCCEEEEeCCchHHHHHHH
Confidence 8887777766 888865555544
No 150
>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=77.34 E-value=27 Score=25.88 Aligned_cols=50 Identities=8% Similarity=0.039 Sum_probs=36.0
Q ss_pred HHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCCCchhhh
Q 046085 133 NYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMNDGTLKR 183 (230)
Q Consensus 133 ~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~~~aL~r 183 (230)
+.+.+.....++++.++.+ .+-...++..+.+.++..+|+|-...+.+++
T Consensus 52 ~~~~~~~~~~~~~~~~~~~-~~~~~~I~~~~~~~~~dllviG~~~~~~~~~ 101 (124)
T cd01987 52 AEALRLAEELGAEVVTLPG-DDVAEAIVEFAREHNVTQIVVGKSRRSRWRE 101 (124)
T ss_pred HHHHHHHHHcCCEEEEEeC-CcHHHHHHHHHHHcCCCEEEeCCCCCchHHH
Confidence 4444555556777665544 4457889999999999999999986666654
No 151
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=77.13 E-value=1.3 Score=36.65 Aligned_cols=77 Identities=18% Similarity=0.133 Sum_probs=50.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHH-----HcCCeEEEecCCCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEAT-----LRCLKTGVAGYMND 178 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~AR-----er~l~TVVVGd~~~ 178 (230)
-.|...|+.+|+.|..+.-=-. .......++.+.+....++++++-|. +-+..+++... -.++..++||..+-
T Consensus 130 ~~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~~v~ftS~-~~~~~~~~~~~~~~~~~~~~~~~~ig~~ta 207 (231)
T PF02602_consen 130 PDLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEIDAVVFTSP-SAVRAFLELLKKNGALLKRVPIVAIGPRTA 207 (231)
T ss_dssp HHHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTSEEEESSH-HHHHHHHHHSSGHHHHHTTSEEEESSHHHH
T ss_pred HHHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCCEEEECCH-HHHHHHHHHhHhhhhhhhCCEEEEECHHHH
Confidence 4588999999999885443333 23346677777776667777666555 44445555544 57899999998754
Q ss_pred chhh
Q 046085 179 GTLK 182 (230)
Q Consensus 179 ~aL~ 182 (230)
.++.
T Consensus 208 ~~l~ 211 (231)
T PF02602_consen 208 KALR 211 (231)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 4443
No 152
>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=77.09 E-value=8.4 Score=37.46 Aligned_cols=87 Identities=15% Similarity=0.070 Sum_probs=55.8
Q ss_pred hhhhhhhhc-EEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC-CCchhhh
Q 046085 106 LVVKLKRVW-FWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKR 183 (230)
Q Consensus 106 La~eLrRAG-v~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r 183 (230)
+-..|+..| +.+-.+|.+++..=.++ +.+.|++.+.--....|=..+++.+...+-.++.|||+ +|-.-.+
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 AIAALKRAGGIKLVMLTGDNRSAAEAV-------AAELGIDEVHAELLPEDKLAIVKELQEEGGVVAMVGDGINDAPALA 464 (556)
T ss_pred HHHHHHHcCCCeEEEEeCCCHHHHHHH-------HHHhCCCeeeccCCHHHHHHHHHHHHHcCCEEEEEECChhHHHHHh
Confidence 345788889 99999998888532222 22335543322212223345777777788899999999 7666678
Q ss_pred hhh-ccccccchHHHHh
Q 046085 184 IAD-RLKWAYNSEVEKK 199 (230)
Q Consensus 184 ~AD-~leW~~~~e~e~~ 199 (230)
.|| .+.|...++..+.
T Consensus 465 ~A~vgia~g~~~~~~~~ 481 (556)
T TIGR01525 465 AADVGIAMGAGSDVAIE 481 (556)
T ss_pred hCCEeEEeCCCCHHHHH
Confidence 888 6677644454444
No 153
>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=76.90 E-value=13 Score=30.38 Aligned_cols=67 Identities=9% Similarity=0.032 Sum_probs=44.1
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
|+...++..|+.+.+.....++. ....+.+.+...++|.|++++.+++-. ...+.++++..|+++..
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 56677888898888766555442 233344445568999999988654322 22345689999999754
No 154
>PRK06921 hypothetical protein; Provisional
Probab=76.88 E-value=46 Score=29.78 Aligned_cols=78 Identities=14% Similarity=0.037 Sum_probs=40.9
Q ss_pred Cchhhhhhhh-cEEEEEccccchHHHHHH-HHHHHHHHhh-cCcceEEEEcCCc----------------chHHHHHHHH
Q 046085 104 YSLVVKLKRV-WFWVRTMSDKLQAADVLL-RNYMVDMMDK-RRFGCLVFVSDDS----------------DFVEVLQEAT 164 (230)
Q Consensus 104 ygLa~eLrRA-Gv~VrtV~dKpqAAD~AL-~~~m~~~m~~-r~vdclvLVSDDS----------------DF~~lLr~AR 164 (230)
..+|.+|.+. |+.|.-++..-...++.- .....+.+.. ..+| +||=||- .|-.++..--
T Consensus 135 ~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~~~~~d--lLiIDDl~~~~~g~e~~t~~~~~~lf~iin~R~ 212 (266)
T PRK06921 135 TAAANELMRKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNRMKKVE--VLFIDDLFKPVNGKPRATEWQIEQMYSVLNYRY 212 (266)
T ss_pred HHHHHHHhhhcCceEEEEEHHHHHHHHHHHHHHHHHHHHHhcCCC--EEEEeccccccCCCccCCHHHHHHHHHHHHHHH
Confidence 3467778777 887776653211111100 0111111210 2344 4454664 2445555555
Q ss_pred HcCCeEEEecCCCCchhhh
Q 046085 165 LRCLKTGVAGYMNDGTLKR 183 (230)
Q Consensus 165 er~l~TVVVGd~~~~aL~r 183 (230)
+++..||+.|+.++..|..
T Consensus 213 ~~~k~tIitsn~~~~el~~ 231 (266)
T PRK06921 213 LNHKPILISSELTIDELLD 231 (266)
T ss_pred HCCCCEEEECCCCHHHHhh
Confidence 5688899999987666653
No 155
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=76.51 E-value=6.2 Score=34.37 Aligned_cols=69 Identities=7% Similarity=0.038 Sum_probs=49.6
Q ss_pred CchhhhhhhhcE--EEEEccccchHHHHHHH-HHHHHHHhhcCcceEEEEcCCc-chHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWF--WVRTMSDKLQAADVLLR-NYMVDMMDKRRFGCLVFVSDDS-DFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv--~VrtV~dKpqAAD~AL~-~~m~~~m~~r~vdclvLVSDDS-DF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+-.+-+..|+ .+.+....++. +-+ .++.+++ .++++.|++..-|+ -+.+.+++|.++|+.+|.+-..
T Consensus 53 ~g~~~~a~~~g~~~~~~~~~~~~d~---~~Q~~~i~~~i-a~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~ 125 (322)
T COG1879 53 KGAEAAAKKLGVVVAVVIADAQNDV---AKQIAQIEDLI-AQGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSD 125 (322)
T ss_pred HHHHHHHHHcCCcEEEEecccccCh---HHHHHHHHHHH-HcCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecC
Confidence 567788888894 55544434433 322 3344445 69999999987555 6999999999999999998776
No 156
>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=76.09 E-value=15 Score=29.75 Aligned_cols=68 Identities=13% Similarity=0.121 Sum_probs=44.8
Q ss_pred hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC---eEEEecCC
Q 046085 107 VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL---KTGVAGYM 176 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l---~TVVVGd~ 176 (230)
...++..|+-|..+..-|... ......+.++. ..+.+.|++.+...+...+++.|++.|+ ..+++.+.
T Consensus 161 ~~~~~~~~~~v~~~~~~~~~~-~~~~~~l~~l~-~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~i~~~~ 231 (298)
T cd06269 161 EEELEKNGICVAFVESIPDGS-EDIRRLLKELK-SSTARVIVVFSSEEDALRLLEEAVELGMMTGYHWIITDL 231 (298)
T ss_pred HHHHHHCCeeEEEEEEcCCCH-HHHHHHHHHHH-hcCCcEEEEEechHHHHHHHHHHHHcCCCCCeEEEEECh
Confidence 344555788887665555432 22333333333 4566888888888999999999999998 55566554
No 157
>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=76.08 E-value=5.9 Score=30.50 Aligned_cols=42 Identities=21% Similarity=0.154 Sum_probs=32.5
Q ss_pred CcceEEEEcC---CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.-|+++.+|- ..+-..+++.|+++|+++|+|-+. +.|...||
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 4477888884 457778889999999999998754 35888887
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=75.44 E-value=5.9 Score=34.90 Aligned_cols=66 Identities=8% Similarity=0.029 Sum_probs=48.4
Q ss_pred hhhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEec
Q 046085 106 LVVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAG 174 (230)
Q Consensus 106 La~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVG 174 (230)
+...|+++|+-|-.... .|.+.|. ...+.+++ +.+.+.|++.+...+++.+++.+++.|++.-++|
T Consensus 158 ~~~~~~~~G~~v~~~~~~~~~~~d~--s~~i~~i~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~ 224 (347)
T cd06335 158 LTAALAARGLKPVAVEWFNWGDKDM--TAQLLRAK-AAGADAIIIVGNGPEGAQIANGMAKLGWKVPIIS 224 (347)
T ss_pred HHHHHHHcCCeeEEEeeecCCCccH--HHHHHHHH-hCCCCEEEEEecChHHHHHHHHHHHcCCCCcEec
Confidence 44677888887653222 2344554 34555556 4789999999999999999999999999876676
No 159
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=75.31 E-value=5.4 Score=35.30 Aligned_cols=73 Identities=10% Similarity=0.003 Sum_probs=50.5
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhh
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLK 182 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~ 182 (230)
++..|-+.|..+..+.+- + .+..++ ... ..=|+++.+|-. .+-..+++.|+++|.+++.|-+.....|.
T Consensus 60 ~~~~l~~~g~~~~~~~~~----~-~~~~~~--~~~-~~~d~~i~iS~sG~t~~~~~~~~~ak~~g~~vI~iT~~~~s~la 131 (321)
T PRK11543 60 IAATLASTGTPAFFVHPA----E-ALHGDL--GMI-ESRDVMLFISYSGGAKELDLIIPRLEDKSIALLAMTGKPTSPLG 131 (321)
T ss_pred HHHHHHcCCCceeecChH----H-HhhCCc--Ccc-CCCCEEEEEeCCCCcHHHHHHHHHHHHcCCeEEEEECCCCChhH
Confidence 455567889888876531 0 111111 111 234788888865 56677889999999999999998667999
Q ss_pred hhhh
Q 046085 183 RIAD 186 (230)
Q Consensus 183 r~AD 186 (230)
+.||
T Consensus 132 ~~ad 135 (321)
T PRK11543 132 LAAK 135 (321)
T ss_pred HhCC
Confidence 9999
No 160
>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=75.16 E-value=10 Score=34.58 Aligned_cols=68 Identities=3% Similarity=-0.050 Sum_probs=45.8
Q ss_pred hhhhhhhcEEEEEccccch--HHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC-eEEEecC
Q 046085 107 VVKLKRVWFWVRTMSDKLQ--AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL-KTGVAGY 175 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpq--AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l-~TVVVGd 175 (230)
...|++.|+-|-...--|. ..+..+...+.++. ..+.+.|++.+..++...+++.|++.|+ ..+.||.
T Consensus 197 ~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~-~~~~dvIil~~~~~~~~~il~qa~~~g~~~~~~i~~ 267 (410)
T cd06363 197 SELIANTGICIAYQGLIPLDTDPETDYQQILKQIN-QTKVNVIVVFASRQPAEAFFNSVIQQNLTGKVWIAS 267 (410)
T ss_pred HHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHh-cCCCeEEEEEcChHHHHHHHHHHHhcCCCCCEEEEe
Confidence 3578888977642221111 12233445555555 5789999999999999999999999999 4444554
No 161
>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=75.11 E-value=4.6 Score=34.45 Aligned_cols=75 Identities=12% Similarity=0.029 Sum_probs=47.1
Q ss_pred ccCCchhhhhhhhcEEEEEccccchH----------HHHHHHHHHHHHHhh----cC-cceEEEEcCCc-c----hHHHH
Q 046085 101 KVGYSLVVKLKRVWFWVRTMSDKLQA----------ADVLLRNYMVDMMDK----RR-FGCLVFVSDDS-D----FVEVL 160 (230)
Q Consensus 101 kvgygLa~eLrRAGv~VrtV~dKpqA----------AD~AL~~~m~~~m~~----r~-vdclvLVSDDS-D----F~~lL 160 (230)
.+|.-++..|...|+.|+.++..|+. .|+.=...+..++.. .| ++.+++++... + ...++
T Consensus 10 ~iG~~vv~~L~~~g~~V~~~~R~~~~~~~~~~~~~~~d~~d~~~l~~a~~~~~~~~g~~d~v~~~~~~~~~~~~~~~~~i 89 (285)
T TIGR03649 10 KTASRIARLLQAASVPFLVASRSSSSSAGPNEKHVKFDWLDEDTWDNPFSSDDGMEPEISAVYLVAPPIPDLAPPMIKFI 89 (285)
T ss_pred hHHHHHHHHHHhCCCcEEEEeCCCccccCCCCccccccCCCHHHHHHHHhcccCcCCceeEEEEeCCCCCChhHHHHHHH
Confidence 35677888888889988877766642 122111222222310 46 89999887642 1 34677
Q ss_pred HHHHHcCCeEEEecC
Q 046085 161 QEATLRCLKTGVAGY 175 (230)
Q Consensus 161 r~ARer~l~TVVVGd 175 (230)
..|++.|++.+|.-.
T Consensus 90 ~aa~~~gv~~~V~~S 104 (285)
T TIGR03649 90 DFARSKGVRRFVLLS 104 (285)
T ss_pred HHHHHcCCCEEEEee
Confidence 889999998777643
No 162
>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=75.08 E-value=8.8 Score=32.62 Aligned_cols=60 Identities=12% Similarity=-0.004 Sum_probs=41.6
Q ss_pred cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 114 WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 114 Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
|..|......+.+.|.+ ..+..+. ..+.|.|++.++..+...+++.+++.|+ +.-++|-.
T Consensus 160 ~~~~~~~~~~~~~~d~~--~~i~~l~-~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 221 (333)
T cd06332 160 GEVVEEVYTPLGQLDFS--AELAQIR-AAKPDAVFVFLPGGMAVNFVKQYDQAGLKKKIPLYGPG 221 (333)
T ss_pred EEEeeEEecCCCCcchH--HHHHHHH-hcCCCEEEEecccchHHHHHHHHHHcCcccCCceeccC
Confidence 44444444445555654 2333433 5789999999888999999999999999 76666643
No 163
>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=74.86 E-value=12 Score=31.71 Aligned_cols=68 Identities=13% Similarity=-0.012 Sum_probs=44.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHc-CCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLR-CLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer-~l~TVVVGd~ 176 (230)
.|+..++++.|+.+..++.. ...+ ..+..+.|.+.++|.|++.+-..+ ..+...+++. +...|++|..
T Consensus 22 ~gi~~~~~~~gy~~~i~~~~-~~~~---~~~~i~~l~~~~vdgiI~~~~~~~-~~~~~~~~~~~~~PiV~i~~~ 90 (265)
T cd06354 22 EGLERAAKELGIEYKYVESK-SDAD---YEPNLEQLADAGYDLIVGVGFLLA-DALKEVAKQYPDQKFAIIDAV 90 (265)
T ss_pred HHHHHHHHHcCCeEEEEecC-CHHH---HHHHHHHHHhCCCCEEEEcCcchH-HHHHHHHHHCCCCEEEEEecc
Confidence 47788999999998866433 2222 234455555789999999863311 1344444543 8899999874
No 164
>PRK13938 phosphoheptose isomerase; Provisional
Probab=74.80 E-value=5.8 Score=34.32 Aligned_cols=44 Identities=16% Similarity=0.068 Sum_probs=36.2
Q ss_pred CcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.=|.++.+|-. .+-..+++.|+++|++||.|....+..|.+.||
T Consensus 113 ~~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~s~La~~aD 159 (196)
T PRK13938 113 PGDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESGGQLAEFAD 159 (196)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCChhhhhCC
Confidence 34788888765 344578889999999999999887789999999
No 165
>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=74.77 E-value=6.3 Score=33.69 Aligned_cols=67 Identities=7% Similarity=-0.050 Sum_probs=44.6
Q ss_pred hhhhhhhhcEEEEEcccc-chHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC
Q 046085 106 LVVKLKRVWFWVRTMSDK-LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dK-pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd 175 (230)
+...+++.|+.|-....- +.+.| ....+.+++ ..+.+.|++.+++.+-..+++.+++.|++.=++|.
T Consensus 153 ~~~~~~~~G~~v~~~~~~~~~~~d--~~~~~~~l~-~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p~~~~ 220 (312)
T cd06333 153 LKALAPKYGIEVVADERYGRTDTS--VTAQLLKIR-AARPDAVLIWGSGTPAALPAKNLRERGYKGPIYQT 220 (312)
T ss_pred HHHHHHHcCCEEEEEEeeCCCCcC--HHHHHHHHH-hCCCCEEEEecCCcHHHHHHHHHHHcCCCCCEEee
Confidence 345566667655322222 23333 244555666 35789999999988888899999999998766644
No 166
>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=74.68 E-value=27 Score=24.71 Aligned_cols=84 Identities=21% Similarity=0.164 Sum_probs=54.0
Q ss_pred CchhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEEE--cCCcchHHHHHHHHHcC--CeEEEecCCCC
Q 046085 104 YSLVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFV--SDDSDFVEVLQEATLRC--LKTGVAGYMND 178 (230)
Q Consensus 104 ygLa~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLV--SDDSDF~~lLr~ARer~--l~TVVVGd~~~ 178 (230)
.++...|++.|+ -|.++++..+| .+.+.+...+.+++= ..+-+-.++++..|..+ ..++++++.++
T Consensus 12 ~~l~~~l~~~~~~~v~~~~~~~~~---------~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~~~~ 82 (112)
T PF00072_consen 12 ELLEKLLERAGYEEVTTASSGEEA---------LELLKKHPPDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVTDEDD 82 (112)
T ss_dssp HHHHHHHHHTTEEEEEEESSHHHH---------HHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEESSTS
T ss_pred HHHHHHHHhCCCCEEEEECCHHHH---------HHHhcccCceEEEEEeeeccccccccccccccccccccEEEecCCCC
Confidence 356677889999 88888876665 333445556666643 35667778888888855 88999997743
Q ss_pred chhhhhh------hccccccchHH
Q 046085 179 GTLKRIA------DRLKWAYNSEV 196 (230)
Q Consensus 179 ~aL~r~A------D~leW~~~~e~ 196 (230)
......+ ++|....++++
T Consensus 83 ~~~~~~~~~~g~~~~l~kp~~~~~ 106 (112)
T PF00072_consen 83 SDEVQEALRAGADDYLSKPFSPEE 106 (112)
T ss_dssp HHHHHHHHHTTESEEEESSSSHHH
T ss_pred HHHHHHHHHCCCCEEEECCCCHHH
Confidence 2222111 16666665554
No 167
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=74.64 E-value=7.3 Score=37.85 Aligned_cols=87 Identities=16% Similarity=0.098 Sum_probs=55.1
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC-CCchhhh
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKR 183 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r 183 (230)
+-..|+++|+ .+-.++.+++..=.++ +...|++-+.-.....+=..+++.....+-.++.|||+ +|-..-+
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 AIAELKALGIEKVVMLTGDRRAVAERV-------ARELGIDEVHAELLPEDKLEIVKELREKYGPVAMVGDGINDAPALA 442 (536)
T ss_pred HHHHHHHcCCCcEEEEcCCCHHHHHHH-------HHHcCChhhhhccCcHHHHHHHHHHHhcCCEEEEEeCCHHHHHHHH
Confidence 3457888888 8888888877421122 22224432211111224466888888888899999999 7777778
Q ss_pred hhh-ccccccc-hHHHHh
Q 046085 184 IAD-RLKWAYN-SEVEKK 199 (230)
Q Consensus 184 ~AD-~leW~~~-~e~e~~ 199 (230)
.|| .+.|.++ .+..+.
T Consensus 443 ~A~vgia~g~~~~~~~~~ 460 (536)
T TIGR01512 443 AADVGIAMGASGSDVAIE 460 (536)
T ss_pred hCCEEEEeCCCccHHHHH
Confidence 899 7788754 333333
No 168
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=74.55 E-value=2.4 Score=24.53 Aligned_cols=23 Identities=17% Similarity=0.109 Sum_probs=16.6
Q ss_pred ccccccCCCcccCchHHHHHHHHHh
Q 046085 33 VLVIVEGDLRLYNNDKLVNHFKQIH 57 (230)
Q Consensus 33 ~~C~VCGdrkf~t~~kL~kHFkqlH 57 (230)
-.|+.|. =... ...|.+|.+.-|
T Consensus 1 y~C~~C~-y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCS-YSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS--EES-HHHHHHHHHHHH
T ss_pred CCCCCCC-CcCC-HHHHHHHHHhhC
Confidence 0799999 5555 778999998877
No 169
>PF14336 DUF4392: Domain of unknown function (DUF4392)
Probab=74.37 E-value=12 Score=34.24 Aligned_cols=79 Identities=16% Similarity=0.053 Sum_probs=55.7
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHH-----------------------------hhcCcceEEEE-----
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMM-----------------------------DKRRFGCLVFV----- 150 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m-----------------------------~~r~vdclvLV----- 150 (230)
-||..|..-|..|..|.|.+.+ .+.+.+.+.+ ...+++.||-+
T Consensus 67 aLa~aL~~lG~~~~ivtd~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~lIaIERpGr 143 (291)
T PF14336_consen 67 ALARALQALGKEVVIVTDERCA---PVVKAAVRAAGLQGVDKVEIPPFFPDDFAQAFLEADGLLKEPRPDLLIAIERPGR 143 (291)
T ss_pred HHHHHHHHcCCeEEEEECHHHH---HHHHHHHHHHhhCcccccccccccccchhhhHHHHhhccccCCCCEEEEeCCccc
Confidence 4788999999999999999984 2222222222 22334444433
Q ss_pred --------------c-CCcchHHHHHHHHHcCCeEEEecCC-CCchhhhhhh
Q 046085 151 --------------S-DDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 151 --------------S-DDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r~AD 186 (230)
| --..|-.+...|++.|+.|+.|||+ |.-+.+++.|
T Consensus 144 a~dG~Y~nmrG~~I~~~~a~~D~lf~~a~~~gi~tigIGDGGNEiGMG~v~~ 195 (291)
T PF14336_consen 144 AADGNYYNMRGEDISHLVAPLDDLFLAAKEPGIPTIGIGDGGNEIGMGNVKE 195 (291)
T ss_pred CCCCCEecCcCCcCccccccHHHHHHHhhcCCCCEEEECCCchhcccChHHH
Confidence 1 1457889999999999999999999 7766666643
No 170
>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=74.28 E-value=5 Score=34.29 Aligned_cols=78 Identities=12% Similarity=0.020 Sum_probs=52.8
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhh
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLK 182 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~ 182 (230)
++.-|-+.|..+..+++ . .....+...+ ..=|+++.+|-. .+-..+++.|+++|++++.|-+.....|.
T Consensus 18 ~~~~l~~~g~~~~~~~~----~--~~~~~~~~~~--~~~d~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s~l~ 89 (268)
T TIGR00393 18 IVATFASTGTPSFFLHP----T--EAMHGDLGMV--EPNDVVLMISYSGESLELLNLIPHLKRLSHKIIAFTGSPNSSLA 89 (268)
T ss_pred HHHHHHhcCCceEEeCH----h--HHhhcccCCC--CCCCEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCCccc
Confidence 45566778888876643 1 1111000012 233888888855 66778899999999999999998777899
Q ss_pred hhhh-ccccc
Q 046085 183 RIAD-RLKWA 191 (230)
Q Consensus 183 r~AD-~leW~ 191 (230)
..|| .|...
T Consensus 90 ~~~d~~l~~~ 99 (268)
T TIGR00393 90 RAADYVLDIK 99 (268)
T ss_pred ccCCEEEEcC
Confidence 9999 44443
No 171
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=74.08 E-value=15 Score=33.45 Aligned_cols=73 Identities=23% Similarity=0.295 Sum_probs=58.2
Q ss_pred hhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCc-chHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 111 KRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS-DFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 111 rRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS-DF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+++-+...+.+.+-.+ ...++.+.+.+...|.+-.+.++... |=..+++.|...++.+||++.+ ||++.++++
T Consensus 3 ~~~~~i~Np~sG~~~~--~~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GG-DGTv~evin 76 (301)
T COG1597 3 KKALLIYNPTSGKGKA--KKLLREVEELLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGG-DGTVNEVAN 76 (301)
T ss_pred ceEEEEEcccccccch--hhHHHHHHHHHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecC-cchHHHHHH
Confidence 3455666666664333 35677888888889998888888888 8888999998899999999998 799999998
No 172
>PRK13055 putative lipid kinase; Reviewed
Probab=74.06 E-value=14 Score=33.68 Aligned_cols=73 Identities=14% Similarity=0.156 Sum_probs=46.6
Q ss_pred hhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcC--CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 111 KRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSD--DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 111 rRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSD--DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+|.-|.|++.+.+-++++ .+.++...+...+++.-++.+- .-+-..+++.|.+.+..+|||..+ ||++..+++
T Consensus 3 ~r~~iI~NP~sG~~~~~~--~~~~i~~~l~~~g~~~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~GG-DGTl~evvn 77 (334)
T PRK13055 3 KRARLIYNPTSGQEIMKK--NVADILDILEQAGYETSAFQTTPEPNSAKNEAKRAAEAGFDLIIAAGG-DGTINEVVN 77 (334)
T ss_pred ceEEEEECCCCCchhHHH--HHHHHHHHHHHcCCeEEEEEeecCCccHHHHHHHHhhcCCCEEEEECC-CCHHHHHHH
Confidence 355566777766655432 3455666666677776665554 235666777777777777777666 677777776
No 173
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=73.70 E-value=6.2 Score=34.11 Aligned_cols=91 Identities=18% Similarity=0.069 Sum_probs=56.7
Q ss_pred hHHHHHHHhhhcCCcc----CCc----hhh----hhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC-
Q 046085 87 METYKMASKATLTPKV----GYS----LVV----KLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD- 153 (230)
Q Consensus 87 ~~KY~~AAr~vl~pkv----gyg----La~----eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD- 153 (230)
.+..++++..+...+- |.| +|. .|-|-|+.+-...+- .........+ ..=|+++++|-.
T Consensus 115 ~~~i~~~~~~i~~a~~I~i~G~G~S~~~a~~~~~~l~~~g~~~~~~~~~------~~~~~~~~~~--~~~D~vI~iS~sG 186 (284)
T PRK11302 115 PSAINRAVDLLTQAKKISFFGLGASAAVAHDAQNKFFRFNVPVVYFDDI------VMQRMSCMNS--SDGDVVVLISHTG 186 (284)
T ss_pred HHHHHHHHHHHHcCCeEEEEEcchHHHHHHHHHHHHHhcCCceEecCCH------HHHHHHHHhC--CCCCEEEEEeCCC
Confidence 4556667766655443 433 222 266788877755432 1111111112 234777777653
Q ss_pred --cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 154 --SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 154 --SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.+...+++.|+++|+++|+|.+ ....|.+.||
T Consensus 187 ~t~~~~~~~~~ak~~g~~vI~IT~-~~s~l~~~ad 220 (284)
T PRK11302 187 RTKSLVELAQLARENGATVIAITS-AGSPLAREAT 220 (284)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECC-CCChhHHhCC
Confidence 4566788999999999999998 4678999999
No 174
>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=73.64 E-value=6.7 Score=34.55 Aligned_cols=61 Identities=10% Similarity=0.002 Sum_probs=44.1
Q ss_pred hhhhhhhcEEEEEccccc-hHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE
Q 046085 107 VVKLKRVWFWVRTMSDKL-QAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKp-qAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T 170 (230)
...++++|+-|-.+..-| .+.|.. .++.+++ ..+.+.|++...-.+...+++.|++.|+..
T Consensus 165 ~~~~~~~G~~vv~~~~~~~~~~d~~--~~i~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~ 226 (347)
T cd06340 165 KKFAKERGFEIVEDISYPANARDLT--SEVLKLK-AANPDAILPASYTNDAILLVRTMKEQRVEP 226 (347)
T ss_pred HHHHHHcCCEEEEeeccCCCCcchH--HHHHHHH-hcCCCEEEEcccchhHHHHHHHHHHcCCCC
Confidence 346778898886443333 344433 3444445 578999999999999999999999999964
No 175
>PRK13337 putative lipid kinase; Reviewed
Probab=73.63 E-value=16 Score=32.56 Aligned_cols=51 Identities=16% Similarity=0.197 Sum_probs=21.9
Q ss_pred HHHHHhhcCcceE-EEEcCCcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 135 MVDMMDKRRFGCL-VFVSDDSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 135 m~~~m~~r~vdcl-vLVSDDSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+...+.+.+++.- .+.....+...+++.+.+.+..+|||..+ ||++..+++
T Consensus 24 ~~~~l~~~~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~GG-DGTl~~vv~ 75 (304)
T PRK13337 24 VLQKLEQAGYETSAHATTGPGDATLAAERAVERKFDLVIAAGG-DGTLNEVVN 75 (304)
T ss_pred HHHHHHHcCCEEEEEEecCCCCHHHHHHHHHhcCCCEEEEEcC-CCHHHHHHH
Confidence 3333444444432 22333444444444444444444444443 344444444
No 176
>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=73.57 E-value=8 Score=33.45 Aligned_cols=66 Identities=9% Similarity=-0.064 Sum_probs=47.3
Q ss_pred hhhhhhhhcEEEE-EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEec
Q 046085 106 LVVKLKRVWFWVR-TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAG 174 (230)
Q Consensus 106 La~eLrRAGv~Vr-tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVG 174 (230)
+...|++.|+.|- ...-.|.+.|.. ..+..++ +.+.|.|++.+...+-+.+++.+++.|+..-++|
T Consensus 157 ~~~~~~~~G~~vv~~~~~~~~~~d~~--~~v~~l~-~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~ 223 (312)
T cd06346 157 FTKAFEALGGTVTNVVAHEEGKSSYS--SEVAAAA-AGGPDALVVIGYPETGSGILRSAYEQGLFDKFLL 223 (312)
T ss_pred HHHHHHHcCCEEEEEEeeCCCCCCHH--HHHHHHH-hcCCCEEEEecccchHHHHHHHHHHcCCCCceEe
Confidence 3456777887765 233344555654 4455555 4789999999999999999999999999755554
No 177
>PRK02947 hypothetical protein; Provisional
Probab=73.48 E-value=9.2 Score=33.72 Aligned_cols=45 Identities=27% Similarity=0.234 Sum_probs=37.0
Q ss_pred cCcceEEEEcC---CcchHHHHHHHHHcCCeEEEecCCC-----------Cchhhhhhh
Q 046085 142 RRFGCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYMN-----------DGTLKRIAD 186 (230)
Q Consensus 142 r~vdclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~~-----------~~aL~r~AD 186 (230)
..-|+++++|- ..+-..+++.|+++|+++|+|-+.. ...|.+.||
T Consensus 105 ~~~Dv~i~iS~sG~t~~~i~~~~~a~~~g~~vI~iT~~~~s~~~~~~h~~gs~l~~~ad 163 (246)
T PRK02947 105 RPGDVLIVVSNSGRNPVPIEMALEAKERGAKVIAVTSLAYSASVASRHSSGKRLAEVAD 163 (246)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEcCCcccccccccCCCcCchhHhCC
Confidence 34589999994 4677788999999999999998863 258999999
No 178
>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=73.27 E-value=6.7 Score=34.87 Aligned_cols=63 Identities=11% Similarity=0.031 Sum_probs=46.0
Q ss_pred hhhhhhcEEEE-EccccchHHHHH-HHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEec
Q 046085 108 VKLKRVWFWVR-TMSDKLQAADVL-LRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAG 174 (230)
Q Consensus 108 ~eLrRAGv~Vr-tV~dKpqAAD~A-L~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVG 174 (230)
..|++.|+.|- .+.=.|..+|.+ +..+| . +.+.|.|++.+..++.+.+++.+++.|+..-+++
T Consensus 170 ~~~~~~G~~vv~~~~~~~~~~D~~~~v~~i---k-~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~~~~ 234 (357)
T cd06337 170 AALADAGYKLVDPGRFEPGTDDFSSQINAF---K-REGVDIVTGFAIPPDFATFWRQAAQAGFKPKIVT 234 (357)
T ss_pred HHHHhCCcEEecccccCCCCCcHHHHHHHH---H-hcCCCEEEeCCCccHHHHHHHHHHHCCCCCCeEE
Confidence 35667788764 344455566744 33333 4 5789999999999999999999999999765554
No 179
>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=73.25 E-value=4.8 Score=33.38 Aligned_cols=73 Identities=21% Similarity=0.174 Sum_probs=49.6
Q ss_pred cCCchhhhhhhhcEEEEEccccchH---------------HHHHHHHHHHHHHhhcCcceEEEEcC---Ccc---hHHHH
Q 046085 102 VGYSLVVKLKRVWFWVRTMSDKLQA---------------ADVLLRNYMVDMMDKRRFGCLVFVSD---DSD---FVEVL 160 (230)
Q Consensus 102 vgygLa~eLrRAGv~VrtV~dKpqA---------------AD~AL~~~m~~~m~~r~vdclvLVSD---DSD---F~~lL 160 (230)
+|-.++..|...|+.|+.+..+|.. +|..=...|..++ .|++++++++. +.. ...++
T Consensus 10 ~G~~v~~~L~~~~~~V~~l~R~~~~~~~~~l~~~g~~vv~~d~~~~~~l~~al--~g~d~v~~~~~~~~~~~~~~~~~li 87 (233)
T PF05368_consen 10 QGRSVVRALLSAGFSVRALVRDPSSDRAQQLQALGAEVVEADYDDPESLVAAL--KGVDAVFSVTPPSHPSELEQQKNLI 87 (233)
T ss_dssp HHHHHHHHHHHTTGCEEEEESSSHHHHHHHHHHTTTEEEES-TT-HHHHHHHH--TTCSEEEEESSCSCCCHHHHHHHHH
T ss_pred HHHHHHHHHHhCCCCcEEEEeccchhhhhhhhcccceEeecccCCHHHHHHHH--cCCceEEeecCcchhhhhhhhhhHH
Confidence 4566677777788888866555521 1222234555566 59999999999 443 45788
Q ss_pred HHHHHcCCeEEEecCC
Q 046085 161 QEATLRCLKTGVAGYM 176 (230)
Q Consensus 161 r~ARer~l~TVVVGd~ 176 (230)
..|.+.|++.+|.++.
T Consensus 88 ~Aa~~agVk~~v~ss~ 103 (233)
T PF05368_consen 88 DAAKAAGVKHFVPSSF 103 (233)
T ss_dssp HHHHHHT-SEEEESEE
T ss_pred HhhhccccceEEEEEe
Confidence 8999999999998876
No 180
>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=73.06 E-value=12 Score=34.21 Aligned_cols=67 Identities=9% Similarity=0.036 Sum_probs=45.5
Q ss_pred hhhhhhhcEEEE---EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecC
Q 046085 107 VVKLKRVWFWVR---TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGY 175 (230)
Q Consensus 107 a~eLrRAGv~Vr---tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd 175 (230)
...+++.|+-|- +++..+.+.|.. ..+.++....+++.++|.+...+...+++.|++.|+ +.+.||.
T Consensus 193 ~~~~~~~gi~i~~~~~~~~~~~~~d~~--~~l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~~~~~~i~~ 264 (452)
T cd06362 193 EKLAAERGICIAGSEKIPSSATEEEFD--NIIRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAEGHFQWIAS 264 (452)
T ss_pred HHHHHHCCeeEEEEEEcCCCCCHHHHH--HHHHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCcCceEEEEe
Confidence 356777887654 344444555543 333333422468999999999999999999999999 4455553
No 181
>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=72.98 E-value=9.7 Score=32.38 Aligned_cols=62 Identities=8% Similarity=-0.059 Sum_probs=45.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-..+...+ .+ .+...++|.+++++.+.+- ..++.+.+.+..+|+||..
T Consensus 27 ~~i~~~~~~~gy~~~~~~~~~~-~~---------~l~~~~vdgiIi~~~~~~~-~~~~~l~~~~iPvV~i~~~ 88 (269)
T cd06287 27 AAAAESALERGLALCLVPPHEA-DS---------PLDALDIDGAILVEPMADD-PQVARLRQRGIPVVSIGRP 88 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCc-hh---------hhhccCcCeEEEecCCCCC-HHHHHHHHcCCCEEEeCCC
Confidence 6888999999999987644311 11 2335799999999865443 5567778889999999864
No 182
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=72.93 E-value=2.9 Score=32.31 Aligned_cols=26 Identities=15% Similarity=0.225 Sum_probs=23.2
Q ss_pred Ccccc----cccCCCcccCchHHHHHHHHHhH
Q 046085 31 PYVLV----IVEGDLRLYNNDKLVNHFKQIHK 58 (230)
Q Consensus 31 py~~C----~VCGdrkf~t~~kL~kHFkqlHe 58 (230)
.| .| ..|+ -.+.+..++.+||.+.|.
T Consensus 80 G~-~C~~~~~~C~-y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GY-RCQCDPPHCG-YITRSKKTMRKHWRKEHG 109 (109)
T ss_pred Ce-eeecCCCCCC-cEeccHHHHHHHHHHhcC
Confidence 35 89 9999 999999999999999883
No 183
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=72.81 E-value=11 Score=33.60 Aligned_cols=139 Identities=20% Similarity=0.152 Sum_probs=86.6
Q ss_pred cccccCCCcccCchHHHHHHHHHhHHHHHHHhhhhhhcccchhhHhHhhhh-------------hhhHHHHHHHhhhcCC
Q 046085 34 LVIVEGDLRLYNNDKLVNHFKQIHKREQKKRLNQIESAKGKMREHLVGNYS-------------MRMETYKMASKATLTP 100 (230)
Q Consensus 34 ~C~VCGdrkf~t~~kL~kHFkqlHeREr~Krlnri~s~kGkrR~~~~~~~~-------------~k~~KY~~AAr~vl~p 100 (230)
.|+-+| |.-..+|+.+|++-=...+.-.++.+.. ...-..+..++. ...+...+|+.-+...
T Consensus 56 f~~kLG---f~Gf~efk~~l~~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~t~~~l~~~~l~~av~~L~~A 130 (281)
T COG1737 56 FARKLG---FEGFSEFKLALAQELAEGRAQLLREIAE--DDGPESILEKLLAANIAALERTLNLLDEEALERAVELLAKA 130 (281)
T ss_pred HHHHcC---CCCHHHHHHHHHHHHhhccchhhcccCC--CCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHcC
Confidence 888888 7788888888876433222222222111 111111222221 2455667777777766
Q ss_pred cc----CCc--------hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc----hHHHHHHHH
Q 046085 101 KV----GYS--------LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD----FVEVLQEAT 164 (230)
Q Consensus 101 kv----gyg--------La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD----F~~lLr~AR 164 (230)
+- |.| ++-.|-|-|+.|..++|..... | ++.+.+-+.++++-+-|. -..+++.|+
T Consensus 131 ~rI~~~G~g~S~~vA~~~~~~l~~ig~~~~~~~d~~~~~-------~--~~~~~~~~Dv~i~iS~sG~t~e~i~~a~~ak 201 (281)
T COG1737 131 RRIYFFGLGSSGLVASDLAYKLMRIGLNVVALSDTHGQL-------M--QLALLTPGDVVIAISFSGYTREIVEAAELAK 201 (281)
T ss_pred CeEEEEEechhHHHHHHHHHHHHHcCCceeEecchHHHH-------H--HHHhCCCCCEEEEEeCCCCcHHHHHHHHHHH
Confidence 62 433 3456788999999888876552 1 122345555555555554 456889999
Q ss_pred HcCCeEEEecCCCCchhhhhhh
Q 046085 165 LRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 165 er~l~TVVVGd~~~~aL~r~AD 186 (230)
++|+++|.|=+...-.|.+.||
T Consensus 202 ~~ga~vIaiT~~~~spla~~Ad 223 (281)
T COG1737 202 ERGAKVIAITDSADSPLAKLAD 223 (281)
T ss_pred HCCCcEEEEcCCCCCchhhhhc
Confidence 9999999999997779999999
No 184
>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=72.66 E-value=12 Score=32.31 Aligned_cols=67 Identities=10% Similarity=0.108 Sum_probs=43.2
Q ss_pred hhhhhhhcEEEEE---ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC-e-EEEecCC
Q 046085 107 VVKLKRVWFWVRT---MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL-K-TGVAGYM 176 (230)
Q Consensus 107 a~eLrRAGv~Vrt---V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l-~-TVVVGd~ 176 (230)
...++..|+-|-. ++..+.+.|. ...+..+. ..+.+.|++.+...+...+++.|++.|+ . .+++++.
T Consensus 181 ~~~~~~~gi~v~~~~~~~~~~~~~d~--~~~l~~l~-~~~~~vvv~~~~~~~~~~~~~~a~~~g~~~~~~i~~~~ 252 (348)
T cd06350 181 EEELEKNGICIAFVEAIPPSSTEEDI--KRILKKLK-SSTARVIVVFGDEDDALRLFCEAYKLGMTGKYWIISTD 252 (348)
T ss_pred HHHHHHCCCcEEEEEEccCCCcHHHH--HHHHHHHH-hCCCcEEEEEeCcHHHHHHHHHHHHhCCCCeEEEEEcc
Confidence 3455666766553 3332223443 33333334 4678999999999999999999999998 3 3444444
No 185
>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=72.65 E-value=9.3 Score=33.06 Aligned_cols=63 Identities=11% Similarity=-0.045 Sum_probs=44.7
Q ss_pred hhhhhhcEEEEE-ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEe
Q 046085 108 VKLKRVWFWVRT-MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVA 173 (230)
Q Consensus 108 ~eLrRAGv~Vrt-V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVV 173 (230)
..|++.|+.|-. ..=.+++.|.. ..+.++. ..+.+.|++.+...++..+++.+++.|++.-++
T Consensus 163 ~~~~~~g~~v~~~~~~~~~~~d~~--~~v~~l~-~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~~~ 226 (345)
T cd06338 163 EKAEAAGLEVVYDETYPPGTADLS--PLISKAK-AAGPDAVVVAGHFPDAVLLVRQMKELGYNPKAL 226 (345)
T ss_pred HHHHHcCCEEEEEeccCCCccchH--HHHHHHH-hcCCCEEEECCcchhHHHHHHHHHHcCCCCCEE
Confidence 467788888753 22234455533 3444445 578999999999999999999999999975333
No 186
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=72.64 E-value=22 Score=25.44 Aligned_cols=46 Identities=13% Similarity=0.009 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe-EEEecCC
Q 046085 130 LLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK-TGVAGYM 176 (230)
Q Consensus 130 AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~-TVVVGd~ 176 (230)
.....+...|.+.|+.+.+-.+. ..+..-++.|...|.. .++||+.
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~~-~~l~k~i~~a~~~g~~~~iiiG~~ 64 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDRN-ERPGVKFADADLIGIPYRIVVGKK 64 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECCC-CCcccchhHHHhcCCCEEEEECCc
Confidence 33444445554556666554443 3778888888888887 5566754
No 187
>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=72.64 E-value=13 Score=32.96 Aligned_cols=66 Identities=9% Similarity=0.009 Sum_probs=47.4
Q ss_pred hhhhhhcEEEEEccccc-hHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe---EEEecCC
Q 046085 108 VKLKRVWFWVRTMSDKL-QAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK---TGVAGYM 176 (230)
Q Consensus 108 ~eLrRAGv~VrtV~dKp-qAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~---TVVVGd~ 176 (230)
..|+..|+.|-....-| .+.|.+ .++..++ ..+.|.|++.+.-.+.+.+++.+++.|+. ..++|..
T Consensus 155 ~~~~~~G~~vv~~~~~~~~~~D~~--~~v~~l~-~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~ 224 (348)
T cd06355 155 AQLESLGGEVVGEEYLPLGHTDFQ--SIINKIK-AAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFS 224 (348)
T ss_pred HHHHHcCCeEEeeEEecCChhhHH--HHHHHHH-HhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEcc
Confidence 46777888876443333 466655 4555556 47899999998888999999999999996 3445543
No 188
>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=72.49 E-value=11 Score=32.74 Aligned_cols=74 Identities=11% Similarity=0.011 Sum_probs=49.1
Q ss_pred hhhhhhcEEEEEcc-ccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe---EEEecCC-CCchhh
Q 046085 108 VKLKRVWFWVRTMS-DKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK---TGVAGYM-NDGTLK 182 (230)
Q Consensus 108 ~eLrRAGv~VrtV~-dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~---TVVVGd~-~~~aL~ 182 (230)
..|+++|+.|-.+. -.|.+.|. ...+.++. ..+.|.|++.++-.+...+++.+++.|+. ..++|.. .+..+.
T Consensus 154 ~~~~~~G~~vv~~~~~~~~~~d~--~~~v~~~~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~ 230 (333)
T cd06331 154 ALLEELGGEVVGEEYLPLGTSDF--GSVIEKIK-AAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRIPILSLTLDENELA 230 (333)
T ss_pred HHHHHcCCEEEEEEEecCCcccH--HHHHHHHH-HcCCCEEEEecCCCChHHHHHHHHHcCCCcCCCeeEEcccchhhhh
Confidence 45777887764222 22345554 34555556 47899999999999999999999999996 4454443 333344
Q ss_pred hh
Q 046085 183 RI 184 (230)
Q Consensus 183 r~ 184 (230)
..
T Consensus 231 ~~ 232 (333)
T cd06331 231 AI 232 (333)
T ss_pred cc
Confidence 44
No 189
>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=72.01 E-value=27 Score=28.98 Aligned_cols=51 Identities=25% Similarity=0.295 Sum_probs=33.6
Q ss_pred HHHHHhh-cCcceEEEEcCCcchHHHHHHHHHcCCe--EEEec-CCCCchhhhhhh
Q 046085 135 MVDMMDK-RRFGCLVFVSDDSDFVEVLQEATLRCLK--TGVAG-YMNDGTLKRIAD 186 (230)
Q Consensus 135 m~~~m~~-r~vdclvLVSDDSDF~~lLr~ARer~l~--TVVVG-d~~~~aL~r~AD 186 (230)
+.++|.. ..++++ ++.+|.-..++++.+++.|++ ..||| |.++.++..+.+
T Consensus 176 ~~~~l~~~~~~~ai-~~~~d~~a~g~~~al~~~g~~~~~~ivg~d~~~~~~~~i~~ 230 (274)
T cd06311 176 MQDLLTKFPKIDAV-WAHDDDMAVGVLAAIKQAGRTDIKFVVGGAGSKDMIKMIMD 230 (274)
T ss_pred HHHHHHhCCCcCEE-EECCCcHHHHHHHHHHHcCCCCCceEEEeCCCHHHHHHHHC
Confidence 4444532 235554 455556677999999999985 45665 768778877665
No 190
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=71.98 E-value=6.8 Score=33.13 Aligned_cols=84 Identities=24% Similarity=0.304 Sum_probs=56.3
Q ss_pred CchhhhhhhhcEEEEEccccch-HHHHHHHHHHHHHHhhcCcceEEEEcCC------cchHHHHHHHHHcCCe---EEEe
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQ-AADVLLRNYMVDMMDKRRFGCLVFVSDD------SDFVEVLQEATLRCLK---TGVA 173 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpq-AAD~AL~~~m~~~m~~r~vdclvLVSDD------SDF~~lLr~ARer~l~---TVVV 173 (230)
+.+-.+|+.+|+..=.|+.||+ .++..|+.+-.. .-++. .++.| ++-..++..+...|+. ++.|
T Consensus 95 ~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~----~~F~~--i~g~~~~~~~KP~P~~l~~~~~~~~~~~~~~l~V 168 (220)
T COG0546 95 KELLAALKSAGYKLGIVTNKPERELDILLKALGLA----DYFDV--IVGGDDVPPPKPDPEPLLLLLEKLGLDPEEALMV 168 (220)
T ss_pred HHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCc----cccce--EEcCCCCCCCCcCHHHHHHHHHHhCCChhheEEE
Confidence 5566789999999999999998 444444442211 11222 23322 3456788888888888 8999
Q ss_pred cCC-CCchhhhhhh----ccccccc
Q 046085 174 GYM-NDGTLKRIAD----RLKWAYN 193 (230)
Q Consensus 174 Gd~-~~~aL~r~AD----~leW~~~ 193 (230)
||+ .|-.-++.|. -+.|-|.
T Consensus 169 GDs~~Di~aA~~Ag~~~v~v~~g~~ 193 (220)
T COG0546 169 GDSLNDILAAKAAGVPAVGVTWGYN 193 (220)
T ss_pred CCCHHHHHHHHHcCCCEEEEECCCC
Confidence 999 5555566665 5688875
No 191
>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=71.85 E-value=2.9 Score=25.81 Aligned_cols=20 Identities=15% Similarity=0.077 Sum_probs=16.2
Q ss_pred ccccccCCCcccCchHHHHHHH
Q 046085 33 VLVIVEGDLRLYNNDKLVNHFK 54 (230)
Q Consensus 33 ~~C~VCGdrkf~t~~kL~kHFk 54 (230)
+.||+|+ ... +...+..|.+
T Consensus 2 v~CPiC~-~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCF-REV-PENLINSHLD 21 (26)
T ss_pred CcCCCCc-Ccc-cHHHHHHHHH
Confidence 5799999 777 6677888876
No 192
>PRK13059 putative lipid kinase; Reviewed
Probab=71.81 E-value=18 Score=32.22 Aligned_cols=25 Identities=8% Similarity=0.190 Sum_probs=14.3
Q ss_pred cCcceEEEEcCCcchHHHHHHHHHc
Q 046085 142 RRFGCLVFVSDDSDFVEVLQEATLR 166 (230)
Q Consensus 142 r~vdclvLVSDDSDF~~lLr~ARer 166 (230)
.+.+.||.+..|--+..++.-+-..
T Consensus 55 ~~~d~vi~~GGDGTv~evv~gl~~~ 79 (295)
T PRK13059 55 ESYKYILIAGGDGTVDNVVNAMKKL 79 (295)
T ss_pred cCCCEEEEECCccHHHHHHHHHHhc
Confidence 4556666666666666665555433
No 193
>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=71.52 E-value=20 Score=28.61 Aligned_cols=81 Identities=20% Similarity=0.069 Sum_probs=46.6
Q ss_pred CCccC-CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcce---EEEEcCCcc--------------hHHHH
Q 046085 99 TPKVG-YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGC---LVFVSDDSD--------------FVEVL 160 (230)
Q Consensus 99 ~pkvg-ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdc---lvLVSDDSD--------------F~~lL 160 (230)
.|.-| --+-..|++.|+.+-.||..+.. +...+.+ ..|++. -.+++++.. -..++
T Consensus 80 ~~~~g~~e~l~~l~~~g~~~~IvS~~~~~----~~~~~l~---~~g~~~~~~~~~~~~~~g~~~p~~~~~~~~~~k~~~~ 152 (201)
T TIGR01491 80 SLRDYAEELVRWLKEKGLKTAIVSGGIMC----LAKKVAE---KLNPDYVYSNELVFDEKGFIQPDGIVRVTFDNKGEAV 152 (201)
T ss_pred CCCccHHHHHHHHHHCCCEEEEEeCCcHH----HHHHHHH---HhCCCeEEEEEEEEcCCCeEecceeeEEccccHHHHH
Confidence 44434 44667889999999999998764 2333322 234432 233443321 12345
Q ss_pred HHHHH-cCC---eEEEecCC-CCchhhhhhh
Q 046085 161 QEATL-RCL---KTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 161 r~ARe-r~l---~TVVVGd~-~~~aL~r~AD 186 (230)
+.+.+ .|+ .+++|||+ +|-...+.|+
T Consensus 153 ~~~~~~~~~~~~~~i~iGDs~~D~~~a~~ag 183 (201)
T TIGR01491 153 ERLKRELNPSLTETVAVGDSKNDLPMFEVAD 183 (201)
T ss_pred HHHHHHhCCCHHHEEEEcCCHhHHHHHHhcC
Confidence 54443 455 58999999 5555566666
No 194
>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=71.43 E-value=15 Score=33.71 Aligned_cols=79 Identities=11% Similarity=0.053 Sum_probs=50.9
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..+|++.|. .|-.|.|+ .....-+..++.+.+.+.|++..++ |..++.+. .++..+|+.+...|| ||.++.
T Consensus 15 l~~~l~~~g~~~~liv~~~-~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGSv 93 (370)
T cd08192 15 LPAECAELGIKRPLIVTDP-GLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGGSA 93 (370)
T ss_pred HHHHHHHcCCCeEEEEcCc-chhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCchH
Confidence 4455666663 34446663 3333445667888887778887665 55566655 566677888888887 999865
Q ss_pred chhhhhh
Q 046085 179 GTLKRIA 185 (230)
Q Consensus 179 ~aL~r~A 185 (230)
....+.+
T Consensus 94 iD~aK~i 100 (370)
T cd08192 94 LDLAKAV 100 (370)
T ss_pred HHHHHHH
Confidence 5555553
No 195
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=71.29 E-value=12 Score=31.11 Aligned_cols=77 Identities=12% Similarity=0.069 Sum_probs=45.8
Q ss_pred ccCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC---eEEEecCC-
Q 046085 101 KVGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL---KTGVAGYM- 176 (230)
Q Consensus 101 kvgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l---~TVVVGd~- 176 (230)
+.|+++ ..|+..|+.+-.++.+|.. .+. .+ +...+++-+. -+.++.-..+.+.+.+.|+ .++.|||.
T Consensus 52 ~d~~~i-~~L~~~Gi~v~I~T~~~~~---~v~-~~---l~~lgl~~~f-~g~~~k~~~l~~~~~~~gl~~~ev~~VGDs~ 122 (183)
T PRK09484 52 RDGYGI-RCLLTSGIEVAIITGRKSK---LVE-DR---MTTLGITHLY-QGQSNKLIAFSDLLEKLAIAPEQVAYIGDDL 122 (183)
T ss_pred cchHHH-HHHHHCCCEEEEEeCCCcH---HHH-HH---HHHcCCceee-cCCCcHHHHHHHHHHHhCCCHHHEEEECCCH
Confidence 335666 4577899999989998875 121 12 2333554322 2333333444444455676 59999999
Q ss_pred CCchhhhhhh
Q 046085 177 NDGTLKRIAD 186 (230)
Q Consensus 177 ~~~aL~r~AD 186 (230)
+|-...+.|.
T Consensus 123 ~D~~~a~~aG 132 (183)
T PRK09484 123 IDWPVMEKVG 132 (183)
T ss_pred HHHHHHHHCC
Confidence 6666666666
No 196
>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=71.24 E-value=6.7 Score=34.86 Aligned_cols=79 Identities=18% Similarity=0.057 Sum_probs=52.8
Q ss_pred hhcCCccC----C----chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCc-ceEEEEcCCc---chHHHHHHH
Q 046085 96 ATLTPKVG----Y----SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRF-GCLVFVSDDS---DFVEVLQEA 163 (230)
Q Consensus 96 ~vl~pkvg----y----gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~v-dclvLVSDDS---DF~~lLr~A 163 (230)
++...+.| | .|..+|+++|+.|+.||.-..+.- |.-.--. -+.++|. .++.++|+.- .+.+.....
T Consensus 77 ~Vv~l~~GDP~i~~~~~~l~~~l~~~~i~vevIPGiSs~~a-aaa~~g~-~lt~~g~~~~v~~~s~~~~~~~~~~~~~~~ 154 (257)
T TIGR00522 77 DVALLVAGDPMVATTHTDLKLEAKRKGIETRIIHGASISSA-VCGLTGL-QLYKFGKTATIVFFTDNYRPQTPYNVIKEN 154 (257)
T ss_pred CEEEEECCcCcccCCHHHHHHHHHHCCCeEEEECcHhHHHH-HHHHcCC-CcccCCCcEEEEEecCCcCCCCHHHHHHHH
Confidence 45555555 6 567788999999999988776422 2222222 2334555 8999998764 455677778
Q ss_pred HHcCCeEEEecCC
Q 046085 164 TLRCLKTGVAGYM 176 (230)
Q Consensus 164 Rer~l~TVVVGd~ 176 (230)
..++.+|+|+=|.
T Consensus 155 l~~~~~Tlvll~~ 167 (257)
T TIGR00522 155 RKIGLHTLVLLDI 167 (257)
T ss_pred HhcCCCcEEEEec
Confidence 8899999999544
No 197
>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=71.12 E-value=13 Score=30.69 Aligned_cols=79 Identities=19% Similarity=0.238 Sum_probs=50.4
Q ss_pred hcCCccC-CchhhhhhhhcEEEEEccccc--------hHHHHHHHHHHHHHHhhcCcceE--EEEc-----CCcch----
Q 046085 97 TLTPKVG-YSLVVKLKRVWFWVRTMSDKL--------QAADVLLRNYMVDMMDKRRFGCL--VFVS-----DDSDF---- 156 (230)
Q Consensus 97 vl~pkvg-ygLa~eLrRAGv~VrtV~dKp--------qAAD~AL~~~m~~~m~~r~vdcl--vLVS-----DDSDF---- 156 (230)
-+.|--| ..+-..|+..|+.+=.||.++ .+.-.+....+..++...|+. | +.+| ++..+
T Consensus 27 ~~~~~pgv~e~L~~L~~~g~~l~IvSN~~g~~~~~~~~~~~~~~~~~~~~~l~~~gl~-fd~ii~~~~~~~~~~~~~KP~ 105 (161)
T TIGR01261 27 KLRFEKGVIPALLKLKKAGYKFVMVTNQDGLGTPSFPQADFDGPHNLMLQIFRSQGII-FDDVLICPHFPDDNCDCRKPK 105 (161)
T ss_pred HeeECCCHHHHHHHHHHCCCeEEEEeCCccccCCcCCHHHHHHHHHHHHHHHHHCCCc-eeEEEECCCCCCCCCCCCCCC
Confidence 3455444 567788999999999999875 344445556677777777777 4 4455 44212
Q ss_pred HHHHHHHHH-cCC---eEEEecCC
Q 046085 157 VEVLQEATL-RCL---KTGVAGYM 176 (230)
Q Consensus 157 ~~lLr~ARe-r~l---~TVVVGd~ 176 (230)
.+++..+-+ -|+ .++.|||+
T Consensus 106 ~~~~~~~~~~~~~~~~e~l~IGD~ 129 (161)
T TIGR01261 106 IKLLEPYLKKNLIDKARSYVIGDR 129 (161)
T ss_pred HHHHHHHHHHcCCCHHHeEEEeCC
Confidence 344444433 443 48999998
No 198
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=70.47 E-value=6.3 Score=35.11 Aligned_cols=73 Identities=8% Similarity=0.027 Sum_probs=51.9
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhh
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLK 182 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~ 182 (230)
++..|-+.|..+..+.+. +.. ......+ ..-|+++.+|-. .+-.++++.|+++|++||.|-+.....|.
T Consensus 65 ~~~~l~~~g~~~~~~~~~----~~~--~~~~~~~--~~~d~~I~iS~sG~t~~~~~~~~~ak~~g~~vi~iT~~~~s~la 136 (326)
T PRK10892 65 MAATFASTGTPSFFVHPG----EAA--HGDLGMV--TPQDVVIAISNSGESSEILALIPVLKRLHVPLICITGRPESSMA 136 (326)
T ss_pred HHHHHhcCCceeEEeChH----Hhh--ccccccC--CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCcEEEEECCCCCccc
Confidence 445667889988865432 111 1111123 234788888864 77888999999999999999998778999
Q ss_pred hhhh
Q 046085 183 RIAD 186 (230)
Q Consensus 183 r~AD 186 (230)
+.||
T Consensus 137 ~~ad 140 (326)
T PRK10892 137 RAAD 140 (326)
T ss_pred ccCC
Confidence 9999
No 199
>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=70.13 E-value=24 Score=27.39 Aligned_cols=68 Identities=16% Similarity=0.115 Sum_probs=36.5
Q ss_pred cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHH-HHHcCC-eEEEecCCCCchhhhhhh
Q 046085 114 WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQE-ATLRCL-KTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 114 Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~-ARer~l-~TVVVGd~~~~aL~r~AD 186 (230)
-|.+.+.+.+-.+. .+++...+...+.++-+..+...+...-+.. +....- .+|||..+ ||++..+++
T Consensus 3 ~vi~Np~sG~~~~~----~~~v~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~ivv~GG-DGTl~~vv~ 72 (130)
T PF00781_consen 3 LVIINPKSGGGRAK----WKKVEPALRAAGIDYEVIETESAGHAEALARILALDDYPDVIVVVGG-DGTLNEVVN 72 (130)
T ss_dssp EEEEETTSTTSHHH----HHHHHHHHHHTTCEEEEEEESSTTHHHHHHHHHHHTTS-SEEEEEES-HHHHHHHHH
T ss_pred EEEECCCCCCCchh----HHHHHHHHHHcCCceEEEEEeccchHHHHHHHHhhccCccEEEEEcC-ccHHHHHHH
Confidence 35555555555554 2555555555566655555555666655554 222333 34444444 566666666
No 200
>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=69.95 E-value=9.5 Score=33.61 Aligned_cols=66 Identities=9% Similarity=0.018 Sum_probs=47.3
Q ss_pred hhhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCc-chHHHHHHHHHcCCeEEEec
Q 046085 106 LVVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS-DFVEVLQEATLRCLKTGVAG 174 (230)
Q Consensus 106 La~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS-DF~~lLr~ARer~l~TVVVG 174 (230)
+-..|+++|+.|-.... .+.+.|++ ..+..+. +.+.+.|++.+... +...+++.+++.|++.-+++
T Consensus 158 ~~~~l~~~G~~vv~~~~~~~~~~D~s--~~i~~i~-~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 225 (347)
T cd06336 158 YKAAWEAAGGKVVSEEPYDPGTTDFS--PIVTKLL-AEKPDVIFLGGPSPAPAALVIKQARELGFKGGFLS 225 (347)
T ss_pred HHHHHHHcCCEEeeecccCCCCcchH--HHHHHHH-hcCCCEEEEcCCCchHHHHHHHHHHHcCCCccEEe
Confidence 44678888877753322 23456653 4444445 57899999999999 99999999999999864443
No 201
>PRK13054 lipid kinase; Reviewed
Probab=69.79 E-value=19 Score=32.03 Aligned_cols=23 Identities=13% Similarity=0.086 Sum_probs=13.7
Q ss_pred cCcceEEEEcCCcchHHHHHHHH
Q 046085 142 RRFGCLVFVSDDSDFVEVLQEAT 164 (230)
Q Consensus 142 r~vdclvLVSDDSDF~~lLr~AR 164 (230)
.+.+.|+.+..|=-+..++.-+.
T Consensus 55 ~~~d~vvv~GGDGTl~evv~~l~ 77 (300)
T PRK13054 55 LGVATVIAGGGDGTINEVATALA 77 (300)
T ss_pred cCCCEEEEECCccHHHHHHHHHH
Confidence 45566666666666666665554
No 202
>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=69.59 E-value=8.9 Score=34.15 Aligned_cols=44 Identities=16% Similarity=0.064 Sum_probs=37.7
Q ss_pred CcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.-|+++.+|-. .+..++++.|+++|.+||.|.......|.+.||
T Consensus 118 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~I~It~~~~s~L~~~aD 164 (257)
T cd05007 118 ERDVVIGIAASGRTPYVLGALRYARARGALTIGIACNPGSPLLQLAD 164 (257)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCC
Confidence 45888888854 678889999999999999998876678999999
No 203
>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=69.27 E-value=8.4 Score=33.51 Aligned_cols=67 Identities=9% Similarity=0.021 Sum_probs=46.8
Q ss_pred hhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 107 VVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 107 a~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
-..+++.|+.|..... .+.+.|.. ..+.... ..+.+.|++.+...+...+++.|++.|++..++|..
T Consensus 158 ~~~~~~~g~~v~~~~~~~~~~~d~~--~~v~~i~-~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 225 (344)
T cd06348 158 QKALRDQGLNLVTVQTFQTGDTDFQ--AQITAVL-NSKPDLIVISALAADGGNLVRQLRELGYNGLIVGGN 225 (344)
T ss_pred HHHHHHcCCEEEEEEeeCCCCCCHH--HHHHHHH-hcCCCEEEECCcchhHHHHHHHHHHcCCCCceeccc
Confidence 3456667777653322 22334433 3344444 578999999999999999999999999998888743
No 204
>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=69.21 E-value=13 Score=33.38 Aligned_cols=66 Identities=11% Similarity=-0.018 Sum_probs=48.3
Q ss_pred hhhhhhhcEEEEEcccc-chHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC
Q 046085 107 VVKLKRVWFWVRTMSDK-LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dK-pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd 175 (230)
...++.+|+.|-...-- +.+.|. ...+..++ +.+.|.|++.....+-+.+++.+++.|++.-++|.
T Consensus 161 ~~~~~~~G~~vv~~~~~~~~~~D~--~~~v~~i~-~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~~~~ 227 (351)
T cd06334 161 KALAEKLGFEVVLEPVPPPGPNDQ--KAQWLQIR-RSGPDYVILWGWGVMNPVAIKEAKRVGLDDKFIGN 227 (351)
T ss_pred HHHHHHcCCeeeeeccCCCCcccH--HHHHHHHH-HcCCCEEEEecccchHHHHHHHHHHcCCCceEEEe
Confidence 35677888877643332 334454 44555556 57999999999999999999999999998767764
No 205
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=69.11 E-value=4.6 Score=33.46 Aligned_cols=78 Identities=17% Similarity=0.156 Sum_probs=52.0
Q ss_pred hhhhhhhhcEEEEEcc---ccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc--hHHHHH-----HHHHcCCeEEEecC
Q 046085 106 LVVKLKRVWFWVRTMS---DKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD--FVEVLQ-----EATLRCLKTGVAGY 175 (230)
Q Consensus 106 La~eLrRAGv~VrtV~---dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD--F~~lLr-----~ARer~l~TVVVGd 175 (230)
|+..|+..|+.+-.+| -.|...+..|...+.+.. ....++|++.|-..- |...++ ...-.+.+.++||.
T Consensus 3 l~~~l~~~G~~~~~~P~i~~~~~~~~~~l~~~l~~l~-~~~~d~viftS~~av~~~~~~l~~~~~~~~~~~~~~i~avG~ 81 (231)
T PF02602_consen 3 LAALLRALGAEVIELPLIEIEPLPDLASLEAALEQLP-PGNYDWVIFTSPNAVRAFFKALQSAGADLRLLKNIKIFAVGP 81 (231)
T ss_dssp HHHHHHHTTEEEEEEESEEEEECCHHHHHHHHHHHHT-GCCSSEEEESSHHHHHHHHHHHHHTTHHHHHHHHSEEEESSH
T ss_pred HHHHHHHCCCcEEEECCEEEEeCCCHHHHHHHHHhcc-cCCCCEEEEECHHHHHHHHHHHhhhhhhhhhccCCeEEEEcH
Confidence 7889999999987443 345344444544443333 468999999998763 334443 12236888999999
Q ss_pred CCCchhhhh
Q 046085 176 MNDGTLKRI 184 (230)
Q Consensus 176 ~~~~aL~r~ 184 (230)
.|..+|...
T Consensus 82 ~Ta~~l~~~ 90 (231)
T PF02602_consen 82 KTAEALREY 90 (231)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHHHc
Confidence 877777775
No 206
>PRK13582 thrH phosphoserine phosphatase; Provisional
Probab=69.04 E-value=23 Score=28.65 Aligned_cols=75 Identities=17% Similarity=0.128 Sum_probs=45.5
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcc----eEE-------EEc----CCcchHHHHHHHHHcCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFG----CLV-------FVS----DDSDFVEVLQEATLRCL 168 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vd----clv-------LVS----DDSDF~~lLr~ARer~l 168 (230)
.-+-..|+.+ +.+-.||.++... ...+ +...+++ ..+ ++. .......+++.....+-
T Consensus 74 ~e~L~~L~~~-~~~~IvS~~~~~~----~~~~---l~~~gl~~~f~~~~~~~~~~~i~~~~~~~p~~k~~~l~~~~~~~~ 145 (205)
T PRK13582 74 VEFLDWLRER-FQVVILSDTFYEF----AGPL---MRQLGWPTLFCHSLEVDEDGMITGYDLRQPDGKRQAVKALKSLGY 145 (205)
T ss_pred HHHHHHHHhc-CCEEEEeCCcHHH----HHHH---HHHcCCchhhcceEEECCCCeEECccccccchHHHHHHHHHHhCC
Confidence 3566778887 7777899999851 1122 2122322 111 111 11345567777777888
Q ss_pred eEEEecCC-CCchhhhhhh
Q 046085 169 KTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 169 ~TVVVGd~-~~~aL~r~AD 186 (230)
.++.|||+ +|-...+.|+
T Consensus 146 ~~v~iGDs~~D~~~~~aa~ 164 (205)
T PRK13582 146 RVIAAGDSYNDTTMLGEAD 164 (205)
T ss_pred eEEEEeCCHHHHHHHHhCC
Confidence 99999999 5544677777
No 207
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=69.02 E-value=8.7 Score=35.10 Aligned_cols=44 Identities=18% Similarity=0.040 Sum_probs=38.1
Q ss_pred CcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.=|++|.+|-. .+..++++.|+++|.+|+.|-......|.+.||
T Consensus 131 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tI~IT~~~~s~La~~aD 177 (299)
T PRK05441 131 AKDVVVGIAASGRTPYVIGALEYARERGALTIGISCNPGSPLSKEAD 177 (299)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhhHhCC
Confidence 34888888865 678899999999999999999876678999999
No 208
>PRK08116 hypothetical protein; Validated
Probab=68.82 E-value=44 Score=29.85 Aligned_cols=26 Identities=19% Similarity=0.170 Sum_probs=19.9
Q ss_pred HHHHHHHHcCCeEEEecCCCCchhhh
Q 046085 158 EVLQEATLRCLKTGVAGYMNDGTLKR 183 (230)
Q Consensus 158 ~lLr~ARer~l~TVVVGd~~~~aL~r 183 (230)
.++..-...+..|++.++.++..|..
T Consensus 202 ~iin~r~~~~~~~IiTsN~~~~eL~~ 227 (268)
T PRK08116 202 NIIDSRYRKGLPTIVTTNLSLEELKN 227 (268)
T ss_pred HHHHHHHHCCCCEEEECCCCHHHHHH
Confidence 46666666889999999987777664
No 209
>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=68.62 E-value=19 Score=35.44 Aligned_cols=85 Identities=14% Similarity=0.064 Sum_probs=55.9
Q ss_pred hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC-CCchhhhhh
Q 046085 107 VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKRIA 185 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r~A 185 (230)
-.+|++.|+.+-.+|.+++..=.+ .+...|++.+.-+ ...+-..+++.+.+.+-+++.|||+ +|-..-+.|
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 IQALKRRGIEPVMLTGDNRKTAKA-------VAKELGINVRAEV-LPDDKAALIKELQEKGRVVAMVGDGINDAPALAQA 485 (562)
T ss_pred HHHHHHcCCeEEEEcCCCHHHHHH-------HHHHcCCcEEccC-ChHHHHHHHHHHHHcCCEEEEEeCCCccHHHHhhC
Confidence 346888888888888887742112 2333466522211 1235567788888888899999999 777777888
Q ss_pred h-ccccccchHHHHh
Q 046085 186 D-RLKWAYNSEVEKK 199 (230)
Q Consensus 186 D-~leW~~~~e~e~~ 199 (230)
| -+.|-+..+..+.
T Consensus 486 ~vgia~g~g~~~a~~ 500 (562)
T TIGR01511 486 DVGIAIGAGTDVAIE 500 (562)
T ss_pred CEEEEeCCcCHHHHh
Confidence 8 6677765554443
No 210
>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=68.60 E-value=9 Score=35.06 Aligned_cols=44 Identities=18% Similarity=0.027 Sum_probs=37.3
Q ss_pred CcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.=|++|.+|-. .+..++++.|+++|.+|+.|.......|.+.||
T Consensus 126 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tIaIT~~~~s~La~~aD 172 (291)
T TIGR00274 126 KNDVVVGIAASGRTPYVIAGLQYARSLGALTISIACNPKSAASEIAD 172 (291)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCC
Confidence 34899999865 566788999999999999998876678999999
No 211
>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=68.47 E-value=17 Score=31.11 Aligned_cols=58 Identities=12% Similarity=0.110 Sum_probs=39.1
Q ss_pred hhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe
Q 046085 109 KLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK 169 (230)
Q Consensus 109 eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~ 169 (230)
++...|..|....-.|.. + .....+.++. +.+.+.|+|.+...+...+++.|++.|+.
T Consensus 149 ~~~~~g~~v~~~~~~~~~-~-d~~~~l~~i~-~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~ 206 (324)
T cd06368 149 ALSPKGIQVTVRRLDDDT-D-MYRPLLKEIK-REKERRIILDCSPERLKEFLEQAVEVGMM 206 (324)
T ss_pred hhccCCceEEEEEecCCc-h-HHHHHHHHHh-hccCceEEEECCHHHHHHHHHHHHHhccc
Confidence 344446555532222222 2 3444555555 57899999999999999999999999985
No 212
>PHA00733 hypothetical protein
Probab=68.11 E-value=5.8 Score=32.32 Aligned_cols=26 Identities=23% Similarity=0.308 Sum_probs=20.7
Q ss_pred CCcccccccCCCcccCchHHHHHHHHHh
Q 046085 30 EPYVLVIVEGDLRLYNNDKLVNHFKQIH 57 (230)
Q Consensus 30 epy~~C~VCGdrkf~t~~kL~kHFkqlH 57 (230)
.|| .|.+|| ..|.....|.+|..+-|
T Consensus 98 ~~~-~C~~Cg-K~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 98 HSK-VCPVCG-KEFRNTDSTLDHVCKKH 123 (128)
T ss_pred cCc-cCCCCC-CccCCHHHHHHHHHHhc
Confidence 467 888888 88888888888877776
No 213
>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=67.92 E-value=23 Score=32.89 Aligned_cols=80 Identities=11% Similarity=0.001 Sum_probs=51.8
Q ss_pred hhhhhhhh---cE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecC
Q 046085 106 LVVKLKRV---WF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGY 175 (230)
Q Consensus 106 La~eLrRA---Gv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd 175 (230)
|..+|++. |. .+-.|.|+....-..+...+.+.+...|++..++ |..++.+. .+++.+++.+...|| ||.
T Consensus 14 l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 93 (383)
T cd08186 14 IGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIGG 93 (383)
T ss_pred HHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 44455554 53 4556777665444456677788887778887666 45445544 677778888887777 888
Q ss_pred CCCchhhhhh
Q 046085 176 MNDGTLKRIA 185 (230)
Q Consensus 176 ~~~~aL~r~A 185 (230)
++.....+.+
T Consensus 94 GS~iD~aK~i 103 (383)
T cd08186 94 GSPIDSAKSA 103 (383)
T ss_pred ccHHHHHHHH
Confidence 8655555543
No 214
>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=67.78 E-value=66 Score=27.33 Aligned_cols=93 Identities=14% Similarity=0.009 Sum_probs=52.8
Q ss_pred hcCCccC-CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcC-cceEEEEcCCc-----chHHHHHHHHHcCCe
Q 046085 97 TLTPKVG-YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRR-FGCLVFVSDDS-----DFVEVLQEATLRCLK 169 (230)
Q Consensus 97 vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~-vdclvLVSDDS-----DF~~lLr~ARer~l~ 169 (230)
-+.|--| ..+-..|+..|+.+-.+|.++.. ....+++.+.-.+ +.-.|+.||+. +=..+++.++.-|+.
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 3445445 45667888999998889999875 2222222221012 11233445442 333455666667763
Q ss_pred ----EEEecCC-CCchhhhhhh----ccccccc
Q 046085 170 ----TGVAGYM-NDGTLKRIAD----RLKWAYN 193 (230)
Q Consensus 170 ----TVVVGd~-~~~aL~r~AD----~leW~~~ 193 (230)
+++|||+ ++-.-++.|- .+.|-+.
T Consensus 173 ~~~~~l~IGDs~~Di~aA~~aGi~~i~v~~g~~ 205 (253)
T TIGR01422 173 DVAACVKVGDTVPDIEEGRNAGMWTVGLILSSN 205 (253)
T ss_pred CchheEEECCcHHHHHHHHHCCCeEEEEecCCc
Confidence 8999998 4333344444 6678765
No 215
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=67.76 E-value=19 Score=33.51 Aligned_cols=78 Identities=13% Similarity=0.079 Sum_probs=52.8
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..+|++-|. .|-.|.| +...+..+...+...+...|+++.++ |..++.+. .+++.+++.+...|| ||.++.
T Consensus 21 l~~~~~~~g~~~~lvvtd-~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~ 99 (382)
T PRK10624 21 LTDEVKRRGFKKALIVTD-KTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGGSP 99 (382)
T ss_pred HHHHHHhcCCCEEEEEeC-cchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChHH
Confidence 4556676663 4444666 35555557888888887778887765 44455554 566888898998887 899865
Q ss_pred chhhhh
Q 046085 179 GTLKRI 184 (230)
Q Consensus 179 ~aL~r~ 184 (230)
....+.
T Consensus 100 iD~aK~ 105 (382)
T PRK10624 100 QDTCKA 105 (382)
T ss_pred HHHHHH
Confidence 555554
No 216
>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=67.54 E-value=12 Score=32.91 Aligned_cols=68 Identities=10% Similarity=-0.021 Sum_probs=46.6
Q ss_pred hhhhhhh--hcEEEEEccccch-H-HHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 106 LVVKLKR--VWFWVRTMSDKLQ-A-ADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 106 La~eLrR--AGv~VrtV~dKpq-A-AD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+...|++ +|+.|-...-.|. + .|.. ..+.+++ ..+.|.|++.+...+.+.+++.+++.|+..-++|..
T Consensus 163 ~~~~~~~~~~G~~vv~~~~~~~~~~~d~~--~~i~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 234 (342)
T cd06329 163 FKAMLAAKRPDIQIVGEDLHPLGKVKDFS--PYVAKIK-ASGADTVITGNWGNDLLLLVKQAADAGLKLPFYTPY 234 (342)
T ss_pred HHHHHHhhcCCcEEeceeccCCCCCCchH--HHHHHHH-HcCCCEEEEcccCchHHHHHHHHHHcCCCceEEecc
Confidence 4566777 8877653322222 2 3432 2344445 478999999998889999999999999987777644
No 217
>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=67.15 E-value=13 Score=32.50 Aligned_cols=68 Identities=9% Similarity=0.012 Sum_probs=45.9
Q ss_pred hhhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE-EEecCC
Q 046085 106 LVVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT-GVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T-VVVGd~ 176 (230)
+..+|+.+|+-|-.... .+.+.|+. ..+..+. +.+.+.|++.....+.+.+++.|++.|+.. +++++.
T Consensus 164 ~~~~~~~~G~~vv~~~~~~~~~~d~~--~~v~~i~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 233 (362)
T cd06343 164 LKDGLGDAGLEIVAETSYEVTEPDFD--SQVAKLK-AAGADVVVLATTPKFAAQAIRKAAELGWKPTFLLSSV 233 (362)
T ss_pred HHHHHHHcCCeEEEEeeecCCCccHH--HHHHHHH-hcCCCEEEEEcCcHHHHHHHHHHHHcCCCceEEEEec
Confidence 34557777876553322 23455543 3344444 589999999999999999999999999864 333443
No 218
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=66.99 E-value=20 Score=35.58 Aligned_cols=92 Identities=16% Similarity=0.098 Sum_probs=62.8
Q ss_pred hhHHHHHHHhhhcCCcc----CCch--------hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC
Q 046085 86 RMETYKMASKATLTPKV----GYSL--------VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD 153 (230)
Q Consensus 86 k~~KY~~AAr~vl~pkv----gygL--------a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD 153 (230)
..+.+++++..+...+. |.|- ...|.|.|+.+....|. .+.......+ ..=|+++++|-.
T Consensus 454 d~~~l~~aa~~L~~a~rI~i~G~G~S~~~A~~~~~~l~~lg~~~~~~~d~------~~~~~~~~~l--~~~DvvI~iS~s 525 (638)
T PRK14101 454 NFEHVEQAIDILNNARRIEFYGLGNSNIVAQDAHYKFFRFGIPTIAYGDL------YMQAASAALL--GKGDVIVAVSKS 525 (638)
T ss_pred CHHHHHHHHHHHhcCCEEEEEEccHHHHHHHHHHHHHhcCCceEEEcCCH------HHHHHHHhcC--CCCCEEEEEeCC
Confidence 34567777777766554 4332 34577889888876542 2222222223 233888888864
Q ss_pred ---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 154 ---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 154 ---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
.+...+++.|+++|+++|.|-+. ...|.+.||
T Consensus 526 G~t~e~i~~~~~Ak~~Ga~vIaIT~~-~spLa~~aD 560 (638)
T PRK14101 526 GRAPELLRVLDVAMQAGAKVIAITSS-NTPLAKRAT 560 (638)
T ss_pred CCCHHHHHHHHHHHHCCCeEEEEcCC-CChhHhhCC
Confidence 45678889999999999999995 678999999
No 219
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=66.97 E-value=25 Score=28.98 Aligned_cols=91 Identities=19% Similarity=0.202 Sum_probs=50.7
Q ss_pred hcCCccC-CchhhhhhhhcEEEEEccccchH-HHHHHHHHHHHHHhhcCc----ceEEEEcCCc-----chHHHHHHHHH
Q 046085 97 TLTPKVG-YSLVVKLKRVWFWVRTMSDKLQA-ADVLLRNYMVDMMDKRRF----GCLVFVSDDS-----DFVEVLQEATL 165 (230)
Q Consensus 97 vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqA-AD~AL~~~m~~~m~~r~v----dclvLVSDDS-----DF~~lLr~ARe 165 (230)
.+.|--| ..+-..|++.|+.+-.+|.++.. ++..| ...|+ ++ ++.|++. +=..+.+.+..
T Consensus 80 ~~~~~~g~~~~l~~L~~~g~~~~i~S~~~~~~~~~~l--------~~~gl~~~f~~-i~~~~~~~~~Kp~p~~~~~~~~~ 150 (214)
T PRK13288 80 LVTEYETVYETLKTLKKQGYKLGIVTTKMRDTVEMGL--------KLTGLDEFFDV-VITLDDVEHAKPDPEPVLKALEL 150 (214)
T ss_pred hcccCcCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHH--------HHcCChhceeE-EEecCcCCCCCCCcHHHHHHHHH
Confidence 3344445 66778899999998889998864 22222 22233 33 3344442 11233333334
Q ss_pred cCC---eEEEecCC-CCchhhhhhh----ccccccchHH
Q 046085 166 RCL---KTGVAGYM-NDGTLKRIAD----RLKWAYNSEV 196 (230)
Q Consensus 166 r~l---~TVVVGd~-~~~aL~r~AD----~leW~~~~e~ 196 (230)
-|+ .+++|||+ +|-.-.+.|. ++.|.+.+..
T Consensus 151 ~~~~~~~~~~iGDs~~Di~aa~~aG~~~i~v~~g~~~~~ 189 (214)
T PRK13288 151 LGAKPEEALMVGDNHHDILAGKNAGTKTAGVAWTIKGRE 189 (214)
T ss_pred cCCCHHHEEEECCCHHHHHHHHHCCCeEEEEcCCCCCHH
Confidence 444 58999998 3333334444 6788865443
No 220
>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=66.89 E-value=12 Score=32.17 Aligned_cols=67 Identities=10% Similarity=-0.016 Sum_probs=42.9
Q ss_pred hhhhhhhhcEEEEEc-cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC
Q 046085 106 LVVKLKRVWFWVRTM-SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 106 La~eLrRAGv~VrtV-~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd 175 (230)
+...++..|+-+... .-.+...|. ...+.+++ +.+.+.|++.+++.+...+++.+++.|++.=++|-
T Consensus 156 ~~~~~~~~G~~~~~~~~~~~~~~d~--~~~~~~l~-~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~~~~~ 223 (336)
T cd06326 156 VEKALAARGLKPVATASYERNTADV--AAAVAQLA-AARPQAVIMVGAYKAAAAFIRALRKAGGGAQFYNL 223 (336)
T ss_pred HHHHHHHcCCCeEEEEeecCCcccH--HHHHHHHH-hcCCCEEEEEcCcHHHHHHHHHHHhcCCCCcEEEE
Confidence 445566666544322 222223343 23444445 35789888888888999999999999998755553
No 221
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=66.84 E-value=4.8 Score=34.30 Aligned_cols=75 Identities=8% Similarity=-0.067 Sum_probs=46.1
Q ss_pred CchhhhhhhhcEEEEEcc---ccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHH-------cCCeEEEe
Q 046085 104 YSLVVKLKRVWFWVRTMS---DKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATL-------RCLKTGVA 173 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~---dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARe-------r~l~TVVV 173 (230)
..|+..|+..|+.|..+. ..|...+. ..+.+.+.+.+++++++-|..+ ...++..... .+.+.|+|
T Consensus 131 ~~l~~~L~~~G~~v~~~~vY~~~~~~~~~---~~~~~~l~~~~~d~i~f~S~~~-~~~f~~~~~~~~~~~~l~~~~~v~I 206 (240)
T PRK09189 131 PVFEDRLAAAGIPFRVAECYDMLPVMYSP---ATLSAILGGAPFDAVLLYSRVA-ARRFFALMRLSIAPPADEKTRFLCL 206 (240)
T ss_pred chhHHHHHhCCCeeEEEEEEEeecCCCCh---HHHHHHHhcCCCCEEEEeCHHH-HHHHHHHHhhhcCcccccccCeEEe
Confidence 468999999998887443 12222111 2334555566799999888664 4455554432 35677899
Q ss_pred cCCCCchhh
Q 046085 174 GYMNDGTLK 182 (230)
Q Consensus 174 Gd~~~~aL~ 182 (230)
|..+-.+++
T Consensus 207 g~~ta~al~ 215 (240)
T PRK09189 207 SARVAAALP 215 (240)
T ss_pred CHHHHHHHh
Confidence 987544544
No 222
>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=66.77 E-value=23 Score=30.91 Aligned_cols=61 Identities=13% Similarity=0.017 Sum_probs=42.3
Q ss_pred hhhhhhhhcEEEEEccccch---HHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe
Q 046085 106 LVVKLKRVWFWVRTMSDKLQ---AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK 169 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpq---AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~ 169 (230)
+...|++.|+-|.....-|. +.| +...+..+. +.+.+.|++.++..+...+++.|++.|+.
T Consensus 155 ~~~~~~~~g~~v~~~~~~~~~~~~~d--~~~~l~~i~-~~~~dvvi~~~~~~~~~~~~~~a~~~g~~ 218 (350)
T cd06366 155 LVDALQEAGIEISYRAAFPPSANDDD--ITDALKKLK-EKDSRVIVVHFSPDLARRVFCEAYKLGMM 218 (350)
T ss_pred HHHHHHHcCCEEEEEeccCCCCChhH--HHHHHHHHh-cCCCeEEEEECChHHHHHHHHHHHHcCCc
Confidence 44667778877763322222 233 333444444 46789999999999999999999999995
No 223
>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=66.74 E-value=17 Score=28.25 Aligned_cols=42 Identities=12% Similarity=0.234 Sum_probs=27.9
Q ss_pred HHHHHHHhhc-CcceEEEEcCCcchHHHHHHHHHcCCe---EEEecC
Q 046085 133 NYMVDMMDKR-RFGCLVFVSDDSDFVEVLQEATLRCLK---TGVAGY 175 (230)
Q Consensus 133 ~~m~~~m~~r-~vdclvLVSDDSDF~~lLr~ARer~l~---TVVVGd 175 (230)
..+...+... +++.|++.+| .....+++.+++.|+. ..+||-
T Consensus 171 ~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~ 216 (269)
T cd01391 171 QALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGF 216 (269)
T ss_pred HHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEec
Confidence 3445556433 5677766666 8888999999999883 444443
No 224
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=66.72 E-value=16 Score=34.46 Aligned_cols=78 Identities=4% Similarity=-0.122 Sum_probs=52.0
Q ss_pred hhhhhhhhcEEEE-EccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEE-EecCCCC
Q 046085 106 LVVKLKRVWFWVR-TMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTG-VAGYMND 178 (230)
Q Consensus 106 La~eLrRAGv~Vr-tV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TV-VVGd~~~ 178 (230)
|..+|++.|...- .|.| +......+..++.+.+.+.|+...+. |..++... ..++.+|+.+...| .||.++.
T Consensus 40 l~~~~~~~g~~~~lvv~~-~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGGS~ 118 (395)
T PRK15454 40 CGQQAQTRGLKHLFVMAD-SFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGGSV 118 (395)
T ss_pred HHHHHHhcCCCEEEEEcC-cchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCChHH
Confidence 4566788774433 3444 44555567788999998889987776 66677666 66777888777654 4788754
Q ss_pred chhhhh
Q 046085 179 GTLKRI 184 (230)
Q Consensus 179 ~aL~r~ 184 (230)
-...+.
T Consensus 119 iD~AKa 124 (395)
T PRK15454 119 LDAAKA 124 (395)
T ss_pred HHHHHH
Confidence 444444
No 225
>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=66.71 E-value=14 Score=28.99 Aligned_cols=75 Identities=13% Similarity=-0.002 Sum_probs=44.1
Q ss_pred CchhhhhhhhcEEEEEccccchH-HHHHHHHHHHHHHhhcCcceE--EEEcCCc---------------------c----
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQA-ADVLLRNYMVDMMDKRRFGCL--VFVSDDS---------------------D---- 155 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqA-AD~AL~~~m~~~m~~r~vdcl--vLVSDDS---------------------D---- 155 (230)
..+-..|+..|+.+-.+|..+.. ....+. ..+++-+ ..||.+. .
T Consensus 78 ~~ll~~l~~~g~~~~i~S~~~~~~~~~~l~--------~~~l~~~f~~i~~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~ 149 (188)
T TIGR01489 78 KEFIAFIKEHGIDFIVISDGNDFFIDPVLE--------GIGEKDVFIEIYSNPASFDNDGRHIVWPHHCHGCCSCPCGCC 149 (188)
T ss_pred HHHHHHHHHcCCcEEEEeCCcHHHHHHHHH--------HcCChhheeEEeccCceECCCCcEEEecCCCCccCcCCCCCC
Confidence 45567888899988889988764 222221 1122111 1222111 1
Q ss_pred hHHHHHHHHHc-CCeEEEecCC-CCchhhhhhh
Q 046085 156 FVEVLQEATLR-CLKTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 156 F~~lLr~ARer-~l~TVVVGd~-~~~aL~r~AD 186 (230)
=..+++.+.+. .-+++.|||+ +|-...+.||
T Consensus 150 K~~~~~~~~~~~~~~~i~iGD~~~D~~aa~~~d 182 (188)
T TIGR01489 150 KGKVIHKLSEPKYQHIIYIGDGVTDVCPAKLSD 182 (188)
T ss_pred HHHHHHHHHhhcCceEEEECCCcchhchHhcCC
Confidence 13477777776 7889999999 6555566666
No 226
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=66.49 E-value=14 Score=33.38 Aligned_cols=67 Identities=16% Similarity=0.109 Sum_probs=47.3
Q ss_pred hhhhhhhcEEEEEc-cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 107 VVKLKRVWFWVRTM-SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 107 a~eLrRAGv~VrtV-~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
...++++|+-|-.. .=.+.+.|. -.++..+. ..+.|.|++.+...+++.+++.+++.|++.-++|-.
T Consensus 182 ~~~~~~~G~~v~~~~~~~~g~~D~--~~~v~~l~-~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~~~i~~~ 249 (369)
T PRK15404 182 KDGLKKAGANVVFFEGITAGDKDF--SALIAKLK-KENVDFVYYGGYHPEMGQILRQAREAGLKTQFMGPE 249 (369)
T ss_pred HHHHHHcCCEEEEEEeeCCCCCch--HHHHHHHH-hcCCCEEEECCCchHHHHHHHHHHHCCCCCeEEecC
Confidence 45677888877532 223345553 33444445 478999988888889999999999999997777664
No 227
>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=66.25 E-value=19 Score=30.81 Aligned_cols=79 Identities=15% Similarity=0.130 Sum_probs=52.7
Q ss_pred chhhhhhhhcEEEE-EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe---EEEecCC-CCc
Q 046085 105 SLVVKLKRVWFWVR-TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK---TGVAGYM-NDG 179 (230)
Q Consensus 105 gLa~eLrRAGv~Vr-tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~---TVVVGd~-~~~ 179 (230)
++...|+++|+.|- .+.-.|...|.. ..+.++. ..+.+.|+++++-++-..+++.++..|++ +.+.|.. .+.
T Consensus 154 ~~~~~~~~~G~~vv~~~~~~~~~~d~~--~~~~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (343)
T PF13458_consen 154 AFRKALEAAGGKVVGEIRYPPGDTDFS--ALVQQLK-SAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDA 230 (343)
T ss_dssp HHHHHHHHTTCEEEEEEEE-TTSSHHH--HHHHHHH-HTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSH
T ss_pred HHHHHHhhcCceeccceecccccccch--HHHHHHh-hcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcH
Confidence 56778889998862 333334445543 2333334 46899999999999999999999999998 3344443 445
Q ss_pred hhhhhhh
Q 046085 180 TLKRIAD 186 (230)
Q Consensus 180 aL~r~AD 186 (230)
.+.....
T Consensus 231 ~l~~~~~ 237 (343)
T PF13458_consen 231 SLQQLGG 237 (343)
T ss_dssp HHHHHHG
T ss_pred HHHHhhh
Confidence 5555544
No 228
>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=66.20 E-value=23 Score=32.80 Aligned_cols=80 Identities=10% Similarity=-0.059 Sum_probs=53.7
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcc---hHHHHHHHHHcCCeEEE-ecCCCCc
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSD---FVEVLQEATLRCLKTGV-AGYMNDG 179 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSD---F~~lLr~ARer~l~TVV-VGd~~~~ 179 (230)
|..+|++-|-.|-.|.++....-..+..++.+.+.+.|++..++ |.-++. -...++.+++.+...|| ||.++..
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 55666765656667777655544456678888887778876554 444544 44567888888888777 8988655
Q ss_pred hhhhhh
Q 046085 180 TLKRIA 185 (230)
Q Consensus 180 aL~r~A 185 (230)
...+.+
T Consensus 100 D~aK~i 105 (382)
T cd08187 100 DSAKAI 105 (382)
T ss_pred HHHHHH
Confidence 565554
No 229
>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=65.90 E-value=19 Score=32.91 Aligned_cols=79 Identities=9% Similarity=0.028 Sum_probs=50.8
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcch---HHHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDF---VEVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF---~~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|+.+|++.|. .|-.|.++ ...+......+.+.+...+++..++ |..++++ ..+++.+++.+...|| ||.++.
T Consensus 14 l~~~l~~~~~~~~lvv~~~-~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~ 92 (370)
T cd08551 14 LGEEIKNLGGRKALIVTDP-GLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGGSV 92 (370)
T ss_pred HHHHHHHcCCCeEEEEeCc-chhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCchH
Confidence 5667777663 34445664 3444566677888887778877665 4445554 4667777888888777 888854
Q ss_pred chhhhhh
Q 046085 179 GTLKRIA 185 (230)
Q Consensus 179 ~aL~r~A 185 (230)
....+.+
T Consensus 93 ~D~AK~v 99 (370)
T cd08551 93 LDTAKAI 99 (370)
T ss_pred HHHHHHH
Confidence 5555443
No 230
>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=65.68 E-value=24 Score=26.50 Aligned_cols=76 Identities=18% Similarity=0.211 Sum_probs=41.3
Q ss_pred hhcCCccC-CchhhhhhhhcEEEEEccccchH-HHHHHHHHHHHHHhhcCcceEEEEcCCcc--------hHHHHHHHHH
Q 046085 96 ATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQA-ADVLLRNYMVDMMDKRRFGCLVFVSDDSD--------FVEVLQEATL 165 (230)
Q Consensus 96 ~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqA-AD~AL~~~m~~~m~~r~vdclvLVSDDSD--------F~~lLr~ARe 165 (230)
..++|--| -.+-..|+..|+.+-.||..+.. .+..|...= + ..-++.++ .|+|.. |-.+++.+--
T Consensus 74 ~~~~~~~~~~~~L~~l~~~~~~~~i~Sn~~~~~~~~~l~~~~---~-~~~f~~i~-~~~~~~~~Kp~~~~~~~~~~~~~~ 148 (176)
T PF13419_consen 74 SKLQPYPGVRELLERLKAKGIPLVIVSNGSRERIERVLERLG---L-DDYFDEII-SSDDVGSRKPDPDAYRRALEKLGI 148 (176)
T ss_dssp GGEEESTTHHHHHHHHHHTTSEEEEEESSEHHHHHHHHHHTT---H-GGGCSEEE-EGGGSSSSTTSHHHHHHHHHHHTS
T ss_pred hccchhhhhhhhhhhcccccceeEEeecCCcccccccccccc---c-cccccccc-ccchhhhhhhHHHHHHHHHHHcCC
Confidence 44455544 44666788899999999998753 122222111 1 01255444 554433 3444444422
Q ss_pred cCCeEEEecCC
Q 046085 166 RCLKTGVAGYM 176 (230)
Q Consensus 166 r~l~TVVVGd~ 176 (230)
..-.+++|||.
T Consensus 149 ~p~~~~~vgD~ 159 (176)
T PF13419_consen 149 PPEEILFVGDS 159 (176)
T ss_dssp SGGGEEEEESS
T ss_pred CcceEEEEeCC
Confidence 33458999997
No 231
>PRK13222 phosphoglycolate phosphatase; Provisional
Probab=65.64 E-value=31 Score=28.10 Aligned_cols=101 Identities=17% Similarity=0.178 Sum_probs=54.9
Q ss_pred HHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHh-hcCcceEEEEcCC-----cc---hHH
Q 046085 89 TYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMD-KRRFGCLVFVSDD-----SD---FVE 158 (230)
Q Consensus 89 KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~-~r~vdclvLVSDD-----SD---F~~ 158 (230)
-|.........|--| ..+-..|+..|+.+-.+|..+.. ...++.+.+. ..-++. ++-+++ ++ |..
T Consensus 83 ~~~~~~~~~~~~~~g~~~~l~~l~~~g~~~~i~S~~~~~----~~~~~l~~~~l~~~f~~-~~~~~~~~~~kp~~~~~~~ 157 (226)
T PRK13222 83 HYAENVAGGSRLYPGVKETLAALKAAGYPLAVVTNKPTP----FVAPLLEALGIADYFSV-VIGGDSLPNKKPDPAPLLL 157 (226)
T ss_pred HHHHhccccCccCCCHHHHHHHHHHCCCeEEEEeCCCHH----HHHHHHHHcCCccCccE-EEcCCCCCCCCcChHHHHH
Confidence 355444333334334 55667788899999989988753 2222322221 112343 222322 12 333
Q ss_pred HHHHHHHcCCeEEEecCC-CCchhhhhhh----ccccccch
Q 046085 159 VLQEATLRCLKTGVAGYM-NDGTLKRIAD----RLKWAYNS 194 (230)
Q Consensus 159 lLr~ARer~l~TVVVGd~-~~~aL~r~AD----~leW~~~~ 194 (230)
+++...-..-++++|||. ++-...+.|+ ++.|.+..
T Consensus 158 ~~~~~~~~~~~~i~igD~~~Di~~a~~~g~~~i~v~~g~~~ 198 (226)
T PRK13222 158 ACEKLGLDPEEMLFVGDSRNDIQAARAAGCPSVGVTYGYNY 198 (226)
T ss_pred HHHHcCCChhheEEECCCHHHHHHHHHCCCcEEEECcCCCC
Confidence 444443334469999999 5555666666 77887763
No 232
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=65.55 E-value=28 Score=31.55 Aligned_cols=84 Identities=14% Similarity=0.076 Sum_probs=53.0
Q ss_pred CCcc--CCchhhhhhhhc-EEEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeE
Q 046085 99 TPKV--GYSLVVKLKRVW-FWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKT 170 (230)
Q Consensus 99 ~pkv--gygLa~eLrRAG-v~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~T 170 (230)
+|++ |.|...+|+..+ =.|-.|.| +...+.-+..++.+.+... +++.++ |..++.+. .++..+|+.+...
T Consensus 4 p~~i~~G~g~~~~l~~~~~~~~lvv~~-~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~ 81 (332)
T cd08180 4 KTKIYFGEDALERLKELKNKRVLIVTD-PFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDI 81 (332)
T ss_pred CCeEEECcCHHHHHHHhCCCeEEEEeC-chhhhCccHHHHHHHHHhc-CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCE
Confidence 4444 445556665432 23334555 4454544777888888644 666555 55567777 7788888999988
Q ss_pred EE-ecCCCCchhhhh
Q 046085 171 GV-AGYMNDGTLKRI 184 (230)
Q Consensus 171 VV-VGd~~~~aL~r~ 184 (230)
|| ||.++-....+.
T Consensus 82 IiaiGGGs~~D~aKa 96 (332)
T cd08180 82 VIALGGGSAIDAAKA 96 (332)
T ss_pred EEEECCchHHHHHHH
Confidence 88 898865555554
No 233
>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=65.24 E-value=10 Score=30.93 Aligned_cols=64 Identities=17% Similarity=0.168 Sum_probs=42.0
Q ss_pred ccCCchhhhhhhhcEEEEEcccc-chHHHHHHH-------HHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHc
Q 046085 101 KVGYSLVVKLKRVWFWVRTMSDK-LQAADVLLR-------NYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLR 166 (230)
Q Consensus 101 kvgygLa~eLrRAGv~VrtV~dK-pqAAD~AL~-------~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer 166 (230)
+||+-|+..|.++|+.|..|... +..++.|-. ..+.+.+ ...|.++|-..|+....+.......
T Consensus 20 rVG~~La~aL~~ag~~v~~v~srs~~sa~~a~~~~~~~~~~~~~~~~--~~aDlv~iavpDdaI~~va~~La~~ 91 (127)
T PF10727_consen 20 RVGTALARALARAGHEVVGVYSRSPASAERAAAFIGAGAILDLEEIL--RDADLVFIAVPDDAIAEVAEQLAQY 91 (127)
T ss_dssp CCCCHHHHHHHHTTSEEEEESSCHH-HHHHHHC--TT-----TTGGG--CC-SEEEE-S-CCHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHCCCeEEEEEeCCccccccccccccccccccccccc--ccCCEEEEEechHHHHHHHHHHHHh
Confidence 78999999999999999988554 434443322 1122333 4678888877777888888887765
No 234
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=65.21 E-value=21 Score=29.62 Aligned_cols=62 Identities=5% Similarity=-0.095 Sum_probs=42.4
Q ss_pred Cchhhhhhh-hcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKR-VWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrR-AGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++. .|+.+-.-+.. . ....++|..+++|.|++.+.+. .+++.+.+.+..+|.++..
T Consensus 18 ~gi~~~~~~~~g~~~~~~~~~-----~---~~~~~~l~~~~vdGiI~~~~~~---~~~~~l~~~~~PvV~~~~~ 80 (265)
T cd01543 18 RGIARYAREHGPWSIYLEPRG-----L---QEPLRWLKDWQGDGIIARIDDP---EMAEALQKLGIPVVDVSGS 80 (265)
T ss_pred HHHHHHHHhcCCeEEEEeccc-----c---hhhhhhccccccceEEEECCCH---HHHHHHhhCCCCEEEEeCc
Confidence 477788888 77777643321 1 3444556678999999876432 4567777889999999864
No 235
>PRK09492 treR trehalose repressor; Provisional
Probab=64.34 E-value=28 Score=29.73 Aligned_cols=67 Identities=9% Similarity=-0.026 Sum_probs=41.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++...|+.+-..+..-+ .....+..+.+..+++|.+++++.++.-...+ .+.+...|+|+..
T Consensus 82 ~~i~~~~~~~gy~~~~~~~~~~---~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~l---~~~~~pvv~i~~~ 148 (315)
T PRK09492 82 RTMLPAFYEQGYDPIIMESQFS---PEKVNEHLGVLKRRNVDGVILFGFTGITEEML---APWQDKLVLLARD 148 (315)
T ss_pred HHHHHHHHHcCCeEEEEecCCC---hHHHHHHHHHHHhcCCCEEEEeCCCcccHHHH---HhcCCCEEEEecc
Confidence 4778899999998875443222 12233444555578999999997433222333 3445678888753
No 236
>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=64.30 E-value=11 Score=32.09 Aligned_cols=33 Identities=6% Similarity=0.097 Sum_probs=26.4
Q ss_pred ceEEEEcCC------cchHHHHHHHHHcCCeEEEecCCC
Q 046085 145 GCLVFVSDD------SDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 145 dclvLVSDD------SDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
..+||++|| .+...+.+.+++.|+++.+||.++
T Consensus 133 kvvIllTDg~~~~~~~~~~~~a~~l~~~GI~i~tVGiG~ 171 (193)
T cd01477 133 KVVIVFASDYNDEGSNDPRPIAARLKSTGIAIITVAFTQ 171 (193)
T ss_pred eEEEEEecCccCCCCCCHHHHHHHHHHCCCEEEEEEeCC
Confidence 558999974 267888999999999987777764
No 237
>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=64.30 E-value=13 Score=32.39 Aligned_cols=67 Identities=19% Similarity=0.140 Sum_probs=46.1
Q ss_pred hhhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecC
Q 046085 106 LVVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGY 175 (230)
Q Consensus 106 La~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd 175 (230)
+...|+++|+.|-.... .+.+.|.. ..+.+++ ..+.|.|++.+...+.+.+++.+++.|+ +..++|-
T Consensus 155 ~~~~~~~~G~~vv~~~~~~~~~~d~~--~~v~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 224 (334)
T cd06327 155 ARKVVKANGGKVVGSVRHPLGTSDFS--SYLLQAQ-ASGADVLVLANAGADTVNAIKQAAEFGLTKGQKLAGL 224 (334)
T ss_pred HHHHHHhcCCEEcCcccCCCCCccHH--HHHHHHH-hCCCCEEEEeccchhHHHHHHHHHHhCCccCCcEEEe
Confidence 44567778877642222 22244433 4555556 4789999999999999999999999999 4555554
No 238
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=64.26 E-value=2.2 Score=30.53 Aligned_cols=25 Identities=20% Similarity=0.296 Sum_probs=0.0
Q ss_pred ccccCCCcccCchHHHHHHHHHhHHH
Q 046085 35 VIVEGDLRLYNNDKLVNHFKQIHKRE 60 (230)
Q Consensus 35 C~VCGdrkf~t~~kL~kHFkqlHeRE 60 (230)
|.+|+ ..|.+...|+.|....|.-.
T Consensus 2 C~~C~-~~f~~~~~l~~H~~~~H~~~ 26 (100)
T PF12756_consen 2 CLFCD-ESFSSVDDLLQHMKKKHGFD 26 (100)
T ss_dssp --------------------------
T ss_pred ccccc-cccccccccccccccccccc
Confidence 99999 99999999999999888643
No 239
>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=63.63 E-value=28 Score=28.18 Aligned_cols=103 Identities=17% Similarity=0.089 Sum_probs=52.3
Q ss_pred hHHHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccchH-HHHHHHHHHHHHHhhcCcceEEEEcCCc-----chHHH
Q 046085 87 METYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQA-ADVLLRNYMVDMMDKRRFGCLVFVSDDS-----DFVEV 159 (230)
Q Consensus 87 ~~KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqA-AD~AL~~~m~~~m~~r~vdclvLVSDDS-----DF~~l 159 (230)
.+.|.....+.+.|-.| -.+-..|+..|+.+-.+|..+.. +...|...= + ..-++. +..|++. +-..+
T Consensus 73 ~~~~~~~~~~~~~~~~g~~~~L~~l~~~g~~~~i~S~~~~~~~~~~l~~~~---l-~~~f~~-~~~~~~~~~~Kp~p~~~ 147 (213)
T TIGR01449 73 DRHYEEVAGELTSVFPGVEATLGALRAKGLRLGLVTNKPTPLARPLLELLG---L-AKYFSV-LIGGDSLAQRKPHPDPL 147 (213)
T ss_pred HHHHHHhccccCccCCCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcC---c-HhhCcE-EEecCCCCCCCCChHHH
Confidence 34454443333444444 33556788899988888887753 222222110 1 011343 3344432 22233
Q ss_pred HHHHHHcC---CeEEEecCC-CCchhhhhhh----ccccccch
Q 046085 160 LQEATLRC---LKTGVAGYM-NDGTLKRIAD----RLKWAYNS 194 (230)
Q Consensus 160 Lr~ARer~---l~TVVVGd~-~~~aL~r~AD----~leW~~~~ 194 (230)
.+.+..-| -.+++|||+ ++-.-.+.|. ++.|.+..
T Consensus 148 ~~~~~~~~~~~~~~~~igDs~~d~~aa~~aG~~~i~v~~g~~~ 190 (213)
T TIGR01449 148 LLAAERLGVAPQQMVYVGDSRVDIQAARAAGCPSVLLTYGYRY 190 (213)
T ss_pred HHHHHHcCCChhHeEEeCCCHHHHHHHHHCCCeEEEEccCCCC
Confidence 33344444 468999998 4333444555 66776653
No 240
>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=63.49 E-value=15 Score=32.04 Aligned_cols=65 Identities=9% Similarity=-0.086 Sum_probs=43.7
Q ss_pred hhhhhhhcEEEEE-ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEec
Q 046085 107 VVKLKRVWFWVRT-MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAG 174 (230)
Q Consensus 107 a~eLrRAGv~Vrt-V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVG 174 (230)
...+++.|+-|.. +.-.+.+.|.. ..+.++. ..+.+.|++.+...+...+++.+++.|++.-.+|
T Consensus 165 ~~~~~~~G~~vv~~~~~~~~~~d~~--~~v~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~ 230 (344)
T cd06345 165 KALLPEAGLEVVSVERFSPDTTDFT--PILQQIK-AADPDVIIAGFSGNVGVLFTQQWAEQKVPIPTIG 230 (344)
T ss_pred HHHHHHcCCeEEEEEecCCCCCchH--HHHHHHH-hcCCCEEEEeecCchHHHHHHHHHHcCCCCceEE
Confidence 4567777877653 22333334422 3333334 5789999999999999999999999998653433
No 241
>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=63.42 E-value=54 Score=23.66 Aligned_cols=54 Identities=7% Similarity=-0.025 Sum_probs=29.5
Q ss_pred EEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEE
Q 046085 116 WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTG 171 (230)
Q Consensus 116 ~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TV 171 (230)
.|-+|.++ +..-..+..++.+.|.+.|+.+.+-- .+..+..-++.|...|...+
T Consensus 3 ~Ii~~~~~-~~~~~~~a~~l~~~L~~~gi~v~~d~-~~~~~~k~~~~a~~~g~p~~ 56 (94)
T PF03129_consen 3 VIIPVGKK-DEEIIEYAQELANKLRKAGIRVELDD-SDKSLGKQIKYADKLGIPFI 56 (94)
T ss_dssp EEEESSCS-HHHHHHHHHHHHHHHHHTTSEEEEES-SSSTHHHHHHHHHHTTESEE
T ss_pred EEEEeCCC-cHHHHHHHHHHHHHHHHCCCEEEEEC-CCCchhHHHHHHhhcCCeEE
Confidence 34445543 22223444555555655665555555 55666666666666666644
No 242
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=63.41 E-value=21 Score=25.11 Aligned_cols=57 Identities=21% Similarity=0.102 Sum_probs=38.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHH-----HHHHHHHcCCeEEEe
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVE-----VLQEATLRCLKTGVA 173 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~-----lLr~ARer~l~TVVV 173 (230)
|.++..|++.|+.|+++.. |.. +|. ..-.++++++.+..+.+ -|...-++|=+.||+
T Consensus 8 ~a~~~~L~~~g~~v~~~~~-~~~---~l~---------~~~~tll~i~~~~~~~~~~~~~~l~~~v~~G~~lvl~ 69 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK-PYE---ALE---------ADDGTLLVIGPDLRLSEPEEAEALLEWVEAGNTLVLA 69 (70)
T ss_pred HHHHHHHHHCCCeeEEecc-cHH---HhC---------CCCCEEEEEeCCCCCCchHHHHHHHHHHHcCCEEEEe
Confidence 5678899999999996555 522 332 25568999998866653 444445588665554
No 243
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=63.25 E-value=18 Score=34.25 Aligned_cols=61 Identities=16% Similarity=0.171 Sum_probs=43.7
Q ss_pred hcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHH---HHHHHHHcCCeEEEecCCCCchhh
Q 046085 113 VWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVE---VLQEATLRCLKTGVAGYMNDGTLK 182 (230)
Q Consensus 113 AGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~---lLr~ARer~l~TVVVGd~~~~aL~ 182 (230)
|-..|-.|| -|.|||.+ +++++ .++.++|++|+.----| +.+.|+++| +.+||-.+++.+.
T Consensus 66 a~~svI~Vp-~~~aadai-----~EAid-a~i~liv~ITEgIP~~D~~~~~~~a~~~g--~~iiGPncpGiI~ 129 (293)
T COG0074 66 ANASVIFVP-PPFAADAI-----LEAID-AGIKLVVIITEGIPVLDMLELKRYAREKG--TRLIGPNCPGIIT 129 (293)
T ss_pred CCEEEEecC-cHHHHHHH-----HHHHh-CCCcEEEEEeCCCCHHHHHHHHHHHHhcC--CEEECCCCCccCc
Confidence 555566555 36687764 56785 89999999999865554 556667777 8889988777654
No 244
>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=63.09 E-value=27 Score=30.92 Aligned_cols=52 Identities=27% Similarity=0.245 Sum_probs=23.2
Q ss_pred HHHHHHhhcCcceEEEEc-CCcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 134 YMVDMMDKRRFGCLVFVS-DDSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 134 ~m~~~m~~r~vdclvLVS-DDSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
++.+.|...+++.-+..+ ..-+-..+.+++.+.+..+||+..+ ||++..+++
T Consensus 18 ~~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vv~~GG-DGTi~ev~n 70 (293)
T TIGR03702 18 EAVGDLRDEGIQLHVRVTWEKGDAQRYVAEALALGVSTVIAGGG-DGTLREVAT 70 (293)
T ss_pred HHHHHHHHCCCeEEEEEecCCCCHHHHHHHHHHcCCCEEEEEcC-ChHHHHHHH
Confidence 333344444454333222 2244455555554444444444443 445555554
No 245
>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=63.06 E-value=29 Score=32.05 Aligned_cols=78 Identities=14% Similarity=0.012 Sum_probs=50.6
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..+|++.|. .|-.|.|+ .....-+..++.+.+...|++..++ |..++.+. .+++.+|+.+...|| ||.++.
T Consensus 14 l~~~~~~~~~~r~livt~~-~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~ 92 (375)
T cd08194 14 TGAVLADLGGKRPLIVTDK-VMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGGSP 92 (375)
T ss_pred HHHHHHHcCCCeEEEEcCc-chhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchH
Confidence 4556665542 34456663 4444446677888897778887665 55666665 566777788888777 888864
Q ss_pred chhhhh
Q 046085 179 GTLKRI 184 (230)
Q Consensus 179 ~aL~r~ 184 (230)
....+.
T Consensus 93 ~D~AKa 98 (375)
T cd08194 93 IDTAKA 98 (375)
T ss_pred HHHHHH
Confidence 555544
No 246
>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=62.95 E-value=11 Score=29.96 Aligned_cols=32 Identities=25% Similarity=0.317 Sum_probs=23.9
Q ss_pred cCcceEEEEcC---CcchHHHHHHHHHcCCeEEEe
Q 046085 142 RRFGCLVFVSD---DSDFVEVLQEATLRCLKTGVA 173 (230)
Q Consensus 142 r~vdclvLVSD---DSDF~~lLr~ARer~l~TVVV 173 (230)
+.=|+|+.+|. .+.-.++++.||++|++||.|
T Consensus 102 ~~gDvli~iS~SG~s~~vi~a~~~Ak~~G~~vIal 136 (138)
T PF13580_consen 102 RPGDVLIVISNSGNSPNVIEAAEEAKERGMKVIAL 136 (138)
T ss_dssp -TT-EEEEEESSS-SHHHHHHHHHHHHTT-EEEEE
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEE
Confidence 34599999987 355677899999999999987
No 247
>PRK11382 frlB fructoselysine-6-P-deglycase; Provisional
Probab=62.93 E-value=13 Score=33.97 Aligned_cols=42 Identities=17% Similarity=0.147 Sum_probs=35.2
Q ss_pred ceEEEEcC---CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 145 GCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+++|.+|- ..|-..+++.|+++|.+||.|-...+-.|.+.||
T Consensus 94 ~lvI~iS~SGeT~e~i~al~~ak~~Ga~~I~IT~~~~S~L~~~ad 138 (340)
T PRK11382 94 CAVIGVSDYGKTEEVIKALELGRACGALTAAFTKRADSPITSAAE 138 (340)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCC
Confidence 56777763 4678899999999999999997765679999999
No 248
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=62.90 E-value=44 Score=29.14 Aligned_cols=68 Identities=7% Similarity=-0.044 Sum_probs=40.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe-EEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK-TGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~-TVVVGd~ 176 (230)
.|+..++...|+.+-.... ... ..-..++.+.|...++|.|++++.+.+... +..+.+ +.. +|+|+..
T Consensus 79 ~gi~~~~~~~g~~~~~~~~-~~~--~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~-~~~~~~-~~p~vV~i~~~ 147 (343)
T PRK10727 79 KAVEQVAYHTGNFLLIGNG-YHN--EQKERQAIEQLIRHRCAALVVHAKMIPDAE-LASLMK-QIPGMVLINRI 147 (343)
T ss_pred HHHHHHHHHcCCEEEEEeC-CCC--HHHHHHHHHHHHhcCCCEEEEecCCCChHH-HHHHHh-cCCCEEEEecC
Confidence 4677888999988864332 221 122233444444689999999975433322 333333 666 7888754
No 249
>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=62.85 E-value=38 Score=30.28 Aligned_cols=62 Identities=5% Similarity=-0.112 Sum_probs=45.8
Q ss_pred hhhhhhhhcEEEEE---ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE
Q 046085 106 LVVKLKRVWFWVRT---MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 106 La~eLrRAGv~Vrt---V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T 170 (230)
+...|+.+|+.|-. ++-.|.+.|.+ .++..+. +.+.|.|++.+...+.+.+++.+++.|+..
T Consensus 152 ~~~~~~~~G~~vv~~~~~~~~~~~~d~s--~~v~~l~-~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~ 216 (360)
T cd06357 152 MRDLLEQRGGEVLGERYLPLGASDEDFA--RIVEEIR-EAQPDFIFSTLVGQSSYAFYRAYAAAGFDP 216 (360)
T ss_pred HHHHHHHcCCEEEEEEEecCCCchhhHH--HHHHHHH-HcCCCEEEEeCCCCChHHHHHHHHHcCCCc
Confidence 45667777887642 34444577764 4444445 578999999999999999999999999983
No 250
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=62.44 E-value=4.3 Score=27.68 Aligned_cols=27 Identities=19% Similarity=0.241 Sum_probs=21.8
Q ss_pred CcccccccCCCcccCc-----hHHHHHHHHHhH
Q 046085 31 PYVLVIVEGDLRLYNN-----DKLVNHFKQIHK 58 (230)
Q Consensus 31 py~~C~VCGdrkf~t~-----~kL~kHFkqlHe 58 (230)
|++.|..|| ..+... ..|.+|.+..|.
T Consensus 17 ~~a~C~~C~-~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 17 QRAKCKYCG-KKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred eEEEecCCC-CEeeeCCCCCcHHHHHHHHhHCc
Confidence 788999999 766544 589999997774
No 251
>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=62.34 E-value=37 Score=28.05 Aligned_cols=72 Identities=7% Similarity=0.082 Sum_probs=45.7
Q ss_pred hhhhhhhhcEEEEEccccchHH-----HHHHHHHHHHHHhhcCcceEEEEcCCcc-h----HHHHHHHHH-cC-----Ce
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAA-----DVLLRNYMVDMMDKRRFGCLVFVSDDSD-F----VEVLQEATL-RC-----LK 169 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAA-----D~AL~~~m~~~m~~r~vdclvLVSDDSD-F----~~lLr~ARe-r~-----l~ 169 (230)
+-..|+.+|+.+=.+|.+|..+ -.++...+..++...|+...+.++.+.. . .+++..|.+ -| =.
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 4467788999999999988742 2345556666777777765444443332 2 235555544 34 24
Q ss_pred EEEecCCC
Q 046085 170 TGVAGYMN 177 (230)
Q Consensus 170 TVVVGd~~ 177 (230)
+++|||..
T Consensus 130 ~v~VGD~~ 137 (166)
T TIGR01664 130 SFYVGDAA 137 (166)
T ss_pred cEEEECCC
Confidence 99999973
No 252
>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=62.32 E-value=15 Score=25.57 Aligned_cols=62 Identities=10% Similarity=-0.018 Sum_probs=38.8
Q ss_pred hhhhhhhh-cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---cchHHHHHHHHHcCCeEEEec
Q 046085 106 LVVKLKRV-WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAG 174 (230)
Q Consensus 106 La~eLrRA-Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVG 174 (230)
+...|.+. |+.|..+++ +.. - +......-..=|+++++|-. .+-..+++.|+++|.++|+|-
T Consensus 16 ~~~~l~~~~~~~~~~~~~-~~~---~---~~~~~~~~~~~d~~i~iS~sg~t~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 16 FALELLELTGIEVVALIA-TEL---E---HASLLSLLRKGDVVIALSYSGRTEELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred HHHHHhcccCCceEEeCC-cHH---H---HHHHHhcCCCCCEEEEEECCCCCHHHHHHHHHHHHcCCeEEEEe
Confidence 34455566 888876654 111 1 11111111345888888854 567778999999999999875
No 253
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=62.17 E-value=43 Score=28.33 Aligned_cols=68 Identities=10% Similarity=0.062 Sum_probs=42.5
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC-eEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL-KTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l-~TVVVGd~ 176 (230)
.|+..+++..|+.+.+..... |.....++.+.+...++|.|++.+.+.++..... .+.+. .+|++|..
T Consensus 55 ~gi~~~~~~~g~~~~~~~~~~---~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~~--~~~~~~pvv~~~~~ 123 (309)
T PRK11041 55 RGIEVTAAEHGYLVLIGDCAH---QNQQEKTFVNLIITKQIDGMLLLGSRLPFDASKE--EQRNLPPMVMANEF 123 (309)
T ss_pred HHHHHHHHHCCCEEEEEeCCC---ChHHHHHHHHHHHHcCCCEEEEecCCCChHHHHH--HHhcCCCEEEEccc
Confidence 478888888998887543222 3344445555555789999999876655442222 23444 56777754
No 254
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=61.86 E-value=46 Score=28.12 Aligned_cols=100 Identities=13% Similarity=0.144 Sum_probs=52.0
Q ss_pred HHHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHh-hcCcceEEEEcCCcc---------h
Q 046085 88 ETYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMD-KRRFGCLVFVSDDSD---------F 156 (230)
Q Consensus 88 ~KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~-~r~vdclvLVSDDSD---------F 156 (230)
+.|+......++|--| ..+-..|+..|+.+-.+|.++..- ...+++.+. ..-++ +.+++++. |
T Consensus 84 ~~~~~~~~~~~~~~pg~~~~L~~L~~~g~~l~i~Tn~~~~~----~~~~l~~~~l~~~f~--~i~~~~~~~~~KP~p~~~ 157 (229)
T PRK13226 84 QRYEALIGTQSQLFDGVEGMLQRLECAGCVWGIVTNKPEYL----ARLILPQLGWEQRCA--VLIGGDTLAERKPHPLPL 157 (229)
T ss_pred HHHHHhhhhcCeeCCCHHHHHHHHHHCCCeEEEECCCCHHH----HHHHHHHcCchhccc--EEEecCcCCCCCCCHHHH
Confidence 4454433334455545 567789999999998999987641 122222220 01122 23343321 3
Q ss_pred HHHHHHHHHcCCeEEEecCC-CCchhhhhhh----ccccccc
Q 046085 157 VEVLQEATLRCLKTGVAGYM-NDGTLKRIAD----RLKWAYN 193 (230)
Q Consensus 157 ~~lLr~ARer~l~TVVVGd~-~~~aL~r~AD----~leW~~~ 193 (230)
..+++...-.--.+++|||. ++-.-.+.|- .+.|.+.
T Consensus 158 ~~~~~~l~~~p~~~l~IGDs~~Di~aA~~aG~~~i~v~~g~~ 199 (229)
T PRK13226 158 LVAAERIGVAPTDCVYVGDDERDILAARAAGMPSVAALWGYR 199 (229)
T ss_pred HHHHHHhCCChhhEEEeCCCHHHHHHHHHCCCcEEEEeecCC
Confidence 34443333233458999998 3333334444 4567764
No 255
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=61.77 E-value=3.7 Score=35.59 Aligned_cols=85 Identities=13% Similarity=0.070 Sum_probs=0.0
Q ss_pred hcCCcc-CCchhhhhhhhcEEEE---EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCc--chHHHHHHHHH--cCC
Q 046085 97 TLTPKV-GYSLVVKLKRVWFWVR---TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS--DFVEVLQEATL--RCL 168 (230)
Q Consensus 97 vl~pkv-gygLa~eLrRAGv~Vr---tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS--DF~~lLr~ARe--r~l 168 (230)
++.|+- +..|+..|+..|+.|- ++.=.|...+..+...+.+.- .+||||++|-+. -|...|+.+.- +++
T Consensus 8 vTRp~~~~~~l~~~l~~~G~~~~~~P~i~i~p~~~~~~~~~~l~~l~---~~d~iifTS~naV~~~~~~l~~~~~~~~~~ 84 (255)
T PRK05752 8 LTRPAEECAALAASLAEAGIFSSSLPLLAIEPLPETPEQRALLLELD---RYCAVIVVSKPAARLGLELLDRYWPQPPQQ 84 (255)
T ss_pred ECCcHHHHHHHHHHHHHcCCCEEEcCcEEEeeCCCCHHHHHHHhcCC---CCCEEEEECHHHHHHHHHHHHhhCCCCcCC
Q ss_pred eEEEecCCCCchhhhh
Q 046085 169 KTGVAGYMNDGTLKRI 184 (230)
Q Consensus 169 ~TVVVGd~~~~aL~r~ 184 (230)
+.+.||..|..+|..+
T Consensus 85 ~~~aVG~~Ta~al~~~ 100 (255)
T PRK05752 85 PWFSVGAATAAILQDY 100 (255)
T ss_pred EEEEECHHHHHHHHHc
No 256
>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=61.22 E-value=5.7 Score=25.90 Aligned_cols=28 Identities=18% Similarity=0.154 Sum_probs=19.2
Q ss_pred CCCcccccccCCCcccC----chHHHHHHHHHh
Q 046085 29 AEPYVLVIVEGDLRLYN----NDKLVNHFKQIH 57 (230)
Q Consensus 29 ~epy~~C~VCGdrkf~t----~~kL~kHFkqlH 57 (230)
..+++.|.+|+ ..+.. -..|.+|.+..|
T Consensus 13 ~~~~a~C~~C~-~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 13 DKKKAKCKYCG-KVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp CSS-EEETTTT-EE-----SSTHHHHHHHHHTT
T ss_pred CcCeEEeCCCC-eEEeeCCCcHHHHHHhhhhhC
Confidence 35667999999 75554 368999998777
No 257
>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=61.19 E-value=27 Score=32.35 Aligned_cols=78 Identities=13% Similarity=0.132 Sum_probs=51.5
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..+|++.|. .|=.|.|+ ......+..++.+.+...++++.++ |..++.+. .+++.+++.+...|| ||.++-
T Consensus 19 l~~~l~~~g~~~~lvv~~~-~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS~ 97 (377)
T cd08176 19 IGDELKNLGFKKALIVTDK-GLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGGSP 97 (377)
T ss_pred HHHHHHHhCCCeEEEECCc-hHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcHH
Confidence 5667787774 34456664 4433467778888887778887665 44466665 556667788888777 888854
Q ss_pred chhhhh
Q 046085 179 GTLKRI 184 (230)
Q Consensus 179 ~aL~r~ 184 (230)
....+.
T Consensus 98 iD~aK~ 103 (377)
T cd08176 98 HDCAKA 103 (377)
T ss_pred HHHHHH
Confidence 444443
No 258
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=60.75 E-value=16 Score=31.64 Aligned_cols=44 Identities=20% Similarity=0.232 Sum_probs=36.3
Q ss_pred CcceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhh---hh
Q 046085 143 RFGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRI---AD 186 (230)
Q Consensus 143 ~vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~---AD 186 (230)
.=|+++.+|.. .+-..+++.|+++|++||+|-...+..|.+. ||
T Consensus 109 ~gDvli~iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~~s~l~~l~~~~D 158 (196)
T PRK10886 109 AGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDGGELAGLLGPQD 158 (196)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCChhhhccccCC
Confidence 44888888875 3566778899999999999998877889997 68
No 259
>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=60.65 E-value=24 Score=32.70 Aligned_cols=77 Identities=14% Similarity=0.126 Sum_probs=52.4
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchHH---HHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFVE---VLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~~---lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..+|++.|. .|=.|.|+ ......+..++...+...++++.++ |..++.... +++.+++.+...|| ||.++.
T Consensus 20 l~~~l~~~g~~r~lvvt~~-~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGGSv 98 (379)
T TIGR02638 20 IVDEVKRRGFKKALVVTDK-DLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGGSP 98 (379)
T ss_pred HHHHHHhcCCCEEEEEcCc-chhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChHH
Confidence 5566777774 44456674 4444457788888887778887776 555566655 67778888888777 888854
Q ss_pred chhhh
Q 046085 179 GTLKR 183 (230)
Q Consensus 179 ~aL~r 183 (230)
....+
T Consensus 99 iD~aK 103 (379)
T TIGR02638 99 IDTAK 103 (379)
T ss_pred HHHHH
Confidence 44443
No 260
>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=60.15 E-value=41 Score=30.88 Aligned_cols=75 Identities=15% Similarity=0.015 Sum_probs=46.9
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..+|++-|. .|-.|.|+-.. ....+.+.+.+.+++..++ |..++.+. .+++.+++.+...|| ||+++.
T Consensus 14 l~~~~~~~g~~~~livtd~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGs~ 89 (367)
T cd08182 14 LPSLLKGLGGKRVLLVTGPRSA----IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGGSV 89 (367)
T ss_pred HHHHHHhcCCCeEEEEeCchHH----HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCcHH
Confidence 3455566553 34456665544 3345666676677776665 55565555 567788888888877 888854
Q ss_pred chhhhh
Q 046085 179 GTLKRI 184 (230)
Q Consensus 179 ~aL~r~ 184 (230)
....+.
T Consensus 90 ~D~aK~ 95 (367)
T cd08182 90 LDTAKA 95 (367)
T ss_pred HHHHHH
Confidence 445544
No 261
>PRK13478 phosphonoacetaldehyde hydrolase; Provisional
Probab=60.07 E-value=1.1e+02 Score=26.32 Aligned_cols=101 Identities=12% Similarity=-0.022 Sum_probs=54.6
Q ss_pred HHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCc-ceEEEEcCCc-----chHHHHH
Q 046085 89 TYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRF-GCLVFVSDDS-----DFVEVLQ 161 (230)
Q Consensus 89 KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~v-dclvLVSDDS-----DF~~lLr 161 (230)
.|.....+.+.|--| -.+-..|+..|+.+=.+|.++... ...+++.+.-.+. .-.++.||+. +=..++.
T Consensus 91 ~~~~~~~~~~~~~pg~~elL~~L~~~g~~l~I~T~~~~~~----~~~~l~~~~l~~~~~d~i~~~~~~~~~KP~p~~~~~ 166 (267)
T PRK13478 91 LQIAKLADYATPIPGVLEVIAALRARGIKIGSTTGYTREM----MDVVVPLAAAQGYRPDHVVTTDDVPAGRPYPWMALK 166 (267)
T ss_pred HHHHHHhhcCCCCCCHHHHHHHHHHCCCEEEEEcCCcHHH----HHHHHHHHhhcCCCceEEEcCCcCCCCCCChHHHHH
Confidence 333333333444434 446678899999999899888741 1222222211122 1234445542 3344566
Q ss_pred HHHHcCC----eEEEecCC-CCchhhhhhh----ccccccc
Q 046085 162 EATLRCL----KTGVAGYM-NDGTLKRIAD----RLKWAYN 193 (230)
Q Consensus 162 ~ARer~l----~TVVVGd~-~~~aL~r~AD----~leW~~~ 193 (230)
.+++-|+ .+++|||+ ++-.-.+.|- .+.|.+.
T Consensus 167 a~~~l~~~~~~e~l~IGDs~~Di~aA~~aG~~~i~v~~g~~ 207 (267)
T PRK13478 167 NAIELGVYDVAACVKVDDTVPGIEEGLNAGMWTVGVILSGN 207 (267)
T ss_pred HHHHcCCCCCcceEEEcCcHHHHHHHHHCCCEEEEEccCcc
Confidence 6666675 37999998 4333334444 6677765
No 262
>COG4634 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=60.06 E-value=10 Score=31.49 Aligned_cols=49 Identities=24% Similarity=0.228 Sum_probs=32.4
Q ss_pred chhhhhhhhcEEEEEccccc--hHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHH
Q 046085 105 SLVVKLKRVWFWVRTMSDKL--QAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVL 160 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKp--qAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lL 160 (230)
-||+-|--+|+.---+++-+ +|.|.-.+.. .+.+-.|+||-||||+++.
T Consensus 12 rlad~l~~~g~e~~h~r~lg~~da~D~EI~a~-------A~~~~~iivTkDsDF~~la 62 (113)
T COG4634 12 RLADWLPMAGIEAVHWRDLGLRDATDIEIWAY-------ARRNNRIIVTKDSDFADLA 62 (113)
T ss_pred HHHHHhhhcccceeeecccCcCCCccHHHHHH-------HHhcCcEEEEcCccHHHHH
Confidence 36777788885544455555 3657644332 2567789999999996654
No 263
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=60.03 E-value=21 Score=29.86 Aligned_cols=41 Identities=20% Similarity=0.250 Sum_probs=31.0
Q ss_pred eEEEEcCCc-----chHHHHHHHHHcCCeEEEecCCC-Cchhhhhhh
Q 046085 146 CLVFVSDDS-----DFVEVLQEATLRCLKTGVAGYMN-DGTLKRIAD 186 (230)
Q Consensus 146 clvLVSDDS-----DF~~lLr~ARer~l~TVVVGd~~-~~aL~r~AD 186 (230)
.|+|+||-+ ++..+++.+++.|++..+||-++ ...|++.|.
T Consensus 110 iiil~sd~~~~~~~~~~~~~~~l~~~~I~v~~IgiG~~~~~L~~ia~ 156 (183)
T cd01453 110 VLIIFSSLSTCDPGNIYETIDKLKKENIRVSVIGLSAEMHICKEICK 156 (183)
T ss_pred EEEEEcCCCcCChhhHHHHHHHHHHcCcEEEEEEechHHHHHHHHHH
Confidence 577777633 45678999999999998888763 346899998
No 264
>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=59.89 E-value=52 Score=26.44 Aligned_cols=43 Identities=14% Similarity=0.101 Sum_probs=28.9
Q ss_pred HHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 134 YMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 134 ~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
.+..++....--..+++++|.....+++.+++.|+ ..-|||-.
T Consensus 171 ~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~~~i~ivg~d 215 (267)
T cd01536 171 AMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRKGDVKIVGVD 215 (267)
T ss_pred HHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCCCCceEEecC
Confidence 33444432222346788888899999999999997 45566554
No 265
>cd01467 vWA_BatA_type VWA BatA 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=59.72 E-value=44 Score=26.45 Aligned_cols=48 Identities=10% Similarity=0.124 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhh--cCcceEEEEcCCc------chHHHHHHHHHcCCeEEEecCCC
Q 046085 129 VLLRNYMVDMMDK--RRFGCLVFVSDDS------DFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 129 ~AL~~~m~~~m~~--r~vdclvLVSDDS------DF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.||. .+.+++.+ .+-..|+|+||-. ....+.+.++++|+...+||-++
T Consensus 87 ~al~-~a~~~l~~~~~~~~~iiliTDG~~~~g~~~~~~~~~~~~~~gi~i~~i~ig~ 142 (180)
T cd01467 87 DAIG-LAIKRLKNSEAKERVIVLLTDGENNAGEIDPATAAELAKNKGVRIYTIGVGK 142 (180)
T ss_pred HHHH-HHHHHHHhcCCCCCEEEEEeCCCCCCCCCCHHHHHHHHHHCCCEEEEEEecC
Confidence 3444 34444532 2336799999842 24456777888888777666653
No 266
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=59.69 E-value=60 Score=24.19 Aligned_cols=65 Identities=12% Similarity=0.034 Sum_probs=38.6
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHH---HHHHHHcC--CeEEEecCC
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEV---LQEATLRC--LKTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~l---Lr~ARer~--l~TVVVGd~ 176 (230)
++..|+++|+.|..+...... ..+.+. +...+.+.+++=+....+... +..++++. =..+|+|..
T Consensus 19 ~~~~l~~~G~~v~~l~~~~~~--~~~~~~----i~~~~pdiV~iS~~~~~~~~~~~~~~~~~~~~p~~~~ivvGG~ 88 (125)
T cd02065 19 VAIALRDNGFEVIDLGVDVPP--EEIVEA----AKEEDADVVGLSALSTTHMEAMKLVIEALKELGIDIPVVVGGA 88 (125)
T ss_pred HHHHHHHCCCEEEEcCCCCCH--HHHHHH----HHHcCCCEEEEecchHhHHHHHHHHHHHHHhcCCCCeEEEeCC
Confidence 466799999999977432222 233333 334688888777776665433 34555544 255666665
No 267
>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=59.69 E-value=25 Score=31.39 Aligned_cols=67 Identities=9% Similarity=0.039 Sum_probs=42.3
Q ss_pred hhhhhhc--EEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEE----EecC
Q 046085 108 VKLKRVW--FWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTG----VAGY 175 (230)
Q Consensus 108 ~eLrRAG--v~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TV----VVGd 175 (230)
..+++.| +-|....-.+...+.-....+.++- +.+.+.|+|.+...+-..+++.|++.|+.+- ++|+
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 4456667 5555321111111223333443334 4678999999999999999999999998864 5554
No 268
>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=59.63 E-value=31 Score=30.87 Aligned_cols=77 Identities=16% Similarity=0.112 Sum_probs=46.7
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcce--EEEEcCCcchH---HHHHHHHHcCCeEEE-ecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGC--LVFVSDDSDFV---EVLQEATLRCLKTGV-AGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdc--lvLVSDDSDF~---~lLr~ARer~l~TVV-VGd~~~ 178 (230)
|..++++.|. .+=.|.| +...+ .+...+.+.+.+. +.+ +..+..++++. .++..+++.+...|| ||+++-
T Consensus 14 l~~~~~~~g~~~~liv~~-~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs~ 90 (332)
T cd07766 14 IGEEIKRGGFDRALVVSD-EGVVK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGST 90 (332)
T ss_pred HHHHHHhcCCCeEEEEeC-Cchhh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCchH
Confidence 4455666553 2444566 44445 6777788888654 544 44455556655 566677777777776 888854
Q ss_pred chhhhhh
Q 046085 179 GTLKRIA 185 (230)
Q Consensus 179 ~aL~r~A 185 (230)
....+++
T Consensus 91 ~D~aK~i 97 (332)
T cd07766 91 LDTAKAV 97 (332)
T ss_pred HHHHHHH
Confidence 4555443
No 269
>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=59.48 E-value=19 Score=27.13 Aligned_cols=42 Identities=21% Similarity=0.264 Sum_probs=30.7
Q ss_pred ceEEEEcCCc-----chHHHHHHHHHcCCeEEEecCC--CCchhhhhhh
Q 046085 145 GCLVFVSDDS-----DFVEVLQEATLRCLKTGVAGYM--NDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVSDDS-----DF~~lLr~ARer~l~TVVVGd~--~~~aL~r~AD 186 (230)
..++|+||-. +...+++.++..|++.++||-+ ....|..+|+
T Consensus 105 ~~iiliTDG~~~~~~~~~~~~~~~~~~~v~v~~i~~g~~~~~~l~~la~ 153 (161)
T cd01450 105 KVIIVLTDGRSDDGGDPKEAAAKLKDEGIKVFVVGVGPADEEELREIAS 153 (161)
T ss_pred eEEEEECCCCCCCCcchHHHHHHHHHCCCEEEEEeccccCHHHHHHHhC
Confidence 4789998832 2888999999999998888776 3444555543
No 270
>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=59.31 E-value=25 Score=31.19 Aligned_cols=66 Identities=20% Similarity=0.162 Sum_probs=42.7
Q ss_pred hhhhhhhhcEEEEEccccch---HHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe---EEEecC
Q 046085 106 LVVKLKRVWFWVRTMSDKLQ---AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK---TGVAGY 175 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpq---AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~---TVVVGd 175 (230)
+..+|+..|+-|..+..-|. +.|.. ..+.++. ..+ +.|++.+...+...+++.|++.|+. .++||.
T Consensus 158 ~~~~~~~~G~~v~~~~~~~~~~~~~d~~--~~l~~i~-~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~ 229 (389)
T cd06352 158 LEAALREFNLTVSHVVFMEDNSGAEDLL--EILQDIK-RRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILI 229 (389)
T ss_pred HHHHHHhcCCeEEEEEEecCCccchhHH--HHHHHhh-hcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 44566677877664332222 44543 2233333 345 8888888889999999999999995 666663
No 271
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=59.07 E-value=50 Score=28.85 Aligned_cols=68 Identities=10% Similarity=0.033 Sum_probs=39.7
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe-EEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK-TGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~-TVVVGd~ 176 (230)
.|+..+++..|+.+-......+. + -...+.+.|.+.++|.|++++...+... +..+.+ ... .|+|+..
T Consensus 79 ~gi~~~~~~~gy~~~~~~~~~~~-~--~~~~~i~~l~~~~vdGiIi~~~~~~~~~-~~~~~~-~~p~vV~i~~~ 147 (346)
T PRK10401 79 KAVDLVAQQHQKYVLIGNSYHEA-E--KERHAIEVLIRQRCNALIVHSKALSDDE-LAQFMD-QIPGMVLINRV 147 (346)
T ss_pred HHHHHHHHHCCCEEEEEcCCCCh-H--HHHHHHHHHHhcCCCEEEEeCCCCChHH-HHHHHh-cCCCEEEEecc
Confidence 37888999999998754332221 1 1223444454689999999975433332 333333 344 6778764
No 272
>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=58.93 E-value=27 Score=27.40 Aligned_cols=72 Identities=17% Similarity=0.192 Sum_probs=35.1
Q ss_pred ccCCchhhhhhhhcEEEEEccccch----------------HHHH--------HHHHHHHHHHhhcCcceEEEEcCCcch
Q 046085 101 KVGYSLVVKLKRVWFWVRTMSDKLQ----------------AADV--------LLRNYMVDMMDKRRFGCLVFVSDDSDF 156 (230)
Q Consensus 101 kvgygLa~eLrRAGv~VrtV~dKpq----------------AAD~--------AL~~~m~~~m~~r~vdclvLVSDDSDF 156 (230)
+.||-+...|++.|+-|-.|..+.+ ..|. .+-..+-++. +.|+..+++.+. ..-
T Consensus 14 ~~g~~v~~~l~~~G~~v~~Vnp~~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~~~-~~g~~~v~~~~g-~~~ 91 (116)
T PF13380_consen 14 KFGYRVLRNLKAAGYEVYPVNPKGGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDEAA-ALGVKAVWLQPG-AES 91 (116)
T ss_dssp SHHHHHHHHHHHTT-EEEEESTTCSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHHHH-HHT-SEEEE-TT-S--
T ss_pred ChHHHHHHHHHhCCCEEEEECCCceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHHHH-HcCCCEEEEEcc-hHH
Confidence 3466667777777766665554443 1111 1222222333 456666666666 555
Q ss_pred HHHHHHHHHcCCeEEEecCC
Q 046085 157 VEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 157 ~~lLr~ARer~l~TVVVGd~ 176 (230)
..+++.|++.|++ ++|..
T Consensus 92 ~~~~~~a~~~gi~--vigp~ 109 (116)
T PF13380_consen 92 EELIEAAREAGIR--VIGPN 109 (116)
T ss_dssp HHHHHHHHHTT-E--EEESS
T ss_pred HHHHHHHHHcCCE--EEeCC
Confidence 6666666666665 44444
No 273
>PRK10671 copA copper exporting ATPase; Provisional
Probab=58.76 E-value=30 Score=35.53 Aligned_cols=85 Identities=11% Similarity=0.078 Sum_probs=52.2
Q ss_pred hhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC-CCchhhhhhh
Q 046085 108 VKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 108 ~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r~AD 186 (230)
..|+..|+.+-.++.+++..=.++. ...|++-+.--....+=..+++.....+-.++.|||+ ||-..-+.||
T Consensus 660 ~~L~~~gi~v~~~Tgd~~~~a~~ia-------~~lgi~~~~~~~~p~~K~~~i~~l~~~~~~v~~vGDg~nD~~al~~Ag 732 (834)
T PRK10671 660 QRLHKAGYRLVMLTGDNPTTANAIA-------KEAGIDEVIAGVLPDGKAEAIKRLQSQGRQVAMVGDGINDAPALAQAD 732 (834)
T ss_pred HHHHHCCCeEEEEcCCCHHHHHHHH-------HHcCCCEEEeCCCHHHHHHHHHHHhhcCCEEEEEeCCHHHHHHHHhCC
Confidence 4667777777777666653211221 1234433222112223456677777788889999999 8777788899
Q ss_pred -ccccccchHHHHh
Q 046085 187 -RLKWAYNSEVEKK 199 (230)
Q Consensus 187 -~leW~~~~e~e~~ 199 (230)
-+.|-...+..+.
T Consensus 733 vgia~g~g~~~a~~ 746 (834)
T PRK10671 733 VGIAMGGGSDVAIE 746 (834)
T ss_pred eeEEecCCCHHHHH
Confidence 6777766655554
No 274
>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=58.57 E-value=23 Score=29.46 Aligned_cols=60 Identities=5% Similarity=-0.068 Sum_probs=43.5
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+|+...++..|+.+..... .+. . . .+ ..++|.|++++..++ ..++.+.+.++.+|+++..
T Consensus 24 ~gi~~~~~~~g~~~~~~~~-~~~--~--~-----~~-~~~vdgii~~~~~~~--~~~~~~~~~~~pvV~~~~~ 83 (270)
T cd01544 24 LGIEKRAQELGIELTKFFR-DDD--L--L-----EI-LEDVDGIIAIGKFSQ--EQLAKLAKLNPNLVFVDSN 83 (270)
T ss_pred HHHHHHHHHcCCEEEEEec-cch--h--H-----Hh-ccCcCEEEEecCCCH--HHHHHHHhhCCCEEEECCC
Confidence 5778888888988875433 221 1 1 13 478999999876654 7788889999999999864
No 275
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=58.39 E-value=29 Score=30.81 Aligned_cols=116 Identities=11% Similarity=0.106 Sum_probs=52.7
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC-cchHHHHHH-HHHcCCeEEEecCC----CCc
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD-SDFVEVLQE-ATLRCLKTGVAGYM----NDG 179 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD-SDF~~lLr~-ARer~l~TVVVGd~----~~~ 179 (230)
-|++|+..|+.|..+.-..+....++...+...+...+++.|.++.-. --+..-|+. +.+.|+...|+-+. ++.
T Consensus 54 fa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~ 133 (224)
T PF04244_consen 54 FADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSRE 133 (224)
T ss_dssp HHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHHHHHHH----SSS-EEEE--TTSSS-HH
T ss_pred HHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHhhhcccCCceEEeCCCCccCCHH
Confidence 378999999999976655443333555566666666788777666433 334444444 45689999999887 222
Q ss_pred hhhhhhh-ccccccchHH--HHhhhhcccccchhhhhcccccceeccC
Q 046085 180 TLKRIAD-RLKWAYNSEV--EKKRLIGMIDADCIQKEDKDAWWELESS 224 (230)
Q Consensus 180 aL~r~AD-~leW~~~~e~--e~~~~~~~~~~~~~~~~~~~~ww~l~s~ 224 (230)
.+..+|+ .=.|+++.=+ .++.+...++.+. ...|.=|..|++
T Consensus 134 ~f~~~~~~~k~~~Me~FYR~mRkr~~ILmd~~g---~P~GGkWnfD~e 178 (224)
T PF04244_consen 134 EFAEWFEGRKRLRMEYFYREMRKRFGILMDEDG---KPVGGKWNFDAE 178 (224)
T ss_dssp HHHHHHTT-SS--HHHHHHHHHHHHTTTE-ETT---EEGGGSS--GGG
T ss_pred HHHHHHccCCceeHHHHHHHHHHHcCccccCCC---CcCCCcCCCChh
Confidence 3333333 2246665533 5667776663222 112444666655
No 276
>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=58.03 E-value=29 Score=30.23 Aligned_cols=62 Identities=10% Similarity=-0.061 Sum_probs=45.1
Q ss_pred hhhhhhhhcEEEEE-ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE
Q 046085 106 LVVKLKRVWFWVRT-MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 106 La~eLrRAGv~Vrt-V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T 170 (230)
+...|+++|+.|-. ..-.|..+|. ...+..+. +.+.|.|++.....+++.+++.+++.|+..
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 34678888988753 2333456665 34444445 478899998899999999999999999974
No 277
>PRK06849 hypothetical protein; Provisional
Probab=58.00 E-value=15 Score=33.67 Aligned_cols=80 Identities=9% Similarity=-0.007 Sum_probs=49.6
Q ss_pred CCchhhhhhhhcEEEEEccccchH-------------------HHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHH
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQA-------------------ADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEA 163 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqA-------------------AD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~A 163 (230)
|+++|..|+++|+.|-.+...|.. .+.+....+.+.+.+.+++.|+-+||+. ..+..+
T Consensus 17 ~l~iar~l~~~G~~Vi~~d~~~~~~~~~s~~~d~~~~~p~p~~d~~~~~~~L~~i~~~~~id~vIP~~e~~---~~~a~~ 93 (389)
T PRK06849 17 ALELARLFHNAGHTVILADSLKYPLSRFSRAVDGFYTIPSPRWDPDAYIQALLSIVQRENIDLLIPTCEEV---FYLSHA 93 (389)
T ss_pred HHHHHHHHHHCCCEEEEEeCCchHHHHHHHhhhheEEeCCCCCCHHHHHHHHHHHHHHcCCCEEEECChHH---HhHHhh
Confidence 678999999999999876655431 1233456666777777899888888876 223222
Q ss_pred HHc-CCeEEEecCCCCchhhhhhh
Q 046085 164 TLR-CLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 164 Rer-~l~TVVVGd~~~~aL~r~AD 186 (230)
++. .-...+++.. ...+....|
T Consensus 94 ~~~l~~~~~v~~~~-~~~~~~~~D 116 (389)
T PRK06849 94 KEELSAYCEVLHFD-FELLLLLHN 116 (389)
T ss_pred hhhhcCCcEEEcCC-HHHHHHhhC
Confidence 221 1123334432 456777777
No 278
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=57.92 E-value=29 Score=26.59 Aligned_cols=54 Identities=11% Similarity=0.057 Sum_probs=30.7
Q ss_pred CCCcccccccCCCcccCchHHHHHHHHHhHHHHHH-------HhhhhhhcccchhhHhHhhh
Q 046085 29 AEPYVLVIVEGDLRLYNNDKLVNHFKQIHKREQKK-------RLNQIESAKGKMREHLVGNY 83 (230)
Q Consensus 29 ~epy~~C~VCGdrkf~t~~kL~kHFkqlHeREr~K-------rlnri~s~kGkrR~~~~~~~ 83 (230)
..|+-.|+.|| ..+.+.+......+.+=+--+.+ +|..+....|-....|...+
T Consensus 28 ~~~~~~C~~CG-e~~~~~e~~~~~~~~i~~~~~~~~~~~~~~~i~~~r~~~gltq~~lA~~l 88 (127)
T TIGR03830 28 GVPGWYCPACG-EELLDPEESKRNSAALADFYRKVDGLLTPPEIRRIRKKLGLSQREAAELL 88 (127)
T ss_pred eeeeeECCCCC-CEEEcHHHHHHHHHHHHHHHHHccCCcCHHHHHHHHHHcCCCHHHHHHHh
Confidence 45655999999 88887777655555553333322 44444444444444444333
No 279
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=57.50 E-value=8.8 Score=34.23 Aligned_cols=78 Identities=13% Similarity=-0.077 Sum_probs=49.4
Q ss_pred CCchhhhhhhhcEEEEEcccc---chHHHHHHHHHHHHHHhhcCcceEEEEcCCcc--hHHHHHHHHHcCCeEEEecCCC
Q 046085 103 GYSLVVKLKRVWFWVRTMSDK---LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD--FVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dK---pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD--F~~lLr~ARer~l~TVVVGd~~ 177 (230)
+-.|+..|+..|..|-..|.- |.. |..+...+ .-+ ...++||++|-+.- |..++..-.-.+++.+.||..|
T Consensus 30 ~~~l~~~L~~~G~~~~~~P~i~i~~~~-~~~~~~~l-~~l--~~~d~iiftS~NAV~~~~~~~~~~~~~~~~~~AVG~~T 105 (266)
T PRK08811 30 HAPLRRAVARHGGRLLALSPWRLQRLD-TAQARDAL-RQA--LAAPIVVFTSPAAVRAAHRLLPLQRPARAHWLSVGEGT 105 (266)
T ss_pred HHHHHHHHHHCCCcEEEcCceeecCCC-chhHHHHH-hhc--ccCCEEEEECHHHHHHHHHHhcccCccCCeEEEECHHH
Confidence 478999999999999866651 211 11222222 334 26899999998762 1222211112578889999998
Q ss_pred Cchhhhh
Q 046085 178 DGTLKRI 184 (230)
Q Consensus 178 ~~aL~r~ 184 (230)
..+|...
T Consensus 106 A~aL~~~ 112 (266)
T PRK08811 106 ARALQAC 112 (266)
T ss_pred HHHHHHc
Confidence 7888765
No 280
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=57.31 E-value=19 Score=32.94 Aligned_cols=52 Identities=17% Similarity=0.094 Sum_probs=39.8
Q ss_pred cceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh-ccccccchH
Q 046085 144 FGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD-RLKWAYNSE 195 (230)
Q Consensus 144 vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD-~leW~~~~e 195 (230)
=|+++.+|-. ++-.++++.|+++|.+||.|....+..|.+.|| -|.....+|
T Consensus 128 ~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~IaIT~~~~s~La~~aD~~I~~~~g~E 183 (296)
T PRK12570 128 DDVVVGIAASGRTPYVIGALEYAKQIGATTIALSCNPDSPIAKIADIAISPVVGPE 183 (296)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEeeCcCCc
Confidence 3888888854 456788999999999999998876678999999 333333343
No 281
>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=57.18 E-value=19 Score=30.30 Aligned_cols=42 Identities=19% Similarity=0.207 Sum_probs=30.5
Q ss_pred ceEEEEcCCcc-------hHHHHHHHHHcCCeEEEecCC--CCchhhhhhh
Q 046085 145 GCLVFVSDDSD-------FVEVLQEATLRCLKTGVAGYM--NDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVSDDSD-------F~~lLr~ARer~l~TVVVGd~--~~~aL~r~AD 186 (230)
..+||+||-.+ .....+.+|+.|+++++||-+ ...-|+..|.
T Consensus 110 kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~~~~~el~~ia~ 160 (192)
T cd01473 110 KVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGAASENKLKLLAG 160 (192)
T ss_pred eEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEeccccHHHHHHhcC
Confidence 55888888533 557788899999998877776 4455666663
No 282
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=57.13 E-value=4 Score=43.45 Aligned_cols=25 Identities=16% Similarity=0.311 Sum_probs=22.6
Q ss_pred CCCCcccccccCCCcccCchHHHHHHH
Q 046085 28 PAEPYVLVIVEGDLRLYNNDKLVNHFK 54 (230)
Q Consensus 28 p~epy~~C~VCGdrkf~t~~kL~kHFk 54 (230)
-+-|+ .|-+|| |-|.|.-+|+-||-
T Consensus 630 GERPF-kCKiCg-RAFtTkGNLkaH~~ 654 (958)
T KOG1074|consen 630 GERPF-KCKICG-RAFTTKGNLKAHMS 654 (958)
T ss_pred CcCcc-cccccc-chhccccchhhccc
Confidence 35689 999999 99999999999994
No 283
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=56.84 E-value=9 Score=31.14 Aligned_cols=84 Identities=18% Similarity=0.205 Sum_probs=48.3
Q ss_pred hhhcCCccC---CchhhhhhhhcEEEEEccc---cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHH-----
Q 046085 95 KATLTPKVG---YSLVVKLKRVWFWVRTMSD---KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEA----- 163 (230)
Q Consensus 95 r~vl~pkvg---ygLa~eLrRAGv~VrtV~d---KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~A----- 163 (230)
..+|.|.-+ ..|+..|+.+|+.|..++- .|.. +. ....+.+.+..+++|++.|- +-...++...
T Consensus 123 ~~il~~~g~~~~~~l~~~L~~~g~~v~~~~~Y~~~~~~-~~---~~~~~~l~~~~~~~iiftS~-~~v~~f~~~~~~~~~ 197 (239)
T cd06578 123 KRILRPRGGRAREDLAEALRERGAEVDEVEVYRTVPPD-LD---AELLELLEEGAIDAVLFTSP-STVRNLLELLGKEGR 197 (239)
T ss_pred CEEEEEcCcchhHHHHHHHHHCCCEEEEEEEEEEECCC-Cc---HHHHHHHHcCCCcEEEEeCH-HHHHHHHHHHhhhhh
Confidence 344555432 5889999999988885531 2221 00 22334454455666666654 4444444433
Q ss_pred -HHcCCeEEEecCCCCchhhh
Q 046085 164 -TLRCLKTGVAGYMNDGTLKR 183 (230)
Q Consensus 164 -Rer~l~TVVVGd~~~~aL~r 183 (230)
...+.+.++||..+...|+.
T Consensus 198 ~~~~~~~~~aig~~t~~~l~~ 218 (239)
T cd06578 198 ALLKNVKIAAIGPRTAEALRE 218 (239)
T ss_pred hhhcCCeEEEECHHHHHHHHH
Confidence 35788889999886555554
No 284
>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=56.71 E-value=47 Score=27.98 Aligned_cols=76 Identities=9% Similarity=-0.055 Sum_probs=44.7
Q ss_pred cCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC---eEEEecCC-C
Q 046085 102 VGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL---KTGVAGYM-N 177 (230)
Q Consensus 102 vgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l---~TVVVGd~-~ 177 (230)
.|+|+ ..|++.|+.+-.+|.+++. ....+ +...++..+.-..- +.-..+...+..-|+ .++.|||. +
T Consensus 39 D~~~~-~~L~~~Gi~laIiT~k~~~----~~~~~---l~~lgi~~~f~~~k-pkp~~~~~~~~~l~~~~~ev~~iGD~~n 109 (169)
T TIGR02726 39 DGMGV-IVLQLCGIDVAIITSKKSG----AVRHR---AEELKIKRFHEGIK-KKTEPYAQMLEEMNISDAEVCYVGDDLV 109 (169)
T ss_pred hHHHH-HHHHHCCCEEEEEECCCcH----HHHHH---HHHCCCcEEEecCC-CCHHHHHHHHHHcCcCHHHEEEECCCHH
Confidence 34554 4688999999999999886 22222 34446654444332 223344444444555 58999998 5
Q ss_pred Cchhhhhhh
Q 046085 178 DGTLKRIAD 186 (230)
Q Consensus 178 ~~aL~r~AD 186 (230)
|-...+.|.
T Consensus 110 Di~~~~~ag 118 (169)
T TIGR02726 110 DLSMMKRVG 118 (169)
T ss_pred HHHHHHHCC
Confidence 544444444
No 285
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=56.62 E-value=22 Score=32.67 Aligned_cols=79 Identities=16% Similarity=0.140 Sum_probs=48.1
Q ss_pred chhhhhhhhcEEEEEccc---cchHHHHHHHHHHHHHHhhcCcceEEEEcCCc--chHHHHHHH---------HHcCCeE
Q 046085 105 SLVVKLKRVWFWVRTMSD---KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS--DFVEVLQEA---------TLRCLKT 170 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~d---KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS--DF~~lLr~A---------Rer~l~T 170 (230)
.|+..|+.+|..|..++- .|.+ +..-...+.+.+.+.++|++++-|... .|..++... -..+++.
T Consensus 161 ~L~~~L~~~G~~V~~~~vY~~~~~~-~~~~~~~~~~~l~~~~~d~v~FtS~stv~~f~~~l~~~~~~~~~~~~~~~~~~i 239 (381)
T PRK07239 161 EFLEALRAAGAEVVPVPVYRWVPPP-DPGPLDRLVDAIASRGLDAVTFTSAPAVAALLERAREMGLLDQLLAALRTDVLA 239 (381)
T ss_pred HHHHHHHHCCCEEEEeCcEEEcCCC-ChhHHHHHHHHHHcCCccEEEEcCHHHHHHHHHHHHHcCChHHHHHhhccCCEE
Confidence 399999999988886542 1211 111122344556556799999988654 344444321 1245677
Q ss_pred EEecCCCCchhhhh
Q 046085 171 GVAGYMNDGTLKRI 184 (230)
Q Consensus 171 VVVGd~~~~aL~r~ 184 (230)
+.||..|..+|++.
T Consensus 240 ~aIGp~Ta~al~~~ 253 (381)
T PRK07239 240 ACVGPVTAAPLVRA 253 (381)
T ss_pred EEECHHHHHHHHHc
Confidence 88999986777654
No 286
>PRK06294 coproporphyrinogen III oxidase; Provisional
Probab=56.61 E-value=53 Score=30.52 Aligned_cols=62 Identities=10% Similarity=0.116 Sum_probs=36.6
Q ss_pred cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch-HHHHHHHHHcCCeEEEecCC--CCchhh
Q 046085 121 SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF-VEVLQEATLRCLKTGVAGYM--NDGTLK 182 (230)
Q Consensus 121 ~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF-~~lLr~ARer~l~TVVVGd~--~~~aL~ 182 (230)
-..|...+......+++.+......-+-+=+.-.++ .+.|+..++.|+..+-||-. ++..|+
T Consensus 66 GGTPs~l~~~~l~~ll~~i~~~~~~eit~E~~P~~~~~~~l~~l~~~G~nrislGvQS~~~~~L~ 130 (370)
T PRK06294 66 GGTPSLVPPALIQDILKTLEAPHATEITLEANPENLSESYIRALALTGINRISIGVQTFDDPLLK 130 (370)
T ss_pred CCccccCCHHHHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHCCCCEEEEccccCCHHHHH
Confidence 345665555666667777743322233333333334 56788888888888888866 444443
No 287
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=56.49 E-value=23 Score=30.66 Aligned_cols=59 Identities=5% Similarity=0.012 Sum_probs=41.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..+++..|+.+-...+.... ....++|.|++++.++ .+++..+.+.+..+|+++..
T Consensus 87 ~~i~~~~~~~g~~~~~~~~~~~~------------~~~~~vDgiI~~~~~~--~~~~~~l~~~~~pvV~~~~~ 145 (327)
T PRK10339 87 HGIETQCEKLGIELTNCYEHSGL------------PDIKNVTGILIVGKPT--PALRAAASALTDNICFIDFH 145 (327)
T ss_pred HHHHHHHHHCCCEEEEeeccccc------------cccccCCEEEEeCCCC--HHHHHHHHhcCCCEEEEeCC
Confidence 46777888889888755432211 0136899999998644 36778888889999999754
No 288
>PRK10490 sensor protein KdpD; Provisional
Probab=56.45 E-value=40 Score=35.12 Aligned_cols=47 Identities=15% Similarity=0.068 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 129 VLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 129 ~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
..|..++ +.....|.+...+ +.+.--..|++.|++.|++.+|+|-+.
T Consensus 300 ~~l~~~~-~lA~~lGa~~~~~-~~~dva~~i~~~A~~~~vt~IViG~s~ 346 (895)
T PRK10490 300 RAILSAL-RLAQELGAETATL-SDPAEEKAVLRYAREHNLGKIIIGRRA 346 (895)
T ss_pred HHHHHHH-HHHHHcCCEEEEE-eCCCHHHHHHHHHHHhCCCEEEECCCC
Confidence 3455555 4666789895555 555566889999999999999999983
No 289
>PRK00075 cbiD cobalt-precorrin-6A synthase; Reviewed
Probab=56.40 E-value=42 Score=32.17 Aligned_cols=90 Identities=22% Similarity=0.253 Sum_probs=59.8
Q ss_pred HHHHhhhcCCccC--CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---------------
Q 046085 91 KMASKATLTPKVG--YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD--------------- 153 (230)
Q Consensus 91 ~~AAr~vl~pkvg--ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD--------------- 153 (230)
++.|+..+-|++| -|+ |.|=--| .|+++|..-..+-+...-+ +....|.+.+||++..
T Consensus 151 eelAkkT~NprLGI~GGI-SILGTTG-iV~P~S~~a~~~si~~~l~---va~a~g~~~vvl~~G~~ge~~a~~~~~l~~~ 225 (361)
T PRK00075 151 EELAKKTLNPRLGIVGGI-SILGTTG-IVEPMSEEAYLASIKQELD---VARANGLDHVVLVTGNNGEDYARKLLGLPED 225 (361)
T ss_pred HHHHHhccchhcCccCCe-EecccCE-EEEECCHHHHHHHHHHHHH---HHHHcCCCeEEEccChHHHHHHHHhcCCChh
Confidence 4678888999987 333 4444444 3777777655433322222 2334566666666543
Q ss_pred -----cchH-HHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 154 -----SDFV-EVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 154 -----SDF~-~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+||. ++|+.|.+.|++.|++... ++.|-++|.
T Consensus 226 ~~V~~gnfiG~~L~~A~~~g~~~i~l~G~-~GKl~KlA~ 263 (361)
T PRK00075 226 AIIKMGNFVGPMLKAAARLGVKKVLLVGH-PGKLIKLAA 263 (361)
T ss_pred hEEEeehhHHHHHHHHHHcCCCEEEEEee-HHHHHHHhC
Confidence 3454 7899999999999999887 689999887
No 290
>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=56.28 E-value=45 Score=24.42 Aligned_cols=47 Identities=9% Similarity=0.066 Sum_probs=31.4
Q ss_pred HHHHHHHhhcCcce--EEEEcCCcchHHHHHHHHHcCCeEEEecCCCCch
Q 046085 133 NYMVDMMDKRRFGC--LVFVSDDSDFVEVLQEATLRCLKTGVAGYMNDGT 180 (230)
Q Consensus 133 ~~m~~~m~~r~vdc--lvLVSDDSDF~~lLr~ARer~l~TVVVGd~~~~a 180 (230)
+.+.+.+...|+++ ++.++. +-+..+++.|.+.+...||+|......
T Consensus 59 ~~~~~~~~~~g~~~~~~~~~~~-~~~~~I~~~a~~~~~dlIV~G~~~~~~ 107 (132)
T cd01988 59 RQAERIAASLGVPVHTIIRIDH-DIASGILRTAKERQADLIIMGWHGSTS 107 (132)
T ss_pred HHHHHHhhhcCCceEEEEEecC-CHHHHHHHHHHhcCCCEEEEecCCCCC
Confidence 33334443456554 444444 466789999999999999999985433
No 291
>PRK12361 hypothetical protein; Provisional
Probab=56.24 E-value=50 Score=32.18 Aligned_cols=72 Identities=17% Similarity=0.180 Sum_probs=53.4
Q ss_pred hhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEc-CCcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 111 KRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVS-DDSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 111 rRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS-DDSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+++-|.|++.|.+-++++ .+.++...+. .+++.-+..+ .+.+-..+.++|.+.|..+|||..+ ||++..+++
T Consensus 243 ~~~~iI~NP~SG~g~~~~--~~~~i~~~L~-~~~~~~v~~t~~~~~a~~la~~~~~~~~d~Viv~GG-DGTl~ev~~ 315 (547)
T PRK12361 243 KRAWLIANPVSGGGKWQE--YGEQIQRELK-AYFDLTVKLTTPEISAEALAKQARKAGADIVIACGG-DGTVTEVAS 315 (547)
T ss_pred CceEEEECCCCCCCcHHH--HHHHHHHHHh-cCCceEEEECCCCccHHHHHHHHHhcCCCEEEEECC-CcHHHHHHH
Confidence 577888998888765543 3567777775 4466555454 3456788888998888888888777 799999998
No 292
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=56.17 E-value=8.1 Score=31.88 Aligned_cols=78 Identities=15% Similarity=0.053 Sum_probs=0.0
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHc-------CCeEEEecCCCC
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLR-------CLKTGVAGYMND 178 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer-------~l~TVVVGd~~~ 178 (230)
|+..|+..|..|..++---..............+....+|++++.| -+-+..++..+... +++.++||..+.
T Consensus 140 l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~ivftS-~~~v~~~~~~~~~~~~~~~~~~~~~~aiG~~Ta 218 (249)
T PRK05928 140 LGDTLEERGAEVDECEVYERVPPKLDGAELLARLQSGEVDAVIFTS-PSTVRAFFSLAPELGRREWLLSCKAVVIGERTA 218 (249)
T ss_pred HHHHHHHCCCEEeEEEEEEeeCCCCChHHHHHHHHhCCCCEEEECC-HHHHHHHHHHhcccchhHHHhCCeEEEeCHHHH
Q ss_pred chhhhh
Q 046085 179 GTLKRI 184 (230)
Q Consensus 179 ~aL~r~ 184 (230)
.+|+.+
T Consensus 219 ~~l~~~ 224 (249)
T PRK05928 219 EALREL 224 (249)
T ss_pred HHHHHc
No 293
>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=55.93 E-value=26 Score=27.35 Aligned_cols=34 Identities=15% Similarity=0.081 Sum_probs=25.7
Q ss_pred ceEEEEcCC---cchHHHHHHHHH-cCCeEEEecCCCC
Q 046085 145 GCLVFVSDD---SDFVEVLQEATL-RCLKTGVAGYMND 178 (230)
Q Consensus 145 dclvLVSDD---SDF~~lLr~ARe-r~l~TVVVGd~~~ 178 (230)
..++|+||- .+-....+.++. .|++++.||-+++
T Consensus 105 ~~villTDG~~~~~~~~~~~~l~~~~~v~v~~vg~g~~ 142 (163)
T cd01476 105 KVVVVLTDGRSHDDPEKQARILRAVPNIETFAVGTGDP 142 (163)
T ss_pred eEEEEECCCCCCCchHHHHHHHhhcCCCEEEEEECCCc
Confidence 578999984 234567778888 8999999988753
No 294
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=55.69 E-value=13 Score=28.44 Aligned_cols=51 Identities=18% Similarity=0.251 Sum_probs=33.1
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHH-----------HHHHHHhhcCcceEEEEcCCcchHH
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRN-----------YMVDMMDKRRFGCLVFVSDDSDFVE 158 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~-----------~m~~~m~~r~vdclvLVSDDSDF~~ 158 (230)
..|+.+|+..|+.|... | |.+.+..... ...+.+ .++||+|+.++...|..
T Consensus 20 ~~l~~~L~~~g~~V~~~-D-P~v~~~~~~~~~~~~~~~~~~~~~~~~--~~~D~vvl~t~h~~f~~ 81 (106)
T PF03720_consen 20 LELIEELKERGAEVSVY-D-PYVDEEEIKELGKLEGVEVCDDLEEAL--KGADAVVLATDHDEFRE 81 (106)
T ss_dssp HHHHHHHHHTT-EEEEE---TTSHHHHHHHHCHHHCEEEESSHHHHH--TTESEEEESS--GGGGC
T ss_pred HHHHHHHHHCCCEEEEE-C-CccChHHHHhhCCccceEEecCHHHHh--cCCCEEEEEecCHHHhc
Confidence 56889999999999843 3 3333333333 233444 69999999999999987
No 295
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=55.67 E-value=20 Score=32.62 Aligned_cols=40 Identities=23% Similarity=0.189 Sum_probs=28.1
Q ss_pred ceEEEEcCC---cchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 145 GCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
++++.+|.. .+-..+++.|+++|.++|+|.+. +.|.+.||
T Consensus 80 dlvI~iS~SG~T~e~~~a~~~a~~~ga~vIaIT~~--~~L~~~a~ 122 (337)
T PRK08674 80 TLVIAVSYSGNTEETLSAVEQALKRGAKIIAITSG--GKLKEMAK 122 (337)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHCCCeEEEECCC--chHHHHHH
Confidence 555555543 23456688888899998888865 35888888
No 296
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.
Probab=55.48 E-value=23 Score=27.43 Aligned_cols=44 Identities=23% Similarity=0.228 Sum_probs=28.1
Q ss_pred CcceEEEEcC-----CcchHHHHHHHHHcCC--eEEEecCC-CCchhhhhhh
Q 046085 143 RFGCLVFVSD-----DSDFVEVLQEATLRCL--KTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSD-----DSDF~~lLr~ARer~l--~TVVVGd~-~~~aL~r~AD 186 (230)
+...|+|+|| +.++...++.+...++ .+|.||.. +...|..+|+
T Consensus 99 ~~~~iillTDG~~~~~~~~~~~~~~~~~~~i~i~~i~~g~~~~~~~l~~ia~ 150 (171)
T cd01461 99 SVPQIILLTDGEVTNESQILKNVREALSGRIRLFTFGIGSDVNTYLLERLAR 150 (171)
T ss_pred CccEEEEEeCCCCCCHHHHHHHHHHhcCCCceEEEEEeCCccCHHHHHHHHH
Confidence 5689999999 3345566666654455 45555543 4456777777
No 297
>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=55.43 E-value=24 Score=28.08 Aligned_cols=42 Identities=17% Similarity=0.192 Sum_probs=29.1
Q ss_pred ceEEEEcC---CcchHHHHHHHHHcCCeEEEecCC--CCchhhhhhh
Q 046085 145 GCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYM--NDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~--~~~aL~r~AD 186 (230)
..++|+|| +.|+..+.+.+++.|+..++||-+ +...|..+|.
T Consensus 105 k~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g~~~~~~L~~ia~ 151 (164)
T cd01482 105 KVVILITDGKSQDDVELPARVLRNLGVNVFAVGVKDADESELKMIAS 151 (164)
T ss_pred EEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecCcCCHHHHHHHhC
Confidence 45788887 235667788899999999999876 2334444443
No 298
>PF09397 Ftsk_gamma: Ftsk gamma domain; InterPro: IPR018541 This domain directs oriented DNA translocation and forms a winged helix structure []. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding []. ; PDB: 2VE9_B 2VE8_E 2J5O_A 2J5P_A.
Probab=55.29 E-value=7.7 Score=28.81 Aligned_cols=19 Identities=32% Similarity=0.611 Sum_probs=14.0
Q ss_pred HHHHHHHHhcCccCCCCCc
Q 046085 14 KELFNQLEIKGVIRPAEPY 32 (230)
Q Consensus 14 r~~l~~le~~g~i~p~epy 32 (230)
-+.+++||..|+|.|+...
T Consensus 38 ariid~LE~~GiVs~~~~~ 56 (65)
T PF09397_consen 38 ARIIDQLEEEGIVSPANGS 56 (65)
T ss_dssp HHHHHHHHHCTSBE---TT
T ss_pred HHHHHHHHHCCCCCCCCCC
Confidence 4689999999999999865
No 299
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=54.86 E-value=69 Score=31.43 Aligned_cols=81 Identities=16% Similarity=0.149 Sum_probs=54.7
Q ss_pred HHHHHHhhhc---CCccCCchh-----hhhhhhc----------EEEEEcccc--chHHHHHHHHHHHHHHhhcCcceEE
Q 046085 89 TYKMASKATL---TPKVGYSLV-----VKLKRVW----------FWVRTMSDK--LQAADVLLRNYMVDMMDKRRFGCLV 148 (230)
Q Consensus 89 KY~~AAr~vl---~pkvgygLa-----~eLrRAG----------v~VrtV~dK--pqAAD~AL~~~m~~~m~~r~vdclv 148 (230)
+|..-....- +|.+|+++. ..|.-.| |+|-++.+. ++|..+| +.+.+.|+.+-+
T Consensus 294 RYD~Lv~~~gG~~~pavGFaiGveRl~~~l~~~~~~~~~~~~~~v~v~~~~~~~~~~a~~la------~~LR~~g~~~~~ 367 (429)
T COG0124 294 RYDGLVEEFGGKPTPAVGFAIGVERLILALEEEGKEDPVETRVDVYVVPLGEDAEPEALKLA------QKLRAAGISVEV 367 (429)
T ss_pred cchHHHHHhCCCCCCceeEehHHHHHHHHHHHcCCCCCcCCCCCEEEEEcCchhHHHHHHHH------HHHHHcCCcEEE
Confidence 4555555444 899998765 3355555 455544443 3343333 345557999999
Q ss_pred EEcCCcchHHHHHHHHHcCCeEEE-ecCC
Q 046085 149 FVSDDSDFVEVLQEATLRCLKTGV-AGYM 176 (230)
Q Consensus 149 LVSDDSDF~~lLr~ARer~l~TVV-VGd~ 176 (230)
-.+..+ |..-++.|-..|.+.+| ||+.
T Consensus 368 ~~~~r~-~k~q~k~A~~~g~~~~viiGe~ 395 (429)
T COG0124 368 DYSGRK-LKKQFKYADKLGARFAVILGED 395 (429)
T ss_pred Eecccc-HHHHHHHHHHCCCCEEEEEcch
Confidence 999999 99999999999998765 4654
No 300
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=54.67 E-value=31 Score=26.09 Aligned_cols=53 Identities=21% Similarity=0.322 Sum_probs=34.0
Q ss_pred HHHHHHhhc--CcceEEEEcCCcch---HHHHHHHHHcCCeEEEecCCCCc----hhhhhhh
Q 046085 134 YMVDMMDKR--RFGCLVFVSDDSDF---VEVLQEATLRCLKTGVAGYMNDG----TLKRIAD 186 (230)
Q Consensus 134 ~m~~~m~~r--~vdclvLVSDDSDF---~~lLr~ARer~l~TVVVGd~~~~----aL~r~AD 186 (230)
.+.+++... .-..|||+||-.+- ..+++.++..|++..+||-+.+. .|.+.|.
T Consensus 88 ~a~~~~~~~~~~~~~iv~iTDG~~~~~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~ 149 (172)
T PF13519_consen 88 EAAKMLASSDNRRRAIVLITDGEDNSSDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAE 149 (172)
T ss_dssp HHHHHHHC-SSEEEEEEEEES-TTHCHHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHH
T ss_pred HHHHHHHhCCCCceEEEEecCCCCCcchhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHH
Confidence 344445432 35689999996543 36888888999988888777333 3666665
No 301
>PRK00861 putative lipid kinase; Reviewed
Probab=54.64 E-value=53 Score=29.07 Aligned_cols=71 Identities=14% Similarity=0.154 Sum_probs=43.5
Q ss_pred hhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEc-CCcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 112 RVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVS-DDSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 112 RAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS-DDSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+.-|.+++.|.+-.+. ..+..+...+.. ++++-+.++ ...+-..+.+.|.+.+..+||+..+ ||++..+++
T Consensus 4 ~~~iI~NP~sG~~~~~--~~~~~i~~~l~~-~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vv~~GG-DGTl~evv~ 75 (300)
T PRK00861 4 SACLIFNPVAGQGNPE--VDLALIRAILEP-EMDLDIYLTTPEIGADQLAQEAIERGAELIIASGG-DGTLSAVAG 75 (300)
T ss_pred eEEEEECCCCCCCchh--hhHHHHHHHHHh-cCceEEEEccCCCCHHHHHHHHHhcCCCEEEEECC-hHHHHHHHH
Confidence 4456666666554432 223455555543 466544444 4446777777777777777777776 688888888
No 302
>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=54.37 E-value=42 Score=29.49 Aligned_cols=59 Identities=7% Similarity=-0.086 Sum_probs=43.4
Q ss_pred hhhhhhhcEEEE-EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC
Q 046085 107 VVKLKRVWFWVR-TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL 168 (230)
Q Consensus 107 a~eLrRAGv~Vr-tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l 168 (230)
...|++.|+.|- .+.-.+.++|+. .++..+. ..+.|.|++...-.+.+.+++.++++|+
T Consensus 153 ~~~~~~~G~~vv~~~~~~~~~~d~~--~~v~~l~-~~~pd~v~~~~~~~~~~~~~~~~~~~G~ 212 (334)
T cd06356 153 RKIVEENGGEVVGEEFIPLDVSDFG--STIQKIQ-AAKPDFVMSILVGANHLSFYRQWAAAGL 212 (334)
T ss_pred HHHHHHcCCEEEeeeecCCCchhHH--HHHHHHH-hcCCCEEEEeccCCcHHHHHHHHHHcCC
Confidence 356788887774 333345566653 3444444 5789999999888999999999999999
No 303
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=54.18 E-value=70 Score=26.01 Aligned_cols=65 Identities=11% Similarity=-0.093 Sum_probs=42.3
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCc----chHHHHHHHHHcCC--eEEEecCC
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS----DFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS----DF~~lLr~ARer~l--~TVVVGd~ 176 (230)
.+.-|+-+||-|-...-- +.++. +.+..-..+++.++|=|-+. .+..+++..+++|+ -.|++|..
T Consensus 22 v~~~l~~~GfeVi~lg~~-~s~e~-----~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~ 92 (132)
T TIGR00640 22 IATAYADLGFDVDVGPLF-QTPEE-----IARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGGV 92 (132)
T ss_pred HHHHHHhCCcEEEECCCC-CCHHH-----HHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCC
Confidence 356799999999854422 22221 22333357899999988776 45567777888876 35777764
No 304
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=53.91 E-value=28 Score=31.59 Aligned_cols=67 Identities=15% Similarity=0.018 Sum_probs=49.9
Q ss_pred hhhhhhcEEE-EEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 108 VKLKRVWFWV-RTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 108 ~eLrRAGv~V-rtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
..|+..|..+ ....-.|...| +...+.+++ ..+.|.|++.+.-.+.+.++|.++++|++..+++...
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 3466778852 22233344444 666666667 5899999999999999999999999999998777663
No 305
>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=53.85 E-value=18 Score=28.22 Aligned_cols=27 Identities=30% Similarity=0.310 Sum_probs=24.2
Q ss_pred EEEEcCCcchHHHHHHHHHcCCeEEEe
Q 046085 147 LVFVSDDSDFVEVLQEATLRCLKTGVA 173 (230)
Q Consensus 147 lvLVSDDSDF~~lLr~ARer~l~TVVV 173 (230)
.||.+.|+|+.+.+..||..|.++|.+
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 478888999999999999999999865
No 306
>PRK11263 cardiolipin synthase 2; Provisional
Probab=53.44 E-value=67 Score=30.82 Aligned_cols=70 Identities=7% Similarity=-0.007 Sum_probs=49.8
Q ss_pred cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEc----CCcchHHHHHHHHHcCCeEEEecCC-CCchhhhh
Q 046085 114 WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVS----DDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKRI 184 (230)
Q Consensus 114 Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS----DDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r~ 184 (230)
...+..|++.|......+...+.++|. .-=.-|.+.| -+..+...|+.|..|||.+-+|-++ ++..+...
T Consensus 190 ~~~~~~v~~~p~~~~~~i~~~~~~~i~-~A~~~I~I~tpYf~p~~~l~~aL~~Aa~RGV~V~ii~~~~~d~~~~~~ 264 (411)
T PRK11263 190 EAQALLVWRDNEEHRDDIERHYLKALR-QARREVIIANAYFFPGYRLLRALRNAARRGVRVRLILQGEPDMPIVRV 264 (411)
T ss_pred CeEEEEEECCCcchHHHHHHHHHHHHH-HhceEEEEEecCcCCCHHHHHHHHHHHHCCCEEEEEeCCCCCcHHHHH
Confidence 357888888887666677777788884 2334566665 4778899999999999999888554 44444433
No 307
>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=52.75 E-value=50 Score=30.82 Aligned_cols=66 Identities=8% Similarity=0.124 Sum_probs=43.0
Q ss_pred hhhhhhc-EEEE---EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE--EEecC
Q 046085 108 VKLKRVW-FWVR---TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT--GVAGY 175 (230)
Q Consensus 108 ~eLrRAG-v~Vr---tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T--VVVGd 175 (230)
.+++..| +-|- .++..|.+.|. ...+..+....+.+.|++.+...+-..+++.|++.|+.- +.||-
T Consensus 194 ~~~~~~g~~~v~~~~~i~~~~~~~d~--~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a~~~~~~g~~~wig~ 265 (463)
T cd06376 194 QISREAGGVCIAQSIKIPREPRPGEF--DKIIKRLLETPNARAVIIFANEDDIRRVLEAAKRANQVGHFLWVGS 265 (463)
T ss_pred HHHHHcCCceEEEEEecCCCCCHHHH--HHHHHHHhccCCCeEEEEecChHHHHHHHHHHHhcCCcCceEEEEe
Confidence 3445544 4443 34556666554 333434332258999999999999999999999988863 44553
No 308
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type 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); its ligand specificity has not been determined experimentally.
Probab=52.62 E-value=44 Score=27.56 Aligned_cols=67 Identities=7% Similarity=-0.018 Sum_probs=38.6
Q ss_pred CchhhhhhhhcEE----EE-EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC
Q 046085 104 YSLVVKLKRVWFW----VR-TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 104 ygLa~eLrRAGv~----Vr-tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd 175 (230)
.|+..++..+|+. |. .+.+... |.+-...+.+.+.+.+++.+++++++++.. +. +...++..|.+|.
T Consensus 18 ~gi~~~~~~~g~~~g~~v~l~~~~~~~--~~~~~~~~~~~l~~~~vd~iI~~~~~~~~~--~~-~~~~~iPvV~~~~ 89 (281)
T cd06325 18 KGFKDGLKEAGYKEGKNVKIDYQNAQG--DQSNLPTIARKFVADKPDLIVAIATPAAQA--AA-NATKDIPIVFTAV 89 (281)
T ss_pred HHHHHHHHHhCccCCceEEEEEecCCC--CHHHHHHHHHHHHhcCCCEEEEcCcHHHHH--HH-HcCCCCCEEEEec
Confidence 4788899999962 22 1222211 112222333334357999999987654322 22 5567888888874
No 309
>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=51.99 E-value=46 Score=30.29 Aligned_cols=69 Identities=10% Similarity=0.020 Sum_probs=40.4
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcC-cceEEEEcCC-----cchHHHHHHHHHcCCe---EEEecC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRR-FGCLVFVSDD-----SDFVEVLQEATLRCLK---TGVAGY 175 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~-vdclvLVSDD-----SDF~~lLr~ARer~l~---TVVVGd 175 (230)
++...|+..|+-|..+..-+. .+..+...+..+- +.+ .+.|++.+.. .+-..+++.|++.|+. -+.||-
T Consensus 151 ~l~~~l~~~gi~v~~~~~~~~-~~~d~~~~L~~lk-~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~ 228 (382)
T cd06371 151 KLASALRAHGLPVGLVTSMGP-DEKGAREALKKVR-SADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPY 228 (382)
T ss_pred HHHHHHHHCCCcEEEEEEecC-CHHHHHHHHHHHh-cCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEe
Confidence 466777888876653322221 1223444444444 334 5666665544 3447899999999999 355543
No 310
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=51.92 E-value=77 Score=29.24 Aligned_cols=78 Identities=8% Similarity=-0.002 Sum_probs=48.7
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceE-EEEcCCcchH---HHHHHHHHcCCeEEE-ecCCCCch
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCL-VFVSDDSDFV---EVLQEATLRCLKTGV-AGYMNDGT 180 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdcl-vLVSDDSDF~---~lLr~ARer~l~TVV-VGd~~~~a 180 (230)
|+.+|++.|=.|-.|.|+--. + .+..++.+.+...++.++ ..|..++... .+++.+++.+...|| ||.++...
T Consensus 21 l~~~l~~~g~~~livtd~~~~-~-~~~~~v~~~l~~~~~~~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGsv~D 98 (366)
T PRK09423 21 LGEYLKPLGKRALVIADEFVL-G-IVGDRVEASLKEAGLTVVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIGGGKTLD 98 (366)
T ss_pred HHHHHHHcCCEEEEEEChhHH-H-HHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecChHHHH
Confidence 455666666344456664433 3 377888888977777763 3465555554 566777777766655 88886555
Q ss_pred hhhhh
Q 046085 181 LKRIA 185 (230)
Q Consensus 181 L~r~A 185 (230)
..+.+
T Consensus 99 ~aK~i 103 (366)
T PRK09423 99 TAKAV 103 (366)
T ss_pred HHHHH
Confidence 55554
No 311
>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=51.91 E-value=28 Score=25.62 Aligned_cols=44 Identities=11% Similarity=0.113 Sum_probs=32.8
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSD 152 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSD 152 (230)
|-|..|+..|+.|+|+..|+.... .++.+++-+..|+.++-.++
T Consensus 21 gTa~~L~~~Gi~~~~~~~ki~~~~----~~i~~~i~~g~id~VIn~~~ 64 (90)
T smart00851 21 GTAKFLREAGLPVKTLHPKVHGGI----LAILDLIKNGEIDLVINTLY 64 (90)
T ss_pred HHHHHHHHCCCcceeccCCCCCCC----HHHHHHhcCCCeEEEEECCC
Confidence 348899999999988777775411 24677777778898888765
No 312
>PLN03243 haloacid dehalogenase-like hydrolase; Provisional
Probab=51.84 E-value=78 Score=28.05 Aligned_cols=30 Identities=17% Similarity=0.119 Sum_probs=20.3
Q ss_pred hcCCccC-CchhhhhhhhcEEEEEccccchH
Q 046085 97 TLTPKVG-YSLVVKLKRVWFWVRTMSDKLQA 126 (230)
Q Consensus 97 vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqA 126 (230)
.+.|.-| =.+-.+|+..|+.+-.+|.++..
T Consensus 107 ~~~l~pg~~e~L~~L~~~g~~l~I~Tn~~~~ 137 (260)
T PLN03243 107 LYRLRPGSREFVQALKKHEIPIAVASTRPRR 137 (260)
T ss_pred CcccCCCHHHHHHHHHHCCCEEEEEeCcCHH
Confidence 3344333 34667788889888888888763
No 313
>smart00843 Ftsk_gamma This domain directs oriented DNA translocation and forms a winged helix structure. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding.
Probab=51.82 E-value=14 Score=27.44 Aligned_cols=20 Identities=35% Similarity=0.574 Sum_probs=16.8
Q ss_pred HHHHHHHHHhcCccCCCCCc
Q 046085 13 IKELFNQLEIKGVIRPAEPY 32 (230)
Q Consensus 13 er~~l~~le~~g~i~p~epy 32 (230)
--+.+++||..|+|.|++..
T Consensus 36 Aariid~lE~~GiV~p~~g~ 55 (63)
T smart00843 36 AARLIDQLEEEGIVGPANGS 55 (63)
T ss_pred HHHHHHHHHHCcCCCCCCCC
Confidence 34789999999999998754
No 314
>PF02633 Creatininase: Creatinine amidohydrolase; InterPro: IPR003785 This family includes the enzymes creatininase and 2-amino-5-formylamino-6-ribosylaminopyrimidin-4(3H)-one 5'-monophosphate deformylase, also known as formamide hydrolase. Creatinase or creatinine amidohydrolase (3.5.2.10 from EC) catalyses the hydrolysis of creatinine to creatine, which can then be metabolised to urea and sarcosine by creatinase (3.5.3.3 from EC). Creatininase is a member of the urease-related amidohydrolase superfamily []. Formamide hydrolase catalyzes the hydrolysis of the formamide of 2-amino-5-formylamino-6-ribosylamino-4(3H)-pyrimidinone 5'-monophosphate (FAPy) to form 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (APy) (3.5.1.102 from EC). ; PDB: 3A6K_F 3A6F_A 3A6D_B 1J2U_B 3A6J_C 1J2T_A 3A6G_C 3A6H_F 1Q3K_E 3A6L_C ....
Probab=51.68 E-value=31 Score=29.87 Aligned_cols=77 Identities=17% Similarity=0.179 Sum_probs=47.6
Q ss_pred hhcCCccCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc----hHHHHHHHHHc--CCe
Q 046085 96 ATLTPKVGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD----FVEVLQEATLR--CLK 169 (230)
Q Consensus 96 ~vl~pkvgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD----F~~lLr~ARer--~l~ 169 (230)
-++.|-+.||...+... |- =||+=.|+. =.++..++.+.|.+.|+.-||+|+..-. ...+++.++.+ ++.
T Consensus 56 ~lv~P~i~yG~s~~h~~--fp-GTisl~~~t-~~~~l~di~~sl~~~Gf~~ivivngHgGN~~~l~~~~~~l~~~~~~~~ 131 (237)
T PF02633_consen 56 ALVLPPIPYGCSPHHMG--FP-GTISLSPET-LIALLRDILRSLARHGFRRIVIVNGHGGNIAALEAAARELRQEYPGVK 131 (237)
T ss_dssp EEE---B--BB-GCCTT--ST-T-BBB-HHH-HHHHHHHHHHHHHHHT--EEEEEESSTTHHHHHHHHHHHHHHHGCC-E
T ss_pred EEEeCCCccccCcccCC--CC-CeEEeCHHH-HHHHHHHHHHHHHHcCCCEEEEEECCHhHHHHHHHHHHHHHhhCCCcE
Confidence 78999999999988874 22 345555552 3478888888888999999999999864 34455556655 888
Q ss_pred EEEecCC
Q 046085 170 TGVAGYM 176 (230)
Q Consensus 170 TVVVGd~ 176 (230)
.+++...
T Consensus 132 v~~~~~~ 138 (237)
T PF02633_consen 132 VFVINWW 138 (237)
T ss_dssp EEEEEGG
T ss_pred EEEeech
Confidence 8887764
No 315
>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=51.57 E-value=46 Score=25.94 Aligned_cols=23 Identities=9% Similarity=0.029 Sum_probs=15.7
Q ss_pred chhhhhhhhcEEEEEccccchHH
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAA 127 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAA 127 (230)
.+-..|+..|+.+-.+|..+...
T Consensus 92 ~~l~~l~~~g~~~~i~Tn~~~~~ 114 (183)
T TIGR01509 92 PLLEALRARGKKLALLTNSPRDH 114 (183)
T ss_pred HHHHHHHHCCCeEEEEeCCchHH
Confidence 34456777787777777777654
No 316
>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=51.48 E-value=39 Score=30.19 Aligned_cols=61 Identities=8% Similarity=0.067 Sum_probs=40.6
Q ss_pred hhhhhhhcE----EEE-EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE
Q 046085 107 VVKLKRVWF----WVR-TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 107 a~eLrRAGv----~Vr-tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T 170 (230)
...|+..|+ -|. ++.=.|.+.|.. ..+..+. ..+.+.|+|.+...+...+++.|++.|+..
T Consensus 175 ~~~~~~~g~~~~~~v~~~~~~~~~~~d~~--~~l~~ik-~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~ 240 (377)
T cd06379 175 ETLLEEREIEFKIKVEKVVEFEPGEKNVT--SLLQEAK-ELTSRVILLSASEDDAAVIYRNAGMLNMTG 240 (377)
T ss_pred HHHHHhcCCccceeeeEEEecCCchhhHH--HHHHHHh-hcCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Confidence 346667787 433 222223444432 3333333 468999999999999999999999999863
No 317
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=51.44 E-value=9 Score=38.74 Aligned_cols=83 Identities=22% Similarity=0.179 Sum_probs=53.0
Q ss_pred CCcc-CCchhhhhhhhcEEEEEccc---cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcc--hHHHHHHHHHcCCeEEE
Q 046085 99 TPKV-GYSLVVKLKRVWFWVRTMSD---KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSD--FVEVLQEATLRCLKTGV 172 (230)
Q Consensus 99 ~pkv-gygLa~eLrRAGv~VrtV~d---KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSD--F~~lLr~ARer~l~TVV 172 (230)
.|.- +..|+..|+..|+.|-.+|- .|-.....|. .+..-+ ..+++||++|-+.- |-..+...+-.+++.++
T Consensus 10 Rp~~qa~~la~~L~~~G~~vi~~Pli~i~p~~~~~~l~-~~l~~L--~~yd~iIFTS~nAV~~~~~~l~~~~~~~~~i~A 86 (656)
T PRK06975 10 RPDGQSAALAAQLAAAGLDVLDFPLLDIAPVADDAPLR-AALARL--SDYALVVFVSPNAVDRALARLDAIWPHALPVAV 86 (656)
T ss_pred CcHhHHHHHHHHHHHcCCCEEEcccEEeeCCCChHHHH-HHHHhC--CCCCEEEEECHHHHHHHHHHHHhhCccCCeEEE
Confidence 3444 57899999999998874421 2211111222 222334 37899999998873 34445544456889999
Q ss_pred ecCCCCchhhhh
Q 046085 173 AGYMNDGTLKRI 184 (230)
Q Consensus 173 VGd~~~~aL~r~ 184 (230)
||..|..+|..+
T Consensus 87 VG~~Ta~aL~~~ 98 (656)
T PRK06975 87 VGPGSVAALARH 98 (656)
T ss_pred ECHHHHHHHHHc
Confidence 999987777653
No 318
>KOG3456 consensus NADH:ubiquinone oxidoreductase, NDUFS6/13 kDa subunit [Energy production and conversion]
Probab=51.35 E-value=5.4 Score=33.25 Aligned_cols=15 Identities=27% Similarity=0.357 Sum_probs=12.4
Q ss_pred CCCcccccccCCCcccC
Q 046085 29 AEPYVLVIVEGDLRLYN 45 (230)
Q Consensus 29 ~epy~~C~VCGdrkf~t 45 (230)
++|. +|++|| .||+.
T Consensus 102 ~~~~-~CgYCG-lrf~~ 116 (120)
T KOG3456|consen 102 PGPH-ICGYCG-LRFVQ 116 (120)
T ss_pred CCCc-ccccch-hhhhh
Confidence 5677 999999 88875
No 319
>PRK13057 putative lipid kinase; Reviewed
Probab=51.27 E-value=57 Score=28.77 Aligned_cols=72 Identities=8% Similarity=0.024 Sum_probs=40.1
Q ss_pred hhhhhhhhcEEEEEcccc-chHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCCCchhhh
Q 046085 106 LVVKLKRVWFWVRTMSDK-LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMNDGTLKR 183 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dK-pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~~~aL~r 183 (230)
+...|+.+|+.|.+...+ +..|..+... + ..+.|.|+.+..|--+..++.-....+....||=-+|.-.+.|
T Consensus 18 i~~~l~~~g~~~~~~~t~~~~~a~~~~~~-----~-~~~~d~iiv~GGDGTv~~v~~~l~~~~~~lgiiP~GT~Ndfar 90 (287)
T PRK13057 18 ARAALEAAGLELVEPPAEDPDDLSEVIEA-----Y-ADGVDLVIVGGGDGTLNAAAPALVETGLPLGILPLGTANDLAR 90 (287)
T ss_pred HHHHHHHcCCeEEEEecCCHHHHHHHHHH-----H-HcCCCEEEEECchHHHHHHHHHHhcCCCcEEEECCCCccHHHH
Confidence 445677777765544333 3333222221 2 2467777777777777777776666666555555443333433
No 320
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=51.15 E-value=10 Score=37.68 Aligned_cols=31 Identities=16% Similarity=0.246 Sum_probs=27.7
Q ss_pred cccccCCCcccCchHHHHHHHHHhHHHHHHHh
Q 046085 34 LVIVEGDLRLYNNDKLVNHFKQIHKREQKKRL 65 (230)
Q Consensus 34 ~C~VCGdrkf~t~~kL~kHFkqlHeREr~Krl 65 (230)
+|++|. .+|.+-..+..|+.|-|...-..++
T Consensus 59 iCp~Cs-kkF~d~~~~~~H~~~eH~~~l~P~l 89 (466)
T PF04780_consen 59 ICPRCS-KKFSDAESCLSHMEQEHPAGLKPKL 89 (466)
T ss_pred eCCccc-ceeCCHHHHHHHHHHhhhhhcChhh
Confidence 899999 9999999999999999998755444
No 321
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=50.89 E-value=43 Score=32.09 Aligned_cols=97 Identities=16% Similarity=0.074 Sum_probs=57.3
Q ss_pred HHHHHHHHHhcCcc-CCCCCcc-cccccCCCcccCchHHHHHHHHHhHHHHHHHhhhhhhcccchhhHhHhhhhhhhHHH
Q 046085 13 IKELFNQLEIKGVI-RPAEPYV-LVIVEGDLRLYNNDKLVNHFKQIHKREQKKRLNQIESAKGKMREHLVGNYSMRMETY 90 (230)
Q Consensus 13 er~~l~~le~~g~i-~p~epy~-~C~VCGdrkf~t~~kL~kHFkqlHeREr~Krlnri~s~kGkrR~~~~~~~~~k~~KY 90 (230)
-++++.+|.+.|++ -||+|-. -|+.-|.+|+...+....|-.+.-.. +.++|++ . ++- .-...-|
T Consensus 135 ~~~Nl~~L~~~G~~ii~P~~g~la~~~~g~gr~~~~~~I~~~~~~~~~~---------~~l~gk~-v-lIT--gG~T~E~ 201 (399)
T PRK05579 135 TQRNLATLRSRGVEIIGPASGRLACGDVGPGRMAEPEEIVAAAERALSP---------KDLAGKR-V-LIT--AGPTREP 201 (399)
T ss_pred HHHHHHHHHHCCCEEECCCCccccCCCcCCCCCCCHHHHHHHHHHHhhh---------cccCCCE-E-EEe--CCCcccc
Confidence 46788899887753 3555542 59999999999999998887665421 1234432 1 000 0000011
Q ss_pred HHHHhhhcCC---ccCCchhhhhhhhcEEEEEccc
Q 046085 91 KMASKATLTP---KVGYSLVVKLKRVWFWVRTMSD 122 (230)
Q Consensus 91 ~~AAr~vl~p---kvgygLa~eLrRAGv~VrtV~d 122 (230)
-.-.|-+--+ +.|+.+|.+|.+.|..|..+..
T Consensus 202 ID~VR~isN~SSG~~G~aiA~~l~~~Ga~V~~v~~ 236 (399)
T PRK05579 202 IDPVRYITNRSSGKMGYALARAAARRGADVTLVSG 236 (399)
T ss_pred ccceeeeccCCcchHHHHHHHHHHHCCCEEEEeCC
Confidence 1111111111 3578899999999999976643
No 322
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=50.53 E-value=65 Score=27.77 Aligned_cols=66 Identities=15% Similarity=0.119 Sum_probs=42.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC-cchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD-SDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD-SDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.|+..++...|+.+-......+. .......+.|..+++|.+++.+.+ .+. ..+. +.+..+|++|..
T Consensus 79 ~~i~~~~~~~gy~~~i~~~~~~~---~~~~~~~~~l~~~~vdGvIi~~~~~~~~-~~l~---~~~~p~V~i~~~ 145 (311)
T TIGR02405 79 SGMLPVFYTAGYDPIIMESQFSP---QLTNEHLSVLQKRNVDGVILFGFTGCDE-EILE---SWNHKAVVIARD 145 (311)
T ss_pred HHHHHHHHHCCCeEEEecCCCCh---HHHHHHHHHHHhcCCCEEEEeCCCCCCH-HHHH---hcCCCEEEEecC
Confidence 57888999999998865433222 122334455557889999998743 332 2333 346688999854
No 323
>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=50.51 E-value=32 Score=33.16 Aligned_cols=72 Identities=11% Similarity=0.154 Sum_probs=47.5
Q ss_pred hhcCCccCCch------hhhhhhhcEEEEE---ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHc
Q 046085 96 ATLTPKVGYSL------VVKLKRVWFWVRT---MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLR 166 (230)
Q Consensus 96 ~vl~pkvgygL------a~eLrRAGv~Vrt---V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer 166 (230)
.++.....||. ..++++.|+-|-. ++..+.+.|. ...+.. |.+.+.+.||+.+...+...+++.|++.
T Consensus 191 aiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~--~~~l~k-lk~~~a~vVvl~~~~~~~~~ll~qa~~~ 267 (510)
T cd06364 191 GTIAADDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEI--QRVVEV-IQNSTAKVIVVFSSGPDLEPLIKEIVRR 267 (510)
T ss_pred EEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHH--HHHHHH-HHhcCCeEEEEEeCcHHHHHHHHHHHHh
Confidence 34555555663 3567778987753 3332334343 222222 3346899999999999999999999999
Q ss_pred CCeE
Q 046085 167 CLKT 170 (230)
Q Consensus 167 ~l~T 170 (230)
|++-
T Consensus 268 g~~~ 271 (510)
T cd06364 268 NITG 271 (510)
T ss_pred CCCC
Confidence 9964
No 324
>PRK11009 aphA acid phosphatase/phosphotransferase; Provisional
Probab=50.43 E-value=36 Score=30.40 Aligned_cols=89 Identities=17% Similarity=0.062 Sum_probs=48.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCc--c---eEEEEcCCcchHHHHHHHHHcCCeEEEecCC-C
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRF--G---CLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-N 177 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~v--d---clvLVSDDSDF~~lLr~ARer~l~TVVVGd~-~ 177 (230)
-.+-..|+..|+.+-.|+.+++.--......+.+ ..|+ + -+++-.|++--.+-...+.+.|+ ++.|||. +
T Consensus 120 ~elL~~L~~~G~~I~iVTnR~~~k~~~t~~~Llk---~~gip~~~~f~vil~gd~~~K~~K~~~l~~~~i-~I~IGDs~~ 195 (237)
T PRK11009 120 RQLIDMHVKRGDSIYFITGRTATKTETVSKTLAD---DFHIPADNMNPVIFAGDKPGQYTKTQWLKKKNI-RIFYGDSDN 195 (237)
T ss_pred HHHHHHHHHCCCeEEEEeCCCCcccHHHHHHHHH---HcCCCcccceeEEEcCCCCCCCCHHHHHHhcCC-eEEEcCCHH
Confidence 4567788889999999998764211122223322 2355 3 34443343211222234445666 8889998 4
Q ss_pred Cchhhhhhh----ccccccchHH
Q 046085 178 DGTLKRIAD----RLKWAYNSEV 196 (230)
Q Consensus 178 ~~aL~r~AD----~leW~~~~e~ 196 (230)
|-.=.+.|. ...|-+++-+
T Consensus 196 Di~aA~~AGi~~I~v~~G~~~~~ 218 (237)
T PRK11009 196 DITAAREAGARGIRILRAANSTY 218 (237)
T ss_pred HHHHHHHcCCcEEEEecCCCCCC
Confidence 332333444 6678777644
No 325
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=50.38 E-value=25 Score=34.83 Aligned_cols=126 Identities=17% Similarity=0.144 Sum_probs=77.8
Q ss_pred HHHHHHHHHhcCc--cCCCCCccc-ccccCCCcccCchHHHHHHHHHhHHHHHHHhhhhhhcccchh-------------
Q 046085 13 IKELFNQLEIKGV--IRPAEPYVL-VIVEGDLRLYNNDKLVNHFKQIHKREQKKRLNQIESAKGKMR------------- 76 (230)
Q Consensus 13 er~~l~~le~~g~--i~p~epy~~-C~VCGdrkf~t~~kL~kHFkqlHeREr~Krlnri~s~kGkrR------------- 76 (230)
-++++.+|.+.|+ |.|..-.-- |+.-|.+|+...+....+-.++=..... +.++|+|=
T Consensus 199 t~~Nl~~L~~~G~~vi~P~~g~lA~~g~~G~Grm~e~~~I~~~v~~~~~~~~~------~~l~gkkvLITaGpT~E~IDp 272 (475)
T PRK13982 199 TRRNVAQLKRDGVHMIGPNAGEMAERGEAGVGRMAEPLEIAAAAEALLRPPQP------KPLAGRRVLITAGPTHEPIDP 272 (475)
T ss_pred HHHHHHHHHHCCCEEECCCCCccccCCCcCCCCCCCHHHHHHHHHHHHhhccc------cccCCCEEEEecCCccccCCc
Confidence 4678999999885 344444423 7999989999999998887654221100 12566652
Q ss_pred hHhHhhhhhhhHHHHHHHhhhcCCccCCchhhhhhhhcEEEEEccc-----cchHH---HHHHHHHHHHHHh-hcCcceE
Q 046085 77 EHLVGNYSMRMETYKMASKATLTPKVGYSLVVKLKRVWFWVRTMSD-----KLQAA---DVLLRNYMVDMMD-KRRFGCL 147 (230)
Q Consensus 77 ~~~~~~~~~k~~KY~~AAr~vl~pkvgygLa~eLrRAGv~VrtV~d-----KpqAA---D~AL~~~m~~~m~-~r~vdcl 147 (230)
++|..+.|. =|-||-||.++.+.|..|..|+. .|.-- .+-=..+|.+.+. ....|.+
T Consensus 273 VR~ItN~SS--------------GkmG~alA~aa~~~GA~VtlI~Gp~~~~~p~~v~~i~V~ta~eM~~av~~~~~~Di~ 338 (475)
T PRK13982 273 VRYIANRSS--------------GKQGFAIAAAAAAAGAEVTLISGPVDLADPQGVKVIHVESARQMLAAVEAALPADIA 338 (475)
T ss_pred ceeeCCCCc--------------hHHHHHHHHHHHHCCCcEEEEeCCcCCCCCCCceEEEecCHHHHHHHHHhhCCCCEE
Confidence 233333333 24589999999999999998873 23200 0000233444442 1236889
Q ss_pred EEEcCCcchHH
Q 046085 148 VFVSDDSDFVE 158 (230)
Q Consensus 148 vLVSDDSDF~~ 158 (230)
|....=|||..
T Consensus 339 I~aAAVaDyrp 349 (475)
T PRK13982 339 IFAAAVADWRV 349 (475)
T ss_pred EEeccccceee
Confidence 98888888874
No 326
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=50.29 E-value=82 Score=26.87 Aligned_cols=79 Identities=15% Similarity=0.129 Sum_probs=49.3
Q ss_pred hhcCCccCCc--------hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC----cchHHHHHHH
Q 046085 96 ATLTPKVGYS--------LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD----SDFVEVLQEA 163 (230)
Q Consensus 96 ~vl~pkvgyg--------La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD----SDF~~lLr~A 163 (230)
.+|+.|.|-. ++..|+.+||-|- ...--|++|.++..- + ...++.+++-|=+ ..|.++...+
T Consensus 14 rvlvak~GlDgHd~gakvia~~l~d~GfeVi-~~g~~~tp~e~v~aA----~-~~dv~vIgvSsl~g~h~~l~~~lve~l 87 (143)
T COG2185 14 RVLVAKLGLDGHDRGAKVIARALADAGFEVI-NLGLFQTPEEAVRAA----V-EEDVDVIGVSSLDGGHLTLVPGLVEAL 87 (143)
T ss_pred eEEEeccCccccccchHHHHHHHHhCCceEE-ecCCcCCHHHHHHHH----H-hcCCCEEEEEeccchHHHHHHHHHHHH
Confidence 3566666621 6788999999998 333334444443322 3 3566666655543 5788899999
Q ss_pred HHcCCeEEE--ecCC-CCch
Q 046085 164 TLRCLKTGV--AGYM-NDGT 180 (230)
Q Consensus 164 Rer~l~TVV--VGd~-~~~a 180 (230)
|++|+.-+. +|.. .++.
T Consensus 88 re~G~~~i~v~~GGvip~~d 107 (143)
T COG2185 88 REAGVEDILVVVGGVIPPGD 107 (143)
T ss_pred HHhCCcceEEeecCccCchh
Confidence 999987654 5544 4444
No 327
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=50.25 E-value=87 Score=24.13 Aligned_cols=64 Identities=19% Similarity=0.026 Sum_probs=38.5
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhh-cCcceEEEEcCCcchHH---HHHHHHHcCC-eEEEecCC
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDK-RRFGCLVFVSDDSDFVE---VLQEATLRCL-KTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~-r~vdclvLVSDDSDF~~---lLr~ARer~l-~TVVVGd~ 176 (230)
+|+-|+.+|+-|......+ .| +..+.+.. ...+.+++=+-..++.. +++.+|+++- .+||+|..
T Consensus 8 ~aa~l~~~g~~v~~~~~~~--~~-----~~~~~~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p~~~iv~GG~ 76 (127)
T cd02068 8 LAAVLEDAGFIVAEHDVLS--AD-----DIVEDIKELLKPDVVGISLMTSAIYEALELAKIAKEVLPNVIVVVGGP 76 (127)
T ss_pred HHHHHHHCCCeeeecCCCC--HH-----HHHHHHHHhcCCCEEEEeeccccHHHHHHHHHHHHHHCCCCEEEECCc
Confidence 6788999998888554332 22 22233322 56777766655555544 6677777663 45566665
No 328
>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=50.23 E-value=32 Score=32.50 Aligned_cols=43 Identities=16% Similarity=0.095 Sum_probs=32.3
Q ss_pred CcceEEEEcCCcch-----HHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSDDSDF-----VEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSDDSDF-----~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
..++|+++..|... ...++.||++|.+.|||.-. .-.....||
T Consensus 170 ~ad~il~~G~N~~~~~~~~~~~l~~ar~~GaklividPr-~s~ta~~Ad 217 (461)
T cd02750 170 NADYIIMWGSNVPVTRTPDAHFLTEARYNGAKVVVVSPD-YSPSAKHAD 217 (461)
T ss_pred cCcEEEEECCChHHccCchHHHHHHHHHCCCEEEEEcCC-CCcchhhcC
Confidence 57999999888533 34566799999999999655 335667888
No 329
>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=50.17 E-value=39 Score=26.07 Aligned_cols=67 Identities=18% Similarity=0.206 Sum_probs=44.1
Q ss_pred ccCCch------hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhh-cCcceEEEEcCCc-------chHHHHHHHHHc
Q 046085 101 KVGYSL------VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDK-RRFGCLVFVSDDS-------DFVEVLQEATLR 166 (230)
Q Consensus 101 kvgygL------a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~-r~vdclvLVSDDS-------DF~~lLr~ARer 166 (230)
+.||.| |..|+..|+-|..|..-+... ..++.+++-+ ..|+-++-+++.. |=-.|.|.|.+.
T Consensus 23 ~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g----~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~ 98 (112)
T cd00532 23 SDGFPLFATGGTSRVLADAGIPVRAVSKRHEDG----EPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLY 98 (112)
T ss_pred HCCCEEEECcHHHHHHHHcCCceEEEEecCCCC----CcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHc
Confidence 557655 788999999998876443311 1345566767 7899888887533 244566777777
Q ss_pred CCeEE
Q 046085 167 CLKTG 171 (230)
Q Consensus 167 ~l~TV 171 (230)
|+..+
T Consensus 99 ~Ip~~ 103 (112)
T cd00532 99 KIPVT 103 (112)
T ss_pred CCCEE
Confidence 66544
No 330
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=50.15 E-value=11 Score=35.34 Aligned_cols=26 Identities=15% Similarity=0.270 Sum_probs=22.7
Q ss_pred CCCCcccccccCCCcccCchHHHHHHHH
Q 046085 28 PAEPYVLVIVEGDLRLYNNDKLVNHFKQ 55 (230)
Q Consensus 28 p~epy~~C~VCGdrkf~t~~kL~kHFkq 55 (230)
-+-|| .|+.|| +.|-.+.+|.-|..+
T Consensus 212 GEKPF-~C~hC~-kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 212 GEKPF-SCPHCG-KAFADRSNLRAHMQT 237 (279)
T ss_pred CCCCc-cCCccc-chhcchHHHHHHHHh
Confidence 46799 999999 999999999888654
No 331
>PF13945 NST1: Salt tolerance down-regulator
Probab=50.14 E-value=5.1 Score=35.45 Aligned_cols=9 Identities=22% Similarity=0.135 Sum_probs=7.7
Q ss_pred ccccccCCCc
Q 046085 33 VLVIVEGDLR 42 (230)
Q Consensus 33 ~~C~VCGdrk 42 (230)
|.|.||| ||
T Consensus 142 C~C~vCg-r~ 150 (190)
T PF13945_consen 142 CSCSVCG-RK 150 (190)
T ss_pred cccHHHh-ch
Confidence 7999999 54
No 332
>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=50.01 E-value=57 Score=24.78 Aligned_cols=31 Identities=13% Similarity=-0.040 Sum_probs=25.2
Q ss_pred eEEEEcCCcchHHHHHHHHHcCC------eEEEecCC
Q 046085 146 CLVFVSDDSDFVEVLQEATLRCL------KTGVAGYM 176 (230)
Q Consensus 146 clvLVSDDSDF~~lLr~ARer~l------~TVVVGd~ 176 (230)
..+++++|.-...+++.++++|+ ..|.+++.
T Consensus 70 daii~~~~~~a~~~~~~l~~~g~~vP~di~vv~~~~~ 106 (160)
T PF13377_consen 70 DAIICSNDRLALGVLRALRELGIRVPQDISVVSFDDS 106 (160)
T ss_dssp SEEEESSHHHHHHHHHHHHHTTSCTTTTSEEEEESSS
T ss_pred cEEEEcCHHHHHHHHHHHHHcCCcccccccEEEecCc
Confidence 36777999999999999999988 45666654
No 333
>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=49.83 E-value=85 Score=29.74 Aligned_cols=70 Identities=11% Similarity=0.078 Sum_probs=45.5
Q ss_pred hhhhhhhhcEEEEE---ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHH-HHHHHHcCCeEEEecCC
Q 046085 106 LVVKLKRVWFWVRT---MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEV-LQEATLRCLKTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~Vrt---V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~l-Lr~ARer~l~TVVVGd~ 176 (230)
|..+|++.|+-|-. ++..++..+......+..+. +.+++.|||.++..+...+ .+.+|+.+.+.+.||..
T Consensus 192 ~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~-~~~arvIvl~~~~~~~~~l~~~~~~~~~~~~~wi~s~ 265 (469)
T cd06365 192 LREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIM-TSSAKVIIIYGDTDSLLEVSFRLWQYLLIGKVWITTS 265 (469)
T ss_pred HHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhh-cCCCeEEEEEcCcHHHHHHHHHHHHhccCceEEEeec
Confidence 45677888987764 44444433333334444444 5789999999998787665 56666677777777764
No 334
>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=49.37 E-value=56 Score=34.06 Aligned_cols=39 Identities=15% Similarity=0.171 Sum_probs=31.0
Q ss_pred cchHHHHHHHHHcCCeEEEecCC-CCchhhhhhh-cccccc
Q 046085 154 SDFVEVLQEATLRCLKTGVAGYM-NDGTLKRIAD-RLKWAY 192 (230)
Q Consensus 154 SDF~~lLr~ARer~l~TVVVGd~-~~~aL~r~AD-~leW~~ 192 (230)
.+=..+++..++.|-.+..|||+ ||-.--+.|| .+.|-+
T Consensus 604 ~~K~~iv~~lq~~g~~v~mvGDGvND~pAl~~AdVGia~g~ 644 (884)
T TIGR01522 604 EHKMKIVKALQKRGDVVAMTGDGVNDAPALKLADIGVAMGQ 644 (884)
T ss_pred HHHHHHHHHHHHCCCEEEEECCCcccHHHHHhCCeeEecCC
Confidence 34567888899999999999999 7766678888 667754
No 335
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=49.30 E-value=1.1e+02 Score=26.29 Aligned_cols=56 Identities=13% Similarity=0.158 Sum_probs=36.2
Q ss_pred hcCcceEEEEc--CC----cchHHHHHHHHHcCCeEEEecCCCCchhhhh----hh-------ccccccchHH
Q 046085 141 KRRFGCLVFVS--DD----SDFVEVLQEATLRCLKTGVAGYMNDGTLKRI----AD-------RLKWAYNSEV 196 (230)
Q Consensus 141 ~r~vdclvLVS--DD----SDF~~lLr~ARer~l~TVVVGd~~~~aL~r~----AD-------~leW~~~~e~ 196 (230)
..|++.+++-. ++ .+|..+|+.++++|+..||.|+......+++ |. .-=|..++++
T Consensus 56 ~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~g~~~vv~G~i~sd~~~~~~e~~~~~~gl~~~~PLW~~~~~~ 128 (194)
T cd01994 56 AMGIPLIRIEISGEEEDEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERVCERLGLEPLAPLWGRDQEE 128 (194)
T ss_pred HcCCcEEEEeCCCCchHHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHHHHHcCCEEEecccCCCHHH
Confidence 34888766653 23 3455666777767999999999844444433 33 3358888866
No 336
>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=49.26 E-value=61 Score=25.58 Aligned_cols=61 Identities=13% Similarity=0.212 Sum_probs=41.7
Q ss_pred chhhhhhh-hcEEEEEccccc--hHHHHHHHHHHHHHHhhcCcceEEEEcC--C-----cchHHHHHHHHHcCCeEE
Q 046085 105 SLVVKLKR-VWFWVRTMSDKL--QAADVLLRNYMVDMMDKRRFGCLVFVSD--D-----SDFVEVLQEATLRCLKTG 171 (230)
Q Consensus 105 gLa~eLrR-AGv~VrtV~dKp--qAAD~AL~~~m~~~m~~r~vdclvLVSD--D-----SDF~~lLr~ARer~l~TV 171 (230)
|-+..|+. .|+.|++| |. .-.| .++.+++-+..++-++-.+| + .|--.+.|.|-+.++..+
T Consensus 35 gTa~~L~~~~Gi~v~~v--k~~~~~g~----~~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~ 105 (115)
T cd01422 35 TTGLLIQEATGLTVNRM--KSGPLGGD----QQIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLA 105 (115)
T ss_pred hHHHHHHHhhCCcEEEE--ecCCCCch----hHHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEE
Confidence 45788999 99999998 43 4333 45667776778888888877 2 234456666777766543
No 337
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=49.08 E-value=66 Score=29.25 Aligned_cols=81 Identities=19% Similarity=0.041 Sum_probs=52.4
Q ss_pred hhhhhhh--cEEEEEccccchHHH--HHHHHHHHHHHhhcCcceEEEEcCC----cch---HHHHHHHHH-cCCeEEEec
Q 046085 107 VVKLKRV--WFWVRTMSDKLQAAD--VLLRNYMVDMMDKRRFGCLVFVSDD----SDF---VEVLQEATL-RCLKTGVAG 174 (230)
Q Consensus 107 a~eLrRA--Gv~VrtV~dKpqAAD--~AL~~~m~~~m~~r~vdclvLVSDD----SDF---~~lLr~ARe-r~l~TVVVG 174 (230)
|.-||.. |-.|..|+..|..|+ .+|++- | ..|+|-.+||||+ +|- +.+|..|-+ .+..-|+-|
T Consensus 45 Alrlke~~~g~~Vtvvs~Gp~~a~~~~~lr~a----L-AmGaD~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G 119 (256)
T PRK03359 45 ACQLKQQAAEAQVTALSVGGKALTNAKGRKDV----L-SRGPDELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCG 119 (256)
T ss_pred HHHHhhhcCCCEEEEEEECCcchhhHHHHHHH----H-HcCCCEEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEc
Confidence 4455654 368999999998655 445543 4 5799999999988 232 344544443 478889999
Q ss_pred CCC-Cc----hhhhhhhcccccc
Q 046085 175 YMN-DG----TLKRIADRLKWAY 192 (230)
Q Consensus 175 d~~-~~----aL~r~AD~leW~~ 192 (230)
..+ |+ .-...|-+|.|-+
T Consensus 120 ~~s~D~~tgqvg~~lAe~Lg~P~ 142 (256)
T PRK03359 120 DGSSDLYAQQVGLLVGEILNIPA 142 (256)
T ss_pred CccccCCCCcHHHHHHHHhCCCc
Confidence 773 33 3444666665543
No 338
>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=48.85 E-value=1e+02 Score=26.61 Aligned_cols=53 Identities=15% Similarity=0.192 Sum_probs=34.9
Q ss_pred HHHHHHHhh-cCcceEEEEcCCcchHHHHHHHHHcCCe----EEEecCC-CCchhhhhhh
Q 046085 133 NYMVDMMDK-RRFGCLVFVSDDSDFVEVLQEATLRCLK----TGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 133 ~~m~~~m~~-r~vdclvLVSDDSDF~~lLr~ARer~l~----TVVVGd~-~~~aL~r~AD 186 (230)
..+.++|.. ..++.| ++++|.--.++++.++++|++ ..|||-. ++.++..+.+
T Consensus 191 ~~~~~~l~~~~~~~ai-~~~~d~~A~g~~~al~~~g~~vp~di~vig~D~~~~~~~~~~~ 249 (305)
T cd06324 191 EQAENLLKRYPDVRLI-WAANDQMAFGALRAAKEAGRKPGRDVLFGGVNWSPEALRAIKD 249 (305)
T ss_pred HHHHHHHHHCCCccEE-EECCchHHHHHHHHHHHcCCCcCCCEEEEecCCCHHHHHHHHc
Confidence 344555542 235644 466676667999999999986 5677743 5556677766
No 339
>PRK14649 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=48.62 E-value=17 Score=33.27 Aligned_cols=34 Identities=15% Similarity=-0.083 Sum_probs=31.9
Q ss_pred cceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 144 FGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 144 vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
++.++.+.+-.|+..+++.|++.++...|+|.++
T Consensus 21 a~~~v~p~~~~dl~~~l~~~~~~~ip~~vlG~GS 54 (295)
T PRK14649 21 ARYFVEPTTPDEAIAAAAWAEQRQLPLFWLGGGS 54 (295)
T ss_pred eeEEEEcCCHHHHHHHHHHHHHCCCCEEEEecce
Confidence 6889999999999999999999999999999984
No 340
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=48.28 E-value=15 Score=31.87 Aligned_cols=25 Identities=20% Similarity=0.304 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHhcCccCCCCCcccccccC
Q 046085 8 SKEKKIKELFNQLEIKGVIRPAEPYVLVIVEG 39 (230)
Q Consensus 8 r~~r~er~~l~~le~~g~i~p~epy~~C~VCG 39 (230)
+-.+.=++.|+.+++-- =| +|+|||
T Consensus 117 ~H~~~~~~~Le~~~~~~------~~-vC~vCG 141 (166)
T COG1592 117 RHAEMFRGLLERLEEGK------VW-VCPVCG 141 (166)
T ss_pred HHHHHHHHHHHhhhcCC------EE-EcCCCC
Confidence 34455566777775422 34 777777
No 341
>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=48.27 E-value=50 Score=25.63 Aligned_cols=45 Identities=13% Similarity=0.204 Sum_probs=28.7
Q ss_pred cCcceEEEEcCCcc------hH---HHHHHHHHcCCeEEEecCC---CCchhhhhhh
Q 046085 142 RRFGCLVFVSDDSD------FV---EVLQEATLRCLKTGVAGYM---NDGTLKRIAD 186 (230)
Q Consensus 142 r~vdclvLVSDDSD------F~---~lLr~ARer~l~TVVVGd~---~~~aL~r~AD 186 (230)
++...|+|+||=.+ +. ..++.++.+++...+||-+ +...|+.+|.
T Consensus 95 ~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~~~v~i~~i~~g~~~~~~~l~~ia~ 151 (170)
T cd01465 95 GGVNRILLATDGDFNVGETDPDELARLVAQKRESGITLSTLGFGDNYNEDLMEAIAD 151 (170)
T ss_pred CCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhcCCeEEEEEEeCCCcCHHHHHHHHh
Confidence 33467999988642 33 3455566678877777665 3355777776
No 342
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=48.02 E-value=92 Score=28.68 Aligned_cols=74 Identities=7% Similarity=0.008 Sum_probs=42.4
Q ss_pred hhhhhhcE--EEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchH---HHHHHHHHcCCeEEE-ecCCCCchh
Q 046085 108 VKLKRVWF--WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFV---EVLQEATLRCLKTGV-AGYMNDGTL 181 (230)
Q Consensus 108 ~eLrRAGv--~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~---~lLr~ARer~l~TVV-VGd~~~~aL 181 (230)
.+|++-|. .|-.|.|.-. .+. ....+...+.+.+ +..+.+..++.+. .++..+++.+...|| ||.++-..+
T Consensus 26 ~~l~~~~~~~~~livtd~~~-~~~-~~~~l~~~l~~~~-~~~~~~~~~~t~~~v~~~~~~~~~~~~d~IIaiGGGsv~D~ 102 (350)
T PRK00843 26 DVCSDLKLTGRALIVTGPTT-KKI-AGDRVEENLEDAG-DVEVVIVDEATMEEVEKVEEKAKDVNAGFLIGVGGGKVIDV 102 (350)
T ss_pred HHHHHhCCCCeEEEEECCcH-HHH-HHHHHHHHHHhcC-CeeEEeCCCCCHHHHHHHHHHhhccCCCEEEEeCCchHHHH
Confidence 33444442 3444555433 333 3466777776666 6666676677666 556666777776665 777654444
Q ss_pred hhh
Q 046085 182 KRI 184 (230)
Q Consensus 182 ~r~ 184 (230)
...
T Consensus 103 ak~ 105 (350)
T PRK00843 103 AKL 105 (350)
T ss_pred HHH
Confidence 444
No 343
>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=47.87 E-value=13 Score=29.21 Aligned_cols=74 Identities=14% Similarity=0.088 Sum_probs=50.2
Q ss_pred ccCCchhhhhhhhcEEEEEccccchHHH-----------HHHHHHHHHHHhhcCcceEEEEcC-----CcchHHHHHHHH
Q 046085 101 KVGYSLVVKLKRVWFWVRTMSDKLQAAD-----------VLLRNYMVDMMDKRRFGCLVFVSD-----DSDFVEVLQEAT 164 (230)
Q Consensus 101 kvgygLa~eLrRAGv~VrtV~dKpqAAD-----------~AL~~~m~~~m~~r~vdclvLVSD-----DSDF~~lLr~AR 164 (230)
.+|.-|+.+|.+.|+.|..+...|+-++ +.=...+.+++. +++.++.+-. ......+++.++
T Consensus 9 ~vG~~l~~~L~~~~~~V~~~~R~~~~~~~~~~~~~~~~d~~d~~~~~~al~--~~d~vi~~~~~~~~~~~~~~~~~~a~~ 86 (183)
T PF13460_consen 9 FVGRALAKQLLRRGHEVTALVRSPSKAEDSPGVEIIQGDLFDPDSVKAALK--GADAVIHAAGPPPKDVDAAKNIIEAAK 86 (183)
T ss_dssp HHHHHHHHHHHHTTSEEEEEESSGGGHHHCTTEEEEESCTTCHHHHHHHHT--TSSEEEECCHSTTTHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHCCCEEEEEecCchhcccccccccceeeehhhhhhhhhhh--hcchhhhhhhhhccccccccccccccc
Confidence 4678899999999999998888777433 333345556663 7877766543 222556777788
Q ss_pred HcCCeEEEe-cCC
Q 046085 165 LRCLKTGVA-GYM 176 (230)
Q Consensus 165 er~l~TVVV-Gd~ 176 (230)
+.|++.+|+ |..
T Consensus 87 ~~~~~~~v~~s~~ 99 (183)
T PF13460_consen 87 KAGVKRVVYLSSA 99 (183)
T ss_dssp HTTSSEEEEEEET
T ss_pred ccccccceeeecc
Confidence 889966554 443
No 344
>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=47.81 E-value=30 Score=26.66 Aligned_cols=33 Identities=12% Similarity=0.049 Sum_probs=30.2
Q ss_pred ceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 145 GCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 145 dclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.+++..++-.|+..+++.|++.+++..+.|.++
T Consensus 2 ~~vv~P~s~~ev~~~v~~a~~~~~~v~~~g~G~ 34 (139)
T PF01565_consen 2 AAVVRPKSVEEVQAIVKFANENGVPVRVRGGGH 34 (139)
T ss_dssp SEEEEESSHHHHHHHHHHHHHTTSEEEEESSST
T ss_pred cEEEEeCCHHHHHHHHHHHHHcCCcEEEEcCCC
Confidence 467888999999999999999999999999984
No 345
>PF12076 Wax2_C: WAX2 C-terminal domain; InterPro: IPR021940 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 170 amino acids in length. This domain is found associated with PF04116 from PFAM. This domain has a conserved LEGW sequence motif. This region has similarity to short chain dehydrogenases [].
Probab=47.64 E-value=24 Score=30.91 Aligned_cols=76 Identities=18% Similarity=0.051 Sum_probs=50.3
Q ss_pred CCccCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCCC
Q 046085 99 TPKVGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMND 178 (230)
Q Consensus 99 ~pkvgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~~ 178 (230)
+-||||.+|..|=+-||.|-+++..- =..|+..+-.-. -.-|+++++.+. +|-+|||+.+
T Consensus 7 ~sKvaraiA~~LC~rgv~V~m~~~~~---y~~lk~~~~~~~----~~~Lv~~~~~~~-------------K~WlVGd~l~ 66 (164)
T PF12076_consen 7 TSKVARAIALALCRRGVQVVMLSKER---YESLKSEAPEEC----QSNLVQSTSYQA-------------KTWLVGDGLT 66 (164)
T ss_pred ccHHHHHHHHHHHhcCCEEEEecHHH---HHHHHHHcCHHh----hccEEeecCCCc-------------eeEEeCCCCC
Confidence 35889999999999999999883211 124555552222 356888887654 9999999954
Q ss_pred chhhhhhh----ccccccch
Q 046085 179 GTLKRIAD----RLKWAYNS 194 (230)
Q Consensus 179 ~aL~r~AD----~leW~~~~ 194 (230)
..=..+|- |.+..-.|
T Consensus 67 ~~EQ~~Ap~Gt~FipfsqfP 86 (164)
T PF12076_consen 67 EEEQKWAPKGTHFIPFSQFP 86 (164)
T ss_pred HHHHhcCCCCCEEeeccCCC
Confidence 44445554 44544444
No 346
>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=47.45 E-value=1.1e+02 Score=25.36 Aligned_cols=43 Identities=12% Similarity=0.081 Sum_probs=26.7
Q ss_pred HHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 134 YMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 134 ~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
.+.+++....--..++.+.|.-...+++.+++.|+ ...|||-.
T Consensus 172 ~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~~di~vig~d 216 (275)
T cd06320 172 VATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQGKVLVVGTD 216 (275)
T ss_pred HHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCCCCeEEEecC
Confidence 34445532221234455667777789999999998 55566654
No 347
>PF12813 XPG_I_2: XPG domain containing
Probab=47.34 E-value=16 Score=32.64 Aligned_cols=41 Identities=27% Similarity=0.389 Sum_probs=29.4
Q ss_pred hhhhhhh---cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchH
Q 046085 107 VVKLKRV---WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFV 157 (230)
Q Consensus 107 a~eLrRA---Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~ 157 (230)
...|+.- |+-|.++ |.-||.-....+ +..+| ..+|.||||-
T Consensus 10 ~e~L~~~~~~~~~~~~~---~~EAD~~~A~~A------~~~~~-~VLt~DSDf~ 53 (246)
T PF12813_consen 10 IEALRESWRYGVPVVQC---PGEADRECAALA------RKWGC-PVLTNDSDFL 53 (246)
T ss_pred HHHHHHHhhcCCcEEEc---CccchHHHHHHH------HHcCC-eEEccCCCEE
Confidence 4567777 8888877 567787766655 34456 6779999984
No 348
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=47.25 E-value=73 Score=27.96 Aligned_cols=44 Identities=18% Similarity=0.205 Sum_probs=33.1
Q ss_pred CcceEEEEcCCcc------hHHHHHHHHHcCCeEEEecCC----------------CCchhhhhhh
Q 046085 143 RFGCLVFVSDDSD------FVEVLQEATLRCLKTGVAGYM----------------NDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSDDSD------F~~lLr~ARer~l~TVVVGd~----------------~~~aL~r~AD 186 (230)
+-..|||+||--| +..+++.+++.++....||-+ .+..|..+|+
T Consensus 164 ~rk~iIllTDG~~~~~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~ 229 (296)
T TIGR03436 164 GRKALIVISDGGDNRSRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAE 229 (296)
T ss_pred CCeEEEEEecCCCcchHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHH
Confidence 3467999997533 667888899999999888864 2346888888
No 349
>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=47.05 E-value=91 Score=22.00 Aligned_cols=47 Identities=15% Similarity=0.044 Sum_probs=33.4
Q ss_pred ccchHHHHHHHHHHHHHHhhcCcceEEEEcCC--cchHHHHHHHHHcCCeEEEecCC
Q 046085 122 DKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD--SDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 122 dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD--SDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.||+- .+..++.+.+ +....-.+.|.|+ +| ++.|++.|++||.|..+
T Consensus 3 gKP~p---~~~~~a~~~~-~~~~~~~~~VGD~~~~D----i~~a~~~G~~~ilV~tG 51 (75)
T PF13242_consen 3 GKPSP---GMLEQALKRL-GVDPSRCVMVGDSLETD----IEAAKAAGIDTILVLTG 51 (75)
T ss_dssp STTSH---HHHHHHHHHH-TSGGGGEEEEESSTTTH----HHHHHHTTSEEEEESSS
T ss_pred CCCcH---HHHHHHHHHc-CCCHHHEEEEcCCcHhH----HHHHHHcCCcEEEECCC
Confidence 46765 5666666666 3344667777776 55 46789999999999887
No 350
>CHL00194 ycf39 Ycf39; Provisional
Probab=46.94 E-value=30 Score=30.42 Aligned_cols=70 Identities=16% Similarity=0.174 Sum_probs=42.6
Q ss_pred cCCchhhhhhhhcEEEEEccccchHH-------------HHHHHHHHHHHHhhcCcceEEEEcC-----Ccch-------
Q 046085 102 VGYSLVVKLKRVWFWVRTMSDKLQAA-------------DVLLRNYMVDMMDKRRFGCLVFVSD-----DSDF------- 156 (230)
Q Consensus 102 vgygLa~eLrRAGv~VrtV~dKpqAA-------------D~AL~~~m~~~m~~r~vdclvLVSD-----DSDF------- 156 (230)
+|--|+.+|..+|+.|+.+...+..+ |..=...+..++ .|+|.++-.+. ..+|
T Consensus 12 iG~~lv~~Ll~~g~~V~~l~R~~~~~~~l~~~~v~~v~~Dl~d~~~l~~al--~g~d~Vi~~~~~~~~~~~~~~~~~~~~ 89 (317)
T CHL00194 12 LGRQIVRQALDEGYQVRCLVRNLRKASFLKEWGAELVYGDLSLPETLPPSF--KGVTAIIDASTSRPSDLYNAKQIDWDG 89 (317)
T ss_pred HHHHHHHHHHHCCCeEEEEEcChHHhhhHhhcCCEEEECCCCCHHHHHHHH--CCCCEEEECCCCCCCCccchhhhhHHH
Confidence 35568888999999998776554322 111122344445 47887765421 1122
Q ss_pred -HHHHHHHHHcCCeEEEe
Q 046085 157 -VEVLQEATLRCLKTGVA 173 (230)
Q Consensus 157 -~~lLr~ARer~l~TVVV 173 (230)
..+++.|++.|++.+|.
T Consensus 90 ~~~l~~aa~~~gvkr~I~ 107 (317)
T CHL00194 90 KLALIEAAKAAKIKRFIF 107 (317)
T ss_pred HHHHHHHHHHcCCCEEEE
Confidence 46788899999976664
No 351
>cd03134 GATase1_PfpI_like A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus. A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus. This group includes proteins similar to PfpI from P. furiosus. and PH1704 from Pyrococcus horikoshii. These enzymes are ATP-independent intracellular proteases and may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. For PH1704, it is believed that this Cys together with a different His in one monomer and Glu (from an adjacent monomer) forms a different catalytic triad from the typical GATase1domain. PfpI is homooligomeric. Protease activity is only found for oligomeric forms of PH1704.
Probab=46.90 E-value=12 Score=29.72 Aligned_cols=72 Identities=10% Similarity=-0.054 Sum_probs=44.0
Q ss_pred chhhhhhhhcEEEEEcccc-ch--HHHHHH-HHHHHHHHhh---cCcceEEEEcC--------CcchHHHHHHHHHcCCe
Q 046085 105 SLVVKLKRVWFWVRTMSDK-LQ--AADVLL-RNYMVDMMDK---RRFGCLVFVSD--------DSDFVEVLQEATLRCLK 169 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dK-pq--AAD~AL-~~~m~~~m~~---r~vdclvLVSD--------DSDF~~lLr~ARer~l~ 169 (230)
++.+.|+++|+.|++++.. .+ .....+ .-.....++. ...|.|++++. +.++...|+.+.+++-.
T Consensus 17 ~~~~~l~~a~~~v~~vs~~~~~~v~~~~g~~~i~~d~~~~~~~~~~~D~lvvpGG~~~~~~~~~~~~~~~l~~~~~~~~~ 96 (165)
T cd03134 17 YPLYRLREAGAEVVVAGPEAGGEIQGKHGYDTVTVDLTIADVDADDYDALVIPGGTNPDKLRRDPDAVAFVRAFAEAGKP 96 (165)
T ss_pred HHHHHHHHCCCEEEEEccCCCcccccCcCceeecCCCChHHCCHHHCCEEEECCCCChhhhccCHHHHHHHHHHHHcCCe
Confidence 5667899999999999866 22 111111 1000001111 24688888874 34556677788888888
Q ss_pred EEEecCC
Q 046085 170 TGVAGYM 176 (230)
Q Consensus 170 TVVVGd~ 176 (230)
.+.|+.+
T Consensus 97 i~~ic~G 103 (165)
T cd03134 97 VAAICHG 103 (165)
T ss_pred EEEEchH
Confidence 8888876
No 352
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=46.47 E-value=49 Score=35.34 Aligned_cols=43 Identities=19% Similarity=0.167 Sum_probs=35.1
Q ss_pred cceEEEEcCCcch--HHHHHHHHHcCCe--EEEecCCCCchhhhhhh
Q 046085 144 FGCLVFVSDDSDF--VEVLQEATLRCLK--TGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 144 vdclvLVSDDSDF--~~lLr~ARer~l~--TVVVGd~~~~aL~r~AD 186 (230)
...|||+||-.+. ..+++.++++|++ ||.+|...+..|..+|+
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 4689999997654 5778888998987 77777777788999999
No 353
>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=46.04 E-value=85 Score=25.72 Aligned_cols=68 Identities=21% Similarity=0.170 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHhh----cCcceEEEEcCCc-------chHHHHHHHHHcCCeEEEecCC--CCchhhhhhhcccccc
Q 046085 126 AADVLLRNYMVDMMDK----RRFGCLVFVSDDS-------DFVEVLQEATLRCLKTGVAGYM--NDGTLKRIADRLKWAY 192 (230)
Q Consensus 126 AAD~AL~~~m~~~m~~----r~vdclvLVSDDS-------DF~~lLr~ARer~l~TVVVGd~--~~~aL~r~AD~leW~~ 192 (230)
+...||.. +.+.|.. .....++|+||=. +....++.+++.|++...||-+ +...|.+.|..=.+.|
T Consensus 89 ~~~~AL~~-a~~~l~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~gi~i~~vgig~~~~~~L~~IA~~~~~~~ 167 (186)
T cd01480 89 FTDCALKY-ATEQLLEGSHQKENKFLLVITDGHSDGSPDGGIEKAVNEADHLGIKIFFVAVGSQNEEPLSRIACDGKSAL 167 (186)
T ss_pred cHHHHHHH-HHHHHhccCCCCCceEEEEEeCCCcCCCcchhHHHHHHHHHHCCCEEEEEecCccchHHHHHHHcCCcchh
Confidence 34456633 4444432 2347889999863 3456788899999997776655 5567888887333334
Q ss_pred ch
Q 046085 193 NS 194 (230)
Q Consensus 193 ~~ 194 (230)
..
T Consensus 168 ~~ 169 (186)
T cd01480 168 YR 169 (186)
T ss_pred hh
Confidence 33
No 354
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=46.04 E-value=50 Score=27.06 Aligned_cols=17 Identities=6% Similarity=-0.027 Sum_probs=11.9
Q ss_pred HHHHHHcCCeEEEecCC
Q 046085 160 LQEATLRCLKTGVAGYM 176 (230)
Q Consensus 160 Lr~ARer~l~TVVVGd~ 176 (230)
+.-|++.|+++|.|.+.
T Consensus 171 i~aA~~aG~~~i~~~~~ 187 (199)
T PRK09456 171 IEAANALGITSILVTDK 187 (199)
T ss_pred HHHHHHcCCEEEEecCC
Confidence 66677777777777665
No 355
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=45.43 E-value=82 Score=26.87 Aligned_cols=64 Identities=14% Similarity=0.011 Sum_probs=44.8
Q ss_pred hhhhhhhhcEEEEEc-cccchHHHHHHHHHHHHHHhhcCcceEEEEc----CCcchHHHHHHHHHcCCe---EEEecCC
Q 046085 106 LVVKLKRVWFWVRTM-SDKLQAADVLLRNYMVDMMDKRRFGCLVFVS----DDSDFVEVLQEATLRCLK---TGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV-~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS----DDSDF~~lLr~ARer~l~---TVVVGd~ 176 (230)
.+.-|+.+||.|.-+ ++.|.. .+.+++...+.+.++|=+ .-..+..+++..|+.|+. .++||..
T Consensus 104 v~~~l~~~G~~vi~LG~~vp~e-------~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 104 VVTMLRANGFDVIDLGRDVPID-------TVVEKVKKEKPLMLTGSALMTTTMYGQKDINDKLKEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHHHHHhCCcEEEECCCCCCHH-------HHHHHHHHcCCCEEEEccccccCHHHHHHHHHHHHHcCCCCCCEEEEECh
Confidence 466799999999954 344432 455566667777766532 335688899999999874 6778876
No 356
>PRK00046 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=45.37 E-value=19 Score=33.90 Aligned_cols=34 Identities=24% Similarity=0.170 Sum_probs=30.6
Q ss_pred cceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 144 FGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 144 vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
+++++.+++-.+|..+++.|++.++...|+|.+|
T Consensus 21 A~~~~~p~~~~el~~~~~~~~~~~~p~~vlG~GS 54 (334)
T PRK00046 21 ARHLVEAESEEQLLEALADARAAGLPVLVLGGGS 54 (334)
T ss_pred EeEEEeeCCHHHHHHHHHHHHHcCCCEEEEeceE
Confidence 5889999999999999999999999999999884
No 357
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=45.37 E-value=1.3e+02 Score=27.43 Aligned_cols=78 Identities=9% Similarity=-0.025 Sum_probs=49.0
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcce-EEEEcCCcchH---HHHHHHHHcCCe-EEEecCCCCch
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGC-LVFVSDDSDFV---EVLQEATLRCLK-TGVAGYMNDGT 180 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdc-lvLVSDDSDF~---~lLr~ARer~l~-TVVVGd~~~~a 180 (230)
|..+|++.|=.|-.|.|+-... .+...+.+.+.+.++.. +..+..++.+. .+++.+|+.+.. .|.||.++...
T Consensus 14 l~~~~~~~~~r~livt~~~~~~--~~~~~v~~~L~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS~iD 91 (351)
T cd08170 14 LGEYLARLGKRALIIADEFVLD--LVGAKIEESLAAAGIDARFEVFGGECTRAEIERLAEIARDNGADVVIGIGGGKTLD 91 (351)
T ss_pred HHHHHHHhCCeEEEEECHHHHH--HHHHHHHHHHHhCCCeEEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEEecCchhhH
Confidence 4455565454454566655443 68888888998777765 44576666665 455666666655 45578886555
Q ss_pred hhhhh
Q 046085 181 LKRIA 185 (230)
Q Consensus 181 L~r~A 185 (230)
..+.+
T Consensus 92 ~aK~i 96 (351)
T cd08170 92 TAKAV 96 (351)
T ss_pred HHHHH
Confidence 55554
No 358
>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=45.33 E-value=55 Score=28.34 Aligned_cols=47 Identities=11% Similarity=0.205 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhcCcceEEEEcCC--cchHHHHHHHHHcCCeEEEecCC
Q 046085 130 LLRNYMVDMMDKRRFGCLVFVSDD--SDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 130 AL~~~m~~~m~~r~vdclvLVSDD--SDF~~lLr~ARer~l~TVVVGd~ 176 (230)
.+.+++.++|.+..-+.++-++.+ ..|.+.|+.|.+||+++.++-.+
T Consensus 10 ~I~~~i~elI~~Ae~eI~is~~~~~l~~l~~~L~~a~~rGV~V~li~~~ 58 (233)
T PF11495_consen 10 TILERIRELIENAESEIYISIPPEFLEELRDELEEAVDRGVKVKLIVFG 58 (233)
T ss_dssp HHHHHHHHHHHC-SSEEEEEE-GGGHHHHHHHHHHHHHTT-EEEEEESS
T ss_pred HHHHHHHHHHHHhheEEEEEcCHHHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 567889999964444444444332 23566788899999999888766
No 359
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=45.26 E-value=55 Score=33.76 Aligned_cols=71 Identities=13% Similarity=0.125 Sum_probs=44.7
Q ss_pred hhhhhhcEEEEEcc-ccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC-CCchhhhhh
Q 046085 108 VKLKRVWFWVRTMS-DKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKRIA 185 (230)
Q Consensus 108 ~eLrRAGv~VrtV~-dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r~A 185 (230)
.+|+++|+.|.+++ |.|++|- |+ ....|++-+.==+...|=..+++..+++|-.+.++||+ ||---=+.|
T Consensus 455 ~~Lr~~GI~vvMiTGDn~~TA~-aI-------A~elGId~v~A~~~PedK~~iV~~lQ~~G~~VaMtGDGvNDAPALa~A 526 (679)
T PRK01122 455 AELRKMGIKTVMITGDNPLTAA-AI-------AAEAGVDDFLAEATPEDKLALIRQEQAEGRLVAMTGDGTNDAPALAQA 526 (679)
T ss_pred HHHHHCCCeEEEECCCCHHHHH-HH-------HHHcCCcEEEccCCHHHHHHHHHHHHHcCCeEEEECCCcchHHHHHhC
Confidence 46788888888777 4555421 11 22346654433334445567888889999999999999 653223456
Q ss_pred h
Q 046085 186 D 186 (230)
Q Consensus 186 D 186 (230)
|
T Consensus 527 D 527 (679)
T PRK01122 527 D 527 (679)
T ss_pred C
Confidence 6
No 360
>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=45.23 E-value=46 Score=28.49 Aligned_cols=67 Identities=10% Similarity=-0.031 Sum_probs=38.8
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcce---EEEEcCCcchHHHHHHH-HHcC---CeEEEecCC
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGC---LVFVSDDSDFVEVLQEA-TLRC---LKTGVAGYM 176 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdc---lvLVSDDSDF~~lLr~A-Rer~---l~TVVVGd~ 176 (230)
.+-.+|+.+|+.+-.++.++... +. +.+.+.+.|++. =.++|++.-....+..+ ++-| -+.++|||.
T Consensus 31 e~L~~L~~~G~~~~ivTN~~~~~--~~---~~~~L~~~gl~~~~~~~Ii~s~~~~~~~l~~~~~~~~~~~~~~~~vGd~ 104 (242)
T TIGR01459 31 QNLNKIIAQGKPVYFVSNSPRNI--FS---LHKTLKSLGINADLPEMIISSGEIAVQMILESKKRFDIRNGIIYLLGHL 104 (242)
T ss_pred HHHHHHHHCCCEEEEEeCCCCCh--HH---HHHHHHHCCCCccccceEEccHHHHHHHHHhhhhhccCCCceEEEeCCc
Confidence 34567899999999888887642 11 112233445543 24455554434444443 4433 448999996
No 361
>TIGR01304 IMP_DH_rel_2 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase. Most species with a member of this family belong to the high GC Gram-positive bacteria, and these also have the IMP dehydrogenase described by TIGRFAMs equivalog model TIGR01302.
Probab=45.05 E-value=68 Score=30.74 Aligned_cols=71 Identities=11% Similarity=-0.003 Sum_probs=40.3
Q ss_pred CCccCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEE---------cCCcchHHHHHHHHHcCCe
Q 046085 99 TPKVGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFV---------SDDSDFVEVLQEATLRCLK 169 (230)
Q Consensus 99 ~pkvgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLV---------SDDSDF~~lLr~ARer~l~ 169 (230)
-|..-+-+..+++.+||.|+ +.-.|+. ..+.+..++ +.|++.|++- |...+..++.+..++.++.
T Consensus 117 ~p~l~~~ii~~vr~a~Vtvk-iRl~~~~----~~e~a~~l~-eAGad~I~ihgrt~~q~~~sg~~~p~~l~~~i~~~~IP 190 (369)
T TIGR01304 117 KPELLGERIAEVRDSGVITA-VRVSPQN----AREIAPIVV-KAGADLLVIQGTLVSAEHVSTSGEPLNLKEFIGELDVP 190 (369)
T ss_pred ChHHHHHHHHHHHhcceEEE-EecCCcC----HHHHHHHHH-HCCCCEEEEeccchhhhccCCCCCHHHHHHHHHHCCCC
Confidence 34444555677788887777 3334432 112222223 5788888863 5556677777777776665
Q ss_pred EEEecCC
Q 046085 170 TGVAGYM 176 (230)
Q Consensus 170 TVVVGd~ 176 (230)
.++ |+.
T Consensus 191 VI~-G~V 196 (369)
T TIGR01304 191 VIA-GGV 196 (369)
T ss_pred EEE-eCC
Confidence 443 555
No 362
>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=44.79 E-value=1.1e+02 Score=25.73 Aligned_cols=53 Identities=8% Similarity=0.124 Sum_probs=34.0
Q ss_pred HHHHHHHhhc-CcceEEEEcCCcchHHHHHHHHHcCCe--EEEecCC-CCchhhhhhh
Q 046085 133 NYMVDMMDKR-RFGCLVFVSDDSDFVEVLQEATLRCLK--TGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 133 ~~m~~~m~~r-~vdclvLVSDDSDF~~lLr~ARer~l~--TVVVGd~-~~~aL~r~AD 186 (230)
..+.++|... .++ .++.++|.-..++++.++++|+. ..|||-. ++.++..+.+
T Consensus 179 ~~~~~~l~~~~~~~-ai~~~nd~~A~g~l~al~~~G~~~dv~vvg~d~~~~~~~~~~~ 235 (280)
T cd06303 179 QATSDILSNNPDVD-FIYACSTDIALGASDALKELGREDDILINGWGGGSAELDAIQQ 235 (280)
T ss_pred HHHHHHHHhCCCCc-EEEECCcHHHHHHHHHHHHcCCCCCcEEEecCCCHHHHHHHHc
Confidence 4555666322 244 45567777777999999999974 4555544 3456677776
No 363
>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=44.50 E-value=12 Score=28.31 Aligned_cols=15 Identities=40% Similarity=0.736 Sum_probs=12.6
Q ss_pred ccccceeccCCCCCC
Q 046085 215 KDAWWELESSDAEST 229 (230)
Q Consensus 215 ~~~ww~l~s~~~~~~ 229 (230)
.|.+|+|||.|+.|+
T Consensus 44 gGsfwEieSad~~Sg 58 (64)
T PF03622_consen 44 GGSFWEIESADEFSG 58 (64)
T ss_pred cCcEEEeecccccCC
Confidence 489999999887764
No 364
>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=44.45 E-value=53 Score=30.00 Aligned_cols=65 Identities=3% Similarity=0.102 Sum_probs=44.4
Q ss_pred hhhhhcEEE-----EEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEE----EecCC
Q 046085 109 KLKRVWFWV-----RTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTG----VAGYM 176 (230)
Q Consensus 109 eLrRAGv~V-----rtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TV----VVGd~ 176 (230)
.++..|+.| +.+++.+.+.|. ...+. -|.+.+.+.|+|.+..++-..+++.|++.|+.+- ++|+.
T Consensus 140 ~~~~~g~~V~~~~~~~i~~~~~~~d~--~~~L~-~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~ 213 (370)
T cd06389 140 SAAEKKWQVTAINVGNINNDRKDEAY--RSLFQ-DLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANL 213 (370)
T ss_pred hhccCCceEEEEEeecCCCccchHHH--HHHHH-HhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccC
Confidence 344557443 334444444443 22222 3456789999999999999999999999999766 67764
No 365
>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=44.41 E-value=20 Score=32.22 Aligned_cols=37 Identities=16% Similarity=0.195 Sum_probs=23.9
Q ss_pred hHHHHHHHhhhcCCc----cCCchhhhhhhhcEEEEEcccc
Q 046085 87 METYKMASKATLTPK----VGYSLVVKLKRVWFWVRTMSDK 123 (230)
Q Consensus 87 ~~KY~~AAr~vl~pk----vgygLa~eLrRAGv~VrtV~dK 123 (230)
++-+++|..=..|-- -+||||....|.||.|+...+.
T Consensus 36 L~lWREATTifmtsGhGGC~P~GLAlAA~rrG~~vev~~~~ 76 (207)
T PF11814_consen 36 LRLWREATTIFMTSGHGGCGPFGLALAAARRGFKVEVWVST 76 (207)
T ss_pred HHHHHHhceecccCCCCCcChHHHHHHHHHcCCceEEEECC
Confidence 344555544333321 2599999999999999855443
No 366
>PRK05967 cystathionine beta-lyase; Provisional
Probab=44.38 E-value=60 Score=30.93 Aligned_cols=71 Identities=13% Similarity=0.012 Sum_probs=45.7
Q ss_pred hhcCCccCCchhh-----hhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEc------CCcchHHHHHHHH
Q 046085 96 ATLTPKVGYSLVV-----KLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVS------DDSDFVEVLQEAT 164 (230)
Q Consensus 96 ~vl~pkvgygLa~-----eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS------DDSDF~~lLr~AR 164 (230)
.+|.|.-+||-.. .+++.|+.|..+..... .+ +.+.+. .+...|++-| .-.|+..+.+.|+
T Consensus 105 ~Vlv~~~~Y~~~~~l~~~~l~~~Gi~v~~vd~~~~---e~----l~~al~-~~TklV~lesPsNP~l~v~dl~~I~~la~ 176 (395)
T PRK05967 105 HALIVDSVYYPTRHFCDTMLKRLGVEVEYYDPEIG---AG----IAKLMR-PNTKVVHTEAPGSNTFEMQDIPAIAEAAH 176 (395)
T ss_pred EEEEccCCcHHHHHHHHHHHHhcCeEEEEeCCCCH---HH----HHHhcC-cCceEEEEECCCCCCCcHHHHHHHHHHHH
Confidence 4666777898643 47899999998853221 12 333343 3444444443 4458899999999
Q ss_pred HcCCeEEEecCC
Q 046085 165 LRCLKTGVAGYM 176 (230)
Q Consensus 165 er~l~TVVVGd~ 176 (230)
+.|+-+|| |.
T Consensus 177 ~~g~~vvV--D~ 186 (395)
T PRK05967 177 RHGAIVMM--DN 186 (395)
T ss_pred HhCCEEEE--EC
Confidence 99975554 55
No 367
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=44.01 E-value=1.4e+02 Score=24.80 Aligned_cols=64 Identities=13% Similarity=0.017 Sum_probs=39.9
Q ss_pred hhhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEE----cCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 106 LVVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFV----SDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLV----SDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
++..|+.+||.|--.-- .|.. .+.+..-..+++.+.+= +.-..|..+.++++++|+ ..|+||..
T Consensus 21 v~~~l~~~GfeVi~LG~~v~~e-------~~v~aa~~~~adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivGG~ 91 (134)
T TIGR01501 21 LDHAFTNAGFNVVNLGVLSPQE-------EFIKAAIETKADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVGGN 91 (134)
T ss_pred HHHHHHHCCCEEEECCCCCCHH-------HHHHHHHHcCCCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEecCC
Confidence 36789999999985432 2221 23333334566665542 234568889999999987 33556664
No 368
>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=43.96 E-value=64 Score=24.43 Aligned_cols=23 Identities=4% Similarity=0.099 Sum_probs=14.1
Q ss_pred cchHHHHHHHHHcCCeEEEecCC
Q 046085 154 SDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 154 SDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+.|..||..++.....+|||-+.
T Consensus 52 ~~~~~ll~~~~~~~~d~ivv~~~ 74 (137)
T cd00338 52 PGLQRLLADVKAGKIDVVLVEKL 74 (137)
T ss_pred HHHHHHHHHHHcCCCCEEEEEec
Confidence 35666666666656666666655
No 369
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=43.92 E-value=67 Score=25.32 Aligned_cols=43 Identities=23% Similarity=0.220 Sum_probs=28.3
Q ss_pred cceEEEEcCCcch---HHHHHHHHHcCCeEEEecCC--CCchhhhhhh
Q 046085 144 FGCLVFVSDDSDF---VEVLQEATLRCLKTGVAGYM--NDGTLKRIAD 186 (230)
Q Consensus 144 vdclvLVSDDSDF---~~lLr~ARer~l~TVVVGd~--~~~aL~r~AD 186 (230)
..-+||+||-... ...+..+++.|+++.+||-+ +...|.+.|+
T Consensus 104 ~~~iiliTDG~~~~~~~~~~~~l~~~gv~i~~ig~g~~~~~~L~~ia~ 151 (164)
T cd01472 104 PKVLVVITDGKSQDDVEEPAVELKQAGIEVFAVGVKNADEEELKQIAS 151 (164)
T ss_pred CEEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEECCcCCHHHHHHHHC
Confidence 3467888886543 33456677899999999776 3345555553
No 370
>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=43.75 E-value=35 Score=32.38 Aligned_cols=71 Identities=10% Similarity=0.169 Sum_probs=45.3
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHc--CC---eEEEecCC--
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLR--CL---KTGVAGYM-- 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer--~l---~TVVVGd~-- 176 (230)
-.|...|+++|-.+..+.-.+|..+-.+.+. | +++. +-.+|..+++.+++. ++ .+++||-.
T Consensus 244 ~ell~~l~~~~~~~~~l~iglQSgsd~vLk~----M-~R~~-------~~~~~~~~i~~lr~~~~~i~i~~d~IvG~PgE 311 (439)
T PRK14328 244 DDLIEAIADCDKVCEHIHLPVQSGSNRILKK----M-NRHY-------TREYYLELVEKIKSNIPDVAITTDIIVGFPGE 311 (439)
T ss_pred HHHHHHHHhCCCcCceeeeCCCcCCHHHHHh----C-CCCC-------CHHHHHHHHHHHHHhCCCCEEEEEEEEECCCC
Confidence 4577788888743556777777655544433 4 5662 456788888888887 54 35788843
Q ss_pred CCchhhhhhh
Q 046085 177 NDGTLKRIAD 186 (230)
Q Consensus 177 ~~~aL~r~AD 186 (230)
++..+....+
T Consensus 312 T~ed~~~tl~ 321 (439)
T PRK14328 312 TEEDFEETLD 321 (439)
T ss_pred CHHHHHHHHH
Confidence 5566665555
No 371
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=43.68 E-value=43 Score=29.60 Aligned_cols=37 Identities=11% Similarity=0.151 Sum_probs=31.0
Q ss_pred hcCcceEEEEcCCcchHHHHHHHHHcCCe----EEEecCCC
Q 046085 141 KRRFGCLVFVSDDSDFVEVLQEATLRCLK----TGVAGYMN 177 (230)
Q Consensus 141 ~r~vdclvLVSDDSDF~~lLr~ARer~l~----TVVVGd~~ 177 (230)
+.+.+.++|.++..+...+++.|++.|+. +.+++|..
T Consensus 192 ~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~ 232 (362)
T cd06367 192 KLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELA 232 (362)
T ss_pred hcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECccc
Confidence 45678999999999999999999999994 66677763
No 372
>PF02769 AIRS_C: AIR synthase related protein, C-terminal domain; InterPro: IPR010918 This entry includes Hydrogen expression/formation protein, HypE, which may be involved in the maturation of NifE hydrogenase; AIR synthase and FGAM synthase, which are involved in de novo purine biosynthesis; and selenide, water dikinase, an enzyme which synthesizes selenophosphate from selenide and ATP.; PDB: 2Z1F_A 2Z1E_A 2YXZ_D 2V9Y_A 2HS0_A 2HRU_A 2HS3_A 3D54_A 1VK3_A 2HS4_A ....
Probab=43.63 E-value=1.5e+02 Score=22.89 Aligned_cols=73 Identities=19% Similarity=0.110 Sum_probs=49.1
Q ss_pred CCchhhhhhh----hcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC-eEEEecCCC
Q 046085 103 GYSLVVKLKR----VWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL-KTGVAGYMN 177 (230)
Q Consensus 103 gygLa~eLrR----AGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l-~TVVVGd~~ 177 (230)
+.||+..|.+ .|+-+..-.+++...+..- ...++++.-+-..+++..+..+...+++.+++.|+ ...+||..+
T Consensus 66 dGGL~~~l~em~~~s~~g~~i~~~~~p~~~~~~--~~~~~l~~~~~g~~l~~v~~~~~~~~~~~~~~~g~~~~~~IG~V~ 143 (153)
T PF02769_consen 66 DGGLAGALAEMAEASGVGAEIDLDKIPLSDELQ--SPLEMLFSESEGRLLVAVPPEDAEEFLAALKKAGIPNATVIGEVT 143 (153)
T ss_dssp TTHHHHHHHHHHHCTTEEEEEEGGGSHHHHHHH--HHHHHHHHSSSTEEEEEEEGGGHHHHHHHHHHTTCTTEEEEEEEE
T ss_pred CchHHHHHHHHHHhCCcceEEccccchhhhhhh--hhhhhhccCCCCCEEEEEcHHHHHHHHHHHHhCCCCCEEEEEEEE
Confidence 3489875543 3466665555555444442 34455665666667666666666999999999999 799999764
No 373
>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=43.58 E-value=38 Score=32.59 Aligned_cols=137 Identities=11% Similarity=0.167 Sum_probs=69.4
Q ss_pred cccccC------CCcccCchHHHHHHHHHhHHHHHHHhhhhh---hcccchhhHhHhhhhhhhHH---HHHHHhhhcC--
Q 046085 34 LVIVEG------DLRLYNNDKLVNHFKQIHKREQKKRLNQIE---SAKGKMREHLVGNYSMRMET---YKMASKATLT-- 99 (230)
Q Consensus 34 ~C~VCG------drkf~t~~kL~kHFkqlHeREr~Krlnri~---s~kGkrR~~~~~~~~~k~~K---Y~~AAr~vl~-- 99 (230)
.|.+|- ..|.+.-+++++..+++.+. -.|.+.=+. .+-|.+...|. .++.+..+ +... .+.+
T Consensus 167 ~CsFC~ip~~rG~~rsr~~e~Iv~Ei~~l~~~-G~kei~l~~~~~~~y~~~~~~l~-~Ll~~l~~~~~~~~i--r~~~~~ 242 (449)
T PRK14332 167 FCTFCVVPYTRGRERSRDPKSIVREIQDLQEK-GIRQVTLLGQNVNSYKEQSTDFA-GLIQMLLDETTIERI--RFTSPH 242 (449)
T ss_pred CCCCCCcccccCCcccCCHHHHHHHHHHHHHC-CCeEEEEecccCCcccCCcccHH-HHHHHHhcCCCcceE--EEECCC
Confidence 788883 23666778888888888653 333331111 12233211121 11111110 0000 1111
Q ss_pred Cc-cCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHc--CC---eEEEe
Q 046085 100 PK-VGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLR--CL---KTGVA 173 (230)
Q Consensus 100 pk-vgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer--~l---~TVVV 173 (230)
|. +-..|...++++|-.++.+.-..|..+-.+.+.| +++. .-.+|..+++.+|+. ++ .+++|
T Consensus 243 p~~~~~ell~~m~~~~~~~~~l~lgvQSgsd~vLk~m-----~R~~-------t~~~~~~~i~~lr~~~p~i~i~td~Iv 310 (449)
T PRK14332 243 PKDFPDHLLSLMAKNPRFCPNIHLPLQAGNTRVLEEM-----KRSY-------SKEEFLDVVKEIRNIVPDVGITTDIIV 310 (449)
T ss_pred cccCCHHHHHHHHhCCCccceEEECCCcCCHHHHHhh-----CCCC-------CHHHHHHHHHHHHHhCCCCEEEEEEEe
Confidence 11 1234677788888655666667776555554444 4553 335677777777775 33 24666
Q ss_pred cC--CCCchhhhhhh
Q 046085 174 GY--MNDGTLKRIAD 186 (230)
Q Consensus 174 Gd--~~~~aL~r~AD 186 (230)
|- .|+..+....+
T Consensus 311 GfPgET~edf~~tl~ 325 (449)
T PRK14332 311 GFPNETEEEFEDTLA 325 (449)
T ss_pred eCCCCCHHHHHHHHH
Confidence 73 35555555555
No 374
>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=43.56 E-value=78 Score=28.96 Aligned_cols=78 Identities=6% Similarity=0.013 Sum_probs=47.7
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEE--EEcCCcchHH---HHHHHHHcCCeEEE-ecCCCCc
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLV--FVSDDSDFVE---VLQEATLRCLKTGV-AGYMNDG 179 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclv--LVSDDSDF~~---lLr~ARer~l~TVV-VGd~~~~ 179 (230)
|..++++.|=.|-.|.|+.... .....+.+.+.+.+++..+ -|..++.+.. ++..+++.+...|| ||.++..
T Consensus 14 l~~~~~~~~~r~liv~d~~~~~--~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs~~ 91 (345)
T cd08171 14 IPEVCEKYGKKVVVIGGKTALA--AAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGKAI 91 (345)
T ss_pred HHHHHHhcCCEEEEEeCHHHHH--HHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcHHH
Confidence 4455555554455677754432 3477788888767876643 4566777664 45566777776665 8888544
Q ss_pred hhhhhh
Q 046085 180 TLKRIA 185 (230)
Q Consensus 180 aL~r~A 185 (230)
...+.+
T Consensus 92 D~aK~i 97 (345)
T cd08171 92 DTVKVL 97 (345)
T ss_pred HHHHHH
Confidence 444443
No 375
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=43.54 E-value=1.1e+02 Score=28.18 Aligned_cols=76 Identities=17% Similarity=0.037 Sum_probs=43.3
Q ss_pred hhhhhhhc-EEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEE-cC------CcchHHHHHHHHHcCC---e-EEEec
Q 046085 107 VVKLKRVW-FWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFV-SD------DSDFVEVLQEATLRCL---K-TGVAG 174 (230)
Q Consensus 107 a~eLrRAG-v~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLV-SD------DSDF~~lLr~ARer~l---~-TVVVG 174 (230)
..+|+..| =.+-.|.| +...+ .+...+.+.+.+.++++.+.+ ++ .+....++..+++.|+ . .|.||
T Consensus 23 ~~~l~~~~~~~~livtd-~~~~~-~~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIavG 100 (358)
T PRK00002 23 GELLAPLKGKKVAIVTD-ETVAP-LYLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIALG 100 (358)
T ss_pred HHHHHhcCCCeEEEEEC-CchHH-HHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEEc
Confidence 33444432 12333555 34444 477888888877788877654 32 2445666777777776 3 34477
Q ss_pred CCCCchhhhh
Q 046085 175 YMNDGTLKRI 184 (230)
Q Consensus 175 d~~~~aL~r~ 184 (230)
+++-..+...
T Consensus 101 GGsv~D~aK~ 110 (358)
T PRK00002 101 GGVIGDLAGF 110 (358)
T ss_pred CcHHHHHHHH
Confidence 7744444443
No 376
>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=43.48 E-value=70 Score=29.69 Aligned_cols=65 Identities=12% Similarity=-0.067 Sum_probs=50.1
Q ss_pred hhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEe
Q 046085 108 VKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVA 173 (230)
Q Consensus 108 ~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVV 173 (230)
..+...|-...|-..+|-. +....+.+.+.|.+.+++.|+.+-.|.-|....+++.+.++.+|+|
T Consensus 57 ~~~~~gGt~LgtsR~~~~~-~~~~~~~~~~~l~~~~Id~Li~IGGdgs~~~a~~L~e~~~i~vigi 121 (301)
T TIGR02482 57 GIIHRGGTILGTARCPEFK-TEEGRQKAVENLKKLGIEGLVVIGGDGSYTGAQKLYEEGGIPVIGL 121 (301)
T ss_pred hHHhCCCceeccCCCCccC-CHHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHhhCCCEEee
Confidence 3456677777765555432 3456778888899999999999999999999999998877766655
No 377
>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=43.29 E-value=46 Score=25.57 Aligned_cols=40 Identities=23% Similarity=0.273 Sum_probs=28.9
Q ss_pred ceEEEEc-CCcc---hHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 145 GCLVFVS-DDSD---FVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVS-DDSD---F~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
++++++| ++.. -..+++.+++.|.++++|.+.. .. .+.||
T Consensus 63 ~~vi~is~~g~t~~~~~~~~~~~~~~~~~vi~it~~~-~s-~~~~d 106 (153)
T cd05009 63 TPVIFLAPEDRLEEKLESLIKEVKARGAKVIVITDDG-DA-KDLAD 106 (153)
T ss_pred CcEEEEecCChhHHHHHHHHHHHHHcCCEEEEEecCC-cc-cccCC
Confidence 5667777 4432 4568899999999999998863 34 66677
No 378
>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=42.58 E-value=81 Score=31.28 Aligned_cols=47 Identities=21% Similarity=0.222 Sum_probs=37.4
Q ss_pred hhcCcceEEEEcC-----CcchHHHHHHHHHcCCeEEEecCC---CCchhhhhhh
Q 046085 140 DKRRFGCLVFVSD-----DSDFVEVLQEATLRCLKTGVAGYM---NDGTLKRIAD 186 (230)
Q Consensus 140 ~~r~vdclvLVSD-----DSDF~~lLr~ARer~l~TVVVGd~---~~~aL~r~AD 186 (230)
...|+|++++..+ |.||+-.++.+-.+|.+||.|-|+ .+++-...||
T Consensus 300 ~~LgaDGaIvs~eG~GN~d~D~~~~~~~~e~~GIktV~it~e~~G~dG~sq~L~d 354 (428)
T PF09338_consen 300 EMLGADGAIVSEEGFGNPDVDFAMNIEEIEKRGIKTVGITDEYAGRDGASQSLVD 354 (428)
T ss_pred HHhCCCEEEEEecCCCchhHHHHHHHHHHHHCCCCEEEecceeeccCCCCCeeee
Confidence 3458999998864 899999999999999999999876 3444444555
No 379
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=42.55 E-value=31 Score=27.32 Aligned_cols=39 Identities=23% Similarity=0.370 Sum_probs=25.0
Q ss_pred hhHHHHHHHHHHHHHHH--Hh--cCccCCCCCcc--cccccCCCcc
Q 046085 4 ELQESKEKKIKELFNQL--EI--KGVIRPAEPYV--LVIVEGDLRL 43 (230)
Q Consensus 4 ~~~~r~~r~er~~l~~l--e~--~g~i~p~epy~--~C~VCGdrkf 43 (230)
++...|+.+.+++-+.| |. ++++...++|. .|..|+ ..|
T Consensus 20 ~l~~~E~~Ri~kLk~~L~~e~~r~~~~~~~~~~~~~~C~~C~-~~f 64 (118)
T PF02318_consen 20 ELRKKEEERIRKLKQELQKEKMRREALGNSQKYGERHCARCG-KPF 64 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCSCSTTHCCSB-TTTS--BC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcchhhhC-Ccc
Confidence 45677888888888888 33 44555543333 899999 654
No 380
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=42.53 E-value=1.2e+02 Score=28.07 Aligned_cols=68 Identities=7% Similarity=-0.088 Sum_probs=45.7
Q ss_pred EEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCCchhhhh
Q 046085 117 VRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMNDGTLKRI 184 (230)
Q Consensus 117 VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~~aL~r~ 184 (230)
|-.|.++.......+..++.+.+...|+++.++ |..++.+. .++..+++.+...|| ||.++-....+.
T Consensus 26 ~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK~ 99 (375)
T cd08179 26 AFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGSPIDAAKA 99 (375)
T ss_pred EEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 335667666555567788888887778887665 44466666 557778887776555 888865555554
No 381
>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=42.40 E-value=88 Score=21.77 Aligned_cols=40 Identities=18% Similarity=0.232 Sum_probs=29.0
Q ss_pred cceEEEEcC--CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 144 FGCLVFVSD--DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 144 vdclvLVSD--DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+..|.+-.+ |..+.+++..|++.|+....|.+. .|.+.+|
T Consensus 18 i~~l~~~~~~~~~~~~~i~~~~~~~~i~v~~v~~~---~l~~ls~ 59 (76)
T PF08032_consen 18 IKKLFVTEEKADKRIKEILKLAKKKGIPVYEVSKK---VLDKLSD 59 (76)
T ss_dssp EEEEEEETT---CCTHHHHHHHHHCT-EEEEE-HH---HHHHCTT
T ss_pred ccEEEEEcCccchhHHHHHHHHHHcCCeEEEeCHH---HHHHHcC
Confidence 666655555 456899999999999999999765 5777776
No 382
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=42.40 E-value=74 Score=28.79 Aligned_cols=63 Identities=11% Similarity=0.062 Sum_probs=42.6
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T 170 (230)
+|...|+..|+-|.... .+...+..+...+..+. + ..+.|++.....+...+++.|++.|+..
T Consensus 167 ~l~~~~~~~gi~v~~~~-~~~~~~~d~~~~l~~ik-~-~~~iii~~~~~~~~~~i~~~a~~~g~~~ 229 (405)
T cd06385 167 GLYMELKKNNITVVDLV-FEEDDLINYTTLLQDIK-Q-KGRVIYVCCSPDIFRRLMLQFWREGLPS 229 (405)
T ss_pred HHHHHHHhCCeEEEEee-ccCCchhhHHHHHHHHh-h-cceEEEEeCCHHHHHHHHHHHHHcCCCC
Confidence 45667888888876443 32111233444444443 3 3488888899999999999999999875
No 383
>PRK13368 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional
Probab=42.37 E-value=96 Score=25.86 Aligned_cols=46 Identities=7% Similarity=-0.066 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHhhc-CcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 128 DVLLRNYMVDMMDKR-RFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 128 D~AL~~~m~~~m~~r-~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+.-|..|..+.+.+. +++-+++++++.. +...+...|++++...+.
T Consensus 26 GkPli~~~i~~l~~~~~~~~ivv~t~~~~---i~~~~~~~~~~v~~~~~~ 72 (238)
T PRK13368 26 GKPMIQHVYERAAQAAGVEEVYVATDDQR---IEDAVEAFGGKVVMTSDD 72 (238)
T ss_pred CcCHHHHHHHHHHhcCCCCeEEEECChHH---HHHHHHHcCCeEEecCcc
Confidence 445778888888765 7899999987644 444455568877655433
No 384
>TIGR01210 conserved hypothetical protein TIGR01210. This family of exclusively archaeal proteins has no characterized close homologs. Several rounds of PSI-BLAST with a stringent cutoff of 1e-8 shows apparent similarity of the central region of this family to the central regions of the oxygen-independent coproporphyrinogen III dehydrogenase HemN and to other enzymes.
Probab=42.34 E-value=25 Score=32.13 Aligned_cols=54 Identities=15% Similarity=0.134 Sum_probs=35.3
Q ss_pred CCchhhhhhhhcEEEEEccccchHHHHHHHH-HHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQAADVLLRN-YMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK 169 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqAAD~AL~~-~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~ 169 (230)
-..+..+|+++|+.++ |+=.+|+++-.+.+ .| ++|+ +-.+|...++.+++.|+.
T Consensus 116 ~~e~L~~l~~aG~~~~-v~iG~ES~~d~~L~~~i-----nKg~-------t~~~~~~ai~~~~~~Gi~ 170 (313)
T TIGR01210 116 DEEKLEELRKIGVNVE-VAVGLETANDRIREKSI-----NKGS-------TFEDFIRAAELARKYGAG 170 (313)
T ss_pred CHHHHHHHHHcCCCEE-EEEecCcCCHHHHHHhh-----CCCC-------CHHHHHHHHHHHHHcCCc
Confidence 3566778999997644 77778865555443 33 5552 345677777777777776
No 385
>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=42.24 E-value=1.1e+02 Score=28.29 Aligned_cols=75 Identities=8% Similarity=-0.032 Sum_probs=45.5
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEE-EcCCcchH---HHHHHHHHcCCeE-EEecCCCCch
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF-VSDDSDFV---EVLQEATLRCLKT-GVAGYMNDGT 180 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL-VSDDSDF~---~lLr~ARer~l~T-VVVGd~~~~a 180 (230)
|..+|++-|=.|-.|.|+-.. +..++.+.+...|+++.++ +..++... ..++.+|+.+... |.||.++...
T Consensus 14 l~~~l~~~~~r~livtd~~~~----~~~~v~~~L~~~g~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~~D 89 (374)
T cd08183 14 LPALAAELGRRVLLVTGASSL----RAAWLIEALRAAGIEVTHVVVAGEPSVELVDAAVAEARNAGCDVVIAIGGGSVID 89 (374)
T ss_pred HHHHHHHcCCcEEEEECCchH----HHHHHHHHHHHcCCeEEEecCCCCcCHHHHHHHHHHHHhcCCCEEEEecCchHHH
Confidence 344555544344456664332 5667888887788877665 55565554 5666677766654 4577776555
Q ss_pred hhhh
Q 046085 181 LKRI 184 (230)
Q Consensus 181 L~r~ 184 (230)
..+.
T Consensus 90 ~aK~ 93 (374)
T cd08183 90 AGKA 93 (374)
T ss_pred HHHH
Confidence 5554
No 386
>cd08178 AAD_C C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD). Alcohol dehydrogenase domain located on the C-terminal of a bifunctional two-domain protein. The N-terminal of the protein contains an acetaldehyde-CoA dehydrogenase domain. This protein is involved in pyruvate metabolism. Pyruvate is converted to acetyl-CoA and formate by pyruvate formate-lysase (PFL). Under anaerobic condition, acetyl-CoA is reduced to acetaldehyde and ethanol by this two-domain protein. Acetyl-CoA is first converted into an enzyme-bound thiohemiacetal by the N-terminal acetaldehyde dehydrogenase domain. The enzyme-bound thiohemiacetal is subsequently reduced by the C-terminal NAD+-dependent alcohol dehydrogenase domain. In E. coli, this protein is called AdhE and was shown pyruvate formate-lysase (PFL) deactivase activity, which is involved in the inactivation of PFL, a key enzyme in anaerobic metabolism. In Escherichi
Probab=42.20 E-value=81 Score=29.52 Aligned_cols=67 Identities=16% Similarity=0.107 Sum_probs=45.2
Q ss_pred EEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCCchhhhhh
Q 046085 118 RTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMNDGTLKRIA 185 (230)
Q Consensus 118 rtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~~aL~r~A 185 (230)
=.|.| +...+.-....+.+.+.+.|++..++ |..++.+. .++..+++.+...|| ||.++-....+.+
T Consensus 25 liVtd-~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~i 97 (398)
T cd08178 25 FIVTD-RFMVKLGYVDKVIDVLKRRGVETEVFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKIM 97 (398)
T ss_pred EEEcC-hhHHhCccHHHHHHHHHHCCCeEEEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHH
Confidence 34566 33444446777888887778877654 44466665 677788888888887 8988655555543
No 387
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.01 E-value=14 Score=38.32 Aligned_cols=24 Identities=25% Similarity=0.354 Sum_probs=20.2
Q ss_pred cccccCCCccc---------------CchHHHHHHHHHhH
Q 046085 34 LVIVEGDLRLY---------------NNDKLVNHFKQIHK 58 (230)
Q Consensus 34 ~C~VCGdrkf~---------------t~~kL~kHFkqlHe 58 (230)
.|.+|+ +++. +-..|++||.++|+
T Consensus 101 ~C~~C~-~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~ 139 (669)
T KOG2231|consen 101 SCHICD-RRFRALYNKKECLHCTEFKSVENLKNHMRDQHK 139 (669)
T ss_pred hcCccc-cchhhhcccCCCccccchhHHHHHHHHHHHhhh
Confidence 899999 8774 56788999999986
No 388
>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=41.99 E-value=53 Score=30.19 Aligned_cols=70 Identities=14% Similarity=0.218 Sum_probs=46.9
Q ss_pred CCchhhhh----hhhcEEEEE--ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEE----E
Q 046085 103 GYSLVVKL----KRVWFWVRT--MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTG----V 172 (230)
Q Consensus 103 gygLa~eL----rRAGv~Vrt--V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TV----V 172 (230)
||+...+| ...|+.|.. +.... ..| .... +.-|.+.+.+.|+|.+...+-+.+++.|++-|..+- +
T Consensus 136 ~~~~lq~l~~~~~~~g~~v~~~~~~~~~-~~d--~~~~-L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~i 211 (371)
T cd06388 136 GYSILQAIMEKAGQNGWQVSAICVENFN-DAS--YRRL-LEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYI 211 (371)
T ss_pred cHHHHHHHHHhhHhcCCeeeeEEeccCC-cHH--HHHH-HHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEE
Confidence 55555454 455755543 33222 223 3333 333446789999999999999999999999999885 7
Q ss_pred ecCC
Q 046085 173 AGYM 176 (230)
Q Consensus 173 VGd~ 176 (230)
+|+.
T Consensus 212 l~~~ 215 (371)
T cd06388 212 IANL 215 (371)
T ss_pred EccC
Confidence 7764
No 389
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=41.76 E-value=1.5e+02 Score=22.42 Aligned_cols=65 Identities=14% Similarity=0.133 Sum_probs=38.7
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcC-CcchH---HHHHHHHHcCC--eEEEecCC
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSD-DSDFV---EVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSD-DSDF~---~lLr~ARer~l--~TVVVGd~ 176 (230)
++.-|+++||.|.-.. ++.... .+.+.+...+.+.++|=+. .+.+. .+++..|+.+. -.++||..
T Consensus 19 ~~~~l~~~G~~V~~lg--~~~~~~----~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~ 89 (119)
T cd02067 19 VARALRDAGFEVIDLG--VDVPPE----EIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGA 89 (119)
T ss_pred HHHHHHHCCCEEEECC--CCCCHH----HHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECC
Confidence 5778999999996443 222222 3333444567887766544 44443 45566666765 44677776
No 390
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=41.67 E-value=9.8 Score=30.70 Aligned_cols=11 Identities=18% Similarity=0.371 Sum_probs=9.7
Q ss_pred cccccCCCcccC
Q 046085 34 LVIVEGDLRLYN 45 (230)
Q Consensus 34 ~C~VCGdrkf~t 45 (230)
+|+-|| .|||.
T Consensus 11 ~Cp~CG-~kFYD 21 (108)
T PF09538_consen 11 TCPSCG-AKFYD 21 (108)
T ss_pred cCCCCc-chhcc
Confidence 899999 99984
No 391
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=41.63 E-value=32 Score=21.93 Aligned_cols=39 Identities=8% Similarity=0.227 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhcCccCCCCCcccccccCCCcccCchHHHHHHHH
Q 046085 12 KIKELFNQLEIKGVIRPAEPYVLVIVEGDLRLYNNDKLVNHFKQ 55 (230)
Q Consensus 12 ~er~~l~~le~~g~i~p~epy~~C~VCGdrkf~t~~kL~kHFkq 55 (230)
.-++.|+.|+++|+|...... ...++- .|.+++...|+.
T Consensus 26 ~v~~~l~~L~~~g~i~~~~~~-~~~~~~----~~~~~~~~~~~~ 64 (66)
T smart00418 26 TVSHHLKKLREAGLVESRREG-KRVYYS----LTDEKVADLLEE 64 (66)
T ss_pred HHHHHHHHHHHCCCeeeeecC-CEEEEE----EchHHHHHHHHh
Confidence 357889999999999855433 222232 455577766654
No 392
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=41.38 E-value=1.1e+02 Score=29.58 Aligned_cols=67 Identities=16% Similarity=0.204 Sum_probs=49.1
Q ss_pred cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEc----CCcchHHHHHHHHHcCCeEEEecCC-CCchh
Q 046085 114 WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVS----DDSDFVEVLQEATLRCLKTGVAGYM-NDGTL 181 (230)
Q Consensus 114 Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS----DDSDF~~lLr~ARer~l~TVVVGd~-~~~aL 181 (230)
+..|+.+++.|.-.+..+..-+.+++.+. =.-|.+.| .|..+...|+.|.+|||++-+|=+. ++..+
T Consensus 302 ~~~~qi~~sgP~~~~~~~~~~~~~~I~~A-~~~I~I~tpYfip~~~i~~aL~~Aa~rGV~Vril~p~~~d~~~ 373 (483)
T PRK01642 302 GHTVQVIASGPGDPEETIHQFLLTAIYSA-RERLWITTPYFVPDEDLLAALKTAALRGVDVRIIIPSKNDSLL 373 (483)
T ss_pred CceEEEEeCCCCChhhHHHHHHHHHHHHh-ccEEEEEcCCcCCCHHHHHHHHHHHHcCCEEEEEeCCCCCcHH
Confidence 56788999999877777777777778522 24566665 5778999999999999998776444 44443
No 393
>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=41.38 E-value=51 Score=28.89 Aligned_cols=45 Identities=9% Similarity=0.088 Sum_probs=30.0
Q ss_pred CCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHh---hcCcceEEEE
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMD---KRRFGCLVFV 150 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~---~r~vdclvLV 150 (230)
.-.|+..|++.||-|.+..|.... .+...+.+... ..+.||+++|
T Consensus 32 ~~~l~~~f~~lgF~V~~~~dlt~~---em~~~l~~~~~~~~~~~~d~~v~~ 79 (241)
T smart00115 32 AENLTELFQSLGYEVHVKNNLTAE---EMLEELKEFAERPEHSDSDSFVCV 79 (241)
T ss_pred HHHHHHHHHHCCCEEEEecCCCHH---HHHHHHHHHHhccccCCCCEEEEE
Confidence 367999999999999999987665 33333333332 2356776554
No 394
>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=41.37 E-value=70 Score=28.11 Aligned_cols=67 Identities=10% Similarity=-0.012 Sum_probs=43.5
Q ss_pred hhhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCc-chHHHHHHHHHcCCe-EEEecC
Q 046085 106 LVVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS-DFVEVLQEATLRCLK-TGVAGY 175 (230)
Q Consensus 106 La~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS-DF~~lLr~ARer~l~-TVVVGd 175 (230)
+...|+++|+.|-.... .|.+.|. -..+..++ ..+.|.|+++.... +|..+++.+++.|+. ++++|.
T Consensus 156 ~~~~~~~~G~~vv~~~~~~~~~~d~--~~~v~~l~-~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 225 (333)
T cd06328 156 FKAALEKLGAAIVTEEYAPTDTTDF--TPYAQRLL-DALKKVLFVIWAGAGGPWPKLQQMGVLGYGIEITLAG 225 (333)
T ss_pred HHHHHHhCCCEEeeeeeCCCCCcch--HHHHHHHH-hcCCCEEEEEecCchhHHHHHHHhhhhcCCCeEEecc
Confidence 34567788888753322 3345554 33455556 46889888775444 899999999998887 444443
No 395
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=41.37 E-value=69 Score=24.94 Aligned_cols=44 Identities=16% Similarity=0.138 Sum_probs=25.9
Q ss_pred cCcceEEEEcCCc---chHHHHHHHHHc--C--CeEEEecCC-CCchhhhhh
Q 046085 142 RRFGCLVFVSDDS---DFVEVLQEATLR--C--LKTGVAGYM-NDGTLKRIA 185 (230)
Q Consensus 142 r~vdclvLVSDDS---DF~~lLr~ARer--~--l~TVVVGd~-~~~aL~r~A 185 (230)
..+..|+|+||-. .-..++..++.. . +.|+.+|.. ++..|+..|
T Consensus 95 ~~~~~IilltDG~~~~~~~~i~~~v~~~~~~~~i~~~~~g~~~~~~~L~~LA 146 (155)
T PF13768_consen 95 GCVRAIILLTDGQPVSGEEEILDLVRRARGHIRIFTFGIGSDADADFLRELA 146 (155)
T ss_pred CCccEEEEEEeccCCCCHHHHHHHHHhcCCCceEEEEEECChhHHHHHHHHH
Confidence 4578888888654 356677777642 2 455555554 444444444
No 396
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=41.32 E-value=16 Score=23.79 Aligned_cols=13 Identities=23% Similarity=0.516 Sum_probs=11.0
Q ss_pred cCCCCCcccccccC
Q 046085 26 IRPAEPYVLVIVEG 39 (230)
Q Consensus 26 i~p~epy~~C~VCG 39 (230)
+++.+|- .|+.||
T Consensus 12 ~~~~~~i-rC~~CG 24 (32)
T PF03604_consen 12 LKPGDPI-RCPECG 24 (32)
T ss_dssp BSTSSTS-SBSSSS
T ss_pred cCCCCcE-ECCcCC
Confidence 6677777 999999
No 397
>COG2237 Predicted membrane protein [Function unknown]
Probab=41.29 E-value=62 Score=31.54 Aligned_cols=74 Identities=15% Similarity=0.075 Sum_probs=55.2
Q ss_pred CCchhhhhhhhcEE--EEEccccch---HHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHH----cCCeEEEe
Q 046085 103 GYSLVVKLKRVWFW--VRTMSDKLQ---AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATL----RCLKTGVA 173 (230)
Q Consensus 103 gygLa~eLrRAGv~--VrtV~dKpq---AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARe----r~l~TVVV 173 (230)
|--+-+|||.-|-- |-.|+.-|+ .+|..+.+|+-.++...+.+-.++|||-.+=..++---+. ..++.|||
T Consensus 53 alkiydeLk~~geDveIA~vsG~~~vgv~sd~~l~~qld~vl~~~~pd~av~VsDGaeDe~ivPiI~Sr~~I~svkrVVV 132 (364)
T COG2237 53 ALKIYDELKAKGEDVEIAVVSGDKDVGVESDLKLSEQLDEVLSELDPDDAVVVSDGAEDERIVPIIQSRVKIDSVKRVVV 132 (364)
T ss_pred HHHHHHHHhccCCceEEEEEecCCCcchhhHHHHHHHHHHHHHcCCCcEEEEeccCcccchhhhhhhcccceeEEEEEEE
Confidence 34567899999944 446666665 9999999999999999999999999997654443333222 67888888
Q ss_pred cCC
Q 046085 174 GYM 176 (230)
Q Consensus 174 Gd~ 176 (230)
--.
T Consensus 133 rQs 135 (364)
T COG2237 133 RQS 135 (364)
T ss_pred ecC
Confidence 654
No 398
>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=41.28 E-value=38 Score=30.77 Aligned_cols=47 Identities=23% Similarity=0.380 Sum_probs=38.4
Q ss_pred cCcceEEEEcCCcchH-HHHHHHHHcCCeEEEecCCCCchhhhhhhccccc
Q 046085 142 RRFGCLVFVSDDSDFV-EVLQEATLRCLKTGVAGYMNDGTLKRIADRLKWA 191 (230)
Q Consensus 142 r~vdclvLVSDDSDF~-~lLr~ARer~l~TVVVGd~~~~aL~r~AD~leW~ 191 (230)
.++|-+++=|...||. .+|+.|+.-.-+.||||.. ++.+-+..|+|.
T Consensus 114 ~~iDF~vVDc~~~d~~~~vl~~~~~~~~GaVVV~~N---a~~r~~~~~~w~ 161 (218)
T PF07279_consen 114 KGIDFVVVDCKREDFAARVLRAAKLSPRGAVVVCYN---AFSRSTNGFSWR 161 (218)
T ss_pred cCCCEEEEeCCchhHHHHHHHHhccCCCceEEEEec---cccCCcCCccHH
Confidence 4789999999999999 9999999866678999996 466555567775
No 399
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=41.25 E-value=73 Score=30.84 Aligned_cols=72 Identities=15% Similarity=0.031 Sum_probs=39.1
Q ss_pred CccCC-chhhhhhhhc-EEEEEccccch-HHHHHHHHHHHHHHhhcCcceEEEEcCCcchH---HHHHHHHHc--CCeEE
Q 046085 100 PKVGY-SLVVKLKRVW-FWVRTMSDKLQ-AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFV---EVLQEATLR--CLKTG 171 (230)
Q Consensus 100 pkvgy-gLa~eLrRAG-v~VrtV~dKpq-AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~---~lLr~ARer--~l~TV 171 (230)
|-.|- =||+.|+.+| ..|+.+...-. ..+ .++.+.+...+.|.+.+-+--+.+. .+++.+|++ ++ +|
T Consensus 21 pPlgl~~lAa~L~~~G~~~V~iiD~~~~~~~~----~~~~~~l~~~~pdvVgis~~t~~~~~a~~~~~~~k~~~P~~-~i 95 (497)
T TIGR02026 21 PPLWVAYIGGALLDAGYHDVTFLDAMTGPLTD----EKLVERLRAHCPDLVLITAITPAIYIACETLKFARERLPNA-II 95 (497)
T ss_pred CCHHHHHHHHHHHhcCCcceEEecccccCCCH----HHHHHHHHhcCcCEEEEecCcccHHHHHHHHHHHHHHCCCC-EE
Confidence 44553 3677899999 57886532211 112 2233344445667666644444444 456667776 54 45
Q ss_pred EecCC
Q 046085 172 VAGYM 176 (230)
Q Consensus 172 VVGd~ 176 (230)
|+|+.
T Consensus 96 V~GG~ 100 (497)
T TIGR02026 96 VLGGI 100 (497)
T ss_pred EEcCC
Confidence 56665
No 400
>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=41.16 E-value=55 Score=28.45 Aligned_cols=68 Identities=12% Similarity=0.036 Sum_probs=46.3
Q ss_pred hhhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC
Q 046085 106 LVVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~ 176 (230)
+...|++.|+.|-.... .|...|.. ..+..++ ..+.+.|++.....+...+++.+++.|+..-++|..
T Consensus 155 ~~~~~~~~g~~v~~~~~~~~~~~d~~--~~v~~l~-~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (340)
T cd06349 155 FVKAAEKLGGQVVAHEEYVPGEKDFR--PTITRLR-DANPDAIILISYYNDGAPIARQARAVGLDIPVVASS 223 (340)
T ss_pred HHHHHHHcCCEEEEEEEeCCCCCcHH--HHHHHHH-hcCCCEEEEccccchHHHHHHHHHHcCCCCcEEccC
Confidence 34556677877763222 23344432 3333344 578999999999999999999999999987676643
No 401
>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=40.95 E-value=39 Score=24.41 Aligned_cols=44 Identities=16% Similarity=0.187 Sum_probs=32.2
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD 153 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD 153 (230)
..++..|+.+|+.|. +.+.+. .+.+++.++- ..|+..+++|.++
T Consensus 19 ~~l~~~L~~~gi~v~-~d~~~~----~~~k~~~~a~-~~g~p~~iiiG~~ 62 (94)
T PF03129_consen 19 QELANKLRKAGIRVE-LDDSDK----SLGKQIKYAD-KLGIPFIIIIGEK 62 (94)
T ss_dssp HHHHHHHHHTTSEEE-EESSSS----THHHHHHHHH-HTTESEEEEEEHH
T ss_pred HHHHHHHHHCCCEEE-EECCCC----chhHHHHHHh-hcCCeEEEEECch
Confidence 457899999997777 333322 4567777766 5899999999863
No 402
>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ. One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.
Probab=40.90 E-value=99 Score=29.45 Aligned_cols=50 Identities=16% Similarity=0.147 Sum_probs=35.9
Q ss_pred HHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC--CCchhhh
Q 046085 133 NYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM--NDGTLKR 183 (230)
Q Consensus 133 ~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~--~~~aL~r 183 (230)
..+.+.|.+.++.|.|....+-+ .++|+..++.|+++|.+|-. ++..|++
T Consensus 264 ~~l~~~l~~~~i~~~~~~~~~~~-~e~l~~l~~aG~~~v~iGiES~s~~~L~~ 315 (472)
T TIGR03471 264 EEIARKLGPLGVTWSCNARANVD-YETLKVMKENGLRLLLVGYESGDQQILKN 315 (472)
T ss_pred HHHHHHHhhcCceEEEEecCCCC-HHHHHHHHHcCCCEEEEcCCCCCHHHHHH
Confidence 34445555678888877665555 57899999999999999988 4444544
No 403
>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=40.80 E-value=59 Score=26.60 Aligned_cols=17 Identities=18% Similarity=-0.046 Sum_probs=9.4
Q ss_pred HHHHHHcCCeEEEecCC
Q 046085 160 LQEATLRCLKTGVAGYM 176 (230)
Q Consensus 160 Lr~ARer~l~TVVVGd~ 176 (230)
+.-|+..|++||.|.+.
T Consensus 182 i~aA~~aG~~~i~v~~~ 198 (211)
T TIGR02247 182 LKPAAALGITTIKVSDE 198 (211)
T ss_pred HHHHHHcCCEEEEECCH
Confidence 45555566666555543
No 404
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=40.78 E-value=94 Score=29.43 Aligned_cols=78 Identities=13% Similarity=0.052 Sum_probs=47.9
Q ss_pred hhhhhhhhcE-EEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeE-EEecCCCC
Q 046085 106 LVVKLKRVWF-WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKT-GVAGYMND 178 (230)
Q Consensus 106 La~eLrRAGv-~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~T-VVVGd~~~ 178 (230)
|..+|++.|. .|-.|.|+ ......+..++.+.+.+.|+++.++ |.-++.+. .+++.+++.+... |.||.++.
T Consensus 14 l~~~l~~~g~~~vlivt~~-~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGSv 92 (414)
T cd08190 14 VGMDLKNLGARRVCLVTDP-NLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGGSV 92 (414)
T ss_pred HHHHHHHcCCCeEEEEECc-chhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccH
Confidence 4456666663 34455563 3444566788888887788888765 44455554 5667778877655 44677754
Q ss_pred chhhhh
Q 046085 179 GTLKRI 184 (230)
Q Consensus 179 ~aL~r~ 184 (230)
....+.
T Consensus 93 iD~AKa 98 (414)
T cd08190 93 IDTAKA 98 (414)
T ss_pred HHHHHH
Confidence 444433
No 405
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=40.62 E-value=44 Score=32.81 Aligned_cols=42 Identities=21% Similarity=0.159 Sum_probs=34.3
Q ss_pred ceEEEEcC---CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 145 GCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
+.++.||- ..+-..+++.|+++|++||.|-+..+..|.+.||
T Consensus 338 dlvI~iS~SG~T~e~i~a~~~ak~~ga~~IaIT~~~~S~La~~aD 382 (604)
T PRK00331 338 TLVIAISQSGETADTLAALRLAKELGAKTLAICNVPGSTIARESD 382 (604)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHCCCCEEEEECCCCChhHHhcC
Confidence 56666653 3466778999999999999999987789999999
No 406
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=40.47 E-value=1.2e+02 Score=26.18 Aligned_cols=58 Identities=19% Similarity=0.149 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHhhcCcceEEEEcCCc----chHHHHHHHHHcCCeEEEecCCCCchhhh
Q 046085 126 AADVLLRNYMVDMMDKRRFGCLVFVSDDS----DFVEVLQEATLRCLKTGVAGYMNDGTLKR 183 (230)
Q Consensus 126 AAD~AL~~~m~~~m~~r~vdclvLVSDDS----DF~~lLr~ARer~l~TVVVGd~~~~aL~r 183 (230)
..|+...+.+...+...|+++=+-|++=. .+..+++.|+++|++.+|.+-+-..+|.-
T Consensus 8 ~SD~~~~~~a~~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpg 69 (156)
T TIGR01162 8 DSDLPTMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPG 69 (156)
T ss_pred HhhHHHHHHHHHHHHHcCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHH
Confidence 57889999999999999999999888874 45677777888999888888773344443
No 407
>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=40.43 E-value=1.5e+02 Score=25.39 Aligned_cols=43 Identities=9% Similarity=-0.040 Sum_probs=27.9
Q ss_pred HHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 134 YMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 134 ~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
.+.+++.+..--..+++++|.--.++++.++++|+ ..-|||-.
T Consensus 175 ~~~~~l~~~~~~~ai~~~~D~~A~g~~~al~~~g~~~dv~vvG~D 219 (298)
T cd06302 175 TAQELLKAYPDLKGIIGPTSVGIPGAARAVEEAGLKGKVAVTGLG 219 (298)
T ss_pred HHHHHHHhCCCceEEEECCCcchhHHHHHHHhcCCCCCEEEEEeC
Confidence 34455543222245666667777889999999998 45566665
No 408
>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=40.42 E-value=1.7e+02 Score=22.61 Aligned_cols=42 Identities=5% Similarity=-0.107 Sum_probs=29.7
Q ss_pred HHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe-EEEecCC
Q 046085 133 NYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK-TGVAGYM 176 (230)
Q Consensus 133 ~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~-TVVVGd~ 176 (230)
..+...+.+.|+.+.+-.+ ..+..-++.|...|.. +++||+.
T Consensus 45 ~~la~~LR~~gi~v~~d~~--~sl~kqlk~A~k~g~~~~iiiG~~ 87 (121)
T cd00858 45 KEISEELRELGFSVKYDDS--GSIGRRYARQDEIGTPFCVTVDFD 87 (121)
T ss_pred HHHHHHHHHCCCEEEEeCC--CCHHHHHHHhHhcCCCEEEEECcC
Confidence 3444555556777777666 6888888999888888 5566864
No 409
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: 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=40.41 E-value=51 Score=27.03 Aligned_cols=31 Identities=13% Similarity=0.050 Sum_probs=24.4
Q ss_pred eEEEEcCCc---chHHHHHHHHHcCCeEEEecCC
Q 046085 146 CLVFVSDDS---DFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 146 clvLVSDDS---DF~~lLr~ARer~l~TVVVGd~ 176 (230)
.+||+||-. +.....+.+|..|+..++||.+
T Consensus 109 v~vviTdG~s~d~~~~~a~~lr~~gv~i~~vG~~ 142 (165)
T cd01481 109 FLVLITGGKSQDDVERPAVALKRAGIVPFAIGAR 142 (165)
T ss_pred EEEEEeCCCCcchHHHHHHHHHHCCcEEEEEeCC
Confidence 577888743 4566678888999999999987
No 410
>PRK14652 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=40.39 E-value=30 Score=31.76 Aligned_cols=34 Identities=15% Similarity=0.063 Sum_probs=31.9
Q ss_pred cceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 144 FGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 144 vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.++++..++-.|+..+++.|++.++..+|+|.+|
T Consensus 36 a~~~v~p~~~edl~~~v~~a~~~~ip~~vlGgGS 69 (302)
T PRK14652 36 ADLLVRPADPDALSALLRAVRELGVPLSILGGGA 69 (302)
T ss_pred ceEEEEcCCHHHHHHHHHHHHHCCCcEEEEcCCc
Confidence 5889999999999999999999999999999985
No 411
>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=40.37 E-value=39 Score=30.38 Aligned_cols=61 Identities=15% Similarity=0.136 Sum_probs=39.5
Q ss_pred hhhhhhhhcEEEEEccccch--HHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE
Q 046085 106 LVVKLKRVWFWVRTMSDKLQ--AADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpq--AAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T 170 (230)
+...|+..|+-|..++-.+. +.|.. ..+..+. +.+ +.|++.+...+...+++.|++.|+..
T Consensus 166 ~~~~~~~~g~~v~~~~~~~~~~~~d~~--~~l~~ik-~~~-~vii~~~~~~~~~~~~~qa~~~g~~~ 228 (396)
T cd06373 166 VYTVLKEENITVSDFPFDEDKELDDYK--ELLRDIS-KKG-RVVIMCASPDTVREIMLAAHRLGLTS 228 (396)
T ss_pred HHHHHhhcCceeeEEeecCCccccCHH--HHHHHHH-hcC-cEEEEecCHHHHHHHHHHHHHcCCCC
Confidence 34556666776654443333 23432 3333334 345 89999899999999999999999874
No 412
>cd01567 NAPRTase_PncB Nicotinate phosphoribosyltransferase (NAPRTase) family. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis. This salvage pathway serves to recycle NAD degradation products.
Probab=40.29 E-value=77 Score=29.17 Aligned_cols=47 Identities=15% Similarity=0.030 Sum_probs=36.6
Q ss_pred HHHHHHHHHHhhcCc---ceEEEEcCCcchHHHHHHHHHcCC---eEEEecCC
Q 046085 130 LLRNYMVDMMDKRRF---GCLVFVSDDSDFVEVLQEATLRCL---KTGVAGYM 176 (230)
Q Consensus 130 AL~~~m~~~m~~r~v---dclvLVSDDSDF~~lLr~ARer~l---~TVVVGd~ 176 (230)
.+...+.+.+++.|+ +..+++|+|.|+...++.....+. -+..||..
T Consensus 276 ~~~~~~~~~l~~~g~~~~~~~ii~sg~l~~~~~i~~~~~~~~~~~~~fGvGt~ 328 (343)
T cd01567 276 ELIKKVRKHLDELGIDLNKKKIIISGDLDTEEAIELLLEQGASPNDAFGVGTS 328 (343)
T ss_pred HHHHHHHHHHHHcCCCCCCeEEEEECCCCHHHHHHHHHHcCCCcCcEEeeCcc
Confidence 355567777888888 888999999999999999999865 45555544
No 413
>PRK10713 2Fe-2S ferredoxin YfaE; Provisional
Probab=40.26 E-value=21 Score=26.58 Aligned_cols=22 Identities=32% Similarity=0.297 Sum_probs=17.7
Q ss_pred HHHHHHHHhcCccCCCCCcccc--cccC
Q 046085 14 KELFNQLEIKGVIRPAEPYVLV--IVEG 39 (230)
Q Consensus 14 r~~l~~le~~g~i~p~epy~~C--~VCG 39 (230)
.-.|+.|++.|+ +-|| .| +.||
T Consensus 20 ~tlL~a~~~~gi---~~p~-~Cr~G~Cg 43 (84)
T PRK10713 20 PSLLAALESHNV---AVEY-QCREGYCG 43 (84)
T ss_pred CcHHHHHHHcCC---CCCC-CCCCeECC
Confidence 357999999998 5678 88 6777
No 414
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=40.08 E-value=85 Score=28.71 Aligned_cols=77 Identities=17% Similarity=0.102 Sum_probs=53.7
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEE--cCCcchHHHH---HHHHHcCCeEE-EecCCCCc
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFV--SDDSDFVEVL---QEATLRCLKTG-VAGYMNDG 179 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLV--SDDSDF~~lL---r~ARer~l~TV-VVGd~~~~ 179 (230)
|..+|++.| .|=.|.|+ ......+..++.+.|...++++.+.. ..++++..+. +.+++.+...| .||+++-.
T Consensus 14 l~~~l~~~g-r~lvVt~~-~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~~ 91 (366)
T PF00465_consen 14 LGEELKRLG-RVLVVTDP-SLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGGSVM 91 (366)
T ss_dssp HHHHHHCTT-EEEEEEEH-HHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESHHHH
T ss_pred HHHHHHhcC-CEEEEECc-hHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCCCcC
Confidence 567888888 88889988 66666688999999977788876665 7788777654 55666676544 47777433
Q ss_pred hhhhh
Q 046085 180 TLKRI 184 (230)
Q Consensus 180 aL~r~ 184 (230)
...+.
T Consensus 92 D~aK~ 96 (366)
T PF00465_consen 92 DAAKA 96 (366)
T ss_dssp HHHHH
T ss_pred cHHHH
Confidence 33333
No 415
>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=40.02 E-value=1e+02 Score=22.85 Aligned_cols=54 Identities=15% Similarity=0.013 Sum_probs=42.1
Q ss_pred ccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCc-chHHHH--HHHHHcCCeEEEec
Q 046085 120 MSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS-DFVEVL--QEATLRCLKTGVAG 174 (230)
Q Consensus 120 V~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS-DF~~lL--r~ARer~l~TVVVG 174 (230)
|+....-.|..+....++.+. ....-++|||..+ .-++.+ +-|+++|+.+++.-
T Consensus 8 i~GgR~~~D~~~i~~~Ld~~~-~~~~~~~lvhGga~~GaD~iA~~wA~~~gv~~~~~~ 64 (71)
T PF10686_consen 8 ITGGRDWTDHELIWAALDKVH-ARHPDMVLVHGGAPKGADRIAARWARERGVPVIRFP 64 (71)
T ss_pred EEECCccccHHHHHHHHHHHH-HhCCCEEEEECCCCCCHHHHHHHHHHHCCCeeEEeC
Confidence 556667778888888888885 5667788999988 777765 56888999888764
No 416
>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=39.96 E-value=53 Score=27.84 Aligned_cols=42 Identities=24% Similarity=0.270 Sum_probs=29.6
Q ss_pred ceEEEEcCC---cchHHHHHHHHHcCCeEEEecCC--CCchhhhhhh
Q 046085 145 GCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYM--NDGTLKRIAD 186 (230)
Q Consensus 145 dclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~--~~~aL~r~AD 186 (230)
..+||+||- .+-..+.+.+|+.|++.++||-+ +...|...|.
T Consensus 110 kvvillTDG~s~~~~~~~a~~lk~~gv~i~~VgvG~~~~~~L~~ias 156 (224)
T cd01475 110 RVGIVVTDGRPQDDVSEVAAKARALGIEMFAVGVGRADEEELREIAS 156 (224)
T ss_pred eEEEEEcCCCCcccHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHHhC
Confidence 457888875 34667788889999997777655 3455666664
No 417
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=39.89 E-value=96 Score=27.01 Aligned_cols=50 Identities=8% Similarity=-0.040 Sum_probs=36.5
Q ss_pred chHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 124 LQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 124 pqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
+.+.|..- ++.++. ..+.|-|++.....+.+.+++.+++.|+ +..++|-.
T Consensus 170 ~~~~d~~~--~i~~l~-~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~ 221 (333)
T cd06359 170 LGQLDFSA--ELAQIR-AAKPDAVFVFLPGGMGVNFVKQYRQAGLKKDIPLYSPG 221 (333)
T ss_pred CCCcchHH--HHHHHH-hCCCCEEEEEccCccHHHHHHHHHHcCcccCCeeeccC
Confidence 44556542 333445 5789999888777889999999999999 77777743
No 418
>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=39.88 E-value=62 Score=26.27 Aligned_cols=43 Identities=16% Similarity=0.151 Sum_probs=30.6
Q ss_pred cceEEEEcCCcch----------HHHHHHHHHcCCeEEEecCCC----Cchhhhhhh
Q 046085 144 FGCLVFVSDDSDF----------VEVLQEATLRCLKTGVAGYMN----DGTLKRIAD 186 (230)
Q Consensus 144 vdclvLVSDDSDF----------~~lLr~ARer~l~TVVVGd~~----~~aL~r~AD 186 (230)
...+||+||=-+- ..+.+.+++.|+.+++||-.. +..|.++|+
T Consensus 99 ~~~ivliTDG~~~~g~~~~~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~ 155 (178)
T cd01451 99 RPLIVVITDGRANVGPDPTADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLAR 155 (178)
T ss_pred ceEEEEECCCCCCCCCCchhHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHH
Confidence 4678999974322 355788899999999998653 345777776
No 419
>PRK13903 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=39.83 E-value=30 Score=32.94 Aligned_cols=35 Identities=17% Similarity=0.042 Sum_probs=32.5
Q ss_pred CcceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 143 RFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 143 ~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
..++|+.+.+-.|+..+++.|++.++...|+|.++
T Consensus 32 ~A~~~~~p~s~edl~~~l~~a~~~~~p~~vlGgGS 66 (363)
T PRK13903 32 PARRLVTCTSTEELVAAVRELDAAGEPLLVLGGGS 66 (363)
T ss_pred cceEEEEeCCHHHHHHHHHHHHHCCCCEEEEeCCe
Confidence 36889999999999999999999999999999994
No 420
>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=39.83 E-value=2.2e+02 Score=23.74 Aligned_cols=95 Identities=14% Similarity=0.038 Sum_probs=55.2
Q ss_pred HHHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHh-hcCcceE-EEEcCC--------cc-
Q 046085 88 ETYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMD-KRRFGCL-VFVSDD--------SD- 155 (230)
Q Consensus 88 ~KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~-~r~vdcl-vLVSDD--------SD- 155 (230)
+.+.+.+.+-+.+.-| ..+-..|++.|+.+-.||+++.. ....+.+-+. ...+-|- ..++++ ++
T Consensus 59 ~~~~~~~~~~~~l~pg~~e~l~~l~~~g~~~~IvS~~~~~----~i~~il~~~~~~~~i~~n~~~~~~~~~~~~~p~~~~ 134 (214)
T TIGR03333 59 EEITSFVLETAEIREGFREFVAFINEHGIPFYVISGGMDF----FVYPLLEGIVEKDRIYCNEADFSNEYIHIDWPHPCD 134 (214)
T ss_pred HHHHHHHHhcCcccccHHHHHHHHHHCCCeEEEECCCcHH----HHHHHHHhhCCcccEEeceeEeeCCeeEEeCCCCCc
Confidence 3555544443444444 56777888899999999999873 2222222220 1112110 122221 11
Q ss_pred ----------hHHHHHHHHHcCCeEEEecCC-CCchhhhhhh
Q 046085 156 ----------FVEVLQEATLRCLKTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 156 ----------F~~lLr~ARer~l~TVVVGd~-~~~aL~r~AD 186 (230)
-..+++......-+++.|||+ +|-...+.||
T Consensus 135 ~~~~~~cg~~K~~~l~~~~~~~~~~i~iGDg~~D~~~a~~Ad 176 (214)
T TIGR03333 135 GTCQNQCGCCKPSLIRKLSEPNDYHIVIGDSVTDVEAAKQSD 176 (214)
T ss_pred cccccCCCCCHHHHHHHHhhcCCcEEEEeCCHHHHHHHHhCC
Confidence 246777666667789999999 7777778888
No 421
>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=39.67 E-value=1.9e+02 Score=23.76 Aligned_cols=44 Identities=9% Similarity=0.036 Sum_probs=29.2
Q ss_pred HHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCC-eEEEecCC
Q 046085 133 NYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCL-KTGVAGYM 176 (230)
Q Consensus 133 ~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l-~TVVVGd~ 176 (230)
..+.+++....--..+++++|.-...+++.+++.|+ ...|||-.
T Consensus 168 ~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~di~vvg~d 212 (267)
T cd06322 168 TAAQNILQANPDLDGIFAFGDDAALGAVSAIKAAGRDNVKVIGFD 212 (267)
T ss_pred HHHHHHHHhCCCCCEEEEcCCcHHHHHHHHHHHCCCCCeEEEEec
Confidence 345555643332346777888888899999999998 55555544
No 422
>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=39.59 E-value=53 Score=28.60 Aligned_cols=41 Identities=15% Similarity=0.124 Sum_probs=31.6
Q ss_pred HHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecC
Q 046085 134 YMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 134 ~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd 175 (230)
.+.+++ +.+.+.|++...-.++..+++.+++.+...-++|.
T Consensus 183 ~v~~i~-~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 223 (332)
T cd06344 183 AVSQAI-NNGATVLVLFPDTDTLDKALEVAKANKGRLTLLGG 223 (332)
T ss_pred HHHHHH-hcCCCEEEEeCChhHHHHHHHHHHhcCCCceEEec
Confidence 444446 36889999988887999999999998877666653
No 423
>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=39.52 E-value=1.1e+02 Score=23.20 Aligned_cols=40 Identities=18% Similarity=0.206 Sum_probs=27.3
Q ss_pred cCcceEEEE-cCCcchHHHHHHHHHcCCeEEEecCCCCchh
Q 046085 142 RRFGCLVFV-SDDSDFVEVLQEATLRCLKTGVAGYMNDGTL 181 (230)
Q Consensus 142 r~vdclvLV-SDDSDF~~lLr~ARer~l~TVVVGd~~~~aL 181 (230)
.++.+-..+ -.++-...|++.|.+.++..+|+|-...+.+
T Consensus 77 ~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l 117 (146)
T cd01989 77 KGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHF 117 (146)
T ss_pred cCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCce
Confidence 455443333 2334467899999999999999998744444
No 424
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=39.11 E-value=40 Score=27.56 Aligned_cols=71 Identities=13% Similarity=0.077 Sum_probs=44.4
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC-CCchhh
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-NDGTLK 182 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~ 182 (230)
.+||.-||..|+-+..+++- .|..+...+ .-+--+|+|-|.+|.. .+...+. ++.|... ....|.
T Consensus 10 ~~Lar~LR~lG~Dt~~~~~~---~D~~il~~A-------~~e~RillTrd~~l~~---~~~~~~~-~~li~~~~~~~QL~ 75 (147)
T PF01927_consen 10 GRLARWLRLLGYDTLYSRDI---DDDEILELA-------REEGRILLTRDRDLLK---RRRVSGG-VILIRSDDPEEQLR 75 (147)
T ss_pred HHHHHHHHHCCCcEEEeCCC---ChHHHHHHh-------hhCCeEEEECCHHHHH---HhhccCC-EEEEcCCCHHHHHH
Confidence 48999999999999988866 444665544 2334577788887654 3344444 5566433 333455
Q ss_pred hhhhcc
Q 046085 183 RIADRL 188 (230)
Q Consensus 183 r~AD~l 188 (230)
.+...|
T Consensus 76 ev~~~~ 81 (147)
T PF01927_consen 76 EVLERF 81 (147)
T ss_pred HHHHHc
Confidence 555533
No 425
>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=39.09 E-value=30 Score=24.65 Aligned_cols=23 Identities=35% Similarity=0.463 Sum_probs=19.9
Q ss_pred ceEEEEcCCcchHHHHHHHHHcC
Q 046085 145 GCLVFVSDDSDFVEVLQEATLRC 167 (230)
Q Consensus 145 dclvLVSDDSDF~~lLr~ARer~ 167 (230)
+=+|.+|+|+||..++..+++.+
T Consensus 51 gD~V~i~sd~Dl~~a~~~~~~~~ 73 (84)
T PF00564_consen 51 GDLVTISSDEDLQEAIEQAKESG 73 (84)
T ss_dssp SSEEEESSHHHHHHHHHHHHHCT
T ss_pred CCEEEeCCHHHHHHHHHHHHhcC
Confidence 34799999999999999999853
No 426
>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=39.06 E-value=20 Score=32.16 Aligned_cols=42 Identities=17% Similarity=0.204 Sum_probs=28.2
Q ss_pred cccccCCCcccCchHHHHHHHHHhHHHHHHHhhhhhhcccchhhHhHhhhhh
Q 046085 34 LVIVEGDLRLYNNDKLVNHFKQIHKREQKKRLNQIESAKGKMREHLVGNYSM 85 (230)
Q Consensus 34 ~C~VCGdrkf~t~~kL~kHFkqlHeREr~Krlnri~s~kGkrR~~~~~~~~~ 85 (230)
.|++|| -.|+..+=-.||.+..|.-. |+.++ +.+.|..+|++
T Consensus 79 ~C~lc~-KlFkg~eFV~KHI~nKH~e~-------ve~~~--~ev~~fnnY~~ 120 (214)
T PF04959_consen 79 RCPLCG-KLFKGPEFVRKHIFNKHPEK-------VEEVK--KEVEYFNNYLL 120 (214)
T ss_dssp EE-SSS--EESSHHHHHHHHHHH-HHH-------HHHHH--HHHHHHHHH--
T ss_pred CCCCCC-cccCChHHHHHHHhhcCHHH-------HHHHH--HHHHHHHHHhc
Confidence 999999 99999999999999999832 22222 34568888875
No 427
>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=39.02 E-value=1e+02 Score=26.74 Aligned_cols=37 Identities=14% Similarity=0.086 Sum_probs=27.3
Q ss_pred hcCcceEEEEcC------CcchHHHHHHHHHcCCeEEEecCCC
Q 046085 141 KRRFGCLVFVSD------DSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 141 ~r~vdclvLVSD------DSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
..|++-.++-.+ ..+|...|+.|++.|+..||.|+..
T Consensus 54 ~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~g~~~vv~G~i~ 96 (218)
T TIGR03679 54 ALGIPLVKIETSGEKEKEVEDLKGALKELKREGVEGIVTGAIA 96 (218)
T ss_pred HhCCCEEEEECCCCChHHHHHHHHHHHHHHHcCCCEEEECCcc
Confidence 347876555443 2348888888888899999999983
No 428
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=39.01 E-value=86 Score=25.61 Aligned_cols=51 Identities=14% Similarity=0.125 Sum_probs=41.4
Q ss_pred HHHHHHHhhcCcceEEEEcCCcc----hHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 133 NYMVDMMDKRRFGCLVFVSDDSD----FVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 133 ~~m~~~m~~r~vdclvLVSDDSD----F~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
++.+..+ .+|---||+++.|.+ ...+-.++.+.|+-.|.|++. ..|++++.
T Consensus 33 ~e~~Kai-~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk--~~LG~a~g 87 (116)
T COG1358 33 NEVTKAI-ERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSK--KELGKAVG 87 (116)
T ss_pred HHHHHHH-HcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCCH--HHHHHHhC
Confidence 4556667 478899999999999 555666777899999999987 48999887
No 429
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS 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=38.94 E-value=60 Score=22.12 Aligned_cols=16 Identities=13% Similarity=0.081 Sum_probs=8.8
Q ss_pred CchhhhhhhhcEEEEE
Q 046085 104 YSLVVKLKRVWFWVRT 119 (230)
Q Consensus 104 ygLa~eLrRAGv~Vrt 119 (230)
+.++..|+.+|+.|.+
T Consensus 18 ~~i~~~Lr~~g~~v~~ 33 (91)
T cd00859 18 LELAEQLRDAGIKAEI 33 (91)
T ss_pred HHHHHHHHHCCCEEEE
Confidence 3455566666655553
No 430
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=38.81 E-value=35 Score=30.42 Aligned_cols=70 Identities=7% Similarity=-0.104 Sum_probs=39.5
Q ss_pred CchhhhhhhhcEEEEEcc---ccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHH------cCCeEEEec
Q 046085 104 YSLVVKLKRVWFWVRTMS---DKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATL------RCLKTGVAG 174 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~---dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARe------r~l~TVVVG 174 (230)
--|+..|+.+|+.|..+. ..|...+..... .+...+...++++|+-|-+..+++.+.+ .+...++||
T Consensus 151 ~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~----~l~~~~~~d~i~ftS~sav~~f~~~l~~~~~~~l~~~~~v~is 226 (266)
T PRK08811 151 GLLAPTLQQRGARILRADVYQRVPLRLRASTLA----ALSRAAPRSVLALSSAEALTLILQQLPDALRRALQQRPVVASS 226 (266)
T ss_pred HHHHHHHHHCCCEEeEEEEEeeeCCCCCHHHHH----HHHHhCCCCEEEEChHHHHHHHHHHhhhhHHHHHhCCCEEEeC
Confidence 358899999999887544 222221222222 2212244556667766666666554432 467778888
Q ss_pred CCC
Q 046085 175 YMN 177 (230)
Q Consensus 175 d~~ 177 (230)
..+
T Consensus 227 ~rt 229 (266)
T PRK08811 227 DRL 229 (266)
T ss_pred HHH
Confidence 763
No 431
>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=38.80 E-value=1.2e+02 Score=24.33 Aligned_cols=35 Identities=14% Similarity=0.013 Sum_probs=26.3
Q ss_pred CcceEEEEcCCcc------------hHHH---HHHHHHcCCeEEEecCCC
Q 046085 143 RFGCLVFVSDDSD------------FVEV---LQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 143 ~vdclvLVSDDSD------------F~~l---Lr~ARer~l~TVVVGd~~ 177 (230)
+-..|+|+||=.+ +.+. .+.|++.|+++.+||-++
T Consensus 103 ~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~ 152 (174)
T cd01454 103 KRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEVFGITIDR 152 (174)
T ss_pred cCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEEEEEEecC
Confidence 3567999998432 3344 788888999999999885
No 432
>PRK05613 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=38.79 E-value=98 Score=29.76 Aligned_cols=70 Identities=16% Similarity=0.015 Sum_probs=45.3
Q ss_pred hhcCCccCCch-----hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC------cchHHHHHHHH
Q 046085 96 ATLTPKVGYSL-----VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD------SDFVEVLQEAT 164 (230)
Q Consensus 96 ~vl~pkvgygL-----a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD------SDF~~lLr~AR 164 (230)
.|++|..-||= ...|.+.|+.|..+.+ |. |. .++...+. .+...|++.+-- .|...+.+.|+
T Consensus 110 ~VI~~~~~y~~t~~~~~~~l~~~Gi~v~~vd~-~~--d~---e~l~~~l~-~~tk~V~~e~~~Np~~~v~di~~I~~la~ 182 (437)
T PRK05613 110 HIVTSPRLYGGTETLFLVTLNRLGIEVTFVEN-PD--DP---ESWQAAVQ-PNTKAFFGETFANPQADVLDIPAVAEVAH 182 (437)
T ss_pred EEEECCCccHHHHHHHHHHHHhcCeEEEEECC-CC--CH---HHHHHhCC-ccCeEEEEECCCCCCCcccCHHHHHHHHH
Confidence 46777777773 3567899999999873 32 21 22333343 344455543332 48899999999
Q ss_pred HcCCeEEE
Q 046085 165 LRCLKTGV 172 (230)
Q Consensus 165 er~l~TVV 172 (230)
+.|+-++|
T Consensus 183 ~~gi~liv 190 (437)
T PRK05613 183 RNQVPLIV 190 (437)
T ss_pred HcCCeEEE
Confidence 99987765
No 433
>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic. This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.
Probab=38.76 E-value=1.3e+02 Score=28.94 Aligned_cols=134 Identities=16% Similarity=0.120 Sum_probs=75.1
Q ss_pred HHHHHHHHHhcCc-cCCCCCcc-cccccCCCcccCchHHHHHHHHHhHHHHHHHhhhhhhcccchhhHhHhhhhhhhHHH
Q 046085 13 IKELFNQLEIKGV-IRPAEPYV-LVIVEGDLRLYNNDKLVNHFKQIHKREQKKRLNQIESAKGKMREHLVGNYSMRMETY 90 (230)
Q Consensus 13 er~~l~~le~~g~-i~p~epy~-~C~VCGdrkf~t~~kL~kHFkqlHeREr~Krlnri~s~kGkrR~~~~~~~~~k~~KY 90 (230)
-++++.+|.+.|+ |-||.|-. .|+--|.+|..+.+.+..|..+.=.. -..++|++=.---. -..-|
T Consensus 131 ~~~Nl~~L~~~G~~vv~P~~g~~ac~~~g~g~~~~~~~i~~~v~~~~~~--------~~~~~~~~vlit~g----~t~E~ 198 (390)
T TIGR00521 131 VQENIKRLKDDGYIFIEPDSGLLACGDEGKGRLAEPETIVKAAEREFSP--------KEDLEGKRVLITAG----PTREP 198 (390)
T ss_pred HHHHHHHHHHCCcEEECCCCcccccccccCCCCCCHHHHHHHHHHHHhh--------ccccCCceEEEecC----CccCC
Confidence 4678889998883 45555433 79999989999999999888653211 01234443110000 00011
Q ss_pred HHHHhhhcCC---ccCCchhhhhhhhcEEEEEcccc-----ch---HHHHHHHHHH----HHHHhhcCcceEEEEcCCcc
Q 046085 91 KMASKATLTP---KVGYSLVVKLKRVWFWVRTMSDK-----LQ---AADVLLRNYM----VDMMDKRRFGCLVFVSDDSD 155 (230)
Q Consensus 91 ~~AAr~vl~p---kvgygLa~eLrRAGv~VrtV~dK-----pq---AAD~AL~~~m----~~~m~~r~vdclvLVSDDSD 155 (230)
-.-.|-+.-+ +.|+.+|.+|...|..|..+... |. ..|+.=..+| .+... .++|.+|.-..-||
T Consensus 199 iD~VR~itN~SSG~~g~~~a~~~~~~Ga~V~~~~g~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~-~~~D~~i~~Aavsd 277 (390)
T TIGR00521 199 IDPVRFISNLSSGKMGLALAEAAYKRGADVTLITGPVSLLTPPGVKSIKVSTAEEMLEAALNELA-KDFDIFISAAAVAD 277 (390)
T ss_pred CCceeeecCCCcchHHHHHHHHHHHCCCEEEEeCCCCccCCCCCcEEEEeccHHHHHHHHHHhhc-ccCCEEEEcccccc
Confidence 1112222222 35688999999999998866532 11 1111122222 21222 36889998888888
Q ss_pred hHHH
Q 046085 156 FVEV 159 (230)
Q Consensus 156 F~~l 159 (230)
|...
T Consensus 278 ~~~~ 281 (390)
T TIGR00521 278 FKPK 281 (390)
T ss_pred cccc
Confidence 8653
No 434
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=38.63 E-value=88 Score=29.36 Aligned_cols=73 Identities=12% Similarity=0.130 Sum_probs=51.2
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHh-----------------hcCcceEEEEcCCc-----chHHHHHH
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMD-----------------KRRFGCLVFVSDDS-----DFVEVLQE 162 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~-----------------~r~vdclvLVSDDS-----DF~~lLr~ 162 (230)
||--.|++.-+. +.+++.--+.+..+....++.|. +.|+=.-+||||+- ++..++..
T Consensus 238 gl~EvL~~~~v~-~~l~d~k~~~E~~~l~~f~~~l~kd~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~ 316 (351)
T TIGR00111 238 GINEVLKRGLVA-RILQETRYAKEIMVIDEFLEHLAKDGDKAVYGEDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDS 316 (351)
T ss_pred HHHHHHhChHHH-HHHhhhhHHHHHHHHHHHHHHHhcCCCeEEECHHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHH
Confidence 455455544332 33666666777777777766664 23344567889977 79999999
Q ss_pred HHHcCCeEEEecCCCC
Q 046085 163 ATLRCLKTGVAGYMND 178 (230)
Q Consensus 163 ARer~l~TVVVGd~~~ 178 (230)
|++.|.+++||+..++
T Consensus 317 v~~~gg~V~i~Ss~~e 332 (351)
T TIGR00111 317 VESMGGKVVILSTEHE 332 (351)
T ss_pred HHHcCCEEEEEcCCCc
Confidence 9999999999988753
No 435
>PTZ00436 60S ribosomal protein L19-like protein; Provisional
Probab=38.57 E-value=49 Score=32.03 Aligned_cols=61 Identities=16% Similarity=0.292 Sum_probs=45.2
Q ss_pred hhHHHHHHHHHHHHHHHHhcCccCCCCCcccccc-cCCCcccCchHHHHHHHHHh-HHHHHHHh
Q 046085 4 ELQESKEKKIKELFNQLEIKGVIRPAEPYVLVIV-EGDLRLYNNDKLVNHFKQIH-KREQKKRL 65 (230)
Q Consensus 4 ~~~~r~~r~er~~l~~le~~g~i~p~epy~~C~V-CGdrkf~t~~kL~kHFkqlH-eREr~Krl 65 (230)
++|++.+|..|++|..|-..|.|.+.+=..+=.- =| +-|++-..|..|..+.- |..|.|.|
T Consensus 93 ~~WIrRIRaLRRlLKklRd~gKIDkh~YR~LYrKAKG-n~FKNK~~L~e~I~k~KaE~~R~K~L 155 (357)
T PTZ00436 93 ELWMRRLRILRRLLRKYREEKKIDRHIYRELYVKAKG-NVFRNKRNLMEHIHKVKNEKKKERQL 155 (357)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhcC-CccCcHHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999999988753222222 35 78999999988876543 34444444
No 436
>PRK15138 aldehyde reductase; Provisional
Probab=38.51 E-value=1.1e+02 Score=28.72 Aligned_cols=76 Identities=8% Similarity=-0.004 Sum_probs=47.4
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEEE-ecCCCCc
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTGV-AGYMNDG 179 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TVV-VGd~~~~ 179 (230)
|..+|++ |=.|-.|++.....-..+...+.+.|. +++..++ |..++... .+++.+|+.+...|| ||.++.-
T Consensus 22 l~~~l~~-~~~~livt~~~~~~~~g~~~~v~~~L~--~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~i 98 (387)
T PRK15138 22 LREQIPA-DARVLITYGGGSVKKTGVLDQVLDALK--GMDVLEFGGIEPNPTYETLMKAVKLVREEKITFLLAVGGGSVL 98 (387)
T ss_pred HHHHHhc-CCeEEEECCCchHHhcCcHHHHHHHhc--CCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCChHHH
Confidence 4455655 434555766554433455667778883 6666555 55566555 667778888998888 9998544
Q ss_pred hhhhh
Q 046085 180 TLKRI 184 (230)
Q Consensus 180 aL~r~ 184 (230)
...+.
T Consensus 99 D~AK~ 103 (387)
T PRK15138 99 DGTKF 103 (387)
T ss_pred HHHHH
Confidence 44443
No 437
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=38.50 E-value=89 Score=25.29 Aligned_cols=68 Identities=15% Similarity=0.059 Sum_probs=46.9
Q ss_pred CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch----HHHHHHHHHcCCeEEEecCCCCc
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF----VEVLQEATLRCLKTGVAGYMNDG 179 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF----~~lLr~ARer~l~TVVVGd~~~~ 179 (230)
|+|-.--+|+|-.|. . .++.+.+| ++|--.||+++.|.+- ..+...|++.|+..+.+|+. .
T Consensus 19 ~~lL~la~ragklv~---G---------~~~v~kai-kkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk--~ 83 (122)
T PRK04175 19 LEAVEKARDTGKIKK---G---------TNETTKAV-ERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSK--K 83 (122)
T ss_pred HHHHHHHHHcCCEeE---c---------HHHHHHHH-HcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCH--H
Confidence 444455566775444 1 12344556 4688889999998843 57888899999999888865 5
Q ss_pred hhhhhhh
Q 046085 180 TLKRIAD 186 (230)
Q Consensus 180 aL~r~AD 186 (230)
.|++++-
T Consensus 84 eLG~a~G 90 (122)
T PRK04175 84 DLGKAAG 90 (122)
T ss_pred HHHHHhC
Confidence 7887765
No 438
>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=38.36 E-value=33 Score=31.06 Aligned_cols=34 Identities=18% Similarity=0.048 Sum_probs=31.4
Q ss_pred cceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 144 FGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 144 vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.+.++.+++-.|+..+++.|++.++..+|+|.+|
T Consensus 13 a~~~v~p~s~edl~~~l~~a~~~~~p~~vlGgGS 46 (284)
T TIGR00179 13 ARHIVCPESIEQLVNVLDNAKEEDQPLLILGEGS 46 (284)
T ss_pred eeEEEEeCCHHHHHHHHHHHHHcCCCEEEEecce
Confidence 4778899999999999999999999999999995
No 439
>TIGR00312 cbiD cobalamin biosynthesis protein CbiD. role_id
Probab=38.35 E-value=1.2e+02 Score=28.98 Aligned_cols=90 Identities=23% Similarity=0.268 Sum_probs=59.9
Q ss_pred HHHHhhhcCCccC--CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCC---------------
Q 046085 91 KMASKATLTPKVG--YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDD--------------- 153 (230)
Q Consensus 91 ~~AAr~vl~pkvg--ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDD--------------- 153 (230)
++.|+..+-|++| -|+ |.|=--| .|+++|..-..+=+.+ .+ ++....|.+++|||...
T Consensus 138 eelAkkT~NprLGI~GGI-SILGTTG-IV~P~S~~A~~~Si~~--~i-~va~a~g~~~~vl~~G~~ge~~a~~~~~~~~~ 212 (347)
T TIGR00312 138 RTLATRTSNPALGIVGGL-SILGTTG-IARPMSAEAYLASLAC--QI-DTAAAQGHQCLVFVPGNIGLDLARQWGVPLDD 212 (347)
T ss_pred HHHHHhccccccCccCCe-EeccCCE-EEEECCHHHHHHHHHH--HH-HHHHHcCCCeEEEccChHHHHHHHHhCCCCcc
Confidence 4678888889887 333 4444444 3788876544332222 22 22335678888888642
Q ss_pred -----cch-HHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 154 -----SDF-VEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 154 -----SDF-~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
||| .++|+.|.++|++.|++... .+.|-++|-
T Consensus 213 ~~V~~gnfiG~~L~~a~~~g~~~i~l~G~-~GKLvKlA~ 250 (347)
T TIGR00312 213 EIIKTANFLGSMLVAAAAVGVEEILLLGH-AGKLIKLAG 250 (347)
T ss_pred cEEEEehhhHHHHHHHHHcCCCEEEEEeE-hHHHHHHhC
Confidence 234 46799999999999999887 688888887
No 440
>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=38.34 E-value=64 Score=30.38 Aligned_cols=43 Identities=16% Similarity=-0.011 Sum_probs=32.6
Q ss_pred CcceEEEEcCCc------chHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSDDS------DFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSDDS------DF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
..++|+++..|. -+..-++.|+++|.+.|||+-. .-...+.||
T Consensus 156 ~ad~il~~G~n~~~~~~~~~~~~~~~a~~~g~kiivIdPr-~t~ta~~AD 204 (454)
T cd02755 156 NARYIILFGRNLAEAIIVVDARRLMKALENGAKVVVVDPR-FSELASKAD 204 (454)
T ss_pred cCCEEEEECcCcccccccHHHHHHHHHHHCCCeEEEECCC-CChhhHhhC
Confidence 469999997762 2455667889999999999987 235667899
No 441
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=38.17 E-value=86 Score=32.44 Aligned_cols=72 Identities=10% Similarity=0.108 Sum_probs=40.2
Q ss_pred hhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEecCC-CCchhhhhhh
Q 046085 108 VKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 108 ~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r~AD 186 (230)
..|+++|+.|.+++.-...+=.++ ....|++-+.-=....|=..+++..+++|-.+..+||+ ||-..=+.||
T Consensus 456 ~~l~~~Gi~v~miTGD~~~ta~~i-------A~~lGI~~v~a~~~PedK~~~v~~lq~~g~~VamvGDG~NDapAL~~Ad 528 (675)
T TIGR01497 456 AQLRKMGIKTIMITGDNRLTAAAI-------AAEAGVDDFIAEATPEDKIALIRQEQAEGKLVAMTGDGTNDAPALAQAD 528 (675)
T ss_pred HHHHHCCCEEEEEcCCCHHHHHHH-------HHHcCCCEEEcCCCHHHHHHHHHHHHHcCCeEEEECCCcchHHHHHhCC
Confidence 345566766666664332111111 22335543322222344556677778888889999999 6644446677
No 442
>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=38.05 E-value=1.8e+02 Score=23.87 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=26.5
Q ss_pred HHHHHHHhhc-CcceEEEEcCCcchHHHHHHHHHcCCe---EEEecCC
Q 046085 133 NYMVDMMDKR-RFGCLVFVSDDSDFVEVLQEATLRCLK---TGVAGYM 176 (230)
Q Consensus 133 ~~m~~~m~~r-~vdclvLVSDDSDF~~lLr~ARer~l~---TVVVGd~ 176 (230)
..+.+++.+. .++ .+++++|.-..++++.++++|+. ..|||-.
T Consensus 172 ~~~~~~l~~~~~~~-ai~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 172 DLMENWLSSGGKID-AVVANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred HHHHHHHHhCCCCC-EEEECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 3444555322 244 45556666666999999999984 4556644
No 443
>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=37.90 E-value=74 Score=28.40 Aligned_cols=105 Identities=16% Similarity=0.060 Sum_probs=55.2
Q ss_pred hHHHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcc---eEEEEcCCcc---hHHH
Q 046085 87 METYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFG---CLVFVSDDSD---FVEV 159 (230)
Q Consensus 87 ~~KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vd---clvLVSDDSD---F~~l 159 (230)
.+.|.....+-..|.-| -.+-..|+..|+.+=.|+.+.+.--..+...+.+ ..|++ .+++=+++.. ....
T Consensus 102 w~~~~~~~~~~s~p~~~a~elL~~l~~~G~~i~iVTnr~~~k~~~~a~~ll~---~lGi~~~f~~i~~~d~~~~~Kp~~~ 178 (237)
T TIGR01672 102 WEKVNNGWDEFSIPKEVARQLIDMHQRRGDAIFFVTGRTPGKTDTVSKTLAK---NFHIPAMNPVIFAGDKPGQYQYTKT 178 (237)
T ss_pred HHHHHHhcccCCcchhHHHHHHHHHHHCCCEEEEEeCCCCCcCHHHHHHHHH---HhCCchheeEEECCCCCCCCCCCHH
Confidence 34555555444455533 5677888999999999999844211123333322 23443 2333333321 1122
Q ss_pred HHHHHHcCCeEEEecCC-CCchhhhhhh----ccccccchHH
Q 046085 160 LQEATLRCLKTGVAGYM-NDGTLKRIAD----RLKWAYNSEV 196 (230)
Q Consensus 160 Lr~ARer~l~TVVVGd~-~~~aL~r~AD----~leW~~~~e~ 196 (230)
..+.+.|+ ++.|||. +|-.-.+.|- ...|.++.-+
T Consensus 179 -~~l~~~~i-~i~vGDs~~DI~aAk~AGi~~I~V~~g~~s~~ 218 (237)
T TIGR01672 179 -QWIQDKNI-RIHYGDSDNDITAAKEAGARGIRILRASNSTY 218 (237)
T ss_pred -HHHHhCCC-eEEEeCCHHHHHHHHHCCCCEEEEEecCCCCC
Confidence 23345665 7899998 4333333444 5567666543
No 444
>PRK12452 cardiolipin synthetase; Reviewed
Probab=37.82 E-value=1.4e+02 Score=29.42 Aligned_cols=70 Identities=11% Similarity=0.143 Sum_probs=48.6
Q ss_pred cEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEc----CCcchHHHHHHHHHcCCeEEEecCC-CCchhhhh
Q 046085 114 WFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVS----DDSDFVEVLQEATLRCLKTGVAGYM-NDGTLKRI 184 (230)
Q Consensus 114 Gv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS----DDSDF~~lLr~ARer~l~TVVVGd~-~~~aL~r~ 184 (230)
...|+.+++.|...+..+...+.+++.+.. ..|-+.| .|..+...|+.|..|||++-+|=+. +|..+..+
T Consensus 328 ~~~~q~~~sgp~~~~~~i~~~~l~~I~~A~-~~I~I~tpYf~pd~~l~~aL~~Aa~rGV~Vrii~p~~~D~~~~~~ 402 (509)
T PRK12452 328 EGAVQIVASGPSSDDKSIRNTLLAVMGSAK-KSIWIATPYFIPDQETLTLLRLSAISGIDVRILYPGKSDSIISDQ 402 (509)
T ss_pred CeEEEEEeCCCCchhHHHHHHHHHHHHHhh-hEEEEECCccCCCHHHHHHHHHHHHcCCEEEEEcCCCCChHHHHH
Confidence 347889999998777778888888885322 3333333 4567888999999999999887665 34334333
No 445
>PRK09526 lacI lac repressor; Reviewed
Probab=37.82 E-value=1.4e+02 Score=25.72 Aligned_cols=67 Identities=4% Similarity=-0.004 Sum_probs=38.8
Q ss_pred CchhhhhhhhcEEEEEcc-ccchHHHHHHHHHHHHHHhhcCcceEEEE-cCCcc-hHHHHHHHHHcCCeEEEecC
Q 046085 104 YSLVVKLKRVWFWVRTMS-DKLQAADVLLRNYMVDMMDKRRFGCLVFV-SDDSD-FVEVLQEATLRCLKTGVAGY 175 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~-dKpqAAD~AL~~~m~~~m~~r~vdclvLV-SDDSD-F~~lLr~ARer~l~TVVVGd 175 (230)
.|+..+++..|+.+.... +..+.. ... ++.+.|...++|.|++. +.+++ ...++. ...+..+|+++.
T Consensus 83 ~gi~~~a~~~g~~~~i~~~~~~~~~--~~~-~~l~~l~~~~vdGiii~~~~~~~~~~~~~~--~~~~iPvV~~d~ 152 (342)
T PRK09526 83 AAIKSRADQLGYSVVISMVERSGVE--ACQ-AAVNELLAQRVSGVIINVPLEDADAEKIVA--DCADVPCLFLDV 152 (342)
T ss_pred HHHHHHHHHCCCEEEEEeCCCChHH--HHH-HHHHHHHhcCCCEEEEecCCCcchHHHHHh--hcCCCCEEEEec
Confidence 567788889999988643 211111 112 23333446899999996 43433 222221 235888888874
No 446
>COG5200 LUC7 U1 snRNP component, mediates U1 snRNP association with cap-binding complex [RNA processing and modification]
Probab=37.78 E-value=26 Score=32.41 Aligned_cols=47 Identities=21% Similarity=0.277 Sum_probs=29.9
Q ss_pred HHHHHHHHHH--HHHHHhcCccCCCCCcccccccCCC---cccCchHHHHHHHH
Q 046085 7 ESKEKKIKEL--FNQLEIKGVIRPAEPYVLVIVEGDL---RLYNNDKLVNHFKQ 55 (230)
Q Consensus 7 ~r~~r~er~~--l~~le~~g~i~p~epy~~C~VCGdr---kf~t~~kL~kHFkq 55 (230)
.+++|+|-+. .+.-|+-|--+...-- +|++|| - +..|-..|-.||-.
T Consensus 159 l~~~rkei~~~v~sm~en~gq~thqklq-vC~iCg-ayLsrlDtdrrladHf~G 210 (258)
T COG5200 159 LREERKEIKEAVYSMVENNGQGTHQKLQ-VCGICG-AYLSRLDTDRRLADHFNG 210 (258)
T ss_pred HHHHHHHHHHHHHHHhhCcchhhhhhhh-hhhhhh-hHHHhcchhhHHHHHhcc
Confidence 3455555433 2336666655333333 999999 5 77788899999964
No 447
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=37.76 E-value=1.2e+02 Score=26.59 Aligned_cols=51 Identities=20% Similarity=0.110 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHhhcCcceEEEEcCCcc----hHHHHHHHHHcCCeEEEecCC
Q 046085 126 AADVLLRNYMVDMMDKRRFGCLVFVSDDSD----FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 126 AAD~AL~~~m~~~m~~r~vdclvLVSDDSD----F~~lLr~ARer~l~TVVVGd~ 176 (230)
..|+...+++.++++..||+.-+-|-+-+. .....+.|+++|+++++-|-+
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 579999999999999999988776655432 345667889999999999877
No 448
>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily. The DRE-TIM metallolyase superfamily includes 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".
Probab=37.68 E-value=1.8e+02 Score=24.71 Aligned_cols=49 Identities=8% Similarity=-0.075 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHhhcCcceEEEEcCCcc-------hHHHHHHHHHcCCeEEEecCC
Q 046085 128 DVLLRNYMVDMMDKRRFGCLVFVSDDSD-------FVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 128 D~AL~~~m~~~m~~r~vdclvLVSDDSD-------F~~lLr~ARer~l~TVVVGd~ 176 (230)
++.....+...+-+.|+...+-+++-+. +..+++.+.+.|+..+.+-|.
T Consensus 113 ~~~~~~~~i~~a~~~G~~v~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~~i~l~Dt 168 (265)
T cd03174 113 DLENAEEAIEAAKEAGLEVEGSLEDAFGCKTDPEYVLEVAKALEEAGADEISLKDT 168 (265)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEeecCCCCCHHHHHHHHHHHHHcCCCEEEechh
Confidence 4555666666666788877776644444 788999999999999998887
No 449
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=37.64 E-value=75 Score=27.41 Aligned_cols=72 Identities=17% Similarity=0.109 Sum_probs=42.5
Q ss_pred CCchhhhhhhhcEEEEEccccchHHHHHHHHH----------HHHHHhhcCcceEEEEcCCc-chHHHHHHHHHcCCeEE
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQAADVLLRNY----------MVDMMDKRRFGCLVFVSDDS-DFVEVLQEATLRCLKTG 171 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~----------m~~~m~~r~vdclvLVSDDS-DF~~lLr~ARer~l~TV 171 (230)
|+.-+.-|-.+|-.|..|+..+...=..|... -...+ .+.+-++.-++|+ --..+...|+++|+-+-
T Consensus 21 a~rk~~~Ll~~ga~VtVvsp~~~~~l~~l~~~~~i~~~~~~~~~~dl--~~~~lVi~at~d~~ln~~i~~~a~~~~ilvn 98 (205)
T TIGR01470 21 ALRKARLLLKAGAQLRVIAEELESELTLLAEQGGITWLARCFDADIL--EGAFLVIAATDDEELNRRVAHAARARGVPVN 98 (205)
T ss_pred HHHHHHHHHHCCCEEEEEcCCCCHHHHHHHHcCCEEEEeCCCCHHHh--CCcEEEEECCCCHHHHHHHHHHHHHcCCEEE
Confidence 34456667778888887777665321222111 00112 2455555666776 56778888998888776
Q ss_pred EecCC
Q 046085 172 VAGYM 176 (230)
Q Consensus 172 VVGd~ 176 (230)
++++.
T Consensus 99 ~~d~~ 103 (205)
T TIGR01470 99 VVDDP 103 (205)
T ss_pred ECCCc
Confidence 66654
No 450
>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=37.48 E-value=43 Score=29.03 Aligned_cols=62 Identities=16% Similarity=0.051 Sum_probs=39.7
Q ss_pred hhhhhhhhcEEEEEc-cccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE
Q 046085 106 LVVKLKRVWFWVRTM-SDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 106 La~eLrRAGv~VrtV-~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T 170 (230)
+-..+++.|+.|... .-.+...|. ...+.+++ +.+.|.|++.++-.+...+++.+++.|++.
T Consensus 153 ~~~~~~~~G~~v~~~~~~~~~~~d~--~~~~~~i~-~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~ 215 (341)
T cd06341 153 LARSLAAAGVSVAGIVVITATAPDP--TPQAQQAA-AAGADAIITVLDAAVCASVLKAVRAAGLTP 215 (341)
T ss_pred HHHHHHHcCCccccccccCCCCCCH--HHHHHHHH-hcCCCEEEEecChHHHHHHHHHHHHcCCCC
Confidence 344566667655422 222333453 22333345 368999988877779999999999999864
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=37.41 E-value=59 Score=31.83 Aligned_cols=43 Identities=16% Similarity=0.004 Sum_probs=33.0
Q ss_pred CcceEEEEcCCcc-----hHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 143 RFGCLVFVSDDSD-----FVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 143 ~vdclvLVSDDSD-----F~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
..++|+++..|.- +...+..|+++|.+.|||.-. .-.....||
T Consensus 159 ~ad~il~~G~Np~~s~~~~~~~~~~a~~~GakliviDPr-~s~ta~~Ad 206 (567)
T cd02765 159 NAKTIIIWGSNILETQFQDAEFFLDARENGAKIVVIDPV-YSTTAAKAD 206 (567)
T ss_pred cCcEEEEECCChHHccchhHHHHHHHHHcCCeEEEECCC-CCcchhhcC
Confidence 6799999988842 446667899999999999665 235567889
No 452
>COG1712 Predicted dinucleotide-utilizing enzyme [General function prediction only]
Probab=37.24 E-value=1.4e+02 Score=27.89 Aligned_cols=92 Identities=18% Similarity=0.159 Sum_probs=65.4
Q ss_pred hhhHhHhhhhhhhHHHHHHHhhhcCCccCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEc---
Q 046085 75 MREHLVGNYSMRMETYKMASKATLTPKVGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVS--- 151 (230)
Q Consensus 75 rR~~~~~~~~~k~~KY~~AAr~vl~pkvgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVS--- 151 (230)
....++.-|...++|-++++..+-.+.+ -.|..-+.+.-+-|.- |.=.|++.+..+.| .+|+||||+-.
T Consensus 24 ~~~e~v~v~D~~~ek~~~~~~~~~~~~~-s~ide~~~~~DlvVEa------AS~~Av~e~~~~~L-~~g~d~iV~SVGAL 95 (255)
T COG1712 24 VDFELVAVYDRDEEKAKELEASVGRRCV-SDIDELIAEVDLVVEA------ASPEAVREYVPKIL-KAGIDVIVMSVGAL 95 (255)
T ss_pred cceeEEEEecCCHHHHHHHHhhcCCCcc-ccHHHHhhccceeeee------CCHHHHHHHhHHHH-hcCCCEEEEechhc
Confidence 5566677788889999988888877777 5566656666665552 33347999999999 59999999732
Q ss_pred CCcchHHHHHHHHH-cCCeEEEec
Q 046085 152 DDSDFVEVLQEATL-RCLKTGVAG 174 (230)
Q Consensus 152 DDSDF~~lLr~ARe-r~l~TVVVG 174 (230)
.|.+|...|+.+-+ -|-+..+.+
T Consensus 96 ad~~l~erl~~lak~~~~rv~~pS 119 (255)
T COG1712 96 ADEGLRERLRELAKCGGARVYLPS 119 (255)
T ss_pred cChHHHHHHHHHHhcCCcEEEecC
Confidence 37788888876555 455555443
No 453
>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=37.20 E-value=2.1e+02 Score=23.57 Aligned_cols=31 Identities=16% Similarity=0.164 Sum_probs=23.3
Q ss_pred eEEEEcCCcchHHHHHHHHHcCC--eEEEecCC
Q 046085 146 CLVFVSDDSDFVEVLQEATLRCL--KTGVAGYM 176 (230)
Q Consensus 146 clvLVSDDSDF~~lLr~ARer~l--~TVVVGd~ 176 (230)
..+..++|.-..++++.+++.|. ...|||-.
T Consensus 185 ~~i~~~~d~~a~g~~~~l~~~g~~~di~vig~d 217 (273)
T cd06310 185 KGIFGANEGSAVGAARAVRQAGKAGKVKVVGFD 217 (273)
T ss_pred eEEEecCchhHHHHHHHHHhcCCCCCeEEEEeC
Confidence 45667778888899999999998 34555544
No 454
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=36.96 E-value=26 Score=35.87 Aligned_cols=38 Identities=21% Similarity=0.371 Sum_probs=30.0
Q ss_pred CCCCcccccccCCCcccCchHHHHHHHHHhHHHHHHHhhhh
Q 046085 28 PAEPYVLVIVEGDLRLYNNDKLVNHFKQIHKREQKKRLNQI 68 (230)
Q Consensus 28 p~epy~~C~VCGdrkf~t~~kL~kHFkqlHeREr~Krlnri 68 (230)
+.-|. .|-+|| .||...+...+|. ++|-..|.+.=-++
T Consensus 415 ~~~pn-qC~~CG-~R~~~~ee~sk~m-d~H~dwh~r~n~~~ 452 (579)
T KOG2071|consen 415 KDSPN-QCKSCG-LRFDDSEERSKHM-DIHDDWHRRKNTTI 452 (579)
T ss_pred cCCcc-hhcccc-cccccchhhhhHh-hhhhhhhhhhhhhc
Confidence 34456 899999 9999999999997 68988887644443
No 455
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=36.96 E-value=1.5e+02 Score=24.06 Aligned_cols=73 Identities=8% Similarity=-0.042 Sum_probs=42.2
Q ss_pred hcCCccCCchhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEe
Q 046085 97 TLTPKVGYSLVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVA 173 (230)
Q Consensus 97 vl~pkvgygLa~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVV 173 (230)
.-.-.+|-.-+..|++.|+.+-.+++.+.+. .|..-+... . ..-..|++.+.+..=..+....+++|....-+
T Consensus 79 ~~~~avG~~Ta~~l~~~g~~~~~~~~~~~~~--~L~~~i~~~-~-~~~~~il~~~g~~~~~~l~~~L~~~g~~v~~~ 151 (239)
T cd06578 79 LKIAAVGPKTAEALREAGLTADFVPEEGDSE--GLLELLELQ-D-GKGKRILRPRGGRAREDLAEALRERGAEVDEV 151 (239)
T ss_pred CEEEEECHHHHHHHHHcCCCceeCCCccCHH--HHHHHHHhc-C-CCCCEEEEEcCcchhHHHHHHHHHCCCEEEEE
Confidence 3344579999999999999999887777653 244444322 1 12344444444433334445555666654433
No 456
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=36.89 E-value=15 Score=22.91 Aligned_cols=9 Identities=22% Similarity=0.272 Sum_probs=7.7
Q ss_pred CCcccccccC
Q 046085 30 EPYVLVIVEG 39 (230)
Q Consensus 30 epy~~C~VCG 39 (230)
.+| .|+.||
T Consensus 15 v~f-~CPnCG 23 (24)
T PF07754_consen 15 VPF-PCPNCG 23 (24)
T ss_pred ceE-eCCCCC
Confidence 377 999999
No 457
>PTZ00287 6-phosphofructokinase; Provisional
Probab=36.80 E-value=70 Score=36.14 Aligned_cols=69 Identities=14% Similarity=0.120 Sum_probs=51.9
Q ss_pred hhhhhhhcEEEE-EccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHH---cCCeEEEecCC
Q 046085 107 VVKLKRVWFWVR-TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATL---RCLKTGVAGYM 176 (230)
Q Consensus 107 a~eLrRAGv~Vr-tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARe---r~l~TVVVGd~ 176 (230)
...+.+.|+... |=...| --+..-.+.+.+.+.+.++++||.+-.|.-|+....+|.. .|+.|.|||-+
T Consensus 892 ~~i~n~GGtiLlgssR~~~-f~t~e~~~ka~~~lk~l~ID~LVvIGGDgS~t~A~~LaE~f~~~gi~i~VIGVP 964 (1419)
T PTZ00287 892 AKHVNQGGLELTGNSPEHS-LFDKENRNKVCETVTNLQLNGLVMPGSNVTITEAALLAEYFLEKKIPTSVVGIP 964 (1419)
T ss_pred hhHHHcCCeeecCCcCCCC-CCCHHHHHHHHHHHHHhCCCEEEEECCchHHHHHHHHHHHHHhcCCCccEEEeC
Confidence 455678888882 222122 1234567778888889999999999999999998887764 89999999876
No 458
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=36.78 E-value=23 Score=24.86 Aligned_cols=26 Identities=15% Similarity=0.138 Sum_probs=18.1
Q ss_pred CCCCCcccccccCCCcccCchHHHHHH
Q 046085 27 RPAEPYVLVIVEGDLRLYNNDKLVNHF 53 (230)
Q Consensus 27 ~p~epy~~C~VCGdrkf~t~~kL~kHF 53 (230)
++.-|.-+|++|| |-|.-..+..+-.
T Consensus 3 K~~lp~K~C~~C~-rpf~WRKKW~~~W 28 (42)
T PF10013_consen 3 KSNLPSKICPVCG-RPFTWRKKWARCW 28 (42)
T ss_pred cccCCCCcCcccC-CcchHHHHHHHhc
Confidence 3455666999999 9887766655433
No 459
>PTZ00175 diphthine synthase; Provisional
Probab=36.75 E-value=49 Score=30.10 Aligned_cols=68 Identities=12% Similarity=0.072 Sum_probs=46.8
Q ss_pred CchhhhhhhhcEEEEEcccc--chHHHHHHHHHHHHHHhhcC-cceEEEEcCC---cchHHHHHHHHHcCCeEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDK--LQAADVLLRNYMVDMMDKRR-FGCLVFVSDD---SDFVEVLQEATLRCLKTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dK--pqAAD~AL~~~m~~~m~~r~-vdclvLVSDD---SDF~~lLr~ARer~l~TVVVGd~ 176 (230)
..|..+++.+|+.|+.|+.- -+|+ |. --.. +.++| .-.|.++|++ .-|-+.+.....+|++|.|+=|.
T Consensus 94 ~~l~~~~~~~gi~vevIPGvSi~sA~--~~--~Gl~-~~~fg~~~sv~~~t~~~~~~s~~~~i~~n~~~glhTl~lldi 167 (270)
T PTZ00175 94 TDLYLRAKKKGIEVEVIHNASIMNAI--GC--TGLQ-LYRFGETVSIPFFTETWKPDSFYDKIKANRDNGLHTLCLLDI 167 (270)
T ss_pred HHHHHHHHHCCCcEEEECCcCHHHHH--hh--cCCC-cCCCCceEEEEEEeCCCCCCChhHHHHHHHHcCCceEEEEee
Confidence 44677888999999999843 3343 22 1111 22333 4788898864 45777899999999999999444
No 460
>PRK13906 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=36.69 E-value=34 Score=31.53 Aligned_cols=34 Identities=9% Similarity=0.036 Sum_probs=31.4
Q ss_pred cceEEEEcCCcchHHHHHHHHHcCCeEEEecCCC
Q 046085 144 FGCLVFVSDDSDFVEVLQEATLRCLKTGVAGYMN 177 (230)
Q Consensus 144 vdclvLVSDDSDF~~lLr~ARer~l~TVVVGd~~ 177 (230)
.++|+...+-.|+..+++.|++.++..+|+|.++
T Consensus 37 A~~~v~p~~~edv~~~v~~a~~~~ip~~vlGgGS 70 (307)
T PRK13906 37 ADFYITPTKNEEVQAVVKYAYQNEIPVTYLGNGS 70 (307)
T ss_pred eEEEEEcCCHHHHHHHHHHHHHcCCCEEEEcCce
Confidence 6889999999999999999999999999999985
No 461
>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=36.61 E-value=1.6e+02 Score=24.06 Aligned_cols=89 Identities=15% Similarity=0.048 Sum_probs=0.0
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcC----CcchHHHHHHHHHcCCe---EEEecCC-C
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSD----DSDFVEVLQEATLRCLK---TGVAGYM-N 177 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSD----DSDF~~lLr~ARer~l~---TVVVGd~-~ 177 (230)
+-..|+..|+.+-.+|.+++. .+...+...=...-++.++-..+ -++-..+++.++.-|+. +++|||+ +
T Consensus 83 ~L~~L~~~g~~~~i~Sn~~~~---~~~~~l~~~~l~~~f~~i~~~~~~~~~KP~~~~~~~~~~~~~~~~~~~l~igD~~~ 159 (205)
T TIGR01454 83 LLAELRADGVGTAIATGKSGP---RARSLLEALGLLPLFDHVIGSDEVPRPKPAPDIVREALRLLDVPPEDAVMVGDAVT 159 (205)
T ss_pred HHHHHHHCCCeEEEEeCCchH---HHHHHHHHcCChhheeeEEecCcCCCCCCChHHHHHHHHHcCCChhheEEEcCCHH
Q ss_pred Cchhhhhhh----ccccccchHHH
Q 046085 178 DGTLKRIAD----RLKWAYNSEVE 197 (230)
Q Consensus 178 ~~aL~r~AD----~leW~~~~e~e 197 (230)
+-.-.+.|. .+.|.+....+
T Consensus 160 Di~aA~~~Gi~~i~~~~g~~~~~~ 183 (205)
T TIGR01454 160 DLASARAAGTATVAALWGEGDAGE 183 (205)
T ss_pred HHHHHHHcCCeEEEEEecCCChhh
No 462
>PRK09496 trkA potassium transporter peripheral membrane component; Reviewed
Probab=36.56 E-value=90 Score=28.71 Aligned_cols=72 Identities=19% Similarity=0.093 Sum_probs=40.5
Q ss_pred cCCchhhhhhhhcEEEEEccccchHHHHHHH-------------HHHHHHHhhcCcceEEEEcCCcchHH-HHHHHHHc-
Q 046085 102 VGYSLVVKLKRVWFWVRTMSDKLQAADVLLR-------------NYMVDMMDKRRFGCLVFVSDDSDFVE-VLQEATLR- 166 (230)
Q Consensus 102 vgygLa~eLrRAGv~VrtV~dKpqAAD~AL~-------------~~m~~~m~~r~vdclvLVSDDSDF~~-lLr~ARer- 166 (230)
+|..++..|.+.|+.|..+...|+....+-. ...++.+.-.+++.+++.+++.+..- ++..||+.
T Consensus 11 ig~~~a~~L~~~g~~v~vid~~~~~~~~~~~~~~~~~~~gd~~~~~~l~~~~~~~a~~vi~~~~~~~~n~~~~~~~r~~~ 90 (453)
T PRK09496 11 VGYTLAENLSGENNDVTVIDTDEERLRRLQDRLDVRTVVGNGSSPDVLREAGAEDADLLIAVTDSDETNMVACQIAKSLF 90 (453)
T ss_pred HHHHHHHHHHhCCCcEEEEECCHHHHHHHHhhcCEEEEEeCCCCHHHHHHcCCCcCCEEEEecCChHHHHHHHHHHHHhc
Confidence 3566788888888888877666665443221 01111121135677777666655554 44667775
Q ss_pred CCeEEEe
Q 046085 167 CLKTGVA 173 (230)
Q Consensus 167 ~l~TVVV 173 (230)
+...+|+
T Consensus 91 ~~~~ii~ 97 (453)
T PRK09496 91 GAPTTIA 97 (453)
T ss_pred CCCeEEE
Confidence 5544444
No 463
>TIGR00442 hisS histidyl-tRNA synthetase. This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.
Probab=36.48 E-value=1.9e+02 Score=26.63 Aligned_cols=39 Identities=13% Similarity=0.040 Sum_probs=24.4
Q ss_pred HHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEe
Q 046085 134 YMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVA 173 (230)
Q Consensus 134 ~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVV 173 (230)
.+...+.+.|+.|.+.... ......++.|...|...+|+
T Consensus 340 ~i~~~Lr~~gi~v~~~~~~-~~l~k~~~~a~~~g~~~~i~ 378 (397)
T TIGR00442 340 KLAQKLRKAGIRVEVDLGG-RKLKKQLKYADKLGARFAVI 378 (397)
T ss_pred HHHHHHHhCCCeEEEeCCC-CCHHHHHHHHHHcCCCEEEE
Confidence 3444555677777655543 34677888888877665544
No 464
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=36.47 E-value=31 Score=30.03 Aligned_cols=82 Identities=12% Similarity=0.073 Sum_probs=0.0
Q ss_pred hcCCc-cCCchhhhhhhhcE---EEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHc-----C
Q 046085 97 TLTPK-VGYSLVVKLKRVWF---WVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLR-----C 167 (230)
Q Consensus 97 vl~pk-vgygLa~eLrRAGv---~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer-----~ 167 (230)
|+.|+ -+-.++..|+.+|+ .+-++.-.|... .+.....+.. .|||++.|-..-=.-.=+..+.. +
T Consensus 6 vtR~~~~~~~~~~~l~~~G~~~~~~P~i~~~~~~~----l~~~l~~l~~--~d~vvfTS~~av~~~~~~l~~~~~~~~~~ 79 (248)
T COG1587 6 VTRPREQAEELAALLRKAGAEPLELPLIEIEPLPD----LEVALEDLDS--ADWVVFTSPNAVRFFFEALKEQGLDALKN 79 (248)
T ss_pred EeCchhhhHHHHHHHHhCCCcceeecceeeecchh----HHHHHhcccc--CCEEEEECHHHHHHHHHHHHhhccccccc
Q ss_pred CeEEEecCCCCchhhhh
Q 046085 168 LKTGVAGYMNDGTLKRI 184 (230)
Q Consensus 168 l~TVVVGd~~~~aL~r~ 184 (230)
.+-..||..|..+|+++
T Consensus 80 ~~i~aVG~~Ta~~l~~~ 96 (248)
T COG1587 80 KKIAAVGEKTAEALRKL 96 (248)
T ss_pred CeEEEEcHHHHHHHHHh
No 465
>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=36.44 E-value=1.3e+02 Score=26.40 Aligned_cols=27 Identities=30% Similarity=0.307 Sum_probs=16.1
Q ss_pred ceEEEEcCCcchHHHHHHHHHcCCeEEEec
Q 046085 145 GCLVFVSDDSDFVEVLQEATLRCLKTGVAG 174 (230)
Q Consensus 145 dclvLVSDDSDF~~lLr~ARer~l~TVVVG 174 (230)
+-+++|+|. ..=+.-|+..|++||.|-
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 445566654 233556777777777664
No 466
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. 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. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=36.31 E-value=75 Score=27.52 Aligned_cols=37 Identities=8% Similarity=0.143 Sum_probs=30.3
Q ss_pred HHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeE
Q 046085 133 NYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 133 ~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~T 170 (230)
..+.++. +.+.+.|++.+...+-..+++.|++.|+..
T Consensus 172 ~~l~~i~-~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~ 208 (327)
T cd06382 172 PLLKEIK-NSGDNRIIIDCSADILIELLKQAQQVGMMS 208 (327)
T ss_pred HHHHHHH-hcCceEEEEECCHHHHHHHHHHHHHhCccc
Confidence 3444444 568899999999999999999999999875
No 467
>PLN02575 haloacid dehalogenase-like hydrolase
Probab=36.29 E-value=1.7e+02 Score=28.21 Aligned_cols=39 Identities=15% Similarity=0.121 Sum_probs=23.9
Q ss_pred hHHHHHHHhhhcCCccC-CchhhhhhhhcEEEEEccccch
Q 046085 87 METYKMASKATLTPKVG-YSLVVKLKRVWFWVRTMSDKLQ 125 (230)
Q Consensus 87 ~~KY~~AAr~vl~pkvg-ygLa~eLrRAGv~VrtV~dKpq 125 (230)
.+.|.+.......|.-| ..+-..|+..|+.+-.+|.++.
T Consensus 204 ~~~y~~~~~~~~~l~pGa~ElL~~Lk~~GiklaIaSn~~~ 243 (381)
T PLN02575 204 EEIYQALQGGIYRLRTGSQEFVNVLMNYKIPMALVSTRPR 243 (381)
T ss_pred HHHHHHHhccCCCcCcCHHHHHHHHHHCCCeEEEEeCCCH
Confidence 44454444444444444 4566777788888888888775
No 468
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=36.27 E-value=54 Score=33.38 Aligned_cols=43 Identities=19% Similarity=0.057 Sum_probs=36.0
Q ss_pred cceEEEEcC---CcchHHHHHHHHHcCCeEEEecCCCCchhhhhhh
Q 046085 144 FGCLVFVSD---DSDFVEVLQEATLRCLKTGVAGYMNDGTLKRIAD 186 (230)
Q Consensus 144 vdclvLVSD---DSDF~~lLr~ARer~l~TVVVGd~~~~aL~r~AD 186 (230)
-+++++||- ..|-...++.|+++|.+|+.|-...+..|.+.||
T Consensus 411 ~~lvI~ISqSGeT~eti~Al~~Ak~~Ga~~IaITn~~~S~La~~ad 456 (680)
T PLN02981 411 EDTAVFVSQSGETADTLRALEYAKENGALCVGITNTVGSAISRGTH 456 (680)
T ss_pred CCeEEEEeCCcCCHHHHHHHHHHHHCCCcEEEEECCCCChhHhccC
Confidence 478888875 3477789999999999999997775679999999
No 469
>TIGR00466 kdsB 3-deoxy-D-manno-octulosonate cytidylyltransferase.
Probab=36.22 E-value=1.1e+02 Score=26.57 Aligned_cols=45 Identities=4% Similarity=0.018 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEEEec
Q 046085 127 ADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTGVAG 174 (230)
Q Consensus 127 AD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TVVVG 174 (230)
++..|..|..+.+.+.+++.+++|+|+..... .+...|+..+..+
T Consensus 22 ~GkPli~~~le~~~~~~~d~VvVvt~~~~i~~---~~~~~g~~~v~~~ 66 (238)
T TIGR00466 22 FGKPMIVHVAENANESGADRCIVATDDESVAQ---TCQKFGIEVCMTS 66 (238)
T ss_pred CCcCHHHHHHHHHHhCCCCeEEEEeCHHHHHH---HHHHcCCEEEEeC
Confidence 34457777777776557899999998766443 3445677766544
No 470
>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]
Probab=36.17 E-value=93 Score=28.84 Aligned_cols=80 Identities=20% Similarity=0.234 Sum_probs=59.4
Q ss_pred hhcEEEEEccc------cchHHHHHHHHHHHHHHhhcCcceEEEEc------CCcchHHHHHHHHHcCCeEEEecCC--C
Q 046085 112 RVWFWVRTMSD------KLQAADVLLRNYMVDMMDKRRFGCLVFVS------DDSDFVEVLQEATLRCLKTGVAGYM--N 177 (230)
Q Consensus 112 RAGv~VrtV~d------KpqAAD~AL~~~m~~~m~~r~vdclvLVS------DDSDF~~lLr~ARer~l~TVVVGd~--~ 177 (230)
+.||.|.|... -|.|+=..-...++..+.+.|+.+-+.|+ .|.|.-.++..|.+.|+..|+.+.. .
T Consensus 145 ~V~~Sitt~d~~l~k~~EP~apsp~~Ri~al~~l~eaGi~~~v~v~PIiP~~~d~e~e~~l~~~~~ag~~~v~~~~l~~~ 224 (297)
T COG1533 145 RVAVSITTLDEELAKILEPRAPSPEERLEALKELSEAGIPVGLFVAPIIPGLNDEELERILEAAAEAGARVVVYGTLRLR 224 (297)
T ss_pred EEEEEeecCcHHHHHhcCCCCcCHHHHHHHHHHHHHCCCeEEEEEecccCCCChHHHHHHHHHHHHcCCCeeEeeeeecc
Confidence 35566666542 46676666677788888899999988886 5688999999999999999999876 5
Q ss_pred Cchhhhhhhccccc
Q 046085 178 DGTLKRIADRLKWA 191 (230)
Q Consensus 178 ~~aL~r~AD~leW~ 191 (230)
.+...+...++...
T Consensus 225 ~~~~~~~~~~~~~~ 238 (297)
T COG1533 225 LDILRRFKEYLKRI 238 (297)
T ss_pred HHHHHHHHHHHHHh
Confidence 45566666655443
No 471
>PRK13225 phosphoglycolate phosphatase; Provisional
Probab=36.14 E-value=2.6e+02 Score=25.05 Aligned_cols=87 Identities=13% Similarity=0.178 Sum_probs=47.0
Q ss_pred CchhhhhhhhcEEEEEccccchH-HHHHHHHHHHHHHhhcCcceEEEEcCCc---chHHHHHHHHHcCC---eEEEecCC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQA-ADVLLRNYMVDMMDKRRFGCLVFVSDDS---DFVEVLQEATLRCL---KTGVAGYM 176 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqA-AD~AL~~~m~~~m~~r~vdclvLVSDDS---DF~~lLr~ARer~l---~TVVVGd~ 176 (230)
-.+-..|+..|+.+-.+|.++.. +...|...= + ..-++.+ +|.+. .-..++..+..-|+ .+++|||+
T Consensus 148 ~e~L~~L~~~gi~laIvSn~~~~~~~~~L~~~g---l-~~~F~~v--i~~~~~~~k~~~~~~~l~~~~~~p~~~l~IGDs 221 (273)
T PRK13225 148 ADLLAQLRSRSLCLGILSSNSRQNIEAFLQRQG---L-RSLFSVV--QAGTPILSKRRALSQLVAREGWQPAAVMYVGDE 221 (273)
T ss_pred HHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcC---C-hhheEEE--EecCCCCCCHHHHHHHHHHhCcChhHEEEECCC
Confidence 45667899999999999988874 222222110 1 1123432 33322 22233334444555 48999998
Q ss_pred -CCchhhhhhh----ccccccchHH
Q 046085 177 -NDGTLKRIAD----RLKWAYNSEV 196 (230)
Q Consensus 177 -~~~aL~r~AD----~leW~~~~e~ 196 (230)
+|-.-.+.|- ++.|.+++..
T Consensus 222 ~~Di~aA~~AG~~~I~v~~g~~~~~ 246 (273)
T PRK13225 222 TRDVEAARQVGLIAVAVTWGFNDRQ 246 (273)
T ss_pred HHHHHHHHHCCCeEEEEecCCCCHH
Confidence 3222233333 6678877654
No 472
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=36.08 E-value=19 Score=22.88 Aligned_cols=9 Identities=33% Similarity=0.663 Sum_probs=7.5
Q ss_pred CCcccccccC
Q 046085 30 EPYVLVIVEG 39 (230)
Q Consensus 30 epy~~C~VCG 39 (230)
.|. .|++||
T Consensus 16 ~~~-~CP~Cg 24 (33)
T cd00350 16 APW-VCPVCG 24 (33)
T ss_pred CCC-cCcCCC
Confidence 566 999999
No 473
>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=35.95 E-value=96 Score=30.21 Aligned_cols=69 Identities=17% Similarity=0.052 Sum_probs=49.2
Q ss_pred EEEEEccccch---HHHHHHHHHHHHHHhhcCcce---EEEEcCCcchHHHHHHHHH-cCCeEEEecCC-CCchhhh
Q 046085 115 FWVRTMSDKLQ---AADVLLRNYMVDMMDKRRFGC---LVFVSDDSDFVEVLQEATL-RCLKTGVAGYM-NDGTLKR 183 (230)
Q Consensus 115 v~VrtV~dKpq---AAD~AL~~~m~~~m~~r~vdc---lvLVSDDSDF~~lLr~ARe-r~l~TVVVGd~-~~~aL~r 183 (230)
+.|.+-||--. ++|.+|+.++...+.|.|-.| ++.+.++.++.+.++.|-+ .-+..|||-+. ++.+.=.
T Consensus 38 ~~~~~~sdld~~lg~~ds~lk~~v~aa~~n~gqnw~a~~~~~~~~~~~~~Av~~a~~~~s~E~Vvi~~~~t~~a~~~ 114 (363)
T PF10758_consen 38 LPVNTQSDLDAVLGAADSALKTNVKAAQLNAGQNWTAYVAPLASNADWQDAVDKANEVISFEFVVIVGPVTDKAEWA 114 (363)
T ss_pred EEecCCCcHHHHhCCcchHHHHHHHHHHHcCCCCeEEEEEecCCCchHHHHHHHhhccCCeEEEEEeCCcCCHHHHH
Confidence 34555555443 799999999999999888644 4566788889999999965 55666666654 5444433
No 474
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=35.90 E-value=1.3e+02 Score=27.56 Aligned_cols=77 Identities=10% Similarity=-0.022 Sum_probs=46.0
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcce-EEEEcCCcchH---HHHHHHHHcCCeEEE-ecCCCCch
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGC-LVFVSDDSDFV---EVLQEATLRCLKTGV-AGYMNDGT 180 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdc-lvLVSDDSDF~---~lLr~ARer~l~TVV-VGd~~~~a 180 (230)
|..++++-|-.+=.|.|+.... ....++...+.+.++.. ++..+.++.+. .+++.+++.+...|| ||.++...
T Consensus 14 l~~~~~~~g~~~liv~~~~~~~--~~~~~v~~~l~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs~~D 91 (349)
T cd08550 14 IAAILSTFGSKVAVVGGKTVLK--KSRPRFEAALAKSIIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGGKTLD 91 (349)
T ss_pred HHHHHHHcCCeEEEEEChHHHH--HHHHHHHHHHHhcCCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCcHHHH
Confidence 4455666554444567755433 44578888887667642 22346554444 566777887877766 88885444
Q ss_pred hhhh
Q 046085 181 LKRI 184 (230)
Q Consensus 181 L~r~ 184 (230)
..+.
T Consensus 92 ~aK~ 95 (349)
T cd08550 92 TAKA 95 (349)
T ss_pred HHHH
Confidence 4444
No 475
>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=35.90 E-value=1.6e+02 Score=23.71 Aligned_cols=72 Identities=8% Similarity=-0.071 Sum_probs=43.5
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHH-cC---CeEEEecCC-CCch
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATL-RC---LKTGVAGYM-NDGT 180 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARe-r~---l~TVVVGd~-~~~a 180 (230)
.-.+|+..|+.+-.+|.+|.. . +...+...|++.++--+ .+. ...+..+.+ -| =.++.|||+ +|-.
T Consensus 36 ~i~~Lk~~G~~i~IvTn~~~~----~---~~~~l~~~gi~~~~~~~-~~k-~~~~~~~~~~~~~~~~~~~~vGDs~~D~~ 106 (154)
T TIGR01670 36 GIRCALKSGIEVAIITGRKAK----L---VEDRCKTLGITHLYQGQ-SNK-LIAFSDILEKLALAPENVAYIGDDLIDWP 106 (154)
T ss_pred HHHHHHHCCCEEEEEECCCCH----H---HHHHHHHcCCCEEEecc-cch-HHHHHHHHHHcCCCHHHEEEECCCHHHHH
Confidence 467899999999999999874 1 12234444665443222 222 445555433 33 358999999 6555
Q ss_pred hhhhhh
Q 046085 181 LKRIAD 186 (230)
Q Consensus 181 L~r~AD 186 (230)
..+.|.
T Consensus 107 ~~~~ag 112 (154)
T TIGR01670 107 VMEKVG 112 (154)
T ss_pred HHHHCC
Confidence 555555
No 476
>PF13707 RloB: RloB-like protein
Probab=35.85 E-value=1.4e+02 Score=24.17 Aligned_cols=62 Identities=13% Similarity=0.104 Sum_probs=42.5
Q ss_pred hhhhhhcEEEEEccccc--hHHHHHHHHHHHHHHh----hcCcceEEEEcCCc-------chHHHHHHHHHcCCeEE
Q 046085 108 VKLKRVWFWVRTMSDKL--QAADVLLRNYMVDMMD----KRRFGCLVFVSDDS-------DFVEVLQEATLRCLKTG 171 (230)
Q Consensus 108 ~eLrRAGv~VrtV~dKp--qAAD~AL~~~m~~~m~----~r~vdclvLVSDDS-------DF~~lLr~ARer~l~TV 171 (230)
...+...+.|++++.+. +. ..|.+.|..... ....+-+++|.|-. +|..+++.|++.++..+
T Consensus 20 ~~~~~~~~~i~~~~~~~~~~p--~~lv~~a~~~~~~~~~~~~~d~v~~V~D~D~~~~~~~~~~~~~~~a~~~~i~l~ 94 (183)
T PF13707_consen 20 KKRRRSNLDIKVIPSKGGSDP--SSLVEKAKKKRKKKKNDNEYDEVWCVFDRDQNDFEHEKLEEAIKKAKRNKINLA 94 (183)
T ss_pred HhcCCCceEEEEeecCCCCCH--HHHHHHHHHHHhhhccccCCCEEEEEEeCCCCcCcHHHHHHHHHhccccCeEEE
Confidence 34466778888887663 32 356666766664 35678888888877 78888888888865543
No 477
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=35.78 E-value=1.3e+02 Score=31.53 Aligned_cols=30 Identities=23% Similarity=0.171 Sum_probs=22.4
Q ss_pred HHHHHHHHHcCCeEEEecCC-CCchhhhhhh
Q 046085 157 VEVLQEATLRCLKTGVAGYM-NDGTLKRIAD 186 (230)
Q Consensus 157 ~~lLr~ARer~l~TVVVGd~-~~~aL~r~AD 186 (230)
..+++..+++|-.+..+||+ ||-.-=+.||
T Consensus 592 ~~iV~~lq~~G~vVam~GDGvNDapALk~Ad 622 (867)
T TIGR01524 592 SRIIGLLKKAGHTVGFLGDGINDAPALRKAD 622 (867)
T ss_pred HHHHHHHHhCCCEEEEECCCcccHHHHHhCC
Confidence 34666778889999999999 6554446777
No 478
>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=35.62 E-value=1.5e+02 Score=24.21 Aligned_cols=68 Identities=13% Similarity=0.106 Sum_probs=38.8
Q ss_pred CchhhhhhhhcEEEEEccccchH-HHHHHHHHHHHHHhhcCcceEEEEcCCc----chHHHHHHHHHcCC---eEEEecC
Q 046085 104 YSLVVKLKRVWFWVRTMSDKLQA-ADVLLRNYMVDMMDKRRFGCLVFVSDDS----DFVEVLQEATLRCL---KTGVAGY 175 (230)
Q Consensus 104 ygLa~eLrRAGv~VrtV~dKpqA-AD~AL~~~m~~~m~~r~vdclvLVSDDS----DF~~lLr~ARer~l---~TVVVGd 175 (230)
..+-..|+..|+.+-.+|.+|.. ++..|...= + ..=++ .++.|||. +=..+...++.-|+ .+++|||
T Consensus 112 ~~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~~g---l-~~~f~-~~~~~~~~~~KP~p~~~~~~~~~~~~~~~~~i~vGD 186 (197)
T TIGR01548 112 KGLLRELHRAPKGMAVVTGRPRKDAAKFLTTHG---L-EILFP-VQIWMEDCPPKPNPEPLILAAKALGVEACHAAMVGD 186 (197)
T ss_pred HHHHHHHHHcCCcEEEECCCCHHHHHHHHHHcC---c-hhhCC-EEEeecCCCCCcCHHHHHHHHHHhCcCcccEEEEeC
Confidence 45556799999999999999874 333332221 1 11133 34445542 22233444444455 4899999
Q ss_pred C
Q 046085 176 M 176 (230)
Q Consensus 176 ~ 176 (230)
.
T Consensus 187 ~ 187 (197)
T TIGR01548 187 T 187 (197)
T ss_pred C
Confidence 8
No 479
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=35.62 E-value=4.6e+02 Score=26.16 Aligned_cols=112 Identities=9% Similarity=0.058 Sum_probs=64.2
Q ss_pred HHHhhhhhhcccchhhHhHhhhhhhhHHHHHHHhhhcC--CccC-------CchhhhhhhhcEEEEEc-----cccchHH
Q 046085 62 KKRLNQIESAKGKMREHLVGNYSMRMETYKMASKATLT--PKVG-------YSLVVKLKRVWFWVRTM-----SDKLQAA 127 (230)
Q Consensus 62 ~Krlnri~s~kGkrR~~~~~~~~~k~~KY~~AAr~vl~--pkvg-------ygLa~eLrRAGv~VrtV-----~dKpqAA 127 (230)
+++|.+++.....-=.+=.++|..++....+..++.+. |.-+ ..+.--+++.|+.+..+ ...|.++
T Consensus 328 a~~LselDP~na~~Y~~Na~ay~~eL~~Ld~~~~~~la~ip~k~r~vvt~H~af~YLa~~YGL~~~~~~~~~~~~ePS~~ 407 (479)
T TIGR03772 328 RDKLIEVDPRGAQAYRSNASAYIHRLERLDTYVRRTIATIPPSRRHLITTHDAYSYLGQAYGLNIAGFVTPNPAVEPSLA 407 (479)
T ss_pred HHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCEEEEECCcHHHHHHHCCCeEEeeeccCCCCCCCHH
Confidence 44555555433221122234555566666665555555 2222 23344456667665532 3457787
Q ss_pred HHHHHHHHHHHHhhcCcceEEEEcCCc-chHHHHHHHHHcCCeEEEe-cCC
Q 046085 128 DVLLRNYMVDMMDKRRFGCLVFVSDDS-DFVEVLQEATLRCLKTGVA-GYM 176 (230)
Q Consensus 128 D~AL~~~m~~~m~~r~vdclvLVSDDS-DF~~lLr~ARer~l~TVVV-Gd~ 176 (230)
|++=.. +.|.+.+|.||+.=+.-+ .-..+-..|++.|++.+.+ ||.
T Consensus 408 ~L~~Li---~~IK~~~V~~IF~Epq~~~~~~~l~~IA~e~Gv~V~~l~~d~ 455 (479)
T TIGR03772 408 DRRRLT---RTIENLKVPAVFLEPNLAARSTTLNEIADELGVRVCAIYGDT 455 (479)
T ss_pred HHHHHH---HHHHHcCCCEEEEeCCCCCchHHHHHHHHHcCCcEEeeecCC
Confidence 766444 447788999999865544 3234667889999998766 454
No 480
>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=35.46 E-value=1.2e+02 Score=24.65 Aligned_cols=45 Identities=16% Similarity=0.334 Sum_probs=28.7
Q ss_pred HHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe----EEEecCC
Q 046085 132 RNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK----TGVAGYM 176 (230)
Q Consensus 132 ~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~----TVVVGd~ 176 (230)
...+.+++....--..|++++|+-..++++.++++|+. ..|||-.
T Consensus 166 ~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~vp~di~v~g~d 214 (267)
T cd06283 166 DERLRQLLNKPKKKTAIFAANGLILLEVLKALKELGIRIPEDVGLIGFD 214 (267)
T ss_pred HHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCccceEEEEeC
Confidence 44555556422223455666677777999999999984 3556654
No 481
>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=35.32 E-value=57 Score=32.01 Aligned_cols=43 Identities=9% Similarity=-0.073 Sum_probs=32.1
Q ss_pred CcceEEEEcCCcc-------------hHHHHHHHHHcCCeEEEecCCCCchhhh-hhh
Q 046085 143 RFGCLVFVSDDSD-------------FVEVLQEATLRCLKTGVAGYMNDGTLKR-IAD 186 (230)
Q Consensus 143 ~vdclvLVSDDSD-------------F~~lLr~ARer~l~TVVVGd~~~~aL~r-~AD 186 (230)
..+||+++..|.- +...+++|+++|.+.|||.-.- -.... .||
T Consensus 169 ~ad~il~wG~N~~~~~~~~~~~~~~~~~~~~~~a~~~GakiivIDPr~-s~ta~~~AD 225 (609)
T cd02751 169 HSDLVVLFGANPLKTRQGGGGGPDHGSYYYLKQAKDAGVRFICIDPRY-TDTAAVLAA 225 (609)
T ss_pred cCCEEEEECCCHHHhcCCCCCccCcchHHHHHHHHHCCCeEEEECCCC-CccccccCC
Confidence 5899999987743 3478889999999999996651 13344 688
No 482
>PRK02048 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional
Probab=35.29 E-value=41 Score=34.74 Aligned_cols=42 Identities=14% Similarity=0.100 Sum_probs=32.9
Q ss_pred HHHHHHHHHhcCccCCCCCcccccccCCCcccCchHHHHHHHHHhH
Q 046085 13 IKELFNQLEIKGVIRPAEPYVLVIVEGDLRLYNNDKLVNHFKQIHK 58 (230)
Q Consensus 13 er~~l~~le~~g~i~p~epy~~C~VCGdrkf~t~~kL~kHFkqlHe 58 (230)
..-.+++|...++=.--.-|.+||-|| +|-.+|+.--..|-+
T Consensus 499 ~~laf~ILQa~r~R~sKTEyISCPsCG----RTLfDLq~tta~Ik~ 540 (611)
T PRK02048 499 DATAFGILQAGRLRTSKTEYISCPGCG----RTLYDLQSTIARIKE 540 (611)
T ss_pred HHHHHHHHHHhccccccceEEECCCCC----cchhhHHHHHHHHHH
Confidence 445788999888877788899999999 777788776666543
No 483
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=35.24 E-value=1e+02 Score=28.02 Aligned_cols=63 Identities=13% Similarity=0.171 Sum_probs=42.6
Q ss_pred chhhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCeEE
Q 046085 105 SLVVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLKTG 171 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~TV 171 (230)
|+...|+..|+-|....- .+.+.|.. ..+. -+. .+.+.|++.+...+...+++.|++.|+..-
T Consensus 167 ~~~~~~~~~gi~v~~~~~~~~~~~d~~--~~l~-~ik-~~~~vIi~~~~~~~~~~i~~qa~~~g~~~~ 230 (399)
T cd06384 167 GVFLALQEENANVSAHPYHIEKNSDII--EIIQ-FIK-QNGRIVYICGPLETFLEIMLQAQREGLTPG 230 (399)
T ss_pred HHHHHHHhcCceEEEEEEeccchhhHH--HHHH-HHh-hcccEEEEeCCchHHHHHHHHHHHcCCCCC
Confidence 577888888987763221 23344432 2222 232 378888888999999999999999988654
No 484
>cd08191 HHD 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. 6-hydroxyhexanoate dehydrogenase (HHD). The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. Some bacteria can grow on cyclic ketones, cyclohexylamine, and alcohols as sole carbon source. Cyclohexylamine is an insecticide and antiseptic in various industries and is considered a possible environmental pollutant. The degradation of these chemical compounds are through the cyclohexanol and cyclohexanone biological oxidation pathway. The intermediates of this pathway include cyclohexanol, cyclohexanone, e-caprolactone, 6-hydroxyhexanoate, 6-oxohexanoate and adipate. The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate.
Probab=35.14 E-value=1.1e+02 Score=28.58 Aligned_cols=78 Identities=17% Similarity=0.074 Sum_probs=45.7
Q ss_pred hhhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--Ec---CCcchHHHHHHHHHcCCeEEE-ecCCCCc
Q 046085 106 LVVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VS---DDSDFVEVLQEATLRCLKTGV-AGYMNDG 179 (230)
Q Consensus 106 La~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VS---DDSDF~~lLr~ARer~l~TVV-VGd~~~~ 179 (230)
|..+|++-|=.|-.|.|+ ...+..+...+...+.+.++++.++ |. .+.+-...+..+++.+...|| ||.++..
T Consensus 14 l~~~~~~~g~~~livt~~-~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGGGS~i 92 (386)
T cd08191 14 LPRLAARLGSRALIVTDE-RMAGTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGGGSCI 92 (386)
T ss_pred HHHHHHHcCCeEEEEECc-chhhcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHH
Confidence 445556655334456663 3333566777888887778887655 22 122344556677776766655 8887544
Q ss_pred hhhhh
Q 046085 180 TLKRI 184 (230)
Q Consensus 180 aL~r~ 184 (230)
...+.
T Consensus 93 D~aK~ 97 (386)
T cd08191 93 DLAKI 97 (386)
T ss_pred HHHHH
Confidence 44444
No 485
>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=35.06 E-value=1.1e+02 Score=28.73 Aligned_cols=68 Identities=7% Similarity=-0.013 Sum_probs=40.9
Q ss_pred hhhhhhhhcEEEE---EccccchHHHHHHHHHHHHHHhhcCcceEEEE--cCCcchHHHHHHHHHcCCe--EEEecCC
Q 046085 106 LVVKLKRVWFWVR---TMSDKLQAADVLLRNYMVDMMDKRRFGCLVFV--SDDSDFVEVLQEATLRCLK--TGVAGYM 176 (230)
Q Consensus 106 La~eLrRAGv~Vr---tV~dKpqAAD~AL~~~m~~~m~~r~vdclvLV--SDDSDF~~lLr~ARer~l~--TVVVGd~ 176 (230)
+..+++..|+-|- +++..|.+.| +...+..+. +.+.+..|+| ++..+...+++.|++.|+. .+.||..
T Consensus 206 ~~~~~~~~gi~i~~~~~i~~~~~~~d--~~~~l~~lk-~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~~~~~wi~s~ 280 (472)
T cd06374 206 FKELAAHEGLCIAHSDKIYSNAGEQS--FDRLLRKLR-SRLPKARVVVCFCEGMTVRGLLMAMRRLGVGGEFQLIGSD 280 (472)
T ss_pred HHHHHHHCCeeEEEEEEecCCCchHH--HHHHHHHHH-hcCCCcEEEEEEechHHHHHHHHHHHHhcCCCceEEEEec
Confidence 3466778887765 3343444434 333343334 2344544444 6777888999999999996 3556653
No 486
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=35.03 E-value=1.5e+02 Score=27.40 Aligned_cols=78 Identities=10% Similarity=-0.036 Sum_probs=46.3
Q ss_pred hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEE--EcCCcchH---HHHHHHHHcCCeEE-EecCCCCch
Q 046085 107 VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVF--VSDDSDFV---EVLQEATLRCLKTG-VAGYMNDGT 180 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvL--VSDDSDF~---~lLr~ARer~l~TV-VVGd~~~~a 180 (230)
..+|++-|-.|-.|.|+-.....-+..++.+.+...|+...++ |..++.+. .+++.+++.+...| .||.++-..
T Consensus 18 ~~~~~~~g~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD 97 (357)
T cd08181 18 GEELAALGKRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGGGSPLD 97 (357)
T ss_pred HHHHHHcCCEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHHH
Confidence 3445555655556666544333345567777787677876655 44456665 45566777777654 477775445
Q ss_pred hhhh
Q 046085 181 LKRI 184 (230)
Q Consensus 181 L~r~ 184 (230)
..+.
T Consensus 98 ~aK~ 101 (357)
T cd08181 98 AAKA 101 (357)
T ss_pred HHHH
Confidence 5543
No 487
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=35.01 E-value=1.5e+02 Score=23.19 Aligned_cols=64 Identities=14% Similarity=0.012 Sum_probs=40.8
Q ss_pred hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCcch----HHHHHHHHHcCCe--EEEecCC
Q 046085 107 VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDF----VEVLQEATLRCLK--TGVAGYM 176 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF----~~lLr~ARer~l~--TVVVGd~ 176 (230)
+.-|+.+||.|.-........ .+.+.+...+.++++|=|.+... ..+++..++.|.. .+++|..
T Consensus 20 ~~~l~~~G~~vi~lG~~vp~e------~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~ 89 (122)
T cd02071 20 ARALRDAGFEVIYTGLRQTPE------EIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGI 89 (122)
T ss_pred HHHHHHCCCEEEECCCCCCHH------HHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECC
Confidence 456899999999655332222 34455556788999887776554 4456667777662 3556654
No 488
>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=34.92 E-value=93 Score=25.79 Aligned_cols=36 Identities=19% Similarity=0.206 Sum_probs=22.1
Q ss_pred HHHHhhcCcceEEEEcCC-cchHHHHHHHHHcCCeEEE
Q 046085 136 VDMMDKRRFGCLVFVSDD-SDFVEVLQEATLRCLKTGV 172 (230)
Q Consensus 136 ~~~m~~r~vdclvLVSDD-SDF~~lLr~ARer~l~TVV 172 (230)
.+.|...|++.+|++|-+ .++..+.+.+++.+ +.+.
T Consensus 21 ~~~~~~~Gv~~~v~~~~~~~~~~~~~~~~~~~~-~i~~ 57 (252)
T TIGR00010 21 IERAKAAGVTAVVAVGTDLEDFLRALELAEKYP-NVYA 57 (252)
T ss_pred HHHHHHcCCCEEEEecCCHHHHHHHHHHHHHCC-CEEE
Confidence 333445677777777765 55666666666666 4443
No 489
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=34.89 E-value=14 Score=34.10 Aligned_cols=33 Identities=18% Similarity=0.285 Sum_probs=25.7
Q ss_pred CCCCCcccccccCCCcccCchHHHHHHHHHhHHHH
Q 046085 27 RPAEPYVLVIVEGDLRLYNNDKLVNHFKQIHKREQ 61 (230)
Q Consensus 27 ~p~epy~~C~VCGdrkf~t~~kL~kHFkqlHeREr 61 (230)
+-..|| .|.+|+ .-|..+-+|--|.+.+|--.+
T Consensus 169 tgvrpy-kc~~c~-kaftqrcsleshl~kvhgv~~ 201 (267)
T KOG3576|consen 169 TGVRPY-KCSLCE-KAFTQRCSLESHLKKVHGVQH 201 (267)
T ss_pred cCcccc-chhhhh-HHHHhhccHHHHHHHHcCchH
Confidence 345689 999999 878888888899988885433
No 490
>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=34.84 E-value=68 Score=30.82 Aligned_cols=46 Identities=20% Similarity=0.174 Sum_probs=34.5
Q ss_pred CcceEEEEcCCcc-----hHHHHHHHHHcCCeEEEecCCCCchhhhhhh-ccc
Q 046085 143 RFGCLVFVSDDSD-----FVEVLQEATLRCLKTGVAGYMNDGTLKRIAD-RLK 189 (230)
Q Consensus 143 ~vdclvLVSDDSD-----F~~lLr~ARer~l~TVVVGd~~~~aL~r~AD-~le 189 (230)
..+||+++-.|.- +...++.||++|.+.|||.-. .-...+.|| ||+
T Consensus 157 ~ad~il~~G~Np~~s~p~~~~~~~~a~~~GaklivvDPr-~t~ta~~Ad~~l~ 208 (501)
T cd02766 157 NADLIVIWGINPAATNIHLMRIIQEARKRGAKVVVIDPY-RTATAARADLHIQ 208 (501)
T ss_pred cCCEEEEECCChhhhchhHHHHHHHHHHCCCEEEEECCC-CCccHHHhCeeec
Confidence 5799999977643 446677899999999999765 235677899 443
No 491
>TIGR00676 fadh2 5,10-methylenetetrahydrofolate reductase, prokaryotic form. This protein is an FAD-containing flavoprotein.
Probab=34.82 E-value=91 Score=27.87 Aligned_cols=70 Identities=10% Similarity=-0.009 Sum_probs=33.6
Q ss_pred hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHh-hcCcceEEEEc-CCc---chHHHHHHHHHcCCeEEE--ecCC
Q 046085 107 VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMD-KRRFGCLVFVS-DDS---DFVEVLQEATLRCLKTGV--AGYM 176 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~-~r~vdclvLVS-DDS---DF~~lLr~ARer~l~TVV--VGd~ 176 (230)
+..|+..|+-.-+|++.|.+....---.+...+. ..|++.++=+| -|. .+...|..+.+.|++.|+ .||.
T Consensus 21 ~~~l~~~~pd~isvT~~~~~~~~~~t~~~a~~l~~~~g~~~i~Hlt~r~~n~~~l~~~L~~~~~~Gi~nvL~l~GD~ 97 (272)
T TIGR00676 21 VDRLSPLDPDFVSVTYGAGGSTRDRTVRIVRRIKKETGIPTVPHLTCIGATREEIREILREYRELGIRHILALRGDP 97 (272)
T ss_pred HHHHhcCCCCEEEeccCCCCCcHHHHHHHHHHHHHhcCCCeeEEeeecCCCHHHHHHHHHHHHHCCCCEEEEeCCCC
Confidence 5566666655555666666322221122222222 23666555443 222 255555566666666443 4555
No 492
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 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 a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=34.76 E-value=15 Score=25.18 Aligned_cols=11 Identities=27% Similarity=0.226 Sum_probs=8.9
Q ss_pred ccccccCCCccc
Q 046085 33 VLVIVEGDLRLY 44 (230)
Q Consensus 33 ~~C~VCGdrkf~ 44 (230)
+.|++|| .+|.
T Consensus 30 ~~CpYCg-~~yv 40 (40)
T PF10276_consen 30 VVCPYCG-TRYV 40 (40)
T ss_dssp EEETTTT-EEEE
T ss_pred EECCCCC-CEEC
Confidence 4999999 7763
No 493
>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=34.67 E-value=1.4e+02 Score=26.70 Aligned_cols=60 Identities=10% Similarity=-0.038 Sum_probs=40.2
Q ss_pred hhhhhhhcEEEEEccc-cchHHHHHHHHHHHHHHhhcCcceEEEEcCCcchHHHHHHHHHcCCe
Q 046085 107 VVKLKRVWFWVRTMSD-KLQAADVLLRNYMVDMMDKRRFGCLVFVSDDSDFVEVLQEATLRCLK 169 (230)
Q Consensus 107 a~eLrRAGv~VrtV~d-KpqAAD~AL~~~m~~~m~~r~vdclvLVSDDSDF~~lLr~ARer~l~ 169 (230)
...|+++|+.|-...- .+.++|.+ .++..++ ..+.|.|++.....+-+.+++.+++.|+.
T Consensus 155 ~~~~~~~G~~vv~~~~~~~~~~D~s--~~v~~l~-~~~pDav~~~~~~~~~~~~~~~~~~~G~~ 215 (359)
T TIGR03407 155 KAYLKSLGGTVVGEDYTPLGHTDFQ--TIINKIK-AFKPDVVFNTLNGDSNVAFFKQLKNAGIT 215 (359)
T ss_pred HHHHHHcCCEEEeeEEecCChHhHH--HHHHHHH-HhCCCEEEEeccCCCHHHHHHHHHHcCCC
Confidence 3557788887643332 33566755 4555556 47889776655555667899999999996
No 494
>PRK10725 fructose-1-P/6-phosphogluconate phosphatase; Provisional
Probab=34.64 E-value=86 Score=24.91 Aligned_cols=68 Identities=21% Similarity=0.078 Sum_probs=30.4
Q ss_pred CCchhhhhhhhcEEEEEccccchH-HHHHHHHHHHHHHhhcCcceEEEEcCCc-----chHHHHHHHHHcCC---eEEEe
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQA-ADVLLRNYMVDMMDKRRFGCLVFVSDDS-----DFVEVLQEATLRCL---KTGVA 173 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpqA-AD~AL~~~m~~~m~~r~vdclvLVSDDS-----DF~~lLr~ARer~l---~TVVV 173 (230)
|-.+-..|++ ++..-.+|.++.. +...|...= +. .=++ .++.|+|. +=..+.+.++.-|+ .+++|
T Consensus 92 ~~e~L~~L~~-~~~l~I~T~~~~~~~~~~l~~~~---l~-~~fd-~i~~~~~~~~~KP~p~~~~~~~~~~~~~~~~~l~i 165 (188)
T PRK10725 92 LIEVVKAWHG-RRPMAVGTGSESAIAEALLAHLG---LR-RYFD-AVVAADDVQHHKPAPDTFLRCAQLMGVQPTQCVVF 165 (188)
T ss_pred HHHHHHHHHh-CCCEEEEcCCchHHHHHHHHhCC---cH-hHce-EEEehhhccCCCCChHHHHHHHHHcCCCHHHeEEE
Confidence 3344455554 3455557777653 232222211 10 1134 34445442 22233344444443 47888
Q ss_pred cCC
Q 046085 174 GYM 176 (230)
Q Consensus 174 Gd~ 176 (230)
||.
T Consensus 166 gDs 168 (188)
T PRK10725 166 EDA 168 (188)
T ss_pred ecc
Confidence 887
No 495
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=34.57 E-value=2.3e+02 Score=24.21 Aligned_cols=44 Identities=11% Similarity=0.119 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhcCcceEEEEcCCc---------------chHHHHHHHHHcCCeEEE
Q 046085 129 VLLRNYMVDMMDKRRFGCLVFVSDDS---------------DFVEVLQEATLRCLKTGV 172 (230)
Q Consensus 129 ~AL~~~m~~~m~~r~vdclvLVSDDS---------------DF~~lLr~ARer~l~TVV 172 (230)
+....++.+.....|+.++++..... .+..++..|.+.|++..+
T Consensus 89 ~~~~~~~i~~a~~lGa~~i~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~l~i 147 (275)
T PRK09856 89 LDMIKLAMDMAKEMNAGYTLISAAHAGYLTPPNVIWGRLAENLSELCEYAENIGMDLIL 147 (275)
T ss_pred HHHHHHHHHHHHHhCCCEEEEcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCEEEE
Confidence 45666777777788999998866432 266778888889986553
No 496
>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=34.55 E-value=27 Score=24.80 Aligned_cols=44 Identities=16% Similarity=0.089 Sum_probs=33.4
Q ss_pred CCchhhhhhhhcEEEEEccccch---HHHHHHHHHHHHHHhhcCcce
Q 046085 103 GYSLVVKLKRVWFWVRTMSDKLQ---AADVLLRNYMVDMMDKRRFGC 146 (230)
Q Consensus 103 gygLa~eLrRAGv~VrtV~dKpq---AAD~AL~~~m~~~m~~r~vdc 146 (230)
|-.+|..|.+.|..|..+...|. ..|..+...+.+.|.++||+-
T Consensus 11 g~E~A~~l~~~g~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v 57 (80)
T PF00070_consen 11 GIELAEALAELGKEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEV 57 (80)
T ss_dssp HHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEE
T ss_pred HHHHHHHHHHhCcEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEE
Confidence 34578899999988887666655 557778888888888777643
No 497
>cd03132 GATase1_catalase Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases. Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases. Catalase catalyzes the dismutation of hydrogen peroxide (H2O2) to water and oxygen. This group includes the large catalases: Neurospora crassa Catalase-1 and Catalase-3 and, Escherichia coli HP-II. This GATase1-like domain has an essential role in HP-II catalase activity. However, it lacks enzymatic activity and the catalytic triad typical of GATase1 domains. Catalase-1 and -3 are homotetrameric, HP-II is homohexameric. It has been proposed that this domain may facilitate the folding and oligomerization process. The interface between this GATase1-like domain of HP-II and the core of the subunit forms part of a channel which provides access to the deeply buried catalase active sites of HPII. Catalase-1 is associated with non-growing cells; C
Probab=34.53 E-value=18 Score=28.13 Aligned_cols=72 Identities=15% Similarity=0.037 Sum_probs=43.2
Q ss_pred chhhhhhhhcEEEEEccccch--HHHHHHHHHHHHHHhh---cCcceEEEEcC---------CcchHHHHHHHHHcCCeE
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQ--AADVLLRNYMVDMMDK---RRFGCLVFVSD---------DSDFVEVLQEATLRCLKT 170 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpq--AAD~AL~~~m~~~m~~---r~vdclvLVSD---------DSDF~~lLr~ARer~l~T 170 (230)
++.+.|+.||+.|.+++...+ ..+..+.......++. ...|.|++.+. +.++..+|+.+.++|-..
T Consensus 19 ~~~~~~~~a~~~v~vvs~~~~~v~s~~g~~i~~~~~l~~~~~~~~D~liVpGg~~~~~~~~~~~~l~~~l~~~~~~~~~I 98 (142)
T cd03132 19 ALKAALKAAGANVKVVAPTLGGVVDSDGKTLEVDQTYAGAPSVLFDAVVVPGGAEAAFALAPSGRALHFVTEAFKHGKPI 98 (142)
T ss_pred HHHHHHHHCCCEEEEEecCcCceecCCCcEEecceeecCCChhhcCEEEECCCccCHHHHccChHHHHHHHHHHhcCCeE
Confidence 567788999999999987654 1111111111111211 13678888764 334667788888787766
Q ss_pred EEecCC
Q 046085 171 GVAGYM 176 (230)
Q Consensus 171 VVVGd~ 176 (230)
..|+.+
T Consensus 99 ~aic~G 104 (142)
T cd03132 99 GAVGEG 104 (142)
T ss_pred EEcCch
Confidence 666665
No 498
>TIGR03026 NDP-sugDHase nucleotide sugar dehydrogenase. All of these enzymes contain three Pfam domains, pfam03721, pfam00984, and pfam03720 for the N-terminal, central, and C-terminal regions respectively.
Probab=34.44 E-value=30 Score=32.26 Aligned_cols=51 Identities=16% Similarity=0.267 Sum_probs=34.9
Q ss_pred chhhhhhhhcEEEEEccccchHHHHHHH-----HHHHHHHhhcCcceEEEEcCCcchHHH
Q 046085 105 SLVVKLKRVWFWVRTMSDKLQAADVLLR-----NYMVDMMDKRRFGCLVFVSDDSDFVEV 159 (230)
Q Consensus 105 gLa~eLrRAGv~VrtV~dKpqAAD~AL~-----~~m~~~m~~r~vdclvLVSDDSDF~~l 159 (230)
.|+.+|.+.|+.|+ +-| |.+.+.+.. ..+.+.+ .+.|+||+.++.+.|..+
T Consensus 337 ~~~~~L~~~g~~v~-~~D-P~~~~~~~~~~~~~~~~~~~~--~~ad~~v~~t~~~~~~~~ 392 (411)
T TIGR03026 337 DIIELLKEKGAKVK-AYD-PLVPEEEVKGLPLIDDLEEAL--KGADALVILTDHDEFKDL 392 (411)
T ss_pred HHHHHHHhCCCEEE-EEC-CCCChhhhhhcccCCCHHHHH--hCCCEEEEecCCHHHhcc
Confidence 46789999999998 444 443333322 1233444 589999999999999754
No 499
>cd01455 vWA_F11C1-5a_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 not all A
Probab=34.40 E-value=84 Score=27.74 Aligned_cols=62 Identities=8% Similarity=-0.152 Sum_probs=38.9
Q ss_pred chHHHHHHHHHHHHHH-h-hcCcceEEEEcCCcchH----HH---HHHHHHcCCeEEEecCCC--Cchhhhhhh
Q 046085 124 LQAADVLLRNYMVDMM-D-KRRFGCLVFVSDDSDFV----EV---LQEATLRCLKTGVAGYMN--DGTLKRIAD 186 (230)
Q Consensus 124 pqAAD~AL~~~m~~~m-~-~r~vdclvLVSDDSDF~----~l---Lr~ARer~l~TVVVGd~~--~~aL~r~AD 186 (230)
+++| -||..-+..+- . ...-..++|.||=.+.+ ++ ...|++.|++..+||-++ ..+|...|.
T Consensus 91 ~~Ta-dAi~~av~rl~~~~~a~~kvvILLTDG~n~~~~i~P~~aAa~lA~~~gV~iytIgiG~~d~~~l~~iA~ 163 (191)
T cd01455 91 DHTV-EATEFAIKELAAKEDFDEAIVIVLSDANLERYGIQPKKLADALAREPNVNAFVIFIGSLSDEADQLQRE 163 (191)
T ss_pred ccHH-HHHHHHHHHHHhcCcCCCcEEEEEeCCCcCCCCCChHHHHHHHHHhCCCEEEEEEecCCCHHHHHHHHh
Confidence 3555 44444443332 1 12345899999977643 22 478899999988888764 456777776
No 500
>cd01985 ETF The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=34.36 E-value=2.6e+02 Score=22.86 Aligned_cols=84 Identities=20% Similarity=0.110 Sum_probs=50.1
Q ss_pred hhhhhhhcEEEEEccccchHHHHHHHHHHHHHHhhcCcceEEEEcCCc--c-----hHHHHHH-HHHcCCeEEEecCC--
Q 046085 107 VVKLKRVWFWVRTMSDKLQAADVLLRNYMVDMMDKRRFGCLVFVSDDS--D-----FVEVLQE-ATLRCLKTGVAGYM-- 176 (230)
Q Consensus 107 a~eLrRAGv~VrtV~dKpqAAD~AL~~~m~~~m~~r~vdclvLVSDDS--D-----F~~lLr~-ARer~l~TVVVGd~-- 176 (230)
|..|...|-.|..|.-.|..++.++.. .+ ..|++-+.++.++. . ++.+|-. +++.+...|++|..
T Consensus 28 A~~l~~~~~~v~~v~~G~~~~~~~~~~----~~-~~Gad~v~~~~~~~~~~~~~~~~a~~l~~~i~~~~p~~Vl~g~t~~ 102 (181)
T cd01985 28 ALRLKEYGGEVTALVIGPPAAEVALRE----AL-AMGADKVLLVEDPALAGYDPEATAKALAALIKKEKPDLILAGATSI 102 (181)
T ss_pred HHHHhhcCCeEEEEEECChHHHHHHHH----HH-HhCCCEEEEEecCcccCCChHHHHHHHHHHHHHhCCCEEEECCccc
Confidence 444432222355555556555555332 23 47999999998652 2 2444444 46678999999998
Q ss_pred CCchhhhhhhccccccchH
Q 046085 177 NDGTLKRIADRLKWAYNSE 195 (230)
Q Consensus 177 ~~~aL~r~AD~leW~~~~e 195 (230)
...-..|+|-.|.|.+-.+
T Consensus 103 g~~la~rlA~~L~~~~vsd 121 (181)
T cd01985 103 GKQLAPRVAALLGVPQISD 121 (181)
T ss_pred ccCHHHHHHHHhCCCccee
Confidence 3345567777666665443
Done!