Query 014872
Match_columns 417
No_of_seqs 39 out of 41
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 09:20:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014872.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014872hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06167 LabA_like LabA_like pr 98.7 6.2E-08 1.4E-12 81.8 7.5 81 227-307 55-144 (149)
2 PF01936 NYN: NYN domain; Int 98.5 2E-07 4.4E-12 77.1 6.0 81 231-311 54-144 (146)
3 TIGR00288 conserved hypothetic 98.5 2.8E-06 6.1E-11 77.6 12.5 77 232-311 74-154 (160)
4 PF00096 zf-C2H2: Zinc finger, 97.4 0.00011 2.3E-09 45.8 1.9 23 157-180 1-23 (23)
5 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00018 3.8E-09 43.8 2.2 24 157-180 1-24 (24)
6 COG1432 Uncharacterized conser 97.2 0.00052 1.1E-08 62.6 4.7 51 262-312 107-160 (181)
7 PF13912 zf-C2H2_6: C2H2-type 96.0 0.0035 7.5E-08 40.4 1.2 24 156-179 1-24 (27)
8 smart00355 ZnF_C2H2 zinc finge 95.9 0.0061 1.3E-07 36.9 2.1 24 157-181 1-24 (26)
9 PHA00616 hypothetical protein 95.7 0.0045 9.7E-08 46.6 1.0 27 156-182 1-27 (44)
10 PF13913 zf-C2HC_2: zinc-finge 95.3 0.011 2.5E-07 39.0 1.9 21 157-178 3-23 (25)
11 PHA02768 hypothetical protein; 94.9 0.015 3.2E-07 45.6 1.7 25 156-181 5-29 (55)
12 PF09237 GAGA: GAGA factor; I 94.5 0.027 5.8E-07 44.3 2.2 30 153-182 21-50 (54)
13 PHA00732 hypothetical protein 94.2 0.026 5.7E-07 46.3 1.8 27 156-182 1-27 (79)
14 smart00451 ZnF_U1 U1-like zinc 94.1 0.051 1.1E-06 36.5 2.8 33 155-187 2-34 (35)
15 cd05013 SIS_RpiR RpiR-like pro 93.8 0.33 7.1E-06 39.2 7.4 76 229-311 31-110 (139)
16 PF05605 zf-Di19: Drought indu 93.6 0.047 1E-06 40.9 2.1 29 156-185 2-30 (54)
17 PF12874 zf-met: Zinc-finger o 93.4 0.044 9.6E-07 34.6 1.4 22 157-178 1-22 (25)
18 PF13465 zf-H2C2_2: Zinc-finge 93.4 0.031 6.8E-07 36.7 0.7 16 153-168 11-26 (26)
19 cd01542 PBP1_TreR_like Ligand- 92.1 0.68 1.5E-05 41.0 7.5 68 227-297 19-86 (259)
20 PF13407 Peripla_BP_4: Peripla 91.9 0.86 1.9E-05 40.6 8.0 99 228-329 19-119 (257)
21 KOG2462 C2H2-type Zn-finger pr 91.8 0.058 1.3E-06 53.8 0.5 52 155-208 186-237 (279)
22 PF12171 zf-C2H2_jaz: Zinc-fin 91.5 0.049 1.1E-06 35.6 -0.3 22 157-178 2-23 (27)
23 PF12756 zf-C2H2_2: C2H2 type 91.4 0.16 3.4E-06 39.6 2.4 26 155-180 49-74 (100)
24 PF13909 zf-H2C2_5: C2H2-type 91.3 0.18 3.9E-06 31.9 2.2 24 157-181 1-24 (24)
25 PRK15482 transcriptional regul 90.9 0.79 1.7E-05 43.5 7.1 94 211-311 123-232 (285)
26 cd05014 SIS_Kpsf KpsF-like pro 90.8 0.43 9.4E-06 39.2 4.7 77 229-312 18-98 (128)
27 cd06281 PBP1_LacI_like_5 Ligan 90.8 1.1 2.3E-05 40.3 7.5 70 227-298 19-88 (269)
28 PHA00733 hypothetical protein 90.5 0.19 4.2E-06 44.1 2.5 26 155-180 98-123 (128)
29 cd06282 PBP1_GntR_like_2 Ligan 90.5 1.4 3E-05 38.9 7.8 71 227-299 19-89 (266)
30 cd06305 PBP1_methylthioribose_ 90.1 1.5 3.3E-05 39.1 7.8 70 227-298 19-89 (273)
31 KOG1074 Transcriptional repres 90.1 0.051 1.1E-06 60.9 -1.8 37 153-189 378-414 (958)
32 COG5189 SFP1 Putative transcri 90.0 0.078 1.7E-06 54.5 -0.5 34 147-180 389-422 (423)
33 cd06312 PBP1_ABC_sugar_binding 89.8 1.5 3.2E-05 39.6 7.5 97 227-327 20-121 (271)
34 PRK14101 bifunctional glucokin 89.6 3.3 7.1E-05 44.4 11.1 94 210-310 455-563 (638)
35 cd06318 PBP1_ABC_sugar_binding 89.6 1.8 3.9E-05 38.9 7.9 69 227-297 19-88 (282)
36 cd01545 PBP1_SalR Ligand-bindi 89.4 1.5 3.2E-05 39.0 7.1 70 227-298 19-89 (270)
37 PRK15408 autoinducer 2-binding 88.6 1.7 3.6E-05 42.7 7.5 70 227-298 43-114 (336)
38 PF04959 ARS2: Arsenite-resist 88.6 0.31 6.8E-06 46.8 2.5 47 154-209 75-121 (214)
39 TIGR02634 xylF D-xylose ABC tr 88.3 3.1 6.6E-05 39.2 8.8 68 228-297 19-87 (302)
40 PRK11557 putative DNA-binding 88.1 1.6 3.5E-05 41.0 6.9 94 210-310 115-224 (278)
41 cd06313 PBP1_ABC_sugar_binding 88.1 2.4 5.1E-05 38.8 7.7 70 227-298 19-89 (272)
42 cd06306 PBP1_TorT-like TorT-li 88.0 2.2 4.7E-05 38.8 7.4 69 227-297 19-89 (268)
43 PF05605 zf-Di19: Drought indu 87.8 0.35 7.6E-06 36.3 1.8 25 154-180 29-53 (54)
44 cd06299 PBP1_LacI_like_13 Liga 87.6 2.8 6E-05 37.3 7.7 69 227-298 19-87 (265)
45 cd06324 PBP1_ABC_sugar_binding 87.6 2.2 4.8E-05 39.8 7.4 70 227-298 20-91 (305)
46 PHA00733 hypothetical protein 87.4 0.49 1.1E-05 41.7 2.8 26 153-178 70-95 (128)
47 cd01540 PBP1_arabinose_binding 87.3 2.6 5.7E-05 38.1 7.4 68 228-298 20-88 (289)
48 cd05005 SIS_PHI Hexulose-6-pho 87.1 1.6 3.5E-05 38.7 5.9 71 230-312 52-126 (179)
49 cd01541 PBP1_AraR Ligand-bindi 87.1 3 6.5E-05 37.4 7.7 70 227-298 19-92 (273)
50 cd06317 PBP1_ABC_sugar_binding 86.9 3.4 7.3E-05 36.8 7.8 70 227-298 20-90 (275)
51 KOG3576 Ovo and related transc 86.4 0.061 1.3E-06 52.6 -3.7 41 153-194 142-182 (267)
52 cd06302 PBP1_LsrB_Quorum_Sensi 86.3 3.3 7.1E-05 38.6 7.7 69 227-297 19-89 (298)
53 TIGR03127 RuMP_HxlB 6-phospho 86.2 2.1 4.5E-05 37.8 6.1 69 231-311 50-122 (179)
54 cd06270 PBP1_GalS_like Ligand 85.9 3.6 7.7E-05 36.9 7.5 68 227-297 19-86 (268)
55 TIGR02637 RhaS rhamnose ABC tr 85.8 2.8 6E-05 38.8 6.9 70 227-298 18-90 (302)
56 cd06320 PBP1_allose_binding Pe 85.5 3.1 6.8E-05 37.4 6.9 70 227-298 19-91 (275)
57 PRK10653 D-ribose transporter 85.3 3.9 8.4E-05 37.8 7.6 71 226-298 45-116 (295)
58 cd06303 PBP1_LuxPQ_Quorum_Sens 85.3 2.8 6.1E-05 38.4 6.6 70 227-297 20-92 (280)
59 cd06308 PBP1_sensor_kinase_lik 85.2 5.6 0.00012 35.8 8.4 69 227-297 19-89 (270)
60 cd06289 PBP1_MalI_like Ligand- 85.2 4.5 9.7E-05 35.8 7.7 70 227-298 19-88 (268)
61 cd06323 PBP1_ribose_binding Pe 85.1 5.7 0.00012 35.1 8.3 70 227-298 19-89 (268)
62 cd06319 PBP1_ABC_sugar_binding 84.8 4.5 9.7E-05 36.2 7.5 70 227-298 19-89 (277)
63 cd06301 PBP1_rhizopine_binding 84.7 7.4 0.00016 34.8 8.9 70 227-298 19-90 (272)
64 cd06295 PBP1_CelR Ligand bindi 84.6 4.6 9.9E-05 36.3 7.6 64 228-297 31-95 (275)
65 cd01538 PBP1_ABC_xylose_bindin 84.6 5.1 0.00011 36.9 8.1 69 227-297 19-88 (288)
66 cd06322 PBP1_ABC_sugar_binding 84.5 5 0.00011 35.8 7.7 69 227-297 19-88 (267)
67 PF04423 Rad50_zn_hook: Rad50 84.4 0.65 1.4E-05 34.9 1.8 22 158-179 22-45 (54)
68 cd06316 PBP1_ABC_sugar_binding 84.3 4.7 0.0001 37.1 7.7 70 227-298 19-90 (294)
69 cd06314 PBP1_tmGBP Periplasmic 84.1 6.4 0.00014 35.5 8.3 96 225-325 16-113 (271)
70 PF01380 SIS: SIS domain SIS d 83.8 1.3 2.9E-05 35.9 3.5 47 265-311 53-103 (131)
71 cd06342 PBP1_ABC_LIVBP_like Ty 83.6 2.6 5.7E-05 39.0 5.8 68 229-298 155-223 (334)
72 PRK13937 phosphoheptose isomer 83.5 4.2 9.1E-05 37.0 6.9 48 267-314 108-159 (188)
73 cd06309 PBP1_YtfQ_like Peripla 83.3 5.5 0.00012 35.9 7.5 70 227-298 19-89 (273)
74 cd06315 PBP1_ABC_sugar_binding 83.3 5.7 0.00012 36.5 7.7 69 227-297 20-89 (280)
75 cd06347 PBP1_ABC_ligand_bindin 83.2 2.4 5.2E-05 39.1 5.3 67 229-297 156-223 (334)
76 cd01539 PBP1_GGBP Periplasmic 83.1 6.4 0.00014 36.9 8.1 69 227-297 19-90 (303)
77 KOG2462 C2H2-type Zn-finger pr 83.0 0.75 1.6E-05 46.2 2.1 38 153-191 212-249 (279)
78 cd06311 PBP1_ABC_sugar_binding 82.9 6.8 0.00015 35.3 8.0 68 228-297 20-93 (274)
79 PRK11337 DNA-binding transcrip 82.8 3.8 8.3E-05 38.9 6.7 76 229-311 158-237 (292)
80 PF12013 DUF3505: Protein of u 82.8 1.2 2.5E-05 37.4 2.8 32 148-180 73-108 (109)
81 cd05008 SIS_GlmS_GlmD_1 SIS (S 82.7 2 4.3E-05 35.3 4.1 75 229-311 17-96 (126)
82 PF04123 DUF373: Domain of unk 82.5 4.2 9.2E-05 41.7 7.2 88 211-298 28-135 (344)
83 PRK10014 DNA-binding transcrip 82.4 5.7 0.00012 37.3 7.5 69 227-297 84-152 (342)
84 PRK10936 TMAO reductase system 82.2 4.9 0.00011 38.8 7.2 95 227-326 66-163 (343)
85 KOG1074 Transcriptional repres 82.1 0.47 1E-05 53.6 0.4 34 153-187 630-663 (958)
86 cd06278 PBP1_LacI_like_2 Ligan 81.8 7.4 0.00016 34.4 7.6 68 227-298 19-86 (266)
87 cd06294 PBP1_ycjW_transcriptio 81.5 5.9 0.00013 35.2 7.0 67 227-297 24-91 (270)
88 TIGR00441 gmhA phosphoheptose 81.5 5.7 0.00012 35.0 6.8 48 264-311 78-129 (154)
89 cd06267 PBP1_LacI_sugar_bindin 81.4 8.3 0.00018 33.4 7.7 69 227-298 19-87 (264)
90 cd06296 PBP1_CatR_like Ligand- 81.3 7.1 0.00015 34.8 7.4 69 227-298 19-87 (270)
91 COG1737 RpiR Transcriptional r 80.7 4.4 9.6E-05 39.1 6.4 95 211-313 118-229 (281)
92 cd06292 PBP1_LacI_like_10 Liga 80.4 8.1 0.00018 34.6 7.5 70 227-298 19-92 (273)
93 cd06268 PBP1_ABC_transporter_L 80.3 4.1 9E-05 35.7 5.5 67 230-298 156-223 (298)
94 cd01536 PBP1_ABC_sugar_binding 80.2 11 0.00023 33.1 8.0 69 228-298 20-89 (267)
95 KOG3993 Transcription factor ( 79.9 0.95 2.1E-05 48.1 1.6 41 147-187 347-387 (500)
96 cd06363 PBP1_Taste_receptor Li 79.9 6 0.00013 39.1 7.1 69 229-297 196-267 (410)
97 cd06298 PBP1_CcpA_like Ligand- 79.9 8.6 0.00019 34.1 7.4 66 228-298 20-87 (268)
98 cd06350 PBP1_GPCR_family_C_lik 79.8 6.4 0.00014 36.9 6.9 67 230-296 181-249 (348)
99 cd06277 PBP1_LacI_like_1 Ligan 79.7 8.7 0.00019 34.4 7.5 68 227-298 22-89 (268)
100 cd06310 PBP1_ABC_sugar_binding 79.7 8.3 0.00018 34.5 7.3 70 227-297 19-90 (273)
101 cd04509 PBP1_ABC_transporter_G 79.5 4.5 9.7E-05 35.5 5.5 68 228-297 155-225 (299)
102 cd01537 PBP1_Repressors_Sugar_ 79.5 10 0.00022 32.8 7.5 71 227-299 19-89 (264)
103 TIGR02417 fruct_sucro_rep D-fr 79.2 9 0.0002 35.8 7.7 70 227-298 80-149 (327)
104 cd05710 SIS_1 A subgroup of th 79.2 3.2 6.9E-05 34.9 4.3 46 266-311 48-97 (120)
105 cd06334 PBP1_ABC_ligand_bindin 79.1 4.7 0.0001 39.3 6.0 68 229-297 160-227 (351)
106 cd06321 PBP1_ABC_sugar_binding 78.8 11 0.00023 33.9 7.7 70 227-298 19-91 (271)
107 cd06330 PBP1_Arsenic_SBP_like 78.5 3.2 6.9E-05 39.1 4.5 69 228-296 157-228 (346)
108 cd06335 PBP1_ABC_ligand_bindin 78.4 4.4 9.6E-05 38.7 5.5 67 229-297 158-225 (347)
109 cd06360 PBP1_alkylbenzenes_lik 78.0 5.2 0.00011 37.2 5.7 69 228-298 153-224 (336)
110 PF14258 DUF4350: Domain of un 77.5 6.2 0.00013 30.3 5.1 57 227-296 8-69 (70)
111 cd06283 PBP1_RegR_EndR_KdgR_li 77.5 12 0.00026 33.1 7.6 69 227-298 19-87 (267)
112 cd06336 PBP1_ABC_ligand_bindin 77.4 4.5 9.8E-05 38.6 5.2 66 229-296 158-225 (347)
113 PRK10355 xylF D-xylose transpo 77.2 11 0.00025 36.4 8.0 68 228-297 46-114 (330)
114 TIGR00393 kpsF KpsF/GutQ famil 77.0 8.3 0.00018 35.8 6.7 75 229-313 18-99 (268)
115 cd06340 PBP1_ABC_ligand_bindin 77.0 4.7 0.0001 38.5 5.2 62 230-292 165-226 (347)
116 PF02892 zf-BED: BED zinc fing 76.9 1.7 3.6E-05 30.9 1.7 28 154-181 14-45 (45)
117 cd06291 PBP1_Qymf_like Ligand 76.4 9.5 0.0002 34.0 6.7 66 227-298 19-84 (265)
118 cd06273 PBP1_GntR_like_1 This 76.4 14 0.00031 32.8 7.8 69 227-298 19-87 (268)
119 cd06274 PBP1_FruR Ligand bindi 76.3 13 0.00027 33.3 7.5 94 227-326 19-112 (264)
120 cd06293 PBP1_LacI_like_11 Liga 75.6 15 0.00033 32.9 7.8 69 227-298 19-87 (269)
121 cd06361 PBP1_GPC6A_like Ligand 75.5 12 0.00026 37.6 7.8 70 229-298 192-267 (403)
122 cd01575 PBP1_GntR Ligand-bindi 75.5 15 0.00032 32.5 7.6 69 227-298 19-87 (268)
123 cd06348 PBP1_ABC_ligand_bindin 75.3 5 0.00011 37.9 4.9 66 230-297 158-224 (344)
124 PRK13938 phosphoheptose isomer 75.0 5 0.00011 37.5 4.8 65 255-320 104-172 (196)
125 cd05006 SIS_GmhA Phosphoheptos 74.5 5.4 0.00012 35.4 4.6 48 266-313 102-153 (177)
126 cd06337 PBP1_ABC_ligand_bindin 74.4 6.4 0.00014 38.0 5.4 64 231-296 170-234 (357)
127 KOG3576 Ovo and related transc 74.3 1.2 2.5E-05 44.0 0.4 30 153-182 170-199 (267)
128 cd06333 PBP1_ABC-type_HAAT_lik 74.1 6.2 0.00013 36.6 5.1 67 229-297 153-220 (312)
129 cd06269 PBP1_glutamate_recepto 74.1 17 0.00037 32.0 7.6 60 230-290 161-220 (298)
130 PF12756 zf-C2H2_2: C2H2 type 74.0 1 2.2E-05 35.0 0.0 26 158-183 1-26 (100)
131 smart00734 ZnF_Rad18 Rad18-lik 73.9 2.6 5.6E-05 28.3 1.9 19 158-177 3-21 (26)
132 PF01936 NYN: NYN domain; Int 73.2 1.1 2.4E-05 37.2 -0.0 40 80-121 1-43 (146)
133 cd06355 PBP1_FmdD_like Peripla 73.1 10 0.00022 36.4 6.5 60 230-291 154-214 (348)
134 TIGR02955 TMAO_TorT TMAO reduc 73.0 14 0.0003 34.5 7.1 68 227-297 19-89 (295)
135 cd06338 PBP1_ABC_ligand_bindin 72.8 8.7 0.00019 36.1 5.8 64 230-295 162-226 (345)
136 KOG1842 FYVE finger-containing 72.6 1.7 3.6E-05 46.5 1.1 58 148-207 9-70 (505)
137 TIGR01491 HAD-SF-IB-PSPlk HAD- 72.5 64 0.0014 28.0 10.8 81 221-308 79-184 (201)
138 PRK14987 gluconate operon tran 72.4 19 0.00042 33.8 8.0 69 227-298 83-151 (331)
139 cd01391 Periplasmic_Binding_Pr 72.4 26 0.00056 29.6 8.0 70 228-299 21-92 (269)
140 PF00532 Peripla_BP_1: Peripla 71.9 13 0.00028 35.3 6.8 68 227-298 21-88 (279)
141 PRK11303 DNA-binding transcrip 71.9 17 0.00037 33.9 7.5 70 227-298 81-150 (328)
142 PRK00414 gmhA phosphoheptose i 71.7 16 0.00036 33.6 7.2 47 264-310 110-160 (192)
143 PRK02947 hypothetical protein; 71.5 6 0.00013 37.8 4.5 47 264-310 105-166 (246)
144 cd06297 PBP1_LacI_like_12 Liga 71.2 18 0.00039 32.8 7.3 67 227-297 19-86 (269)
145 PRK09701 D-allose transporter 70.8 21 0.00046 33.8 7.9 70 227-298 44-116 (311)
146 cd06368 PBP1_iGluR_non_NMDA_li 70.7 14 0.0003 34.4 6.6 58 233-292 150-207 (324)
147 PRK15404 leucine ABC transport 70.5 7.7 0.00017 38.0 5.1 66 230-297 182-248 (369)
148 PRK10892 D-arabinose 5-phospha 70.3 7.7 0.00017 37.5 5.0 93 211-310 34-143 (326)
149 PRK11302 DNA-binding transcrip 70.2 22 0.00049 33.3 7.9 71 233-311 150-224 (284)
150 cd06329 PBP1_SBP_like_3 Peripl 70.0 8.6 0.00019 36.6 5.2 67 229-297 163-233 (342)
151 PRK13936 phosphoheptose isomer 69.7 20 0.00043 33.0 7.3 49 263-311 109-164 (197)
152 COG0124 HisS Histidyl-tRNA syn 69.2 28 0.00061 36.8 9.1 98 210-328 292-410 (429)
153 cd06346 PBP1_ABC_ligand_bindin 69.1 9.7 0.00021 35.7 5.3 67 229-297 157-224 (312)
154 cd06285 PBP1_LacI_like_7 Ligan 68.9 27 0.00058 31.3 7.8 69 227-298 19-87 (265)
155 cd06326 PBP1_STKc_like Type I 68.8 9.7 0.00021 35.4 5.1 67 229-297 156-223 (336)
156 cd01987 USP_OKCHK USP domain i 68.7 39 0.00084 27.2 8.0 50 249-299 46-95 (124)
157 smart00614 ZnF_BED BED zinc fi 68.7 2.7 5.8E-05 31.1 1.2 26 157-182 19-49 (50)
158 cd06331 PBP1_AmiC_like Type I 68.6 13 0.00028 35.0 6.0 59 231-291 154-213 (333)
159 cd06345 PBP1_ABC_ligand_bindin 68.4 10 0.00022 35.9 5.2 65 230-296 165-230 (344)
160 cd06380 PBP1_iGluR_AMPA N-term 68.3 14 0.00031 35.6 6.3 68 231-298 147-220 (382)
161 PF04780 DUF629: Protein of un 68.1 3.7 7.9E-05 43.9 2.5 33 157-189 58-90 (466)
162 cd06343 PBP1_ABC_ligand_bindin 68.0 12 0.00026 35.7 5.6 65 229-295 164-229 (362)
163 cd06272 PBP1_hexuronate_repres 67.9 22 0.00049 31.7 7.1 65 227-298 19-83 (261)
164 cd06327 PBP1_SBP_like_1 Peripl 67.5 9.7 0.00021 35.9 4.9 67 229-297 155-224 (334)
165 PRK12342 hypothetical protein; 66.6 26 0.00055 34.5 7.7 66 230-298 44-118 (254)
166 PRK15395 methyl-galactoside AB 66.5 29 0.00062 33.4 7.9 69 227-297 44-114 (330)
167 cd06271 PBP1_AglR_RafR_like Li 66.2 25 0.00054 31.1 6.9 68 227-298 23-91 (268)
168 cd06275 PBP1_PurR Ligand-bindi 66.1 29 0.00063 30.9 7.4 70 227-298 19-88 (269)
169 TIGR01422 phosphonatase phosph 66.0 59 0.0013 30.0 9.6 79 220-302 97-187 (253)
170 cd06300 PBP1_ABC_sugar_binding 65.9 48 0.001 29.8 8.8 69 227-297 19-93 (272)
171 cd06375 PBP1_mGluR_groupII Lig 65.7 20 0.00042 36.7 7.0 67 229-297 194-264 (458)
172 PF13419 HAD_2: Haloacid dehal 65.2 19 0.00042 29.4 5.7 29 220-248 75-104 (176)
173 PF02310 B12-binding: B12 bind 64.8 31 0.00068 28.0 6.8 67 227-298 18-89 (121)
174 TIGR03649 ergot_EASG ergot alk 64.8 9.2 0.0002 35.4 4.1 74 225-298 11-105 (285)
175 cd01574 PBP1_LacI Ligand-bindi 64.7 34 0.00074 30.4 7.5 71 226-298 18-88 (264)
176 TIGR01512 ATPase-IB2_Cd heavy 64.1 11 0.00023 39.8 4.9 79 229-313 370-451 (536)
177 cd06279 PBP1_LacI_like_3 Ligan 64.0 29 0.00062 31.8 7.1 65 227-298 24-88 (283)
178 PRK13478 phosphonoacetaldehyde 63.8 36 0.00077 32.0 7.8 78 221-302 100-189 (267)
179 COG1879 RbsB ABC-type sugar tr 63.4 31 0.00067 32.7 7.4 70 227-298 53-125 (322)
180 cd06358 PBP1_NHase Type I peri 63.3 19 0.00042 34.0 6.1 63 229-293 152-215 (333)
181 cd06332 PBP1_aromatic_compound 63.2 21 0.00045 33.0 6.1 59 237-297 160-220 (333)
182 cd06366 PBP1_GABAb_receptor Li 62.9 19 0.00042 34.1 6.0 63 229-291 155-218 (350)
183 cd06362 PBP1_mGluR Ligand bind 62.8 27 0.00058 34.8 7.2 66 230-297 193-264 (452)
184 PRK11543 gutQ D-arabinose 5-ph 62.6 11 0.00023 36.2 4.3 74 229-310 60-138 (321)
185 TIGR03830 CxxCG_CxxCG_HTH puta 62.2 20 0.00044 29.8 5.4 52 155-206 30-88 (127)
186 TIGR00522 dph5 diphthine synth 61.7 18 0.00039 34.9 5.6 69 228-297 94-166 (257)
187 PLN02770 haloacid dehalogenase 60.7 23 0.00051 33.0 6.0 77 220-302 106-194 (248)
188 COG0546 Gph Predicted phosphat 60.4 37 0.0008 31.2 7.2 71 227-302 95-175 (220)
189 PHA00732 hypothetical protein 60.0 3.5 7.6E-05 33.9 0.5 21 156-179 27-47 (79)
190 TIGR01481 ccpA catabolite cont 58.5 48 0.001 31.0 7.7 69 227-298 79-147 (329)
191 TIGR01525 ATPase-IB_hvy heavy 58.5 23 0.00049 37.4 6.2 79 229-313 392-473 (556)
192 PRK10703 DNA-binding transcrip 57.4 48 0.001 31.2 7.5 68 227-297 79-147 (341)
193 cd06328 PBP1_SBP_like_2 Peripl 57.3 26 0.00057 33.4 5.9 67 229-297 156-225 (333)
194 TIGR01210 conserved hypothetic 57.3 15 0.00033 36.3 4.4 122 158-292 32-171 (313)
195 PRK10886 DnaA initiator-associ 57.3 32 0.0007 32.3 6.3 76 235-311 71-162 (196)
196 PF13380 CoA_binding_2: CoA bi 57.2 17 0.00036 31.1 4.1 42 255-299 69-110 (116)
197 COG1609 PurR Transcriptional r 57.1 46 0.001 32.8 7.7 70 227-299 78-147 (333)
198 cd05017 SIS_PGI_PMI_1 The memb 56.5 13 0.00029 31.0 3.3 42 265-307 43-87 (119)
199 cd06286 PBP1_CcpB_like Ligand- 56.1 54 0.0012 29.2 7.3 67 227-297 19-85 (260)
200 TIGR01449 PGP_bact 2-phosphogl 56.1 39 0.00085 29.7 6.4 28 83-112 1-29 (213)
201 COG0074 SucD Succinyl-CoA synt 55.8 43 0.00093 34.3 7.3 106 236-353 66-181 (293)
202 PF09986 DUF2225: Uncharacteri 55.7 5.2 0.00011 37.9 0.9 15 155-169 4-18 (214)
203 cd06352 PBP1_NPR_GC_like Ligan 55.7 29 0.00063 33.4 5.9 66 229-297 158-229 (389)
204 cd06349 PBP1_ABC_ligand_bindin 55.7 24 0.00051 33.3 5.2 68 229-298 155-223 (340)
205 PRK09552 mtnX 2-hydroxy-3-keto 55.0 1.6E+02 0.0035 26.8 10.3 98 211-311 63-184 (219)
206 cd06365 PBP1_Pheromone_recepto 54.7 61 0.0013 33.3 8.3 69 229-297 192-264 (469)
207 PF05368 NmrA: NmrA-like famil 54.3 56 0.0012 29.5 7.2 109 264-377 63-200 (233)
208 TIGR01509 HAD-SF-IA-v3 haloaci 54.3 33 0.00071 29.1 5.4 46 244-295 138-183 (183)
209 cd06284 PBP1_LacI_like_6 Ligan 54.3 66 0.0014 28.4 7.5 68 227-298 19-86 (267)
210 TIGR01548 HAD-SF-IA-hyp1 haloa 54.0 59 0.0013 28.8 7.2 67 228-299 113-188 (197)
211 PLN03243 haloacid dehalogenase 53.9 75 0.0016 30.6 8.3 69 227-300 115-193 (260)
212 TIGR00147 lipid kinase, YegS/R 53.6 30 0.00066 32.9 5.6 91 229-325 24-124 (293)
213 cd06388 PBP1_iGluR_AMPA_GluR4 53.3 27 0.00059 34.8 5.5 63 233-298 147-215 (371)
214 TIGR01664 DNA-3'-Pase DNA 3'-p 53.1 43 0.00093 30.1 6.2 86 229-314 50-162 (166)
215 TIGR00274 N-acetylmuramic acid 53.0 19 0.0004 35.8 4.2 47 265-311 126-176 (291)
216 PF07279 DUF1442: Protein of u 52.9 21 0.00046 35.0 4.5 52 264-318 114-166 (218)
217 cd00860 ThrRS_anticodon ThrRS 52.7 32 0.0007 26.3 4.7 43 228-275 19-61 (91)
218 PRK05441 murQ N-acetylmuramic 52.5 20 0.00043 35.5 4.3 47 265-311 131-181 (299)
219 PF09538 FYDLN_acid: Protein o 52.3 5.6 0.00012 34.7 0.5 10 158-167 11-20 (108)
220 PF13242 Hydrolase_like: HAD-h 52.1 51 0.0011 25.4 5.7 33 263-299 18-52 (75)
221 cd06280 PBP1_LacI_like_4 Ligan 52.0 73 0.0016 28.6 7.5 67 228-298 20-86 (263)
222 PRK13288 pyrophosphatase PpaX; 51.7 54 0.0012 29.3 6.6 82 221-309 81-177 (214)
223 COG0683 LivK ABC-type branched 51.7 29 0.00063 34.1 5.3 66 231-298 170-236 (366)
224 cd06354 PBP1_BmpA_PnrA_like Pe 51.2 61 0.0013 29.8 7.0 66 227-297 22-89 (265)
225 PHA00626 hypothetical protein 51.2 8.5 0.00018 31.1 1.3 21 148-168 14-35 (59)
226 cd06290 PBP1_LacI_like_9 Ligan 51.0 75 0.0016 28.4 7.4 68 227-298 19-86 (265)
227 PF13458 Peripla_BP_6: Peripla 51.0 35 0.00076 31.7 5.5 63 228-292 154-217 (343)
228 cd06304 PBP1_BmpA_like Peripla 50.6 67 0.0015 29.2 7.1 66 227-297 21-88 (260)
229 TIGR01490 HAD-SF-IB-hyp1 HAD-s 50.3 1.1E+02 0.0024 26.9 8.2 66 231-302 97-184 (202)
230 cd06357 PBP1_AmiC Periplasmic 50.3 57 0.0012 31.7 7.0 62 229-292 152-216 (360)
231 cd06379 PBP1_iGluR_NMDA_NR1 N- 49.6 43 0.00094 32.5 6.1 62 229-292 174-240 (377)
232 cd02750 MopB_Nitrate-R-NarG-li 49.3 27 0.00059 35.7 4.9 49 264-312 169-222 (461)
233 cd06307 PBP1_uncharacterized_s 49.1 42 0.0009 30.3 5.5 69 227-297 19-91 (275)
234 PRK11587 putative phosphatase; 49.0 1.2E+02 0.0027 27.3 8.6 29 82-112 5-34 (218)
235 cd01391 Periplasmic_Binding_Pr 48.9 49 0.0011 27.9 5.6 32 265-297 182-216 (269)
236 KOG2071 mRNA cleavage and poly 48.6 13 0.00029 40.8 2.6 39 153-192 415-453 (579)
237 TIGR02253 CTE7 HAD superfamily 48.4 1.1E+02 0.0023 27.2 7.9 69 227-299 100-177 (221)
238 PRK10423 transcriptional repre 48.3 81 0.0018 29.3 7.4 67 227-297 76-144 (327)
239 COG5319 Uncharacterized protei 47.9 32 0.00069 31.9 4.5 25 223-247 108-138 (142)
240 cd02751 MopB_DMSOR-like The Mo 47.7 30 0.00064 36.8 5.0 58 265-322 169-254 (609)
241 KOG3456 NADH:ubiquinone oxidor 47.5 6.6 0.00014 35.3 0.2 15 154-168 102-116 (120)
242 TIGR01549 HAD-SF-IA-v1 haloaci 47.4 1.1E+02 0.0023 25.7 7.4 68 228-300 71-145 (154)
243 PRK13226 phosphoglycolate phos 47.3 2.3E+02 0.005 26.0 13.0 29 82-111 14-42 (229)
244 cd02755 MopB_Thiosulfate-R-lik 46.9 29 0.00062 35.4 4.6 50 264-313 155-210 (454)
245 cd06364 PBP1_CaSR Ligand-bindi 46.9 46 0.00099 34.8 6.1 61 230-292 208-271 (510)
246 cd00532 MGS-like MGS-like doma 46.9 48 0.001 27.8 5.2 61 224-292 23-102 (112)
247 PRK06921 hypothetical protein; 46.4 1.3E+02 0.0029 29.2 8.8 21 145-165 21-41 (266)
248 TIGR03351 PhnX-like phosphonat 46.0 2.2E+02 0.0048 25.4 10.4 22 228-249 94-115 (220)
249 PF10276 zf-CHCC: Zinc-finger 46.0 7.7 0.00017 28.8 0.3 14 154-167 27-40 (40)
250 PF05443 ROS_MUCR: ROS/MUCR tr 45.3 12 0.00027 33.8 1.6 23 155-180 71-93 (132)
251 COG4049 Uncharacterized protei 45.0 10 0.00022 30.9 0.8 39 140-182 5-43 (65)
252 TIGR02137 HSK-PSP phosphoserin 44.9 1E+02 0.0022 28.7 7.5 79 228-312 75-169 (203)
253 COG2237 Predicted membrane pro 44.8 46 0.001 35.0 5.7 74 226-299 53-136 (364)
254 cd06356 PBP1_Amide_Urea_BP_lik 44.7 60 0.0013 31.0 6.1 59 230-290 153-212 (334)
255 cd05007 SIS_Etherase N-acetylm 44.7 29 0.00064 33.5 4.1 46 265-310 118-167 (257)
256 cd06371 PBP1_sensory_GC_DEF_li 44.7 63 0.0014 31.9 6.5 69 228-297 151-228 (382)
257 cd06374 PBP1_mGluR_groupI Liga 44.4 59 0.0013 33.1 6.4 67 229-297 206-279 (472)
258 KOG2231 Predicted E3 ubiquitin 44.4 12 0.00026 41.8 1.6 25 157-181 100-139 (669)
259 PRK11382 frlB fructoselysine-6 44.4 29 0.00063 34.5 4.1 47 267-313 94-144 (340)
260 cd00859 HisRS_anticodon HisRS 44.2 40 0.00086 25.1 3.9 43 227-274 18-60 (91)
261 PF15608 PELOTA_1: PELOTA RNA 44.1 37 0.0008 29.8 4.2 37 262-298 51-89 (100)
262 PF03129 HGTP_anticodon: Antic 44.0 43 0.00093 26.3 4.3 41 229-274 21-61 (94)
263 COG1592 Rubrerythrin [Energy p 43.8 15 0.00033 34.4 2.0 21 140-166 124-144 (166)
264 cd02766 MopB_3 The MopB_3 CD i 43.7 32 0.0007 35.8 4.4 50 264-313 156-210 (501)
265 PRK10490 sensor protein KdpD; 43.5 90 0.002 35.3 8.1 51 249-300 297-347 (895)
266 cd06276 PBP1_FucR_like Ligand- 43.1 92 0.002 28.5 6.8 67 227-298 18-85 (247)
267 TIGR01761 thiaz-red thiazoliny 42.9 24 0.00052 35.9 3.3 124 155-289 2-137 (343)
268 PRK09456 ?-D-glucose-1-phospha 42.9 58 0.0013 29.0 5.4 49 245-299 140-188 (199)
269 cd04795 SIS SIS domain. SIS (S 42.8 47 0.001 25.1 4.2 61 229-296 16-81 (87)
270 cd02753 MopB_Formate-Dh-H Form 42.7 36 0.00078 34.9 4.6 48 264-311 155-207 (512)
271 cd06382 PBP1_iGluR_Kainate N-t 42.7 50 0.0011 31.1 5.2 40 253-292 169-208 (327)
272 COG4338 Uncharacterized protei 42.3 22 0.00048 28.2 2.3 31 158-188 14-45 (54)
273 cd06341 PBP1_ABC_ligand_bindin 41.8 35 0.00076 32.1 4.0 62 229-292 153-215 (341)
274 smart00115 CASc Caspase, inter 41.5 52 0.0011 31.3 5.2 59 206-272 12-79 (241)
275 COG0560 SerB Phosphoserine pho 41.4 1.7E+02 0.0036 27.6 8.4 100 213-312 68-183 (212)
276 cd02765 MopB_4 The MopB_4 CD i 41.2 41 0.00089 35.6 4.8 49 264-312 158-211 (567)
277 TIGR01511 ATPase-IB1_Cu copper 41.2 72 0.0016 34.1 6.7 76 231-313 415-492 (562)
278 TIGR03471 HpnJ hopanoid biosyn 40.9 35 0.00076 35.2 4.2 53 226-292 286-339 (472)
279 cd06288 PBP1_sucrose_transcrip 40.7 1.3E+02 0.0029 26.6 7.3 67 228-298 21-87 (269)
280 cd02759 MopB_Acetylene-hydrata 40.6 41 0.00089 34.5 4.6 48 264-311 159-212 (477)
281 TIGR00338 serB phosphoserine p 40.6 1.1E+02 0.0024 27.3 6.8 28 221-248 84-112 (219)
282 KOG2593 Transcription initiati 40.5 16 0.00035 39.0 1.7 57 111-171 85-143 (436)
283 PRK10826 2-deoxyglucose-6-phos 40.3 2.8E+02 0.0061 25.0 11.3 67 229-302 100-178 (222)
284 TIGR03590 PseG pseudaminic aci 40.2 1.2E+02 0.0026 29.1 7.5 77 230-312 46-125 (279)
285 smart00834 CxxC_CXXC_SSSS Puta 39.9 12 0.00027 25.8 0.5 15 153-167 2-16 (41)
286 PF00072 Response_reg: Respons 39.8 1E+02 0.0022 23.7 5.7 62 228-298 13-80 (112)
287 TIGR00599 rad18 DNA repair pro 39.5 20 0.00043 37.7 2.2 21 157-178 182-202 (397)
288 PF13580 SIS_2: SIS domain; PD 39.3 46 0.00099 28.8 4.1 33 264-296 102-137 (138)
289 PF03720 UDPG_MGDP_dh_C: UDP-g 39.1 48 0.001 27.6 4.0 52 227-280 20-81 (106)
290 COG2179 Predicted hydrolase of 39.1 64 0.0014 30.9 5.2 34 262-297 106-139 (175)
291 PF00702 Hydrolase: haloacid d 38.9 80 0.0017 27.3 5.5 65 228-299 134-205 (215)
292 TIGR02300 FYDLN_acid conserved 38.8 13 0.00028 34.0 0.6 13 156-168 9-21 (129)
293 cd00861 ProRS_anticodon_short 38.6 44 0.00096 26.0 3.5 33 264-297 30-63 (94)
294 cd06389 PBP1_iGluR_AMPA_GluR2 38.5 90 0.002 31.0 6.5 46 253-298 164-213 (370)
295 TIGR01691 enolase-ppase 2,3-di 38.2 94 0.002 29.5 6.3 32 262-296 165-196 (220)
296 TIGR02663 nifX nitrogen fixati 37.8 35 0.00076 29.1 3.1 51 218-269 65-115 (119)
297 PRK09484 3-deoxy-D-manno-octul 37.7 1.4E+02 0.003 27.0 7.0 69 225-302 53-125 (183)
298 TIGR01457 HAD-SF-IIA-hyp2 HAD- 37.5 79 0.0017 29.9 5.7 64 229-298 161-225 (249)
299 TIGR03333 salvage_mtnX 2-hydro 37.4 1.5E+02 0.0033 27.0 7.3 96 212-310 60-179 (214)
300 TIGR00213 GmhB_yaeD D,D-heptos 37.4 2E+02 0.0043 25.5 7.8 20 229-248 34-53 (176)
301 PF13945 NST1: Salt tolerance 37.3 6.7 0.00015 37.5 -1.5 28 138-165 118-150 (190)
302 PRK03359 putative electron tra 37.2 1.2E+02 0.0026 30.0 7.0 64 230-297 45-120 (256)
303 PF13460 NAD_binding_10: NADH( 37.0 27 0.00059 29.9 2.3 72 225-297 10-97 (183)
304 PLN02530 histidine-tRNA ligase 36.9 1.8E+02 0.0039 30.7 8.7 105 208-329 356-477 (487)
305 TIGR01454 AHBA_synth_RP 3-amin 36.4 1.3E+02 0.0028 26.8 6.5 22 227-248 81-102 (205)
306 cd00738 HGTP_anticodon HGTP an 36.4 72 0.0016 24.5 4.4 13 230-242 24-36 (94)
307 PRK07666 fabG 3-ketoacyl-(acyl 36.1 1.8E+02 0.0039 25.9 7.4 70 225-298 19-93 (239)
308 KOG1832 HIV-1 Vpr-binding prot 36.1 17 0.00037 42.5 1.2 29 20-54 895-923 (1516)
309 KOG0717 Molecular chaperone (D 36.1 32 0.0007 37.4 3.1 33 157-192 293-325 (508)
310 TIGR02247 HAD-1A3-hyp Epoxide 35.9 69 0.0015 28.5 4.8 48 245-298 151-198 (211)
311 PTZ00175 diphthine synthase; P 35.7 84 0.0018 31.1 5.7 67 227-297 94-166 (270)
312 PF11814 DUF3335: Peptidase_C3 35.7 58 0.0013 31.8 4.5 22 227-248 57-78 (207)
313 cd02770 MopB_DmsA-EC This CD ( 35.4 60 0.0013 34.7 5.0 50 264-313 165-223 (617)
314 cd05009 SIS_GlmS_GlmD_2 SIS (S 35.3 78 0.0017 26.5 4.7 42 267-309 63-108 (153)
315 COG4391 Uncharacterized protei 35.2 18 0.0004 29.5 0.9 17 153-169 45-61 (62)
316 cd01536 PBP1_ABC_sugar_binding 35.0 1.8E+02 0.0039 25.5 7.1 30 268-297 183-214 (267)
317 TIGR03669 urea_ABC_arch urea A 34.9 83 0.0018 31.4 5.6 64 231-296 155-219 (374)
318 TIGR02726 phenyl_P_delta pheny 34.9 1.9E+02 0.0041 26.5 7.5 68 226-302 40-111 (169)
319 cd01473 vWA_CTRP CTRP for CS 34.8 1.2E+02 0.0026 27.7 6.2 50 250-299 87-149 (192)
320 PF10727 Rossmann-like: Rossma 34.7 99 0.0021 27.4 5.5 70 224-295 20-101 (127)
321 cd02762 MopB_1 The MopB_1 CD i 34.6 46 0.00099 34.8 3.9 102 264-373 155-285 (539)
322 PF10013 DUF2256: Uncharacteri 34.2 23 0.00049 27.0 1.2 19 157-175 9-27 (42)
323 cd06367 PBP1_iGluR_NMDA N-term 34.2 77 0.0017 30.5 5.1 37 262-298 191-231 (362)
324 PRK07239 bifunctional uroporph 34.0 78 0.0017 31.6 5.3 77 220-297 16-106 (381)
325 TIGR02252 DREG-2 REG-2-like, H 33.8 2.2E+02 0.0048 25.1 7.5 64 229-299 113-187 (203)
326 TIGR03479 DMSO_red_II_alp DMSO 33.7 53 0.0012 37.1 4.5 50 264-313 223-277 (912)
327 TIGR01489 DKMTPPase-SF 2,3-dik 33.6 3E+02 0.0066 23.4 10.4 89 222-310 72-185 (188)
328 cd00032 CASc Caspase, interleu 33.2 83 0.0018 29.8 5.1 60 206-272 13-80 (243)
329 PF02590 SPOUT_MTase: Predicte 33.1 1.6E+02 0.0034 27.1 6.6 74 238-312 33-124 (155)
330 cd06385 PBP1_NPR_A Ligand-bind 33.0 98 0.0021 30.4 5.7 63 228-292 167-229 (405)
331 cd06376 PBP1_mGluR_groupIII Li 33.0 1.3E+02 0.0029 30.5 6.8 65 231-297 194-265 (463)
332 cd00293 USP_Like Usp: Universa 32.9 2.3E+02 0.0049 21.7 6.8 37 263-299 67-103 (130)
333 PRK09449 dUMP phosphatase; Pro 32.5 2.2E+02 0.0048 25.5 7.5 28 82-112 5-32 (224)
334 TIGR03407 urea_ABC_UrtA urea A 32.5 1.2E+02 0.0025 29.6 6.0 60 230-291 155-215 (359)
335 TIGR01509 HAD-SF-IA-v3 haloaci 32.5 3.1E+02 0.0067 23.2 8.1 67 228-301 92-169 (183)
336 cd06325 PBP1_ABC_uncharacteriz 32.4 99 0.0022 27.8 5.2 64 227-297 18-89 (281)
337 TIGR01591 Fdh-alpha formate de 32.3 62 0.0013 34.5 4.5 48 264-311 154-206 (671)
338 PRK12570 N-acetylmuramic acid- 32.3 63 0.0014 32.1 4.3 46 266-311 128-177 (296)
339 PF13696 zf-CCHC_2: Zinc knuck 32.3 26 0.00056 25.2 1.2 14 152-165 4-17 (32)
340 PRK11009 aphA acid phosphatase 32.2 62 0.0014 31.4 4.1 22 227-248 120-141 (237)
341 COG3019 Predicted metal-bindin 32.0 84 0.0018 29.5 4.7 49 223-297 34-84 (149)
342 PF03604 DNA_RNApol_7kD: DNA d 31.9 27 0.00058 24.8 1.2 15 151-165 12-26 (32)
343 cd06373 PBP1_NPR_like Ligand b 31.9 63 0.0014 31.6 4.1 61 231-292 168-228 (396)
344 cd00858 GlyRS_anticodon GlyRS 31.7 82 0.0018 26.6 4.3 34 263-298 53-87 (121)
345 cd06359 PBP1_Nba_like Type I p 31.1 1.5E+02 0.0032 28.1 6.4 43 255-297 176-220 (333)
346 TIGR00509 bisC_fam molybdopter 31.0 72 0.0016 35.1 4.8 108 264-373 166-305 (770)
347 cd02769 MopB_DMSOR-BSOR-TMAOR 31.0 74 0.0016 34.1 4.8 108 264-373 169-309 (609)
348 cd01543 PBP1_XylR Ligand-bindi 30.7 1.5E+02 0.0033 26.7 6.1 62 227-298 18-80 (265)
349 cd00368 Molybdopterin-Binding 30.5 79 0.0017 30.4 4.5 48 264-311 155-207 (374)
350 PRK05967 cystathionine beta-ly 30.4 1.4E+02 0.003 30.9 6.5 68 219-293 105-183 (395)
351 PRK11133 serB phosphoserine ph 30.3 1.9E+02 0.0041 29.1 7.3 85 221-312 180-289 (322)
352 cd06344 PBP1_ABC_ligand_bindin 30.3 1.2E+02 0.0027 28.6 5.7 42 256-297 182-223 (332)
353 COG4213 XylF ABC-type xylose t 30.2 83 0.0018 32.9 4.8 69 255-326 71-141 (341)
354 TIGR00640 acid_CoA_mut_C methy 30.2 2.5E+02 0.0055 24.8 7.3 64 229-297 22-91 (132)
355 TIGR01522 ATPase-IIA2_Ca golgi 30.1 1.6E+02 0.0035 33.3 7.4 78 229-312 536-642 (884)
356 COG2086 FixA Electron transfer 29.8 79 0.0017 31.5 4.5 82 230-316 46-143 (260)
357 PRK00464 nrdR transcriptional 29.7 17 0.00036 33.6 -0.2 20 156-175 28-47 (154)
358 COG1231 Monoamine oxidase [Ami 29.7 58 0.0013 35.1 3.7 89 229-331 22-135 (450)
359 KOG3623 Homeobox transcription 29.5 21 0.00046 40.8 0.6 24 91-114 801-824 (1007)
360 PLN02575 haloacid dehalogenase 29.4 2.9E+02 0.0062 29.0 8.6 85 211-300 205-300 (381)
361 cd01544 PBP1_GalR Ligand-bindi 29.4 1.4E+02 0.003 27.1 5.7 59 227-297 24-82 (270)
362 cd01994 Alpha_ANH_like_IV This 29.3 1.3E+02 0.0027 28.1 5.5 55 261-321 54-114 (194)
363 TIGR01993 Pyr-5-nucltdase pyri 29.2 1.3E+02 0.0028 26.3 5.2 44 246-295 141-184 (184)
364 KOG2785 C2H2-type Zn-finger pr 29.1 40 0.00086 35.7 2.4 39 152-190 64-102 (390)
365 PF14336 DUF4392: Domain of un 29.1 1.5E+02 0.0032 29.6 6.2 87 227-330 66-201 (291)
366 PRK10671 copA copper exporting 28.9 1.1E+02 0.0024 34.1 5.9 76 231-312 660-737 (834)
367 smart00851 MGS MGS-like domain 28.8 1.1E+02 0.0024 24.5 4.4 59 228-290 21-86 (90)
368 PF09723 Zn-ribbon_8: Zinc rib 28.8 23 0.0005 25.7 0.5 15 153-167 2-16 (42)
369 TIGR01459 HAD-SF-IIA-hyp4 HAD- 28.6 1.5E+02 0.0032 27.6 5.9 66 229-299 32-105 (242)
370 cd06287 PBP1_LacI_like_8 Ligan 28.4 1.6E+02 0.0035 27.2 6.0 62 227-298 27-88 (269)
371 cd02754 MopB_Nitrate-R-NapA-li 28.4 77 0.0017 33.1 4.3 48 264-311 156-210 (565)
372 TIGR01672 AphA HAD superfamily 28.3 74 0.0016 30.8 3.9 73 227-302 120-197 (237)
373 cd02763 MopB_2 The MopB_2 CD i 28.2 85 0.0018 34.9 4.8 96 264-372 154-272 (679)
374 PLN02779 haloacid dehalogenase 28.2 1.5E+02 0.0033 28.7 6.1 22 227-248 150-171 (286)
375 PRK09186 flagellin modificatio 28.1 1.3E+02 0.0027 27.1 5.1 69 224-295 15-89 (256)
376 PRK14988 GMP/IMP nucleotidase; 28.1 3.7E+02 0.008 24.9 8.3 96 200-298 71-175 (224)
377 COG2185 Sbm Methylmalonyl-CoA 28.1 2.5E+02 0.0054 26.1 7.0 61 229-294 32-96 (143)
378 PRK09492 treR trehalose repres 28.0 2.2E+02 0.0049 26.4 6.9 66 227-297 82-147 (315)
379 PRK00331 glucosamine--fructose 28.0 74 0.0016 33.9 4.2 45 267-311 338-386 (604)
380 TIGR02605 CxxC_CxxC_SSSS putat 28.0 25 0.00054 25.8 0.5 16 153-168 2-17 (52)
381 PRK13582 thrH phosphoserine ph 27.9 1.3E+02 0.0027 26.6 5.0 82 228-310 75-167 (205)
382 TIGR01460 HAD-SF-IIA Haloacid 27.8 2.1E+02 0.0047 26.7 6.8 64 229-297 171-235 (236)
383 PRK15456 universal stress prot 27.7 3.2E+02 0.0069 22.8 7.2 35 265-299 81-115 (142)
384 COG0569 TrkA K+ transport syst 27.5 1.3E+02 0.0029 28.4 5.4 154 224-387 10-186 (225)
385 PLN03086 PRLI-interacting fact 27.5 43 0.00094 36.9 2.4 17 151-167 499-515 (567)
386 cd01454 vWA_norD_type norD typ 27.4 2.5E+02 0.0054 24.5 6.7 36 265-300 103-153 (174)
387 TIGR00433 bioB biotin syntheta 27.3 1.1E+02 0.0025 28.9 4.9 17 227-243 123-139 (296)
388 KOG3623 Homeobox transcription 27.2 23 0.00051 40.5 0.4 38 143-185 913-950 (1007)
389 TIGR01261 hisB_Nterm histidino 27.1 69 0.0015 28.8 3.3 79 220-299 27-130 (161)
390 cd00350 rubredoxin_like Rubred 27.0 32 0.00069 23.9 0.9 11 157-167 2-12 (33)
391 PLN03086 PRLI-interacting fact 26.9 44 0.00096 36.8 2.4 26 154-180 451-476 (567)
392 PRK06947 glucose-1-dehydrogena 26.9 2.3E+02 0.005 25.3 6.6 59 224-286 13-72 (248)
393 cd01019 ZnuA Zinc binding prot 26.8 6E+02 0.013 24.7 10.7 82 228-312 188-274 (286)
394 KOG0287 Postreplication repair 26.7 71 0.0015 34.0 3.7 91 179-287 237-359 (442)
395 PF11823 DUF3343: Protein of u 26.7 1.6E+02 0.0034 23.2 4.9 49 230-292 18-66 (73)
396 cd06384 PBP1_NPR_B Ligand-bind 26.7 1.2E+02 0.0027 29.8 5.2 62 228-292 167-229 (399)
397 COG1997 RPL43A Ribosomal prote 26.7 14 0.00031 31.9 -1.1 12 154-165 33-44 (89)
398 COG1597 LCB5 Sphingosine kinas 26.6 1.5E+02 0.0033 29.4 5.8 27 265-291 58-84 (301)
399 PF14353 CpXC: CpXC protein 26.5 30 0.00065 29.6 0.8 18 156-173 38-55 (128)
400 PRK08674 bifunctional phosphog 26.5 67 0.0014 31.8 3.3 41 267-308 80-123 (337)
401 TIGR01135 glmS glucosamine--fr 26.4 87 0.0019 33.4 4.4 45 267-311 340-388 (607)
402 cd06303 PBP1_LuxPQ_Quorum_Sens 26.3 2.4E+02 0.0053 25.8 6.8 70 257-326 180-258 (280)
403 TIGR01501 MthylAspMutase methy 26.3 2.4E+02 0.0052 25.4 6.5 65 229-298 21-91 (134)
404 PF03145 Sina: Seven in absent 25.8 27 0.00059 32.0 0.5 29 153-182 41-73 (198)
405 PRK10725 fructose-1-P/6-phosph 25.8 1.8E+02 0.0039 25.2 5.5 29 82-112 7-36 (188)
406 PF02602 HEM4: Uroporphyrinoge 25.7 81 0.0017 28.4 3.5 71 229-299 3-83 (231)
407 TIGR01428 HAD_type_II 2-haloal 25.4 2.8E+02 0.006 24.4 6.7 65 231-298 102-174 (198)
408 cd02757 MopB_Arsenate-R This C 25.3 94 0.002 32.7 4.3 48 264-311 161-215 (523)
409 COG5200 LUC7 U1 snRNP componen 25.2 37 0.0008 33.9 1.3 48 131-178 158-210 (258)
410 PRK10727 DNA-binding transcrip 25.2 3.4E+02 0.0073 25.8 7.6 67 227-297 79-146 (343)
411 TIGR03772 anch_rpt_subst ancho 25.2 9E+02 0.02 26.2 11.7 105 204-313 347-467 (479)
412 PLN02981 glucosamine:fructose- 25.2 94 0.002 34.3 4.5 46 266-311 411-460 (680)
413 cd00729 rubredoxin_SM Rubredox 25.0 36 0.00078 24.0 0.9 12 156-167 2-13 (34)
414 PF05764 YL1: YL1 nuclear prot 24.9 55 0.0012 31.6 2.4 14 384-397 35-48 (240)
415 TIGR01663 PNK-3'Pase polynucle 24.9 2.5E+02 0.0054 30.6 7.4 71 231-301 207-296 (526)
416 PF13419 HAD_2: Haloacid dehal 24.9 3.8E+02 0.0083 21.8 8.3 45 245-295 132-176 (176)
417 PRK10339 DNA-binding transcrip 24.5 1.6E+02 0.0036 27.7 5.4 58 227-297 87-144 (327)
418 PRK11914 diacylglycerol kinase 24.5 1.6E+02 0.0034 28.5 5.4 104 220-326 14-131 (306)
419 PF13778 DUF4174: Domain of un 24.3 1.5E+02 0.0033 25.6 4.7 70 246-316 17-105 (118)
420 PF10571 UPF0547: Uncharacteri 24.3 45 0.00097 22.6 1.2 15 153-167 11-25 (26)
421 cd00924 Cyt_c_Oxidase_Vb Cytoc 24.3 30 0.00066 29.9 0.5 13 155-167 78-90 (97)
422 PRK12420 histidyl-tRNA synthet 24.3 4.6E+02 0.01 26.9 8.9 108 194-329 294-413 (423)
423 PRK05948 precorrin-2 methyltra 24.2 1.9E+02 0.0041 28.0 5.8 86 218-307 93-188 (238)
424 PF00958 GMP_synt_C: GMP synth 24.0 40 0.00086 29.1 1.1 22 73-94 69-90 (93)
425 cd02068 radical_SAM_B12_BD B12 23.7 2.6E+02 0.0056 23.4 5.9 64 229-298 8-76 (127)
426 KOG3608 Zn finger proteins [Ge 23.7 47 0.001 35.4 1.8 45 149-193 256-300 (467)
427 TIGR01670 YrbI-phosphatas 3-de 23.6 2.5E+02 0.0053 24.6 6.0 74 229-311 36-114 (154)
428 PF00564 PB1: PB1 domain; Int 23.6 89 0.0019 24.2 2.9 24 269-292 53-76 (84)
429 cd06556 ICL_KPHMT Members of t 23.5 4.3E+02 0.0094 25.8 8.2 49 248-299 153-201 (240)
430 COG0419 SbcC ATPase involved i 23.5 1.4E+02 0.003 33.8 5.4 14 157-170 458-471 (908)
431 PRK13222 phosphoglycolate phos 23.3 3.5E+02 0.0076 24.0 7.0 92 213-308 84-187 (226)
432 PF01565 FAD_binding_4: FAD bi 23.2 1.3E+02 0.0027 25.2 4.0 34 267-300 2-35 (139)
433 smart00531 TFIIE Transcription 23.2 42 0.00092 29.9 1.2 17 155-171 98-114 (147)
434 cd03013 PRX5_like Peroxiredoxi 23.2 1.9E+02 0.0042 25.6 5.3 59 253-312 52-112 (155)
435 COG4957 Predicted transcriptio 23.1 39 0.00085 31.6 1.0 21 157-180 77-97 (148)
436 PF14205 Cys_rich_KTR: Cystein 23.1 40 0.00087 27.0 0.9 11 157-167 5-15 (55)
437 TIGR01656 Histidinol-ppas hist 23.0 2.2E+02 0.0048 24.4 5.5 47 245-297 100-146 (147)
438 PLN02294 cytochrome c oxidase 23.0 36 0.00079 32.5 0.8 15 153-167 138-152 (174)
439 PRK05866 short chain dehydroge 23.0 3.3E+02 0.0072 25.9 7.2 71 224-298 51-126 (293)
440 cd06409 PB1_MUG70 The MUG70 pr 22.8 1.2E+02 0.0026 25.8 3.7 28 267-295 54-81 (86)
441 COG1579 Zn-ribbon protein, pos 22.8 30 0.00065 34.2 0.2 19 149-167 214-232 (239)
442 PTZ00170 D-ribulose-5-phosphat 22.8 4.3E+02 0.0093 25.1 7.9 67 220-293 44-118 (228)
443 PRK00037 hisS histidyl-tRNA sy 22.8 5E+02 0.011 26.1 8.7 100 209-325 279-390 (412)
444 PRK14328 (dimethylallyl)adenos 22.8 1.3E+02 0.0028 31.1 4.7 60 226-297 243-308 (439)
445 cd06320 PBP1_allose_binding Pe 22.7 3.7E+02 0.008 24.2 7.1 43 257-299 172-217 (275)
446 PRK05613 O-acetylhomoserine am 22.6 2.9E+02 0.0063 28.9 7.2 70 219-294 110-190 (437)
447 TIGR03822 AblA_like_2 lysine-2 22.4 3.1E+02 0.0067 27.4 7.1 70 227-296 187-265 (321)
448 PRK13337 putative lipid kinase 22.4 1.8E+02 0.004 28.2 5.4 100 220-325 7-124 (304)
449 PRK10725 fructose-1-P/6-phosph 22.3 1.8E+02 0.0039 25.2 4.8 19 281-299 148-169 (188)
450 COG4196 Uncharacterized protei 22.3 1.6E+02 0.0034 33.1 5.4 90 200-311 322-441 (808)
451 TIGR01662 HAD-SF-IIIA HAD-supe 22.3 1.9E+02 0.004 24.0 4.8 46 245-295 84-130 (132)
452 cd00609 AAT_like Aspartate ami 22.1 2.1E+02 0.0044 26.4 5.4 78 219-296 85-172 (350)
453 PRK05654 acetyl-CoA carboxylas 22.1 38 0.00082 34.0 0.7 69 254-323 145-234 (292)
454 COG0124 HisS Histidyl-tRNA syn 22.0 1.2E+02 0.0026 32.2 4.4 102 195-316 291-421 (429)
455 PRK00075 cbiD cobalt-precorrin 22.0 1.3E+02 0.0028 31.3 4.5 88 214-304 151-260 (361)
456 PRK13225 phosphoglycolate phos 21.9 5.6E+02 0.012 25.0 8.6 29 82-112 64-93 (273)
457 TIGR01580 narG respiratory nit 21.8 1.1E+02 0.0025 36.7 4.5 49 264-312 244-297 (1235)
458 cd01476 VWA_integrin_invertebr 21.5 3.5E+02 0.0075 23.0 6.4 33 267-299 105-141 (163)
459 PF07754 DUF1610: Domain of un 21.4 44 0.00096 22.7 0.7 10 155-164 15-24 (24)
460 KOG4124 Putative transcription 21.4 21 0.00045 37.8 -1.2 30 146-175 388-417 (442)
461 CHL00194 ycf39 Ycf39; Provisio 21.3 1.4E+02 0.0029 28.7 4.2 70 226-297 13-109 (317)
462 cd01989 STK_N The N-terminal d 21.2 4.7E+02 0.01 21.6 7.1 35 264-299 77-113 (146)
463 PRK07478 short chain dehydroge 21.2 2.8E+02 0.006 25.1 6.0 70 224-297 17-91 (254)
464 PF12013 DUF3505: Protein of u 21.1 92 0.002 26.1 2.8 27 155-182 10-36 (109)
465 TIGR00177 molyb_syn molybdenum 21.1 2.8E+02 0.006 24.3 5.8 66 226-297 29-99 (144)
466 cd00851 MTH1175 This uncharact 21.1 1.2E+02 0.0026 24.1 3.3 37 218-256 65-101 (103)
467 PRK12937 short chain dehydroge 21.0 3.4E+02 0.0074 24.1 6.4 71 224-297 16-91 (245)
468 cd02760 MopB_Phenylacetyl-CoA- 21.0 1.5E+02 0.0032 33.4 5.0 50 264-313 172-227 (760)
469 TIGR01990 bPGM beta-phosphoglu 21.0 1.9E+02 0.004 24.8 4.7 29 82-112 1-30 (185)
470 PRK05692 hydroxymethylglutaryl 21.0 2.7E+02 0.0057 27.6 6.3 35 258-292 85-136 (287)
471 cd06301 PBP1_rhizopine_binding 21.0 4.4E+02 0.0095 23.6 7.2 58 269-326 186-252 (272)
472 cd06311 PBP1_ABC_sugar_binding 20.9 4E+02 0.0087 24.0 7.0 30 266-296 186-217 (274)
473 PRK10444 UMP phosphatase; Prov 20.8 2.7E+02 0.0059 26.7 6.2 50 244-298 172-221 (248)
474 cd06283 PBP1_RegR_EndR_KdgR_li 20.7 3E+02 0.0065 24.3 6.0 43 255-297 166-213 (267)
475 PRK06194 hypothetical protein; 20.6 2.9E+02 0.0062 25.5 6.1 69 225-297 18-91 (287)
476 PRK00103 rRNA large subunit me 20.5 4.2E+02 0.0092 24.4 7.1 38 274-311 81-123 (157)
477 TIGR00244 transcriptional regu 20.5 33 0.00071 31.9 -0.1 18 156-173 28-45 (147)
478 PRK13055 putative lipid kinase 20.5 2.1E+02 0.0045 28.5 5.4 102 220-326 8-128 (334)
479 TIGR01973 NuoG NADH-quinone ox 20.4 1.5E+02 0.0033 31.7 4.8 50 264-313 361-416 (603)
480 cd08185 Fe-ADH1 Iron-containin 20.4 4.4E+02 0.0095 26.6 7.7 70 229-298 17-93 (380)
481 PLN02625 uroporphyrin-III C-me 20.3 1.5E+02 0.0032 28.5 4.3 61 254-314 81-145 (263)
482 PRK05576 cobalt-precorrin-2 C( 20.0 1.9E+02 0.004 27.1 4.8 57 257-313 82-142 (229)
No 1
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=98.68 E-value=6.2e-08 Score=81.78 Aligned_cols=81 Identities=28% Similarity=0.318 Sum_probs=69.3
Q ss_pred CCchHHHHhcceEEEEeCC-----CchhHHHHHHHHHHHhh-hCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC-
Q 014872 227 YGLGSELRRAGVFVKTVRD-----KPQAADWALKRQMQHSM-SSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN- 299 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~d-----KPqAAD~ALkrhm~~~m-~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~- 299 (417)
-.+..+|++.||.|..++. .+.++|.+|.-.|...+ .++++++||||.|+||+++++.+|++|.+++|+|-..
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 3467889999999999984 56799999987766555 4689999999999999999999999999999999852
Q ss_pred --Cccccccc
Q 014872 300 --RGLGQHAD 307 (417)
Q Consensus 300 --~~L~R~AD 307 (417)
..|...||
T Consensus 135 ~s~~L~~~~d 144 (149)
T cd06167 135 TSRELRKAAD 144 (149)
T ss_pred ChHHHHHhCC
Confidence 47788887
No 2
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=98.51 E-value=2e-07 Score=77.14 Aligned_cols=81 Identities=31% Similarity=0.417 Sum_probs=53.3
Q ss_pred HHHHhcceEEEEeCC------CchhHHHHHHHHHHHhhh-CCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC--C-CC
Q 014872 231 SELRRAGVFVKTVRD------KPQAADWALKRQMQHSMS-SGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD--S-NR 300 (417)
Q Consensus 231 ~ELkRAGV~VrtV~d------KPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd--~-~~ 300 (417)
..|++.|+.|+.++- ...++|.+|.-.|...+. ..++.+||||.|+||+++++.+|++|.+++|+|. . ..
T Consensus 54 ~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~v~~l~~~g~~V~v~~~~~~~s~ 133 (146)
T PF01936_consen 54 EALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTIVLVSGDSDFAPLVRKLRERGKRVIVVGAEDSASE 133 (146)
T ss_dssp HHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEEEEE---GGGHHHHHHHHHH--EEEEEE-GGGS-H
T ss_pred HHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEEEEEECcHHHHHHHHHHHHcCCEEEEEEeCCCCCH
Confidence 346788888887755 567999999999877774 4479999999999999999999999999999993 1 24
Q ss_pred ccccccccccc
Q 014872 301 GLGQHADLWVP 311 (417)
Q Consensus 301 ~L~R~ADl~fS 311 (417)
.|.+.||-.++
T Consensus 134 ~L~~~ad~f~~ 144 (146)
T PF01936_consen 134 ALRSAADEFIS 144 (146)
T ss_dssp HHHHHSSEEEE
T ss_pred HHHHhcCEEEe
Confidence 78888885543
No 3
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=98.45 E-value=2.8e-06 Score=77.55 Aligned_cols=77 Identities=22% Similarity=0.321 Sum_probs=59.4
Q ss_pred HHHhcceEEEEeCCCchhHHHHHHHHHHHhh-hCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC---CCccccccc
Q 014872 232 ELRRAGVFVKTVRDKPQAADWALKRQMQHSM-SSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS---NRGLGQHAD 307 (417)
Q Consensus 232 ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m-~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~---~~~L~R~AD 307 (417)
.|++.||.+..+.+ +.|++|-=-+..++ +..++++||||.|+||+.++..+|++|.+++|||-- ...|.+.||
T Consensus 74 ~l~~~Gf~pv~~kG---~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L~~acd 150 (160)
T TIGR00288 74 AVVNQGFEPIIVAG---DVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKENGKETIVIGAEPGFSTALQNSAD 150 (160)
T ss_pred HHHHCCceEEEecC---cccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHCCCEEEEEeCCCCChHHHHHhcC
Confidence 56666666655433 88998865544444 578999999999999999999999999999999942 237788887
Q ss_pred cccc
Q 014872 308 LWVP 311 (417)
Q Consensus 308 l~fS 311 (417)
-++.
T Consensus 151 ~FI~ 154 (160)
T TIGR00288 151 IAII 154 (160)
T ss_pred eEEe
Confidence 6543
No 4
>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=97.37 E-value=0.00011 Score=45.82 Aligned_cols=23 Identities=35% Similarity=0.999 Sum_probs=22.0
Q ss_pred eecccCCCCCCChHHHHHHHHHhh
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
|.|+.||+.|++...|++|.+. |
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~-H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR-H 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH-H
T ss_pred CCCCCCCCccCCHHHHHHHHhH-C
Confidence 7899999999999999999998 6
No 5
>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=97.29 E-value=0.00018 Score=43.75 Aligned_cols=24 Identities=25% Similarity=0.895 Sum_probs=20.9
Q ss_pred eecccCCCCCCChHHHHHHHHHhh
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
|.|++||..|++...|.+|+++-|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999999877
No 6
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=97.15 E-value=0.00052 Score=62.61 Aligned_cols=51 Identities=29% Similarity=0.381 Sum_probs=44.7
Q ss_pred hhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC---Cccccccccccch
Q 014872 262 MSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN---RGLGQHADLWVPW 312 (417)
Q Consensus 262 m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~---~~L~R~ADl~fSW 312 (417)
.+-.++++||||.|.||..+++.|+++|.+|+|+|-.. .+|...||-...=
T Consensus 107 ~~~~~D~ivl~SgD~DF~p~v~~~~~~G~rv~v~~~~~~~s~~L~~~aD~~i~L 160 (181)
T COG1432 107 DKKNVDTIVLFSGDGDFIPLVEAARDKGKRVEVAGIEPMTSSDLRNAADYYIDL 160 (181)
T ss_pred cccCCCEEEEEcCCccHHHHHHHHHHcCCEEEEEecCCcCHHHHHHhhcceEEc
Confidence 45689999999999999999999999999999999976 3889999866543
No 7
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=95.96 E-value=0.0035 Score=40.35 Aligned_cols=24 Identities=25% Similarity=0.661 Sum_probs=22.0
Q ss_pred CeecccCCCCCCChHHHHHHHHHh
Q 014872 156 PYICGVCGRKCKTNLDLKKHFKQL 179 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~kHFKQL 179 (417)
||.|.+|++.|.+...|..|.+.=
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 799999999999999999998653
No 8
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.90 E-value=0.0061 Score=36.94 Aligned_cols=24 Identities=38% Similarity=0.815 Sum_probs=21.9
Q ss_pred eecccCCCCCCChHHHHHHHHHhhh
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQLHE 181 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQLHE 181 (417)
|.|..||+.|.+...|..|.+ .|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~-~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR-THX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH-Hhc
Confidence 689999999999999999988 764
No 9
>PHA00616 hypothetical protein
Probab=95.67 E-value=0.0045 Score=46.59 Aligned_cols=27 Identities=22% Similarity=0.550 Sum_probs=25.1
Q ss_pred CeecccCCCCCCChHHHHHHHHHhhhh
Q 014872 156 PYICGVCGRKCKTNLDLKKHFKQLHER 182 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~kHFKQLHER 182 (417)
||.|+-||+.|.....|.+|.++-|-.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCC
Confidence 799999999999999999999988865
No 10
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.32 E-value=0.011 Score=39.01 Aligned_cols=21 Identities=43% Similarity=0.661 Sum_probs=18.5
Q ss_pred eecccCCCCCCChHHHHHHHHH
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQ 178 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQ 178 (417)
..|+.|||+| ..+.|.+|.++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4699999999 88999999864
No 11
>PHA02768 hypothetical protein; Provisional
Probab=94.87 E-value=0.015 Score=45.62 Aligned_cols=25 Identities=24% Similarity=0.654 Sum_probs=23.2
Q ss_pred CeecccCCCCCCChHHHHHHHHHhhh
Q 014872 156 PYICGVCGRKCKTNLDLKKHFKQLHE 181 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~kHFKQLHE 181 (417)
.|.|+.||+.|.....|.+|.|. |.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~-H~ 29 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRK-HN 29 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHh-cC
Confidence 48999999999999999999998 66
No 12
>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=94.47 E-value=0.027 Score=44.28 Aligned_cols=30 Identities=23% Similarity=0.640 Sum_probs=22.5
Q ss_pred CCCCeecccCCCCCCChHHHHHHHHHhhhh
Q 014872 153 PNDPYICGVCGRKCKTNLDLKKHFKQLHER 182 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~~kL~kHFKQLHER 182 (417)
.+.|..||+||+.++..-+|.+|.+--|.-
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 457999999999999999999999988864
No 13
>PHA00732 hypothetical protein
Probab=94.22 E-value=0.026 Score=46.26 Aligned_cols=27 Identities=30% Similarity=0.555 Sum_probs=24.5
Q ss_pred CeecccCCCCCCChHHHHHHHHHhhhh
Q 014872 156 PYICGVCGRKCKTNLDLKKHFKQLHER 182 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~kHFKQLHER 182 (417)
||.|+.||+.|.+...|.+|.+..|..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~ 27 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL 27 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC
Confidence 799999999999999999999877764
No 14
>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=94.14 E-value=0.051 Score=36.46 Aligned_cols=33 Identities=18% Similarity=0.500 Sum_probs=28.3
Q ss_pred CCeecccCCCCCCChHHHHHHHHHhhhhhHHHH
Q 014872 155 DPYICGVCGRKCKTNLDLKKHFKQLHERERQKK 187 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KR 187 (417)
.+|.|.+|+..|.....+..|++.-.-+++.++
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHChHHHHHHHHc
Confidence 479999999999999999999998776666554
No 15
>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=93.81 E-value=0.33 Score=39.22 Aligned_cols=76 Identities=22% Similarity=0.232 Sum_probs=53.1
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCcccc
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQ 304 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R 304 (417)
++.-|++.|..+.++++- . ...+....+.. -+|++++|-. .+..++++.|+++|.++|+|.+. +..+.+
T Consensus 31 ~~~~l~~~~~~~~~~~~~---~---~~~~~~~~~~~-~~~~i~iS~~g~~~~~~~~~~~a~~~g~~iv~iT~~~~~~l~~ 103 (139)
T cd05013 31 LAYKLLRLGKPVVLLSDP---H---LQLMSAANLTP-GDVVIAISFSGETKETVEAAEIAKERGAKVIAITDSANSPLAK 103 (139)
T ss_pred HHHHHHHcCCceEEecCH---H---HHHHHHHcCCC-CCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEEcCCCCChhHH
Confidence 566788889888888542 1 11111112333 4788888854 44778899999999999999995 467888
Q ss_pred ccccccc
Q 014872 305 HADLWVP 311 (417)
Q Consensus 305 ~ADl~fS 311 (417)
.+|..+.
T Consensus 104 ~~d~~i~ 110 (139)
T cd05013 104 LADIVLL 110 (139)
T ss_pred hcCEEEE
Confidence 8987664
No 16
>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=93.63 E-value=0.047 Score=40.95 Aligned_cols=29 Identities=24% Similarity=0.565 Sum_probs=24.3
Q ss_pred CeecccCCCCCCChHHHHHHHHHhhhhhHH
Q 014872 156 PYICGVCGRKCKTNLDLKKHFKQLHERERQ 185 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~kHFKQLHERER~ 185 (417)
-|.||+||+ -.+...|..|+.+-|..++.
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~ 30 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESK 30 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCC
Confidence 488999999 46678999999999998754
No 17
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=93.40 E-value=0.044 Score=34.59 Aligned_cols=22 Identities=18% Similarity=0.789 Sum_probs=20.4
Q ss_pred eecccCCCCCCChHHHHHHHHH
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQ 178 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQ 178 (417)
|.|.+|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 6899999999999999999864
No 18
>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=93.39 E-value=0.031 Score=36.73 Aligned_cols=16 Identities=31% Similarity=0.887 Sum_probs=13.9
Q ss_pred CCCCeecccCCCCCCC
Q 014872 153 PNDPYICGVCGRKCKT 168 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T 168 (417)
.++||.|+.||++|.+
T Consensus 11 ~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 11 GEKPYKCPYCGKSFSN 26 (26)
T ss_dssp SSSSEEESSSSEEESS
T ss_pred CCCCCCCCCCcCeeCc
Confidence 4589999999999975
No 19
>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=92.06 E-value=0.68 Score=40.95 Aligned_cols=68 Identities=18% Similarity=0.171 Sum_probs=51.8
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.+.........+ ..+..++.+.+.+++.||+++.+.+ ..+++.++++++..|++|.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~~~~ipvv~~~~ 86 (259)
T cd01542 19 KGILAALYENGYQMLLMNTNFSIE--KEIEALELLARQKVDGIILLATTIT-DEHREAIKKLNVPVVVVGQ 86 (259)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHhcCCCCEEEEec
Confidence 577888999999998775544333 2345556667899999999976543 5788888999999999986
No 20
>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=91.93 E-value=0.86 Score=40.63 Aligned_cols=99 Identities=21% Similarity=0.292 Sum_probs=69.9
Q ss_pred CchHHHHhcceEEEEe-CCCchhHHHHHHHHHHHhhhCCcceEEEEeCC-cchHHHHHHHHHcCCcEEEEcCCCCccccc
Q 014872 228 GLGSELRRAGVFVKTV-RDKPQAADWALKRQMQHSMSSGVDWMFLVSDD-NDFKEMLRKARDANLGTVVVGDSNRGLGQH 305 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV-~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD-sdF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ 305 (417)
|+...++..|+.+.++ ....+.+ .....++++++.|++.|++..-+ ....++|+.|+++|+..|.+... ......
T Consensus 19 g~~~~a~~~g~~~~~~~~~~~d~~--~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~-~~~~~~ 95 (257)
T PF13407_consen 19 GAKAAAKELGYEVEIVFDAQNDPE--EQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD-EAPDSP 95 (257)
T ss_dssp HHHHHHHHHTCEEEEEEESTTTHH--HHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST-HHTTST
T ss_pred HHHHHHHHcCCEEEEeCCCCCCHH--HHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc-cccccc
Confidence 6678889999999996 4444443 45677888999999999988554 57889999999999988888775 112333
Q ss_pred cccccchhhhhcCcccccccccCC
Q 014872 306 ADLWVPWIEVENGELTERDLVPRT 329 (417)
Q Consensus 306 ADl~fSW~eV~~Gk~~~~~~~~~~ 329 (417)
-+.++.+..-+.|+..-+.+....
T Consensus 96 ~~~~v~~d~~~~G~~~a~~l~~~~ 119 (257)
T PF13407_consen 96 RAAYVGTDNYEAGKLAAEYLAEKL 119 (257)
T ss_dssp SSEEEEE-HHHHHHHHHHHHHHHH
T ss_pred ceeeeeccHHHHHHHHHHHHHHHh
Confidence 334555666667776655554433
No 21
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=91.77 E-value=0.058 Score=53.82 Aligned_cols=52 Identities=19% Similarity=0.359 Sum_probs=43.7
Q ss_pred CCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHhhhhccccchhHHHHHHhhc
Q 014872 155 DPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLNRMKSLKGKKRQKYKERYIS 208 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnrL~S~KGkrR~rl~~~~a~ 208 (417)
-|..|++||+.|...==|+.|+|+ |+=|+.=.+.++..+ .+-|-+|++++--
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiRT-HTGEKPF~C~hC~kA-FADRSNLRAHmQT 237 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIRT-HTGEKPFSCPHCGKA-FADRSNLRAHMQT 237 (279)
T ss_pred CCcccccccccccchHHhhccccc-ccCCCCccCCcccch-hcchHHHHHHHHh
Confidence 578899999999888888889886 888888888888777 7888888888765
No 22
>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=91.46 E-value=0.049 Score=35.62 Aligned_cols=22 Identities=27% Similarity=0.721 Sum_probs=20.4
Q ss_pred eecccCCCCCCChHHHHHHHHH
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQ 178 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQ 178 (417)
|.|.+|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7899999999999999999875
No 23
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=91.35 E-value=0.16 Score=39.61 Aligned_cols=26 Identities=19% Similarity=0.654 Sum_probs=22.8
Q ss_pred CCeecccCCCCCCChHHHHHHHHHhh
Q 014872 155 DPYICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
.++.|.+|+..|++...|..|++.-|
T Consensus 49 ~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 49 ESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred CCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 37999999999999999999999864
No 24
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=91.29 E-value=0.18 Score=31.86 Aligned_cols=24 Identities=33% Similarity=0.701 Sum_probs=19.7
Q ss_pred eecccCCCCCCChHHHHHHHHHhhh
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQLHE 181 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQLHE 181 (417)
|.|+.|..... ...|.+|.+..|.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 79999999888 9999999998873
No 25
>PRK15482 transcriptional regulator MurR; Provisional
Probab=90.89 E-value=0.79 Score=43.54 Aligned_cols=94 Identities=16% Similarity=0.211 Sum_probs=65.0
Q ss_pred hHHHHHHHhhcCCCC----CCC--------chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC---
Q 014872 211 DKYNEAARSLLKPKV----GYG--------LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD--- 275 (417)
Q Consensus 211 ~KY~~AArevL~PKv----GYG--------LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD--- 275 (417)
..+++|+..+...+. |.| ++.-|.+.|..|....|... ...+...+..+ |+++++|-.
T Consensus 123 ~~l~~~~~~i~~A~~I~i~G~G~S~~~A~~l~~~l~~~g~~~~~~~d~~~------~~~~~~~~~~~-Dv~i~iS~sg~t 195 (285)
T PRK15482 123 ARLQKIIEVISKAPFIQITGLGGSALVGRDLSFKLMKIGYRVACEADTHV------QATVSQALKKG-DVQIAISYSGSK 195 (285)
T ss_pred HHHHHHHHHHHhCCeeEEEEeChhHHHHHHHHHHHHhCCCeeEEeccHhH------HHHHHhcCCCC-CEEEEEeCCCCC
Confidence 566677766655432 332 34456688999988754322 12222234445 899999955
Q ss_pred cchHHHHHHHHHcCCcEEEEcCCC-Cccccccccccc
Q 014872 276 NDFKEMLRKARDANLGTVVVGDSN-RGLGQHADLWVP 311 (417)
Q Consensus 276 sdF~~~Lr~AR~~~v~TVVVGd~~-~~L~R~ADl~fS 311 (417)
.+...+++.|+++|+++|.|.+.. +.|.+.||.-|.
T Consensus 196 ~~~~~~~~~a~~~g~~iI~IT~~~~s~la~~ad~~l~ 232 (285)
T PRK15482 196 KEIVLCAEAARKQGATVIAITSLADSPLRRLAHFTLD 232 (285)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCCCCchHHhCCEEEE
Confidence 677788999999999999999964 689999998874
No 26
>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=90.82 E-value=0.43 Score=39.22 Aligned_cols=77 Identities=13% Similarity=0.236 Sum_probs=54.4
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCcccc
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQ 304 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R 304 (417)
++..|.+.|..+....+. . .+..+. ..+ .--++++++|-. .+...+++.||++|+++|++.+. ++.|.+
T Consensus 18 ~~~~l~~~g~~~~~~~~~-~----~~~~~~-~~~-~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~ 90 (128)
T cd05014 18 IAATLSSTGTPAFFLHPT-E----ALHGDL-GMV-TPGDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPNSTLAK 90 (128)
T ss_pred HHHHhhcCCCceEEcccc-h----hhcccc-CcC-CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCchhh
Confidence 445567778888877432 1 111110 112 234788889854 78899999999999999999996 478999
Q ss_pred ccccccch
Q 014872 305 HADLWVPW 312 (417)
Q Consensus 305 ~ADl~fSW 312 (417)
.||..+..
T Consensus 91 ~ad~~l~~ 98 (128)
T cd05014 91 LSDVVLDL 98 (128)
T ss_pred hCCEEEEC
Confidence 99988876
No 27
>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=90.81 E-value=1.1 Score=40.28 Aligned_cols=70 Identities=14% Similarity=0.154 Sum_probs=51.7
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.|-.....-++. ...++++.+...+++.+++++.+.+-..+++.++++++..|+++..
T Consensus 19 ~~i~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~ 88 (269)
T cd06281 19 SGAEDRLRAAGYSLLIANSLNDPE--RELEILRSFEQRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRD 88 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecc
Confidence 467888999999987663322221 2344555667789999999987655567889999999999999863
No 28
>PHA00733 hypothetical protein
Probab=90.54 E-value=0.19 Score=44.13 Aligned_cols=26 Identities=23% Similarity=0.543 Sum_probs=21.4
Q ss_pred CCeecccCCCCCCChHHHHHHHHHhh
Q 014872 155 DPYICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
.||.|++||+.|.....|.+|..+-|
T Consensus 98 ~~~~C~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 98 HSKVCPVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred cCccCCCCCCccCCHHHHHHHHHHhc
Confidence 35888888888888888888888777
No 29
>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=90.53 E-value=1.4 Score=38.95 Aligned_cols=71 Identities=17% Similarity=0.139 Sum_probs=52.1
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
.|+..+++..|+.|.......+..+ ....+..+.+.+++.||+.+.+.+..++++.++++|+..|+++...
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~ 89 (266)
T cd06282 19 QGIQEEARAAGYSLLLATTDYDAER--EADAVETLLRQRVDGLILTVADAATSPALDLLDAERVPYVLAYNDP 89 (266)
T ss_pred HHHHHHHHHCCCEEEEeeCCCCHHH--HHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhCCCCEEEEeccC
Confidence 3677788999999988755433321 2234455677899999998776655668999999999999997643
No 30
>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=90.11 E-value=1.5 Score=39.05 Aligned_cols=70 Identities=17% Similarity=0.225 Sum_probs=51.9
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+..+....+.. .-...+..++..+++.||+.+.++. ..++++.++++|+..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~ 89 (273)
T cd06305 19 AGTKAEAEALGGDLRVYDAGGDDA--KQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVD 89 (273)
T ss_pred HHHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCC
Confidence 467888999999998875433332 1234455567789999999876544 578899999999999988763
No 31
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=90.09 E-value=0.051 Score=60.88 Aligned_cols=37 Identities=32% Similarity=0.695 Sum_probs=25.2
Q ss_pred CCCCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHh
Q 014872 153 PNDPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLN 189 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLn 189 (417)
-+.||.|.|||++|.|.-.|+-||-.=||.+.-+-||
T Consensus 378 GERPfqCnvCG~~FSTkGNLKvH~~rH~e~~p~~~m~ 414 (958)
T KOG1074|consen 378 GERPFQCNVCGNRFSTKGNLKVHFQRHREKYPHVQMN 414 (958)
T ss_pred CCCCeeecccccccccccceeeeeeeccccCCccccC
Confidence 3567777777777777777777776666666444444
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=90.00 E-value=0.078 Score=54.50 Aligned_cols=34 Identities=32% Similarity=0.541 Sum_probs=27.8
Q ss_pred ccCccCCCCCeecccCCCCCCChHHHHHHHHHhh
Q 014872 147 RRGVAVPNDPYICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 147 ~~G~v~p~~PY~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
.++.+..++||+|.|||+|.+..--|+-|.+--|
T Consensus 389 ~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~Hsh 422 (423)
T COG5189 389 MNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKHSH 422 (423)
T ss_pred cccccccCCceeccccchhhccCccceecccccC
Confidence 4556667899999999999999999988876443
No 33
>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=89.79 E-value=1.5 Score=39.59 Aligned_cols=97 Identities=19% Similarity=0.254 Sum_probs=63.4
Q ss_pred CCchHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCCCCc---
Q 014872 227 YGLGSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDSNRG--- 301 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~~~~--- 301 (417)
.|+..+++..|+.|.+..... +.. .....+..+.+.+++-||+++-+.+ ..++++.++++|+..|+++.....
T Consensus 20 ~g~~~~~~~~g~~v~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~~ 97 (271)
T cd06312 20 NGAEDAAKDLGVDVEYRGPETFDVA--DMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYKE 97 (271)
T ss_pred HHHHHHHHHhCCEEEEECCCCCCHH--HHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCcccc
Confidence 467788888999998875432 221 1234555567889999999987654 678899999999999999753211
Q ss_pred cccccccccchhhhhcCccccccccc
Q 014872 302 LGQHADLWVPWIEVENGELTERDLVP 327 (417)
Q Consensus 302 L~R~ADl~fSW~eV~~Gk~~~~~~~~ 327 (417)
..+. .++.++.-..|..--+-|..
T Consensus 98 ~~~~--~~V~~d~~~~g~~~~~~l~~ 121 (271)
T cd06312 98 LGAL--AYVGQDEYAAGEAAGERLAE 121 (271)
T ss_pred ccce--EEeccChHHHHHHHHHHHHH
Confidence 1222 24555656666644444443
No 34
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=89.62 E-value=3.3 Score=44.36 Aligned_cols=94 Identities=19% Similarity=0.227 Sum_probs=65.8
Q ss_pred chHHHHHHHhhcCCCC----CCC--------chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC--
Q 014872 210 NDKYNEAARSLLKPKV----GYG--------LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD-- 275 (417)
Q Consensus 210 ~~KY~~AArevL~PKv----GYG--------LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD-- 275 (417)
.+.+++++..+...+. |.| ++..|.|.|+.+....|. .+.......++.+ +++|++|-.
T Consensus 455 ~~~l~~aa~~L~~a~rI~i~G~G~S~~~A~~~~~~l~~lg~~~~~~~d~------~~~~~~~~~l~~~-DvvI~iS~sG~ 527 (638)
T PRK14101 455 FEHVEQAIDILNNARRIEFYGLGNSNIVAQDAHYKFFRFGIPTIAYGDL------YMQAASAALLGKG-DVIVAVSKSGR 527 (638)
T ss_pred HHHHHHHHHHHhcCCEEEEEEccHHHHHHHHHHHHHhcCCceEEEcCCH------HHHHHHHhcCCCC-CEEEEEeCCCC
Confidence 3677788877766544 433 244577889888876542 2222112223333 789999975
Q ss_pred -cchHHHHHHHHHcCCcEEEEcCCCCcccccccccc
Q 014872 276 -NDFKEMLRKARDANLGTVVVGDSNRGLGQHADLWV 310 (417)
Q Consensus 276 -sdF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~f 310 (417)
.+...+++.||++|+++|.|.+..+.|.+.||+-|
T Consensus 528 t~e~i~~~~~Ak~~Ga~vIaIT~~~spLa~~aD~~L 563 (638)
T PRK14101 528 APELLRVLDVAMQAGAKVIAITSSNTPLAKRATVAL 563 (638)
T ss_pred CHHHHHHHHHHHHCCCeEEEEcCCCChhHhhCCEEE
Confidence 45677888999999999999997788999999877
No 35
>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=89.59 E-value=1.8 Score=38.90 Aligned_cols=69 Identities=13% Similarity=0.187 Sum_probs=52.2
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.|.+..-..+.+. -.+.+..+++.+++.|++.+-+++ +.+.++.++++|+..|+++.
T Consensus 19 ~~i~~~~~~~g~~v~~~~~~~~~~~--~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~ 88 (282)
T cd06318 19 EAAKAHAKALGYELISTDAQGDLTK--QIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDS 88 (282)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCHHH--HHHHHHHHHHcCCCEEEEecCCccchHHHHHHHHHCCCCEEEecC
Confidence 5788899999999887654334332 234566678899999999865543 35788999999999999986
No 36
>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=89.38 E-value=1.5 Score=38.95 Aligned_cols=70 Identities=19% Similarity=0.123 Sum_probs=50.4
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHH-HhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQ-HSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~-~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.+....-..+ . ....+. .+.+.+++.|++++.+....++++.++++++..|+|+..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~-~-~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~ 89 (270)
T cd01545 19 LGALDACRDTGYQLVIEPCDSGSP-D-LAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPG 89 (270)
T ss_pred HHHHHHHHhCCCeEEEEeCCCCch-H-HHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecC
Confidence 578888999999988764332211 1 233333 345789999999986655678899999999999999753
No 37
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=88.60 E-value=1.7 Score=42.72 Aligned_cols=70 Identities=11% Similarity=0.160 Sum_probs=52.1
Q ss_pred CCchHHHHhcceEEEEe-CCCchhHHHHHHHHHHHhhhCCcceEEEEeC-CcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTV-RDKPQAADWALKRQMQHSMSSGVDWMFLVSD-DNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV-~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSD-DsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
-|+..+.++.|+.|... +....++. -...|+.++..|++.|++++- ..-+.+.|+.|+++|+..|++...
T Consensus 43 ~Gi~~aa~~~G~~v~~~~~~~~d~~~--q~~~i~~li~~~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~ 114 (336)
T PRK15408 43 NGAKEAGKELGVDVTYDGPTEPSVSG--QVQLINNFVNQGYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSD 114 (336)
T ss_pred HHHHHHHHHhCCEEEEECCCCCCHHH--HHHHHHHHHHcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCC
Confidence 47788899999999763 22222221 135677788999999999874 445689999999999999988763
No 38
>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=88.56 E-value=0.31 Score=46.83 Aligned_cols=47 Identities=26% Similarity=0.517 Sum_probs=30.6
Q ss_pred CCCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHhhhhccccchhHHHHHHhhcc
Q 014872 154 NDPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLNRMKSLKGKKRQKYKERYISG 209 (417)
Q Consensus 154 ~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnrL~S~KGkrR~rl~~~~a~k 209 (417)
..-|+|++||+.|+..+=..||++.-|+.. |..+ ++...|...|+.-
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~----ve~~-----~~ev~~fnnY~~D 121 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPEK----VEEV-----KKEVEYFNNYLLD 121 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HHH----HHHH-----HHHHHHHHHH---
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHHH----HHHH-----HHHHHHHHHHhcC
Confidence 346999999999999999999999999853 2222 1345577777653
No 39
>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=88.29 E-value=3.1 Score=39.18 Aligned_cols=68 Identities=15% Similarity=0.240 Sum_probs=52.1
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
|+..+++..|+.+.+...-.+.+ .-.++++.+++.+++.|++++-+.. ..+.++.++++++..|+++.
T Consensus 19 ~i~~~a~~~g~~v~~~~~~~~~~--~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~ 87 (302)
T TIGR02634 19 IFVAAAESLGAKVFVQSANGNEA--KQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDR 87 (302)
T ss_pred HHHHHHHhcCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecC
Confidence 67888999999987664322222 2345677778899999999997755 57899999999999888865
No 40
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=88.14 E-value=1.6 Score=41.02 Aligned_cols=94 Identities=17% Similarity=0.215 Sum_probs=62.1
Q ss_pred chHHHHHHHhhcCCCC----CCC--------chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC--
Q 014872 210 NDKYNEAARSLLKPKV----GYG--------LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD-- 275 (417)
Q Consensus 210 ~~KY~~AArevL~PKv----GYG--------LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD-- 275 (417)
..+.++++..+...+. |.| ++.-|.|.|..+....|.-. . ......++. -|+++.+|=.
T Consensus 115 ~~~l~~~~~~i~~a~~I~i~G~G~s~~~A~~~~~~l~~~g~~~~~~~d~~~-~-----~~~~~~~~~-~Dv~I~iS~sg~ 187 (278)
T PRK11557 115 EEKLHECVTMLRSARRIILTGIGASGLVAQNFAWKLMKIGINAVAERDMHA-L-----LATVQALSP-DDLLLAISYSGE 187 (278)
T ss_pred HHHHHHHHHHHhcCCeEEEEecChhHHHHHHHHHHHhhCCCeEEEcCChHH-H-----HHHHHhCCC-CCEEEEEcCCCC
Confidence 3566667666655432 433 34457888998877644211 1 111112333 4677888844
Q ss_pred -cchHHHHHHHHHcCCcEEEEcCC-CCcccccccccc
Q 014872 276 -NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWV 310 (417)
Q Consensus 276 -sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~f 310 (417)
.+...+++.|+++|+++|+|.+. .+.+.+.||.-|
T Consensus 188 ~~~~~~~~~~ak~~ga~iI~IT~~~~s~la~~ad~~l 224 (278)
T PRK11557 188 RRELNLAADEALRVGAKVLAITGFTPNALQQRASHCL 224 (278)
T ss_pred CHHHHHHHHHHHHcCCCEEEEcCCCCCchHHhCCEEE
Confidence 45568899999999999999996 578999999877
No 41
>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=88.11 E-value=2.4 Score=38.76 Aligned_cols=70 Identities=16% Similarity=0.107 Sum_probs=54.4
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+....-..+.. -...++..++.++++-|++.+-+++ ..+.++.+.++++..|+++..
T Consensus 19 ~gi~~~~~~~G~~~~~~~~~~d~~--~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (272)
T cd06313 19 QAADEAGKLLGVDVTWYGGALDAV--KQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTL 89 (272)
T ss_pred HHHHHHHHHcCCEEEEecCCCCHH--HHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCC
Confidence 467788889999999875444433 3456677788899999999886655 567889999999999999763
No 42
>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=87.98 E-value=2.2 Score=38.81 Aligned_cols=69 Identities=22% Similarity=0.287 Sum_probs=51.2
Q ss_pred CCchHHHHhcceEEEEeCCC--chhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDK--PQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dK--PqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.+...... +.+. .....++.+++.+++-|++++-+.+....+..++.+|+..|+++.
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~~~--~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~~giPvV~~~~ 89 (268)
T cd06306 19 YGMVEEAKRLGVSLKLLEAGGYPNLA--KQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVAASIPVIALVN 89 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCCHH--HHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHHCCCCEEEecc
Confidence 47888999999999877422 3232 234556667889999999998665543368889999999998965
No 43
>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=87.83 E-value=0.35 Score=36.25 Aligned_cols=25 Identities=20% Similarity=0.669 Sum_probs=21.3
Q ss_pred CCCeecccCCCCCCChHHHHHHHHHhh
Q 014872 154 NDPYICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 154 ~~PY~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
.+.++||+|..++.. +|.+|++..|
T Consensus 29 ~~~v~CPiC~~~~~~--~l~~Hl~~~H 53 (54)
T PF05605_consen 29 SKNVVCPICSSRVTD--NLIRHLNSQH 53 (54)
T ss_pred CCCccCCCchhhhhh--HHHHHHHHhc
Confidence 357999999997664 9999999888
No 44
>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=87.63 E-value=2.8 Score=37.27 Aligned_cols=69 Identities=16% Similarity=0.185 Sum_probs=51.4
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.|.++...-... .....++.+++.+++-|++.+.+.+ ...++.++++|+..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiIi~~~~~~-~~~~~~l~~~~ipvV~~~~~ 87 (265)
T cd06299 19 TAIQDAASAAGYSTIIGNSDENPE--TENRYLDNLLSQRVDGIIVVPHEQS-AEQLEDLLKRGIPVVFVDRE 87 (265)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHHhcCCCEEEEcCCCCC-hHHHHHHHhCCCCEEEEecc
Confidence 377888999999999874321111 2345566678899999999876654 35689999999999999874
No 45
>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=87.57 E-value=2.2 Score=39.83 Aligned_cols=70 Identities=13% Similarity=0.158 Sum_probs=51.1
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhC--CcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSS--GVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~r--gv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+..+....+.. .....+..+.+. +++.|++.+.+.....+++.++++|+..|+++..
T Consensus 20 ~gi~~~~~~~g~~v~~~~~~~~~~--~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~~~giPvV~~~~~ 91 (305)
T cd06324 20 RFMQAAADDLGIELEVLYAERDRF--LMLQQARTILQRPDKPDALIFTNEKSVAPELLRLAEGAGVKLFLVNSG 91 (305)
T ss_pred HHHHHHHHhcCCeEEEEeCCCCHH--HHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHHHhCCCeEEEEecC
Confidence 478888999999987764322221 123344556778 9999999876655677899999999999999753
No 46
>PHA00733 hypothetical protein
Probab=87.40 E-value=0.49 Score=41.67 Aligned_cols=26 Identities=27% Similarity=0.696 Sum_probs=23.4
Q ss_pred CCCCeecccCCCCCCChHHHHHHHHH
Q 014872 153 PNDPYICGVCGRKCKTNLDLKKHFKQ 178 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~~kL~kHFKQ 178 (417)
...||.|+.||+.|++...|..|.+.
T Consensus 70 ~~kPy~C~~Cgk~Fss~s~L~~H~r~ 95 (128)
T PHA00733 70 AVSPYVCPLCLMPFSSSVSLKQHIRY 95 (128)
T ss_pred CCCCccCCCCCCcCCCHHHHHHHHhc
Confidence 35789999999999999999999874
No 47
>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=87.26 E-value=2.6 Score=38.15 Aligned_cols=68 Identities=15% Similarity=0.169 Sum_probs=50.8
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcch-HHHHHHHHHcCCcEEEEcCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDF-KEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF-~~~Lr~AR~~~v~TVVVGd~ 298 (417)
|+..+++..|+.+..+... +.. . ....+..++.++++-||+.+.++.. .++++.++++|+..|+++..
T Consensus 20 gi~~~~~~~g~~~~~~~~~-~~~-~-~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~ 88 (289)
T cd01540 20 FAKKAAKEKGFTVVKIDVP-DGE-K-VLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDR 88 (289)
T ss_pred HHHHHHHHcCCEEEEccCC-CHH-H-HHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCC
Confidence 6678888999998876332 322 1 2345666778999999999877654 45789999999999999763
No 48
>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=87.15 E-value=1.6 Score=38.72 Aligned_cols=71 Identities=20% Similarity=0.223 Sum_probs=53.5
Q ss_pred hHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCccccc
Q 014872 230 GSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQH 305 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ 305 (417)
+..|.+.|..|..+.+. .+ ..-..-++++.+|-. .+...+++.|+++|+++|.|.+. .+.|.+.
T Consensus 52 ~~~l~~~g~~~~~~~~~-~~-----------~~~~~~D~vI~iS~sG~t~~~i~~~~~ak~~g~~iI~IT~~~~s~la~~ 119 (179)
T cd05005 52 AMRLMHLGLNVYVVGET-TT-----------PAIGPGDLLIAISGSGETSSVVNAAEKAKKAGAKVVLITSNPDSPLAKL 119 (179)
T ss_pred HHHHHhCCCeEEEeCCC-CC-----------CCCCCCCEEEEEcCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCchHHh
Confidence 44677889999888652 11 112345788888855 67788999999999999999996 4689999
Q ss_pred cccccch
Q 014872 306 ADLWVPW 312 (417)
Q Consensus 306 ADl~fSW 312 (417)
||..|..
T Consensus 120 ad~~l~~ 126 (179)
T cd05005 120 ADVVVVI 126 (179)
T ss_pred CCEEEEe
Confidence 9998854
No 49
>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=87.08 E-value=3 Score=37.42 Aligned_cols=70 Identities=14% Similarity=0.226 Sum_probs=50.1
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc----hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND----FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd----F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+-+....-+.. -....++.++..+++.|++.+-+++ ...+++.++++++..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 92 (273)
T cd01541 19 RGIESVLSEKGYSLLLASTNNDPE--RERKCLENMLSQGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINAS 92 (273)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecC
Confidence 477889999999997654322221 1233455567899999999865432 457889999999999999864
No 50
>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=86.89 E-value=3.4 Score=36.80 Aligned_cols=70 Identities=21% Similarity=0.284 Sum_probs=51.7
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.+.....+.. .....+..+...+++.|++.+.+.+ ..+.++.++++++..|.++..
T Consensus 20 ~g~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~ 90 (275)
T cd06317 20 KAFQAAAEEDGVEVIVLDANGDVA--RQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSN 90 (275)
T ss_pred HHHHHHHHhcCCEEEEEcCCcCHH--HHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCC
Confidence 366778888999998875433332 2334566677889999999886655 468889999999999988763
No 51
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=86.36 E-value=0.061 Score=52.61 Aligned_cols=41 Identities=24% Similarity=0.457 Sum_probs=32.3
Q ss_pred CCCCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHhhhhcc
Q 014872 153 PNDPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLNRMKSL 194 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnrL~S~ 194 (417)
+.+.|+|..||++|-.-.+|++|.|+ |+--|.=|++.++-+
T Consensus 142 ~vkr~lct~cgkgfndtfdlkrh~rt-htgvrpykc~~c~ka 182 (267)
T KOG3576|consen 142 DVKRHLCTFCGKGFNDTFDLKRHTRT-HTGVRPYKCSLCEKA 182 (267)
T ss_pred HHHHHHHhhccCcccchhhhhhhhcc-ccCccccchhhhhHH
Confidence 44678888888888888888888876 777888888777655
No 52
>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=86.34 E-value=3.3 Score=38.59 Aligned_cols=69 Identities=26% Similarity=0.358 Sum_probs=52.2
Q ss_pred CCchHHHHhcceEEEEe-CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTV-RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV-~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.|..+ ....+.+ .....+..+.+.+++-|++++-+.+ +.++++.++++++..|+++.
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~~d~~--~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~ 89 (298)
T cd06302 19 EGAKEAAKELGVDAIYVGPTTADAA--GQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDS 89 (298)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCHH--HHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcC
Confidence 47888999999999875 3333333 1235556667889999999975544 77889999999999999975
No 53
>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=86.23 E-value=2.1 Score=37.81 Aligned_cols=69 Identities=20% Similarity=0.287 Sum_probs=51.5
Q ss_pred HHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCcccccc
Q 014872 231 SELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQHA 306 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~A 306 (417)
.-|.+.|..+..+.+.- ...+.. =+++|++|-. .+-.++++.|+++|+++|.|.+. .+.|.+.|
T Consensus 50 ~~l~~~g~~~~~~~~~~-----------~~~~~~-~Dv~I~iS~sG~t~~~i~~~~~ak~~g~~ii~IT~~~~s~la~~a 117 (179)
T TIGR03127 50 MRLMHLGFNVYVVGETT-----------TPSIKK-GDLLIAISGSGETESLVTVAKKAKEIGATVAAITTNPESTLGKLA 117 (179)
T ss_pred HHHHhCCCeEEEeCCcc-----------cCCCCC-CCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCchHHhC
Confidence 44778899998886521 012223 4788888865 56778889999999999999885 57899999
Q ss_pred ccccc
Q 014872 307 DLWVP 311 (417)
Q Consensus 307 Dl~fS 311 (417)
|.-|.
T Consensus 118 d~~l~ 122 (179)
T TIGR03127 118 DVVVE 122 (179)
T ss_pred CEEEE
Confidence 98764
No 54
>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=85.89 E-value=3.6 Score=36.86 Aligned_cols=68 Identities=16% Similarity=0.140 Sum_probs=49.4
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.+.++......+ .-+..++.+++++++.+++++-+..- ..++.++++|+..|+++.
T Consensus 19 ~g~~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~~ipvV~~~~ 86 (268)
T cd06270 19 SGVESVARKAGKHLIITAGHHSAE--KEREAIEFLLERRCDALILHSKALSD-DELIELAAQVPPLVLINR 86 (268)
T ss_pred HHHHHHHHHCCCEEEEEeCCCchH--HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhCCCCEEEEec
Confidence 477888999999999775433332 12455666788999999998743221 238889999999999976
No 55
>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=85.83 E-value=2.8 Score=38.82 Aligned_cols=70 Identities=14% Similarity=0.165 Sum_probs=48.5
Q ss_pred CCchHHHHhcceE-EEEeCCC-chhHHHHHHHHHHHhhhCCcceEEEEeCCc-chHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVF-VKTVRDK-PQAADWALKRQMQHSMSSGVDWMFLVSDDN-DFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~-VrtV~dK-PqAAD~ALkrhm~~~m~rgv~cLvLVSDDs-dF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+. +...... .+.+ -....++.+++.+++-||+++-++ .....++.++++|+..|+++..
T Consensus 18 ~gi~~~a~~~g~~~~i~~~~~~~d~~--~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~ 90 (302)
T TIGR02637 18 KGAEEAAKELGSVYIIYTGPTGTTAE--GQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSG 90 (302)
T ss_pred HHHHHHHHHhCCeeEEEECCCCCCHH--HHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCC
Confidence 4778889999954 3332111 1222 123566777889999999988654 4567899999999999999753
No 56
>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=85.52 E-value=3.1 Score=37.37 Aligned_cols=70 Identities=14% Similarity=0.205 Sum_probs=49.8
Q ss_pred CCchHHHHhcceEEEEeCC--CchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRD--KPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~d--KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+..+.- ..... .-.+.++.+...+++.||+++.+++ ....++.++++++..|.++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~ 91 (275)
T cd06320 19 EGYENEAKKLGVSVDIQAAPSEGDQQ--GQLSIAENMINKGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDK 91 (275)
T ss_pred HHHHHHHHHhCCeEEEEccCCCCCHH--HHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCC
Confidence 5888999999999887631 22221 1224455567789999999876544 456789999999999988763
No 57
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=85.33 E-value=3.9 Score=37.84 Aligned_cols=71 Identities=15% Similarity=0.202 Sum_probs=53.0
Q ss_pred CCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcch-HHHHHHHHHcCCcEEEEcCC
Q 014872 226 GYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDF-KEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 226 GYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF-~~~Lr~AR~~~v~TVVVGd~ 298 (417)
..|+..++++.|+.+.......+.. . ....++++...+++.|++.+.+++. ...++.+++.|+..|+++..
T Consensus 45 ~~~i~~~~~~~G~~~~~~~~~~d~~-~-~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 116 (295)
T PRK10653 45 KDGAQKEADKLGYNLVVLDSQNNPA-K-ELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRG 116 (295)
T ss_pred HHHHHHHHHHcCCeEEEecCCCCHH-H-HHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccC
Confidence 3688999999999988764433332 1 1344556678899999998877654 57899999999999999863
No 58
>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=85.29 E-value=2.8 Score=38.36 Aligned_cols=70 Identities=9% Similarity=0.244 Sum_probs=49.1
Q ss_pred CCchHHHHhcceEEEEe--CCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTV--RDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV--~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
-|+..+|+..|+.+... ...+ ..++ .-...+..+++++++.||+.+++....+.++.+.+++.-.|++.+
T Consensus 20 ~~i~~~~~~~g~~~~~~~~~~~~~~~~~-~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l~~~~~p~V~i~~ 92 (280)
T cd06303 20 ASFTARLEELNIPYELTQFSSRPGIDHR-LQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVLASGKTKIILQN 92 (280)
T ss_pred HHHHHHHHHcCCcEEEEEeccCcccCHH-HHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHHHhCCCCeEEEeC
Confidence 37788999999877764 2222 1111 123556667889999999987665567888888888877788865
No 59
>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=85.24 E-value=5.6 Score=35.76 Aligned_cols=69 Identities=10% Similarity=0.200 Sum_probs=50.7
Q ss_pred CCchHHHHhc-ceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRA-GVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRA-GV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++. |+.|-+... ....+ .....++.+.+++++-|++++.+.+ +.+.++.+++.++..|+++.
T Consensus 19 ~~i~~~~~~~~g~~~~~~~~-~~~~~-~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~ 89 (270)
T cd06308 19 DEIQREASNYPDVELIIADA-ADDNS-KQVADIENFIRQGVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDR 89 (270)
T ss_pred HHHHHHHHhcCCcEEEEEcC-CCCHH-HHHHHHHHHHHhCCCEEEEecCchhhchHHHHHHHHCCCCEEEeCC
Confidence 5778888885 898876633 22221 1234566678899999999886654 57788999999999999986
No 60
>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=85.23 E-value=4.5 Score=35.78 Aligned_cols=70 Identities=17% Similarity=0.268 Sum_probs=50.0
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.......+.. .....++.+++.+++-|++++-+..-.++++.++++|+..|.++..
T Consensus 19 ~g~~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~ 88 (268)
T cd06289 19 AGLEEVLEEAGYTVFLANSGEDVE--RQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVARE 88 (268)
T ss_pred HHHHHHHHHcCCeEEEecCCCChH--HHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEecc
Confidence 466678888899887764333322 2344556677899999999875544345899999999999999753
No 61
>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=85.08 E-value=5.7 Score=35.10 Aligned_cols=70 Identities=17% Similarity=0.277 Sum_probs=52.4
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcch-HHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDF-KEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF-~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+.......+.. ..+..+..++..+++-+++++.++.. .++++.++++++..|+++..
T Consensus 19 ~~i~~~~~~~g~~v~~~~~~~~~~--~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~ 89 (268)
T cd06323 19 DGAQKEAKELGYELTVLDAQNDAA--KQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDRE 89 (268)
T ss_pred HHHHHHHHHcCceEEecCCCCCHH--HHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccC
Confidence 478889999999998775543333 22355666677899999998876654 46789999999999999774
No 62
>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=84.77 E-value=4.5 Score=36.20 Aligned_cols=70 Identities=14% Similarity=0.221 Sum_probs=50.9
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+......-+.+. -...+..+++.+++-+++.+.+++ ..++++.+.++++..|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~--~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 89 (277)
T cd06319 19 RGVKSKAKALGYDAVELSAENSAKK--ELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIG 89 (277)
T ss_pred HHHHHHHHhcCCeEEEecCCCCHHH--HHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecC
Confidence 5777889999999987754322221 123344456789999998887766 457899999999999999753
No 63
>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=84.70 E-value=7.4 Score=34.84 Aligned_cols=70 Identities=20% Similarity=0.255 Sum_probs=53.1
Q ss_pred CCchHHHHh-cceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRR-AGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkR-AGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++ .|+.+.+....-+.+ -.++.+..+++.+++-|++.+-+++ ..++++.+.++++..|+++..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~ 90 (272)
T cd06301 19 NAMKEHAKVLGGVELQFEDAKNDVA--TQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRR 90 (272)
T ss_pred HHHHHHHHHcCCcEEEEeCCCCCHH--HHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCC
Confidence 578888999 899998864432332 2335566778899999999887765 457889999999999999874
No 64
>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=84.63 E-value=4.6 Score=36.33 Aligned_cols=64 Identities=16% Similarity=0.225 Sum_probs=46.2
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhh-hCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSM-SSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m-~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
|+..+++..|+.+.++.-.++ . ..++.+.+ ..+++.|++++.+.+ ...++.++++|+.+|++|-
T Consensus 31 gi~~~~~~~g~~~~v~~~~~~-~----~~~~~~~l~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~ 95 (275)
T cd06295 31 GIADALAERGYDLLLSFVSSP-D----RDWLARYLASGRADGVILIGQHDQ-DPLPERLAETGLPFVVWGR 95 (275)
T ss_pred HHHHHHHHcCCEEEEEeCCch-h----HHHHHHHHHhCCCCEEEEeCCCCC-hHHHHHHHhCCCCEEEECC
Confidence 457888999999887754444 1 12333333 578999999876544 5678999999999999975
No 65
>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=84.59 E-value=5.1 Score=36.92 Aligned_cols=69 Identities=19% Similarity=0.287 Sum_probs=52.5
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.+.+........ .....+..+...+++-|++++.+.+ ..+.++.++++|+..|+++.
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~ 88 (288)
T cd01538 19 PNFEAALKELGAEVIVQNANGDPA--KQISQIENMIAKGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDR 88 (288)
T ss_pred HHHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECC
Confidence 478889999999999875533322 1345555677899999999986544 67899999999998888875
No 66
>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=84.48 E-value=5 Score=35.81 Aligned_cols=69 Identities=14% Similarity=0.175 Sum_probs=49.2
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..+++..|+.+.+.....+.. . -...+..+++.+++.|++.+-+.+ +.++++.++++|+..|.++.
T Consensus 19 ~~i~~~~~~~g~~~~i~~~~~~~~-~-~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~ 88 (267)
T cd06322 19 NAMKEEAKKQKVNLIVSIANQDLN-K-QLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDI 88 (267)
T ss_pred HHHHHHHHhcCCEEEEecCCCCHH-H-HHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEcc
Confidence 577888999999987653322221 1 123344567899999999775543 67889999999999999975
No 67
>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=84.42 E-value=0.65 Score=34.89 Aligned_cols=22 Identities=32% Similarity=0.683 Sum_probs=11.8
Q ss_pred ecccCCCCCCCh--HHHHHHHHHh
Q 014872 158 ICGVCGRKCKTN--LDLKKHFKQL 179 (417)
Q Consensus 158 ~C~VCGRkf~T~--~kL~kHFKQL 179 (417)
.||||||.|... .+|.+++++-
T Consensus 22 ~CPlC~r~l~~e~~~~li~~~~~~ 45 (54)
T PF04423_consen 22 CCPLCGRPLDEEHRQELIKKYKSE 45 (54)
T ss_dssp E-TTT--EE-HHHHHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHHHHHHHH
Confidence 999999999844 4555555543
No 68
>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=84.32 E-value=4.7 Score=37.08 Aligned_cols=70 Identities=17% Similarity=0.237 Sum_probs=51.3
Q ss_pred CCchHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+..+.... .++ ....++..++..+++-||+++.+.. ..++++.++++|+..|+++..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~~--~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 90 (294)
T cd06316 19 RGAKDEFAKLGIEVVATTDAQFDPA--KQVADIETTISQKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNV 90 (294)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCHH--HHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCC
Confidence 467888999999987553322 222 2335566677889999999876654 578899999999999998774
No 69
>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=84.08 E-value=6.4 Score=35.53 Aligned_cols=96 Identities=16% Similarity=0.173 Sum_probs=62.5
Q ss_pred CCCCchHHHHhcceEEEEeC-CCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCCCCcc
Q 014872 225 VGYGLGSELRRAGVFVKTVR-DKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDSNRGL 302 (417)
Q Consensus 225 vGYGLA~ELkRAGV~VrtV~-dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~~~~L 302 (417)
+..|+..++++.|+.+..+. ....+.. ....+..+++++++-|++.+-+.+ ..++++.+.+ ++.+|+++......
T Consensus 16 ~~~gi~~~~~~~g~~~~~~~~~~~~~~~--~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~-~ipvV~~~~~~~~~ 92 (271)
T cd06314 16 AEAGVKAAGKELGVDVEFVVPQQGTVNA--QLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAAA-GIKLITTDSDAPDS 92 (271)
T ss_pred HHHHHHHHHHHcCCeEEEeCCCCCCHHH--HHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHhc-CCCEEEecCCCCcc
Confidence 34688899999999998874 2222221 234566678899999999876543 5688898888 99999998633222
Q ss_pred ccccccccchhhhhcCccccccc
Q 014872 303 GQHADLWVPWIEVENGELTERDL 325 (417)
Q Consensus 303 ~R~ADl~fSW~eV~~Gk~~~~~~ 325 (417)
.+.+ ++..+....|+.-.+-|
T Consensus 93 ~~~~--~V~~D~~~~g~~a~~~l 113 (271)
T cd06314 93 GRYV--YIGTDNYAAGRTAGEIM 113 (271)
T ss_pred ceeE--EEccChHHHHHHHHHHH
Confidence 3333 34444455555544444
No 70
>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=83.83 E-value=1.3 Score=35.91 Aligned_cols=47 Identities=19% Similarity=0.316 Sum_probs=37.8
Q ss_pred CcceEEEEeC---CcchHHHHHHHHHcCCcEEEEcCC-CCccccccccccc
Q 014872 265 GVDWMFLVSD---DNDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVP 311 (417)
Q Consensus 265 gv~cLvLVSD---DsdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fS 311 (417)
.-++++++|- ..+..+.++.|+++|+++|+|.+. +..+.+.||.-|.
T Consensus 53 ~~d~vi~is~sg~~~~~~~~~~~ak~~g~~vi~iT~~~~~~l~~~ad~~l~ 103 (131)
T PF01380_consen 53 PDDLVIIISYSGETRELIELLRFAKERGAPVILITSNSESPLARLADIVLY 103 (131)
T ss_dssp TTEEEEEEESSSTTHHHHHHHHHHHHTTSEEEEEESSTTSHHHHHSSEEEE
T ss_pred ccceeEeeeccccchhhhhhhHHHHhcCCeEEEEeCCCCCchhhhCCEEEE
Confidence 3488888884 456778889999999999999985 5789999987653
No 71
>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=83.60 E-value=2.6 Score=38.95 Aligned_cols=68 Identities=18% Similarity=0.229 Sum_probs=51.2
Q ss_pred chHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 229 LGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
+...|++.|+.|-.....|. +.| ...++..+...+++.|+|.....+...+++.+++.|+...++|..
T Consensus 155 ~~~~~~~~g~~v~~~~~~~~~~~d--~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (334)
T cd06342 155 FKKALKAAGGKVVAREGTTDGATD--FSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKAPFMGGD 223 (334)
T ss_pred HHHHHHHcCCEEEEEecCCCCCcc--HHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCCcEEecC
Confidence 34567777887765544443 333 445566667789999999999999999999999999998888763
No 72
>PRK13937 phosphoheptose isomerase; Provisional
Probab=83.50 E-value=4.2 Score=37.01 Aligned_cols=48 Identities=17% Similarity=0.167 Sum_probs=40.0
Q ss_pred ceEEEEeC---CcchHHHHHHHHHcCCcEEEEcCC-CCccccccccccchhh
Q 014872 267 DWMFLVSD---DNDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVPWIE 314 (417)
Q Consensus 267 ~cLvLVSD---DsdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fSW~e 314 (417)
+.++.+|- ..+-..+++.|+++|++||.+.+. .+.|.+.||..+....
T Consensus 108 Dl~i~iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~~s~L~~~ad~~l~~~~ 159 (188)
T PRK13937 108 DVLIGISTSGNSPNVLAALEKARELGMKTIGLTGRDGGKMKELCDHLLIVPS 159 (188)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEEeCC
Confidence 88888884 567788999999999999999874 5789999999876543
No 73
>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=83.29 E-value=5.5 Score=35.87 Aligned_cols=70 Identities=14% Similarity=0.275 Sum_probs=53.2
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+......-++.. -.+.+..++..+++-|++.+.+.+ +.+.++.+.++++..|+++..
T Consensus 19 ~~~~~~a~~~g~~~~~~~~~~~~~~--~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (273)
T cd06309 19 KSIKDAAEKRGFDLKFADAQQKQEN--QISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRG 89 (273)
T ss_pred HHHHHHHHhcCCEEEEeCCCCCHHH--HHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecC
Confidence 4678889999999998754433331 235566678889999999887655 567889999999999999863
No 74
>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=83.27 E-value=5.7 Score=36.49 Aligned_cols=69 Identities=14% Similarity=0.149 Sum_probs=50.8
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..+++..|+.+.....-...+. ..+.+..+...+++.|+|++-+.+ ..+.+..+++.++..|+++.
T Consensus 20 ~gi~~~a~~~gy~~~~~~~~~~~~~--~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~~~~~iPvV~~d~ 89 (280)
T cd06315 20 EGVREAAKAIGWNLRILDGRGSEAG--QAAALNQAIALKPDGIVLGGVDAAELQAELELAQKAGIPVVGWHA 89 (280)
T ss_pred HHHHHHHHHcCcEEEEECCCCCHHH--HHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHHHCCCCEEEecC
Confidence 5777889999999887644333332 234555567899999999986654 35677888889999999976
No 75
>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=83.16 E-value=2.4 Score=39.12 Aligned_cols=67 Identities=13% Similarity=0.253 Sum_probs=49.8
Q ss_pred chHHHHhcceEEEEeCC-CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRD-KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~d-KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
+..+|+++|+.|-.+.. .+...| ...++.++...+++.+++.+...+...+++.|++.|++..++|.
T Consensus 156 ~~~~~~~~g~~v~~~~~~~~~~~d--~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~i~~~ 223 (334)
T cd06347 156 FKEAFKKLGGEIVAEETFNAGDTD--FSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIKVPILGG 223 (334)
T ss_pred HHHHHHHcCCEEEEEEEecCCCCc--HHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCCCcEEec
Confidence 44466677877654322 233333 56667777889999999999999999999999999998777764
No 76
>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=83.06 E-value=6.4 Score=36.89 Aligned_cols=69 Identities=16% Similarity=0.219 Sum_probs=50.8
Q ss_pred CCchHHHHh--cceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRR--AGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkR--AGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..+++. .|+.+......-+++ --...++.++..+++-||+...+++ ..++++.+++.|+..|+++.
T Consensus 19 ~gi~~~a~~~~~g~~~~~~~~~~~~~--~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~ 90 (303)
T cd01539 19 KNLEDIQKENGGKVEFTFYDAKNNQS--TQNEQIDTALAKGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNR 90 (303)
T ss_pred HHHHHHHHhhCCCeeEEEecCCCCHH--HHHHHHHHHHHcCCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCC
Confidence 467788888 888887664432222 1234466678899999999876654 67899999999999888875
No 77
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=83.01 E-value=0.75 Score=46.19 Aligned_cols=38 Identities=21% Similarity=0.573 Sum_probs=30.0
Q ss_pred CCCCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHhhh
Q 014872 153 PNDPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLNRM 191 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnrL 191 (417)
-++||.|+.|||.|-.+.+|.-|+.+ |-.-.+-.+.|+
T Consensus 212 GEKPF~C~hC~kAFADRSNLRAHmQT-HS~~K~~qC~~C 249 (279)
T KOG2462|consen 212 GEKPFSCPHCGKAFADRSNLRAHMQT-HSDVKKHQCPRC 249 (279)
T ss_pred CCCCccCCcccchhcchHHHHHHHHh-hcCCccccCcch
Confidence 56899999999999999999999865 554445445554
No 78
>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=82.91 E-value=6.8 Score=35.31 Aligned_cols=68 Identities=15% Similarity=0.152 Sum_probs=47.9
Q ss_pred CchHHHHhc-----ceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC-cchHHHHHHHHHcCCcEEEEcC
Q 014872 228 GLGSELRRA-----GVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD-NDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 228 GLA~ELkRA-----GV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD-sdF~~~Lr~AR~~~v~TVVVGd 297 (417)
|+..++++. |+.+........+. .....++.++..+++-|++++-+ ..+...++.++++|+..|.++.
T Consensus 20 gi~~~a~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~ 93 (274)
T cd06311 20 HAQAAAKKLEAAYPDVEFILVTASNDTE--QQNAQQDLLINRKIDALVILPFESAPLTQPVAKAKKAGIFVVVVDR 93 (274)
T ss_pred HHHHHHHHhhhhCCCeEEEEEcCCCCHH--HHHHHHHHHHHcCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcC
Confidence 566667775 68877765433322 22334445677899999998755 4467889999999999999875
No 79
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=82.80 E-value=3.8 Score=38.91 Aligned_cols=76 Identities=17% Similarity=0.190 Sum_probs=53.3
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCCC-Ccccc
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDSN-RGLGQ 304 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~~-~~L~R 304 (417)
++.-|.|.|+.+..+.|.-... .....+ .--|++|++|-. .+...+++.|+++|+++|+|.+.. +.|.+
T Consensus 158 l~~~l~~~g~~~~~~~d~~~~~------~~~~~~-~~~Dl~I~iS~sG~t~~~~~~~~~ak~~g~~ii~IT~~~~s~la~ 230 (292)
T PRK11337 158 VQHKFLRIGVRCQAYDDAHIML------MSAALL-QEGDVVLVVSHSGRTSDVIEAVELAKKNGAKIICITNSYHSPIAK 230 (292)
T ss_pred HHHHHhhCCCeEEEcCCHHHHH------HHHhcC-CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCChhHH
Confidence 3455778999988775432111 001112 234777888864 668889999999999999999964 68899
Q ss_pred ccccccc
Q 014872 305 HADLWVP 311 (417)
Q Consensus 305 ~ADl~fS 311 (417)
.||.-|.
T Consensus 231 ~ad~~l~ 237 (292)
T PRK11337 231 LADYVIC 237 (292)
T ss_pred hCCEEEE
Confidence 9998873
No 80
>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=82.78 E-value=1.2 Score=37.40 Aligned_cols=32 Identities=31% Similarity=0.696 Sum_probs=27.7
Q ss_pred cCccCCCCCeec----ccCCCCCCChHHHHHHHHHhh
Q 014872 148 RGVAVPNDPYIC----GVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 148 ~G~v~p~~PY~C----~VCGRkf~T~~kL~kHFKQLH 180 (417)
.|++.. ..|.| +.|+..+.+...+.+||++.|
T Consensus 73 ~gLp~~-~G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 73 PGLPVY-DGYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CCCCCC-CCeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 355444 67999 999999999999999999998
No 81
>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=82.70 E-value=2 Score=35.26 Aligned_cols=75 Identities=17% Similarity=0.159 Sum_probs=50.5
Q ss_pred chHHHHhcc-eEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCCC-Cccc
Q 014872 229 LGSELRRAG-VFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDSN-RGLG 303 (417)
Q Consensus 229 LA~ELkRAG-V~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~~-~~L~ 303 (417)
++.-|.+.| ..+.... + .+... +. .. -..-+.++.+|-+ .+-..+++.|+++|.++|.|.+.. +.|.
T Consensus 17 ~~~~l~~~~~~~~~~~~--~--~~~~~--~~-~~-~~~~d~~I~iS~sG~t~e~~~~~~~a~~~g~~vi~iT~~~~s~la 88 (126)
T cd05008 17 AKYLLERLAGIPVEVEA--A--SEFRY--RR-PL-LDEDTLVIAISQSGETADTLAALRLAKEKGAKTVAITNVVGSTLA 88 (126)
T ss_pred HHHHHHHhcCCceEEEe--h--hHhhh--cC-CC-CCCCcEEEEEeCCcCCHHHHHHHHHHHHcCCeEEEEECCCCChHH
Confidence 456677876 7777664 2 21111 11 11 1345677888854 456677889999999999999964 6899
Q ss_pred cccccccc
Q 014872 304 QHADLWVP 311 (417)
Q Consensus 304 R~ADl~fS 311 (417)
+.||..|.
T Consensus 89 ~~ad~~l~ 96 (126)
T cd05008 89 READYVLY 96 (126)
T ss_pred HhCCEEEE
Confidence 99998773
No 82
>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=82.52 E-value=4.2 Score=41.73 Aligned_cols=88 Identities=27% Similarity=0.326 Sum_probs=66.4
Q ss_pred hHHHHHHHhhc--CCCC--------CCCchHHHHhcc--eEEEEeCCCch---hHHHHHHHHHHHhhh-CCcceEEEEeC
Q 014872 211 DKYNEAARSLL--KPKV--------GYGLGSELRRAG--VFVKTVRDKPQ---AADWALKRQMQHSMS-SGVDWMFLVSD 274 (417)
Q Consensus 211 ~KY~~AArevL--~PKv--------GYGLA~ELkRAG--V~VrtV~dKPq---AAD~ALkrhm~~~m~-rgv~cLvLVSD 274 (417)
+.=.+||.++- -|-. |.-+.+|||+.| |.|-+|++-|. .||.++.+|++..+. -+++-.++|||
T Consensus 28 e~vl~AA~~l~laDPeDSD~N~if~avkiydeL~~~GedveVA~VsG~~~~~v~ad~~I~~qld~vl~~~~~~~~i~VsD 107 (344)
T PF04123_consen 28 EAVLDAAVKLALADPEDSDVNAIFGAVKIYDELKAEGEDVEVAVVSGSPDVGVEADRKIAEQLDEVLSKFDPDSAIVVSD 107 (344)
T ss_pred HHHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHhcCCCeEEEEEECCCCCchhhHHHHHHHHHHHHHhCCCCEEEEEec
Confidence 34455666533 3543 467889999999 67778888877 799999999999997 78999999999
Q ss_pred CcchHHHHHHHHHc----CCcEEEEcCC
Q 014872 275 DNDFKEMLRKARDA----NLGTVVVGDS 298 (417)
Q Consensus 275 DsdF~~~Lr~AR~~----~v~TVVVGd~ 298 (417)
-.+=.-++---+.+ +++.|||=-+
T Consensus 108 GaeDE~vlPiIqSr~~V~sV~RVVVkQs 135 (344)
T PF04123_consen 108 GAEDERVLPIIQSRVPVDSVKRVVVKQS 135 (344)
T ss_pred ChhhhhhhHhhhccCceEEEEEEEEEcC
Confidence 88777666655554 5677777553
No 83
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=82.44 E-value=5.7 Score=37.26 Aligned_cols=69 Identities=16% Similarity=0.269 Sum_probs=49.7
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.+-++....... .....+..+++.+++.|++++.+......+..+++.++..|+++.
T Consensus 84 ~gi~~~a~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~ 152 (342)
T PRK10014 84 AGLTEALEAQGRMVFLLQGGKDGE--QLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAEEKGIPVVFASR 152 (342)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEEEec
Confidence 356677888888887664433322 123445556788999999987665566788999999999999975
No 84
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=82.19 E-value=4.9 Score=38.83 Aligned_cols=95 Identities=21% Similarity=0.240 Sum_probs=60.0
Q ss_pred CCchHHHHhcceEEEEeCCC--chhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCCCCccc
Q 014872 227 YGLGSELRRAGVFVKTVRDK--PQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDSNRGLG 303 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dK--PqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~~~~L~ 303 (417)
.|+..+++..|+.+...... +++. .....++.+++.+++-|+|++.+.+ ..+.+ .+++.|+..|.+++....
T Consensus 66 ~gi~~aa~~~G~~l~i~~~~~~~~~~--~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~~~~-- 140 (343)
T PRK10936 66 YGMVEEAKRLGVDLKVLEAGGYYNLA--KQQQQLEQCVAWGADAILLGAVTPDGLNPDL-ELQAANIPVIALVNGIDS-- 140 (343)
T ss_pred HHHHHHHHHhCCEEEEEcCCCCCCHH--HHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCCCCC--
Confidence 47778889999998877432 2332 2456677788999999999986644 45677 889999988877543211
Q ss_pred cccccccchhhhhcCcccccccc
Q 014872 304 QHADLWVPWIEVENGELTERDLV 326 (417)
Q Consensus 304 R~ADl~fSW~eV~~Gk~~~~~~~ 326 (417)
-.+.-.+..+..+.|..--+-|+
T Consensus 141 ~~~~~~V~~D~~~~g~~aa~~L~ 163 (343)
T PRK10936 141 PQVTTRVGVSWYQMGYQAGRYLA 163 (343)
T ss_pred ccceEEEecChHHHHHHHHHHHH
Confidence 11122344555555544433333
No 85
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=82.14 E-value=0.47 Score=53.58 Aligned_cols=34 Identities=29% Similarity=0.698 Sum_probs=27.6
Q ss_pred CCCCeecccCCCCCCChHHHHHHHHHhhhhhHHHH
Q 014872 153 PNDPYICGVCGRKCKTNLDLKKHFKQLHERERQKK 187 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KR 187 (417)
-++||+|.+|||-|.|.-+|+-||- +|--.+.-|
T Consensus 630 GERPFkCKiCgRAFtTkGNLkaH~~-vHka~p~~R 663 (958)
T KOG1074|consen 630 GERPFKCKICGRAFTTKGNLKAHMS-VHKAKPPAR 663 (958)
T ss_pred CcCccccccccchhccccchhhccc-ccccCcccc
Confidence 4589999999999999999999994 565444444
No 86
>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=81.80 E-value=7.4 Score=34.39 Aligned_cols=68 Identities=16% Similarity=0.237 Sum_probs=51.1
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+..+...... + ....++.+..++++-|++++.+.+ ..+++.+.+.|+..|.++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~-~--~~~~i~~~~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 86 (266)
T cd06278 19 EALSRALQARGYQPLLINTDDDE-D--LDAALRQLLQYRVDGVIVTSGTLS-SELAEECRRNGIPVVLINRY 86 (266)
T ss_pred HHHHHHHHHCCCeEEEEcCCCCH-H--HHHHHHHHHHcCCCEEEEecCCCC-HHHHHHHhhcCCCEEEECCc
Confidence 36788999999999877544332 2 345667778899999999876543 35688999999999999763
No 87
>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=81.50 E-value=5.9 Score=35.17 Aligned_cols=67 Identities=16% Similarity=0.304 Sum_probs=47.2
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.+...... ... ....++...+. .+++.||+++-+.. ..+++.+.++|+..|+++.
T Consensus 24 ~~~~~~~~~~g~~~~~~~~~-~~~--~~~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~ 91 (270)
T cd06294 24 RGISAVANENGYDISLATGK-NEE--ELLEEVKKMIQQKRVDGFILLYSRED-DPIIDYLKEEKFPFVVIGK 91 (270)
T ss_pred HHHHHHHHHCCCEEEEecCC-CcH--HHHHHHHHHHHHcCcCEEEEecCcCC-cHHHHHHHhcCCCEEEECC
Confidence 47788899999998765322 222 23345555554 67999999874433 5778899999999999986
No 88
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=81.47 E-value=5.7 Score=34.97 Aligned_cols=48 Identities=15% Similarity=0.232 Sum_probs=39.3
Q ss_pred CCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCccccccccccc
Q 014872 264 SGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVP 311 (417)
Q Consensus 264 rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fS 311 (417)
..=+.++++|-+ .+-..+++.||++|+++|.+.+. .+.|.+.||..+.
T Consensus 78 ~~~D~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s~l~~~ad~~l~ 129 (154)
T TIGR00441 78 QKGDVLLGISTSGNSKNVLKAIEAAKDKGMKTITLAGKDGGKMAGLADIELR 129 (154)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEE
Confidence 444889999965 56668889999999999999985 4689999998764
No 89
>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=81.43 E-value=8.3 Score=33.45 Aligned_cols=69 Identities=19% Similarity=0.208 Sum_probs=50.8
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+.......+.+ -....+..+++++++.||+...++.=.. ++.+.++|+..|.++..
T Consensus 19 ~g~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~ 87 (264)
T cd06267 19 RGIEEAAREAGYSVLLCNSDEDPE--KEREALELLLSRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRP 87 (264)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCHH--HHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHcCCCEEEeccc
Confidence 466777888898888776654432 2234455678899999999887765544 88999999999988764
No 90
>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=81.27 E-value=7.1 Score=34.78 Aligned_cols=69 Identities=16% Similarity=0.120 Sum_probs=50.3
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+.......+. ......+..+...+++-|++++-+.+ ...++.++++++..|.++..
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 57888999999999876544332 12233445567789999998876544 36689999999999999863
No 91
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=80.71 E-value=4.4 Score=39.14 Aligned_cols=95 Identities=20% Similarity=0.217 Sum_probs=66.5
Q ss_pred hHHHHHHHhhcCCCC----CCC--------chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcc-eEEEEeCC--
Q 014872 211 DKYNEAARSLLKPKV----GYG--------LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVD-WMFLVSDD-- 275 (417)
Q Consensus 211 ~KY~~AArevL~PKv----GYG--------LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~-cLvLVSDD-- 275 (417)
....+|+..+...+. |.| ++.-|.|-|+.|..++|..... + .+...+.+ ++|.+|-.
T Consensus 118 ~~l~~av~~L~~A~rI~~~G~g~S~~vA~~~~~~l~~ig~~~~~~~d~~~~~-~-------~~~~~~~~Dv~i~iS~sG~ 189 (281)
T COG1737 118 EALERAVELLAKARRIYFFGLGSSGLVASDLAYKLMRIGLNVVALSDTHGQL-M-------QLALLTPGDVVIAISFSGY 189 (281)
T ss_pred HHHHHHHHHHHcCCeEEEEEechhHHHHHHHHHHHHHcCCceeEecchHHHH-H-------HHHhCCCCCEEEEEeCCCC
Confidence 566666666666652 433 3456788999999998765543 1 22334544 45555544
Q ss_pred -cchHHHHHHHHHcCCcEEEEcCC-CCccccccccccchh
Q 014872 276 -NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVPWI 313 (417)
Q Consensus 276 -sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fSW~ 313 (417)
.+-..+++.|+++|+++|.|.+. ...|.+.||+.+.=.
T Consensus 190 t~e~i~~a~~ak~~ga~vIaiT~~~~spla~~Ad~~L~~~ 229 (281)
T COG1737 190 TREIVEAAELAKERGAKVIAITDSADSPLAKLADIVLLVP 229 (281)
T ss_pred cHHHHHHHHHHHHCCCcEEEEcCCCCCchhhhhceEEecc
Confidence 34567788999999999999997 679999999988643
No 92
>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=80.39 E-value=8.1 Score=34.59 Aligned_cols=70 Identities=14% Similarity=0.170 Sum_probs=50.0
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeC---Cc-chHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSD---DN-DFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSD---Ds-dF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.......+.. --.+.++.+.+.+++.|++.+- +. ...+.++.+.++|+..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~~ 92 (273)
T cd06292 19 EAIEAALAQYGYTVLLCNTYRGGV--SEADYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNGR 92 (273)
T ss_pred HHHHHHHHHCCCEEEEEeCCCChH--HHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcCC
Confidence 578889999999987654332222 1234556677899999999862 22 2456688889999999999863
No 93
>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=80.26 E-value=4.1 Score=35.72 Aligned_cols=67 Identities=27% Similarity=0.370 Sum_probs=45.7
Q ss_pred hHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 230 GSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
...+++.|+.+......+ ...| ....+..+...+++.+++.++..+...+++.+++.|+.-.++|-.
T Consensus 156 ~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (298)
T cd06268 156 REALKKLGGEVVAEETYPPGATD--FSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGLKVPIVGGD 223 (298)
T ss_pred HHHHHHcCCEEEEEeccCCCCcc--HHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCcEEecC
Confidence 345566665554332222 1122 345566667778999999999899999999999999877777653
No 94
>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=80.20 E-value=11 Score=33.10 Aligned_cols=69 Identities=20% Similarity=0.293 Sum_probs=48.9
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcch-HHHHHHHHHcCCcEEEEcCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDF-KEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF-~~~Lr~AR~~~v~TVVVGd~ 298 (417)
|+..+++..|+.+.++....+.. .+ .+.+..+...+++.+++++-+.+. .++++.+++.++..|.++..
T Consensus 20 ~~~~~a~~~g~~~~~~~~~~~~~-~~-~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~ 89 (267)
T cd01536 20 GAEAAAKELGVELIVLDAQNDVS-KQ-IQQIEDLIAQGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSD 89 (267)
T ss_pred HHHHHHHhcCceEEEECCCCCHH-HH-HHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCC
Confidence 45566677889988875543322 11 244555677899999999876554 45889999999999999874
No 95
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=79.90 E-value=0.95 Score=48.15 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=34.0
Q ss_pred ccCccCCCCCeecccCCCCCCChHHHHHHHHHhhhhhHHHH
Q 014872 147 RRGVAVPNDPYICGVCGRKCKTNLDLKKHFKQLHERERQKK 187 (417)
Q Consensus 147 ~~G~v~p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KR 187 (417)
+.|.=+.+.-|.|..||+||++..-|+||.-+-|.-+.+|-
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~ 387 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKE 387 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchh
Confidence 35555666789999999999999999999988887777773
No 96
>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=79.89 E-value=6 Score=39.11 Aligned_cols=69 Identities=10% Similarity=0.203 Sum_probs=50.4
Q ss_pred chHHHHhcceEEEEeCCCch--hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC-cEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKPQ--AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL-GTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPq--AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v-~TVVVGd 297 (417)
+...|++.|+.|-...--|. ..+.-+...+..+...+++.|||.+...+-..+++.|+++|+ ..+.||.
T Consensus 196 ~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~~~~~~~~~il~qa~~~g~~~~~~i~~ 267 (410)
T cd06363 196 FSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVFASRQPAEAFFNSVIQQNLTGKVWIAS 267 (410)
T ss_pred HHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEEcChHHHHHHHHHHHhcCCCCCEEEEe
Confidence 44678888987753322221 123346677777788899999999999999999999999999 4555654
No 97
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=79.87 E-value=8.6 Score=34.12 Aligned_cols=66 Identities=11% Similarity=0.095 Sum_probs=46.1
Q ss_pred CchHHHHhcceEEEEeCCC--chhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 228 GLGSELRRAGVFVKTVRDK--PQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dK--PqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
|+..++++.|+.+..+... |.....++ ..+...+++.+|+++.+.. .++++.+.++++..|+++..
T Consensus 20 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~i----~~l~~~~vdgiii~~~~~~-~~~~~~l~~~~ipvV~~~~~ 87 (268)
T cd06298 20 GIDDIATMYKYNIILSNSDNDKEKELKVL----NNLLAKQVDGIIFMGGKIS-EEHREEFKRSPTPVVLAGSV 87 (268)
T ss_pred HHHHHHHHcCCeEEEEeCCCCHHHHHHHH----HHHHHhcCCEEEEeCCCCc-HHHHHHHhcCCCCEEEEccc
Confidence 5667888889988876543 33332333 3356789999999864422 46888888899999999864
No 98
>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=79.76 E-value=6.4 Score=36.90 Aligned_cols=67 Identities=19% Similarity=0.313 Sum_probs=47.4
Q ss_pred hHHHHhcceEEEEeCCCchhH-HHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC-cEEEEc
Q 014872 230 GSELRRAGVFVKTVRDKPQAA-DWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL-GTVVVG 296 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKPqAA-D~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v-~TVVVG 296 (417)
..+++..|+.|-....-|... ..-+...+..+...+++.||+.+...+...+++.|+++|+ +..+++
T Consensus 181 ~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~g~~~~~~i~ 249 (348)
T cd06350 181 EEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKLGMTGKYWII 249 (348)
T ss_pred HHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHhCCCCeEEEE
Confidence 345667777766433333321 2235566677778899999999999999999999999999 344443
No 99
>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=79.67 E-value=8.7 Score=34.41 Aligned_cols=68 Identities=12% Similarity=0.088 Sum_probs=48.7
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+.....-.+.+ .....+..+..++++-||+.+.+++ ++++.++++++..|+++..
T Consensus 22 ~~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiii~~~~~~--~~~~~l~~~~ipvV~~~~~ 89 (268)
T cd06277 22 RAIEEEAKKYGYNLILKFVSDEDE--EEFELPSFLEDGKVDGIILLGGIST--EYIKEIKELGIPFVLVDHY 89 (268)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHHHCCCCEEEEeCCCCh--HHHHHHhhcCCCEEEEccC
Confidence 367888899999887664333332 2233344456799999999886543 4589999999999999864
No 100
>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=79.65 E-value=8.3 Score=34.54 Aligned_cols=70 Identities=19% Similarity=0.294 Sum_probs=49.6
Q ss_pred CCchHHHHhcceEEEEeCCC-chhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDK-PQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dK-PqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..+++..|+.+...... ...++ -....+..+...+++.+|+++-+.+ ..++++.+++.++..|+++.
T Consensus 19 ~g~~~~~~~~g~~~~~~~~~~~~~~~-~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~~~ 90 (273)
T cd06310 19 AGAEAAAKELGVKVTFQGPASETDVA-GQVNLLENAIARGPDAILLAPTDAKALVPPLKEAKDAGIPVVLIDS 90 (273)
T ss_pred HHHHHHHHHcCCEEEEecCccCCCHH-HHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEecC
Confidence 57888999999999987421 11111 1234455567789999999875433 35788999999999999975
No 101
>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=79.55 E-value=4.5 Score=35.53 Aligned_cols=68 Identities=21% Similarity=0.315 Sum_probs=43.9
Q ss_pred CchHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC--cEEEEcC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL--GTVVVGD 297 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVGd 297 (417)
++...|+++|+.+..+..-+. ..| ....+..+...+++.+++.++..+...+++.++++|+ +..+||-
T Consensus 155 ~~~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~~~~~~i~~ 225 (299)
T cd04509 155 AFKAAFKKKGGTVVGEEYYPLGTTD--FTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLTGGYPILGI 225 (299)
T ss_pred HHHHHHHHcCCEEEEEecCCCCCcc--HHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCCCCCcEEec
Confidence 444566667766543322221 122 2233333445678888888888999999999999999 6677775
No 102
>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=79.47 E-value=10 Score=32.82 Aligned_cols=71 Identities=20% Similarity=0.294 Sum_probs=50.5
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
.|+..+++..|+.+......... | .....+..+++.+++.+|+.+.+.....++..+.+.++..|.++...
T Consensus 19 ~g~~~~~~~~g~~l~~~~~~~~~-~-~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~ 89 (264)
T cd01537 19 KGIEEAAKAAGYQVLLANSQNDA-E-KQLSALENLIARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDI 89 (264)
T ss_pred HHHHHHHHHcCCeEEEEeCCCCH-H-HHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCC
Confidence 35666677778888777554332 1 23444556778899999998877665556899999999999997753
No 103
>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=79.20 E-value=9 Score=35.80 Aligned_cols=70 Identities=17% Similarity=0.145 Sum_probs=48.8
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.......+.. .....+..+..++++.||+.+.+....+.++.+++.++..|+++..
T Consensus 80 ~~i~~~~~~~gy~~~i~~~~~~~~--~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~ 149 (327)
T TIGR02417 80 KELEQQCREAGYQLLIACSDDNPD--QEKVVIENLLARQVDALIVASCMPPEDAYYQKLQNEGLPVVALDRS 149 (327)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHHHhcCCCEEEEccc
Confidence 367788888999987664333222 1223455567899999999876553356778888899999999853
No 104
>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=79.19 E-value=3.2 Score=34.91 Aligned_cols=46 Identities=15% Similarity=0.180 Sum_probs=38.2
Q ss_pred cceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCccccccccccc
Q 014872 266 VDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVP 311 (417)
Q Consensus 266 v~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fS 311 (417)
-+.++.+|-+ .+-.++++.||++|.++|.|.+. .+.|.+.||..+.
T Consensus 48 ~dl~I~iS~SG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad~~l~ 97 (120)
T cd05710 48 KSVVILASHSGNTKETVAAAKFAKEKGATVIGLTDDEDSPLAKLADYVIV 97 (120)
T ss_pred CcEEEEEeCCCCChHHHHHHHHHHHcCCeEEEEECCCCCcHHHhCCEEEE
Confidence 3788888855 67778889999999999999986 4689999998764
No 105
>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=79.06 E-value=4.7 Score=39.26 Aligned_cols=68 Identities=19% Similarity=0.153 Sum_probs=52.3
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
+...|+++|+.|-...-.|.- +.-...++.++...+++.|++.....+-+.++|.++++|+...++|.
T Consensus 160 ~~~~~~~~G~~vv~~~~~~~~-~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~~~~ 227 (351)
T cd06334 160 LKALAEKLGFEVVLEPVPPPG-PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDDKFIGN 227 (351)
T ss_pred HHHHHHHcCCeeeeeccCCCC-cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCceEEEe
Confidence 345678889887655443331 22356778888899999999999999999999999999998777764
No 106
>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=78.77 E-value=11 Score=33.90 Aligned_cols=70 Identities=20% Similarity=0.277 Sum_probs=50.1
Q ss_pred CCchHHHHh--cceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRR--AGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkR--AGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++. .|+.+.+.....+.. .....++.+.+.+++-||+.+-+.+ ..++++.++++++..|+++..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~ 91 (271)
T cd06321 19 KGAEAAAKKLNPGVKVTVVSADYDLN--KQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVA 91 (271)
T ss_pred HHHHHHHHHhCCCeEEEEccCCCCHH--HHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCC
Confidence 577788888 888887664433222 2234455567899999999875443 578899999999999999764
No 107
>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=78.51 E-value=3.2 Score=39.07 Aligned_cols=69 Identities=22% Similarity=0.266 Sum_probs=46.3
Q ss_pred CchHHHHhcceEEEEeCCC-chhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC--cEEEEc
Q 014872 228 GLGSELRRAGVFVKTVRDK-PQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL--GTVVVG 296 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dK-PqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVG 296 (417)
++...|+++|.-++.|... +...+.-....+.+++..+++.|++++...+...+++.++++|+ +-.++|
T Consensus 157 ~~~~~~~~~g~~~~~v~~~~~~~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 228 (346)
T cd06330 157 DFKAALKRLRPDVEVVSEQWPKLGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFDGTTVVL 228 (346)
T ss_pred HHHHHHHHhCCCCeecccccCCCCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCcccCceEEe
Confidence 3556677775444444321 11122334556667788999999999888999999999999999 334444
No 108
>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=78.42 E-value=4.4 Score=38.69 Aligned_cols=67 Identities=13% Similarity=0.176 Sum_probs=51.3
Q ss_pred chHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
+...|+++|+.|-....-| .+.| ....|..++..|++.|++.+...++..+++.++++|++.-++|.
T Consensus 158 ~~~~~~~~G~~v~~~~~~~~~~~d--~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 225 (347)
T cd06335 158 LTAALAARGLKPVAVEWFNWGDKD--MTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVPIISH 225 (347)
T ss_pred HHHHHHHcCCeeEEEeeecCCCcc--HHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCcEecc
Confidence 4467888898875433222 2343 55677778889999999999999999999999999998766664
No 109
>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=78.03 E-value=5.2 Score=37.16 Aligned_cols=69 Identities=16% Similarity=0.205 Sum_probs=50.5
Q ss_pred CchHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC--cEEEEcCC
Q 014872 228 GLGSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL--GTVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVGd~ 298 (417)
++...|+++|+.|....-.| .+.| ...++.++...+++.|+++.-..+...+++.++++|+ +..++|.+
T Consensus 153 ~~~~~~~~~G~~v~~~~~~~~~~~d--~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 224 (336)
T cd06360 153 GFKEAFTEAGGKIVKELWVPFGTSD--FASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKAKIPLIGSG 224 (336)
T ss_pred HHHHHHHHcCCEEEEEEecCCCCcc--hHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCccCCeEEecc
Confidence 34566778888876432223 3444 3456667778999999999989999999999999999 55667653
No 110
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=77.49 E-value=6.2 Score=30.25 Aligned_cols=57 Identities=30% Similarity=0.367 Sum_probs=40.1
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHH-----HHHHHHHcCCcEEEEc
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKE-----MLRKARDANLGTVVVG 296 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~-----~Lr~AR~~~v~TVVVG 296 (417)
|.++..|++.|+.|+.+. +|.. +|.. .-..||+++.+..+.. .|...-++| +|+||-
T Consensus 8 ~a~~~~L~~~g~~v~~~~-~~~~---~l~~--------~~~tll~i~~~~~~~~~~~~~~l~~~v~~G-~~lvl~ 69 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWR-KPYE---ALEA--------DDGTLLVIGPDLRLSEPEEAEALLEWVEAG-NTLVLA 69 (70)
T ss_pred HHHHHHHHHCCCeeEEec-ccHH---HhCC--------CCCEEEEEeCCCCCCchHHHHHHHHHHHcC-CEEEEe
Confidence 668889999999999884 4633 3432 5668899988856652 555555688 777764
No 111
>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=77.49 E-value=12 Score=33.06 Aligned_cols=69 Identities=16% Similarity=0.193 Sum_probs=47.5
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+.......... .....+..+++.+++.|++.+-+.+- ..++.+++.++.-|+++..
T Consensus 19 ~~i~~~a~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~~~~ipvV~~~~~ 87 (267)
T cd06283 19 KGIEDVCRAHGYQVLVCNSDNDPE--KEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLAKNGKPVVLVDRK 87 (267)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCHH--HHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHhcCCCCEEEEcCC
Confidence 366777888888887654432222 12344555778999999998755443 4578889999999999863
No 112
>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=77.41 E-value=4.5 Score=38.63 Aligned_cols=66 Identities=14% Similarity=0.143 Sum_probs=51.0
Q ss_pred chHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCc-chHHHHHHHHHcCCcEEEEc
Q 014872 229 LGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDN-DFKEMLRKARDANLGTVVVG 296 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDs-dF~~~Lr~AR~~~v~TVVVG 296 (417)
+...|+++|+.|-.....|. ..| ...++.++...+++.|++..... +...+++.++++|+..-+++
T Consensus 158 ~~~~l~~~G~~vv~~~~~~~~~~D--~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 225 (347)
T cd06336 158 YKAAWEAAGGKVVSEEPYDPGTTD--FSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGGFLS 225 (347)
T ss_pred HHHHHHHcCCEEeeecccCCCCcc--hHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCccEEe
Confidence 45678888988765444443 444 45777778889999999999999 99999999999999864544
No 113
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=77.23 E-value=11 Score=36.41 Aligned_cols=68 Identities=10% Similarity=0.218 Sum_probs=52.4
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
|+-.+++..|+.+..+..-.... -..+.+..+++++++-|++++-+.+ +.+.++.++++++..|+++.
T Consensus 46 gi~~~a~~~g~~l~i~~~~~~~~--~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~ 114 (330)
T PRK10355 46 IFVKKAESLGAKVFVQSANGNEE--TQMSQIENMINRGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDR 114 (330)
T ss_pred HHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECC
Confidence 66778889999999875543332 2345566678899999999986654 67889999999999999975
No 114
>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=77.02 E-value=8.3 Score=35.76 Aligned_cols=75 Identities=12% Similarity=0.127 Sum_probs=54.3
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHh--hh-CCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCc
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHS--MS-SGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRG 301 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~--m~-rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~ 301 (417)
++.-|.|.|..+..+.+ .|+... .. ..=++++.+|-+ .+-..+++.||++|+++|.+.+. ...
T Consensus 18 ~~~~l~~~g~~~~~~~~----------~~~~~~~~~~~~~~d~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s~ 87 (268)
T TIGR00393 18 IVATFASTGTPSFFLHP----------TEAMHGDLGMVEPNDVVLMISYSGESLELLNLIPHLKRLSHKIIAFTGSPNSS 87 (268)
T ss_pred HHHHHHhcCCceEEeCH----------hHHhhcccCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCCc
Confidence 45556778888877643 122111 11 223788999965 67778899999999999999996 468
Q ss_pred cccccccccchh
Q 014872 302 LGQHADLWVPWI 313 (417)
Q Consensus 302 L~R~ADl~fSW~ 313 (417)
|+..||+.|...
T Consensus 88 l~~~~d~~l~~~ 99 (268)
T TIGR00393 88 LARAADYVLDIK 99 (268)
T ss_pred ccccCCEEEEcC
Confidence 999999999873
No 115
>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=77.02 E-value=4.7 Score=38.53 Aligned_cols=62 Identities=13% Similarity=0.117 Sum_probs=48.3
Q ss_pred hHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 230 GSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
...|+++|+.|-.+..-|.. +.-...++.+++..+++.|++...-.+...+++.++++|+..
T Consensus 165 ~~~~~~~G~~vv~~~~~~~~-~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~ 226 (347)
T cd06340 165 KKFAKERGFEIVEDISYPAN-ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEP 226 (347)
T ss_pred HHHHHHcCCEEEEeeccCCC-CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCC
Confidence 34678889888755444432 234566777788899999999999999999999999999965
No 116
>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=76.91 E-value=1.7 Score=30.90 Aligned_cols=28 Identities=32% Similarity=0.619 Sum_probs=19.8
Q ss_pred CCCeecccCCCCCCCh----HHHHHHHHHhhh
Q 014872 154 NDPYICGVCGRKCKTN----LDLKKHFKQLHE 181 (417)
Q Consensus 154 ~~PY~C~VCGRkf~T~----~kL~kHFKQLHE 181 (417)
..-..|.+|++.++.. ..|.+|++..|.
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~hp 45 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKKHP 45 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHTTH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhhCc
Confidence 3557999999998764 799999988874
No 117
>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=76.41 E-value=9.5 Score=34.01 Aligned_cols=66 Identities=11% Similarity=0.106 Sum_probs=46.7
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+........+. .....+..+.+.+++.|++.+.+.+ ++.++++|+..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~~~~~~~dgiii~~~~~~----~~~~~~~gipvv~~~~~ 84 (265)
T cd06291 19 RAVEKELYKKGYKLILCNSDNDPE--KEREYLEMLRQNQVDGIIAGTHNLG----IEEYENIDLPIVSFDRY 84 (265)
T ss_pred HHHHHHHHHCCCeEEEecCCccHH--HHHHHHHHHHHcCCCEEEEecCCcC----HHHHhcCCCCEEEEeCC
Confidence 477888999999887653322222 1234455567899999999987655 34677889999999874
No 118
>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=76.40 E-value=14 Score=32.81 Aligned_cols=69 Identities=14% Similarity=0.084 Sum_probs=50.0
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+-...+.-++.. -...+..+.+.+++.+++++.+. -..+++.++++++..|.++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~~iPvv~~~~~ 87 (268)
T cd06273 19 QAFQETLAAHGYTLLVASSGYDLDR--EYAQARKLLERGVDGLALIGLDH-SPALLDLLARRGVPYVATWNY 87 (268)
T ss_pred HHHHHHHHHCCCEEEEecCCCCHHH--HHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhCCCCEEEEcCC
Confidence 5789999999999887644333321 12334456778999999987654 357788999999999999764
No 119
>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=76.32 E-value=13 Score=33.31 Aligned_cols=94 Identities=12% Similarity=0.043 Sum_probs=56.5
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCCcccccc
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNRGLGQHA 306 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~~L~R~A 306 (417)
.|+..+++..|+.|....-..... ...+.+..+...+++.|++++.+.+- ..++.++++|+..|+++-.... ..
T Consensus 19 ~~~~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~~~~---~~ 92 (264)
T cd06274 19 KRLEALARERGYQLLIACSDDDPE--TERETVETLIARQVDALIVAGSLPPD-DPYYLCQKAGLPVVALDRPGDP---SR 92 (264)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEcCCCCch-HHHHHHHhcCCCEEEecCccCC---CC
Confidence 456677888998876543222221 22344555678999999999876433 2377889999999999663211 11
Q ss_pred ccccchhhhhcCcccccccc
Q 014872 307 DLWVPWIEVENGELTERDLV 326 (417)
Q Consensus 307 Dl~fSW~eV~~Gk~~~~~~~ 326 (417)
..++.++....|..--+-|.
T Consensus 93 ~~~V~~d~~~~g~~~~~~l~ 112 (264)
T cd06274 93 FPSVVSDNRDGAAELTRELL 112 (264)
T ss_pred CCEEEEccHHHHHHHHHHHH
Confidence 22344555555543333333
No 120
>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=75.61 E-value=15 Score=32.92 Aligned_cols=69 Identities=14% Similarity=0.127 Sum_probs=48.4
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.|.......... ..+..++.+...+++.|++++.+... +.++.+..+++..|+++..
T Consensus 19 ~gi~~~~~~~gy~v~~~~~~~~~~--~~~~~i~~~~~~~~dgiii~~~~~~~-~~~~~~~~~~~pvV~i~~~ 87 (269)
T cd06293 19 DAVEEEADARGLSLVLCATRNRPE--RELTYLRWLDTNHVDGLIFVTNRPDD-GALAKLINSYGNIVLVDED 87 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHCCCCEEEEeCCCCCH-HHHHHHHhcCCCEEEECCC
Confidence 577889999999987664332222 23455666778999999999765443 4456666789999999863
No 121
>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=75.53 E-value=12 Score=37.62 Aligned_cols=70 Identities=11% Similarity=0.120 Sum_probs=49.1
Q ss_pred chHHHHhcceEEE---EeCCCc--hhHHHHHHHHHHH-hhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 229 LGSELRRAGVFVK---TVRDKP--QAADWALKRQMQH-SMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 229 LA~ELkRAGV~Vr---tV~dKP--qAAD~ALkrhm~~-~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
+..+|++.|+-|- .++... +.........+.. +...+++.+|+.+...+-..+++.|+++|++.+.||..
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 4567888898774 333322 1111122233333 34689999999999999999999999999999999863
No 122
>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=75.51 E-value=15 Score=32.51 Aligned_cols=69 Identities=14% Similarity=0.105 Sum_probs=49.0
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.|.+....-++++ ..+-+..++..+++-|++++-+.. ..++..++++++.-|++++.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvv~~~~~ 87 (268)
T cd01575 19 QGISDVLEAAGYQLLLGNTGYSPER--EEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAAGIPVVEIMDL 87 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCCchh--HHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhcCCCEEEEecC
Confidence 4778889999999887644322221 233445567889999999876544 56788888999999999874
No 123
>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=75.35 E-value=5 Score=37.88 Aligned_cols=66 Identities=20% Similarity=0.308 Sum_probs=49.4
Q ss_pred hHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 230 GSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
...+++.|+.|.....-|. .. -...++.++...|++.|++.....+...+++.|++.|+...++|.
T Consensus 158 ~~~~~~~g~~v~~~~~~~~~~~--d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~ 224 (344)
T cd06348 158 QKALRDQGLNLVTVQTFQTGDT--DFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGLIVGG 224 (344)
T ss_pred HHHHHHcCCEEEEEEeeCCCCC--CHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCceecc
Confidence 3566777877764322222 22 244566677889999999999999999999999999999877775
No 124
>PRK13938 phosphoheptose isomerase; Provisional
Probab=75.01 E-value=5 Score=37.54 Aligned_cols=65 Identities=18% Similarity=0.278 Sum_probs=45.7
Q ss_pred HHHHHHhhhCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCccccccccccchhhhhcCcc
Q 014872 255 KRQMQHSMSSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVPWIEVENGEL 320 (417)
Q Consensus 255 krhm~~~m~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fSW~eV~~Gk~ 320 (417)
.++....+.. =|.++.+|-+ .+-..+++.|+++|++||.+.+. .+.|.+.||..+....-+.+.+
T Consensus 104 ~~~~~~~~~~-~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~s~La~~aD~~l~v~~~e~~~v 172 (196)
T PRK13938 104 ARALEGSARP-GDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESGGQLAEFADFLINVPSRDTGRI 172 (196)
T ss_pred HHHHHhcCCC-CCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCChhhhhCCEEEEeCCCchhhH
Confidence 3444433333 4788888875 44558889999999999999885 4789999998776544444443
No 125
>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=74.47 E-value=5.4 Score=35.36 Aligned_cols=48 Identities=17% Similarity=0.165 Sum_probs=39.0
Q ss_pred cceEEEEeC---CcchHHHHHHHHHcCCcEEEEcCC-CCccccccccccchh
Q 014872 266 VDWMFLVSD---DNDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVPWI 313 (417)
Q Consensus 266 v~cLvLVSD---DsdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fSW~ 313 (417)
=|.+|++|- ..+-..+++.|+++|++||.|.+. .+.|.+.||..+.-.
T Consensus 102 ~Dv~I~iS~SG~t~~~i~~~~~ak~~Ga~vI~IT~~~~s~La~~aD~~l~~~ 153 (177)
T cd05006 102 GDVLIGISTSGNSPNVLKALEAAKERGMKTIALTGRDGGKLLELADIEIHVP 153 (177)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeC
Confidence 477788884 356778899999999999999885 578999999987654
No 126
>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=74.38 E-value=6.4 Score=37.96 Aligned_cols=64 Identities=25% Similarity=0.281 Sum_probs=47.7
Q ss_pred HHHHhcceEEEE-eCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 014872 231 SELRRAGVFVKT-VRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVG 296 (417)
Q Consensus 231 ~ELkRAGV~Vrt-V~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVG 296 (417)
..|++.|+.|-. +.=.|...| ...++.++.+.|+|.|++.+...+.+.+++.++++|+..-+++
T Consensus 170 ~~~~~~G~~vv~~~~~~~~~~D--~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~~~~ 234 (357)
T cd06337 170 AALADAGYKLVDPGRFEPGTDD--FSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPKIVT 234 (357)
T ss_pred HHHHhCCcEEecccccCCCCCc--HHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCCeEE
Confidence 457778888653 222333444 4456666788999999999999999999999999999875554
No 127
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=74.34 E-value=1.2 Score=44.02 Aligned_cols=30 Identities=27% Similarity=0.639 Sum_probs=27.3
Q ss_pred CCCCeecccCCCCCCChHHHHHHHHHhhhh
Q 014872 153 PNDPYICGVCGRKCKTNLDLKKHFKQLHER 182 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~~kL~kHFKQLHER 182 (417)
...||+|.+|++-|..+-.|.-|.+.+|--
T Consensus 170 gvrpykc~~c~kaftqrcsleshl~kvhgv 199 (267)
T KOG3576|consen 170 GVRPYKCSLCEKAFTQRCSLESHLKKVHGV 199 (267)
T ss_pred CccccchhhhhHHHHhhccHHHHHHHHcCc
Confidence 447999999999999999999999999964
No 128
>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=74.10 E-value=6.2 Score=36.60 Aligned_cols=67 Identities=9% Similarity=0.040 Sum_probs=45.6
Q ss_pred chHHHHhcceEEEEeCCC-chhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDK-PQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dK-PqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
....+++.|+.|-....- +...| ...++.+++..+++.|++.+++.+-..+++.++++|++.-++|.
T Consensus 153 ~~~~~~~~G~~v~~~~~~~~~~~d--~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p~~~~ 220 (312)
T cd06333 153 LKALAPKYGIEVVADERYGRTDTS--VTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGPIYQT 220 (312)
T ss_pred HHHHHHHcCCEEEEEEeeCCCCcC--HHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCCEEee
Confidence 344566667665432222 22233 34456666677899999999988888899999999998766654
No 129
>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=74.06 E-value=17 Score=32.03 Aligned_cols=60 Identities=22% Similarity=0.349 Sum_probs=44.3
Q ss_pred hHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC
Q 014872 230 GSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL 290 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v 290 (417)
...++..|+.|..+..-|... ......+..+...+...+|+.+...+...+|+.|+++|+
T Consensus 161 ~~~~~~~~~~v~~~~~~~~~~-~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~ 220 (298)
T cd06269 161 EEELEKNGICVAFVESIPDGS-EDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGM 220 (298)
T ss_pred HHHHHHCCeeEEEEEEcCCCH-HHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCC
Confidence 345556788888776666532 334555555667777888888888999999999999998
No 130
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=73.96 E-value=1 Score=34.99 Aligned_cols=26 Identities=27% Similarity=0.450 Sum_probs=0.0
Q ss_pred ecccCCCCCCChHHHHHHHHHhhhhh
Q 014872 158 ICGVCGRKCKTNLDLKKHFKQLHERE 183 (417)
Q Consensus 158 ~C~VCGRkf~T~~kL~kHFKQLHERE 183 (417)
.|.+|+..|.+...|..|++..|.-.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~ 26 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD 26 (100)
T ss_dssp --------------------------
T ss_pred Cccccccccccccccccccccccccc
Confidence 39999999999999999999998754
No 131
>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=73.88 E-value=2.6 Score=28.29 Aligned_cols=19 Identities=26% Similarity=0.523 Sum_probs=16.8
Q ss_pred ecccCCCCCCChHHHHHHHH
Q 014872 158 ICGVCGRKCKTNLDLKKHFK 177 (417)
Q Consensus 158 ~C~VCGRkf~T~~kL~kHFK 177 (417)
.||+|++.+ +...++.|.+
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 599999998 7789999987
No 132
>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=73.25 E-value=1.1 Score=37.21 Aligned_cols=40 Identities=25% Similarity=0.254 Sum_probs=29.4
Q ss_pred eEEEEeeCCCCCCC-C--CchHHHHHHHHHHHHcCceeeeecccc
Q 014872 80 KVVVLWDLDNKPPR-G--PPYDAAMSLRRVAERFGEVTDISAYAN 121 (417)
Q Consensus 80 ~V~VlWDLDNKPP~-~--pPY~AA~rLr~~As~FG~Vv~isAYAN 121 (417)
+|.||||.+|=+.. . + --..+|...+...|.|+.+.+|+|
T Consensus 1 rvavfvD~eN~~~~~~~~~--~~~~~l~~~i~~~~~~~~~~~y~~ 43 (146)
T PF01936_consen 1 RVAVFVDGENLYIPLKRWD--IDFERLLEEIRKYGPLVRIRAYGN 43 (146)
T ss_dssp EEEEEEEHHHHHHHHHSS---B-HHHHHHHHTTTEEEEEEEEEE-
T ss_pred CEEEEEEhHhCchhhCCCC--CCHHHHHHHHHhcCCeEEEEEEee
Confidence 68999999997551 1 1 145667777777999999999999
No 133
>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=73.08 E-value=10 Score=36.43 Aligned_cols=60 Identities=12% Similarity=0.142 Sum_probs=47.4
Q ss_pred hHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCc
Q 014872 230 GSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLG 291 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~ 291 (417)
...|+..|+.|-...-.| .+.| ...++..+...+++.|++...-.+.+.+++.+|+.|+.
T Consensus 154 ~~~~~~~G~~vv~~~~~~~~~~D--~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 214 (348)
T cd06355 154 KAQLESLGGEVVGEEYLPLGHTD--FQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGIT 214 (348)
T ss_pred HHHHHHcCCeEEeeEEecCChhh--HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCC
Confidence 346788898877654444 3444 44778888899999999988888999999999999996
No 134
>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=72.95 E-value=14 Score=34.47 Aligned_cols=68 Identities=18% Similarity=0.274 Sum_probs=46.0
Q ss_pred CCchHHHHhcceEEEEeCCC--chhHHHHHHHHHHHhhhCCcceEEEEeCC-cchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDK--PQAADWALKRQMQHSMSSGVDWMFLVSDD-NDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dK--PqAAD~ALkrhm~~~m~rgv~cLvLVSDD-sdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..+++..|+.+...... .++. .....+..+++++++-|++++-+ ......+..+ +.++..|++++
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~~~~~~--~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~-~~~iPvV~~~~ 89 (295)
T TIGR02955 19 YGMVEQAKHLGVELKVLEAGGYPNLD--KQLAQIEQCKSWGADAILLGTVSPEALNHDLAQL-TKSIPVFALVN 89 (295)
T ss_pred HHHHHHHHHhCCEEEEEcCCCCCCHH--HHHHHHHHHHHcCCCEEEEecCChhhhhHHHHHH-hcCCCEEEEec
Confidence 46778889999999876321 2322 12345566788999999998743 4446777766 45888887744
No 135
>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=72.82 E-value=8.7 Score=36.06 Aligned_cols=64 Identities=17% Similarity=0.220 Sum_probs=47.6
Q ss_pred hHHHHhcceEEEEeCC-CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 014872 230 GSELRRAGVFVKTVRD-KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVV 295 (417)
Q Consensus 230 A~ELkRAGV~VrtV~d-KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVV 295 (417)
...|++.|+.|-...- .++..| ...++.++...+++.|++.....++..+++.++++|+..-++
T Consensus 162 ~~~~~~~g~~v~~~~~~~~~~~d--~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~~~ 226 (345)
T cd06338 162 REKAEAAGLEVVYDETYPPGTAD--LSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPKAL 226 (345)
T ss_pred HHHHHHcCCEEEEEeccCCCccc--hHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCCEE
Confidence 3467888988764322 233444 445666677899999999999999999999999999975444
No 136
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=72.64 E-value=1.7 Score=46.54 Aligned_cols=58 Identities=26% Similarity=0.439 Sum_probs=41.7
Q ss_pred cCccCCCCCeecccCCCCCCChHHHHHHHHHhhhhhHHH-HHhhhhcc--ccchh-HHHHHHhh
Q 014872 148 RGVAVPNDPYICGVCGRKCKTNLDLKKHFKQLHERERQK-KLNRMKSL--KGKKR-QKYKERYI 207 (417)
Q Consensus 148 ~G~v~p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~K-RLnrL~S~--KGkrR-~rl~~~~a 207 (417)
.|.|- +.++||.|++.|.+-.-|+-||.-=|.-|-.| -++...|. +||++ ++..++-+
T Consensus 9 s~~i~--egflCPiC~~dl~~~~~L~~H~d~eH~~ed~~D~lgs~~s~~~~~kkk~~r~~~~~~ 70 (505)
T KOG1842|consen 9 SGEIL--EGFLCPICLLDLPNLSALNDHLDVEHFEEDEKDSLGSFKSRVLNGKKKKQRKAAQEL 70 (505)
T ss_pred cchhh--hcccCchHhhhhhhHHHHHHHHhhhccccchhhHhhhHHHHHHhHHHHHhhhHHHHh
Confidence 35555 68999999999999999999999999888763 44444444 44433 44444443
No 137
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=72.46 E-value=64 Score=27.96 Aligned_cols=81 Identities=26% Similarity=0.231 Sum_probs=45.4
Q ss_pred cCCCCC-CCchHHHHhcceEEEEeCCCchh-HHHHHHHHHHHhhhCCcce---EEEEeCCcc--------------hHHH
Q 014872 221 LKPKVG-YGLGSELRRAGVFVKTVRDKPQA-ADWALKRQMQHSMSSGVDW---MFLVSDDND--------------FKEM 281 (417)
Q Consensus 221 L~PKvG-YGLA~ELkRAGV~VrtV~dKPqA-AD~ALkrhm~~~m~rgv~c---LvLVSDDsd--------------F~~~ 281 (417)
+.|.-| --+-..|++.|+.+-.|++.+.. ++..++. .|++. -++.+++.. -.++
T Consensus 79 ~~~~~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~-------~g~~~~~~~~~~~~~~g~~~p~~~~~~~~~~k~~~ 151 (201)
T TIGR01491 79 ISLRDYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEK-------LNPDYVYSNELVFDEKGFIQPDGIVRVTFDNKGEA 151 (201)
T ss_pred CCCCccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHH-------hCCCeEEEEEEEEcCCCeEecceeeEEccccHHHH
Confidence 344444 44567889999999999999864 2222222 23332 234444321 1134
Q ss_pred HHH-HHHcCC---cEEEEcCCCCcc--cccccc
Q 014872 282 LRK-ARDANL---GTVVVGDSNRGL--GQHADL 308 (417)
Q Consensus 282 Lr~-AR~~~v---~TVVVGd~~~~L--~R~ADl 308 (417)
++. +++.|+ .+++|||+..++ ...|++
T Consensus 152 ~~~~~~~~~~~~~~~i~iGDs~~D~~~a~~ag~ 184 (201)
T TIGR01491 152 VERLKRELNPSLTETVAVGDSKNDLPMFEVADI 184 (201)
T ss_pred HHHHHHHhCCCHHHEEEEcCCHhHHHHHHhcCC
Confidence 444 455565 489999986544 444444
No 138
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=72.44 E-value=19 Score=33.79 Aligned_cols=69 Identities=16% Similarity=0.122 Sum_probs=47.4
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+-......+... -...+..++..+++-|++++.+. -.+.++.+++.++..|++++.
T Consensus 83 ~gi~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~~~~~~vdgiI~~~~~~-~~~~~~~l~~~~iPvV~~~~~ 151 (331)
T PRK14987 83 RGIESVTDAHGYQTMLAHYGYKPEM--EQERLESMLSWNIDGLILTERTH-TPRTLKMIEVAGIPVVELMDS 151 (331)
T ss_pred HHHHHHHHHCCCEEEEecCCCCHHH--HHHHHHHHHhcCCCEEEEcCCCC-CHHHHHHHHhCCCCEEEEecC
Confidence 5788889999988776533222221 12344556789999999986432 246788889999999988764
No 139
>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=72.42 E-value=26 Score=29.62 Aligned_cols=70 Identities=13% Similarity=0.164 Sum_probs=48.7
Q ss_pred CchHHHHh--cceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 228 GLGSELRR--AGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 228 GLA~ELkR--AGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
|+...++. .|+.+.++....... .....+..+...+++.|++...+..-..++..+.+.++.+|.++...
T Consensus 21 ~~~~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~ 92 (269)
T cd01391 21 GIELAAEEIGRGLEVILADSQSDPE--RALEALRDLIQQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATA 92 (269)
T ss_pred HHHHHHHHhCCceEEEEecCCCCHH--HHHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCC
Confidence 44555666 677777765443332 13333444567799999998887766668999999999999998754
No 140
>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=71.92 E-value=13 Score=35.30 Aligned_cols=68 Identities=19% Similarity=0.264 Sum_probs=53.5
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+-...-..... ..+.++.+.+++|+-||+.|-..+...+.+..+. ++-.|+++..
T Consensus 21 ~gIe~~a~~~Gy~l~l~~t~~~~~---~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~ 88 (279)
T PF00532_consen 21 RGIEQEAREHGYQLLLCNTGDDEE---KEEYIELLLQRRVDGIILASSENDDEELRRLIKS-GIPVVLIDRY 88 (279)
T ss_dssp HHHHHHHHHTTCEEEEEEETTTHH---HHHHHHHHHHTTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS-
T ss_pred HHHHHHHHHcCCEEEEecCCCchH---HHHHHHHHHhcCCCEEEEecccCChHHHHHHHHc-CCCEEEEEec
Confidence 578899999999998765444433 2267777889999999999998887787777777 9898888875
No 141
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=71.91 E-value=17 Score=33.87 Aligned_cols=70 Identities=13% Similarity=0.136 Sum_probs=47.1
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+-......+.. .....+..+...+++.|++.+.+..-.+.++.+.+.++..|+|+..
T Consensus 81 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~v~~~ 150 (328)
T PRK11303 81 KYLERQARQRGYQLLIACSDDQPD--NEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRLQNDGLPIIALDRA 150 (328)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHHHhcCCCEEEECCC
Confidence 367788888998887653221211 1123344456789999999875443356778888899999999863
No 142
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=71.65 E-value=16 Score=33.60 Aligned_cols=47 Identities=13% Similarity=0.206 Sum_probs=39.2
Q ss_pred CCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCcccccccccc
Q 014872 264 SGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWV 310 (417)
Q Consensus 264 rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~f 310 (417)
..-|+++.+|-+ .+-..+++.|+++|++||.+... .+.|.+.||.-+
T Consensus 110 ~~~Dv~I~iS~SG~t~~~i~~~~~ak~~g~~iI~iT~~~~s~l~~~ad~~l 160 (192)
T PRK00414 110 REGDVLLGISTSGNSGNIIKAIEAARAKGMKVITLTGKDGGKMAGLADIEI 160 (192)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEE
Confidence 445888889965 67778899999999999999885 578999999876
No 143
>PRK02947 hypothetical protein; Provisional
Probab=71.49 E-value=6 Score=37.78 Aligned_cols=47 Identities=21% Similarity=0.213 Sum_probs=38.0
Q ss_pred CCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCCC------------Ccccccccccc
Q 014872 264 SGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDSN------------RGLGQHADLWV 310 (417)
Q Consensus 264 rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~~------------~~L~R~ADl~f 310 (417)
.--|+++++|-+ .+-..+++.|+++|+++|.|.+.. +.|.+.||+-+
T Consensus 105 ~~~Dv~i~iS~sG~t~~~i~~~~~a~~~g~~vI~iT~~~~s~~~~~~h~~gs~l~~~ad~~l 166 (246)
T PRK02947 105 RPGDVLIVVSNSGRNPVPIEMALEAKERGAKVIAVTSLAYSASVASRHSSGKRLAEVADVVL 166 (246)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEcCCcccccccccCCCcCchhHhCCEEE
Confidence 335888999855 667788999999999999999964 57888888765
No 144
>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=71.20 E-value=18 Score=32.84 Aligned_cols=67 Identities=18% Similarity=0.145 Sum_probs=47.9
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHH-hhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQH-SMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~-~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.+-+...... . .....+.. +...+++.|++.+.+.+ .++++.+++.|+..|+++.
T Consensus 19 ~~i~~~~~~~gy~~~~~~~~~~-~--~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l~~~~iPvv~~~~ 86 (269)
T cd06297 19 EGIEGALLEQRYDLALFPLLSL-A--RLKRYLESTTLAYLTDGLLLASYDLT-ERLAERRLPTERPVVLVDA 86 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCc-H--HHHHHHHHHHHhcCCCEEEEecCccC-hHHHHHHhhcCCCEEEEcc
Confidence 4788899999998887643221 1 22333433 44678999999986655 4677888999999999976
No 145
>PRK09701 D-allose transporter subunit; Provisional
Probab=70.81 E-value=21 Score=33.77 Aligned_cols=70 Identities=10% Similarity=0.072 Sum_probs=49.9
Q ss_pred CCchHHHHhcceEEEEeC--CCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVR--DKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~--dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+.++. ..++.++ ....+..+..++++-||+..-+++ -.+.+..+.++|+..|+++..
T Consensus 44 ~gi~~~a~~~g~~v~~~~~~~~~~~~~--~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~ 116 (311)
T PRK09701 44 KGIEDEAKTLGVSVDIFASPSEGDFQS--QLQLFEDLSNKNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEK 116 (311)
T ss_pred HHHHHHHHHcCCeEEEecCCCCCCHHH--HHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCC
Confidence 688899999999998762 2333321 234455567899999999876543 235577888999999999863
No 146
>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=70.70 E-value=14 Score=34.43 Aligned_cols=58 Identities=17% Similarity=0.230 Sum_probs=42.6
Q ss_pred HHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 233 LRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 233 LkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
++..|..|....-.|. .+ -....+.++...+++.|||.+...+...+|+.|++.|+.+
T Consensus 150 ~~~~g~~v~~~~~~~~-~~-d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~ 207 (324)
T cd06368 150 LSPKGIQVTVRRLDDD-TD-MYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMS 207 (324)
T ss_pred hccCCceEEEEEecCC-ch-HHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhcccc
Confidence 4444666554322232 22 4667777788899999999999999999999999999853
No 147
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=70.52 E-value=7.7 Score=38.05 Aligned_cols=66 Identities=23% Similarity=0.350 Sum_probs=49.9
Q ss_pred hHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 230 GSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
...|+++|+.|-...--| ...| +..++.++...+++.|++.+...++..+++.++++|+..-++|.
T Consensus 182 ~~~~~~~G~~v~~~~~~~~g~~D--~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~~~i~~ 248 (369)
T PRK15404 182 KDGLKKAGANVVFFEGITAGDKD--FSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKTQFMGP 248 (369)
T ss_pred HHHHHHcCCEEEEEEeeCCCCCc--hHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCCeEEec
Confidence 456788888876432222 2333 55677777889999998888888999999999999999877766
No 148
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=70.35 E-value=7.7 Score=37.47 Aligned_cols=93 Identities=12% Similarity=0.203 Sum_probs=62.6
Q ss_pred hHHHHHHHhhcCCC-C----CC--------CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC--
Q 014872 211 DKYNEAARSLLKPK-V----GY--------GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD-- 275 (417)
Q Consensus 211 ~KY~~AArevL~PK-v----GY--------GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD-- 275 (417)
...++++..+...+ . |. -++..|.+.|..+..+.+. + .. ++.-....--++++.+|-.
T Consensus 34 ~~l~~~~~~l~~a~~~I~i~G~G~S~~~a~~~~~~l~~~g~~~~~~~~~----~-~~--~~~~~~~~~~d~~I~iS~sG~ 106 (326)
T PRK10892 34 QDFTLACEKMFWCKGKVVVMGMGKSGHIGRKMAATFASTGTPSFFVHPG----E-AA--HGDLGMVTPQDVVIAISNSGE 106 (326)
T ss_pred HHHHHHHHHHHhcCCeEEEEeCcHhHHHHHHHHHHHhcCCceeEEeChH----H-hh--ccccccCCCCCEEEEEeCCCC
Confidence 35666666665542 1 22 2455677889888876321 0 01 1111112223788999965
Q ss_pred -cchHHHHHHHHHcCCcEEEEcCCC-Ccccccccccc
Q 014872 276 -NDFKEMLRKARDANLGTVVVGDSN-RGLGQHADLWV 310 (417)
Q Consensus 276 -sdF~~~Lr~AR~~~v~TVVVGd~~-~~L~R~ADl~f 310 (417)
.+-.++++.|+++|++||.+.+.. +.|++.||..|
T Consensus 107 t~~~~~~~~~ak~~g~~vi~iT~~~~s~la~~ad~~l 143 (326)
T PRK10892 107 SSEILALIPVLKRLHVPLICITGRPESSMARAADIHL 143 (326)
T ss_pred CHHHHHHHHHHHHCCCcEEEEECCCCCcccccCCEEE
Confidence 788899999999999999999964 79999999988
No 149
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=70.15 E-value=22 Score=33.33 Aligned_cols=71 Identities=24% Similarity=0.303 Sum_probs=48.3
Q ss_pred HHhcceEEEEeCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCCc---chHHHHHHHHHcCCcEEEEcCCCCcccccccc
Q 014872 233 LRRAGVFVKTVRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDDN---DFKEMLRKARDANLGTVVVGDSNRGLGQHADL 308 (417)
Q Consensus 233 LkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDs---dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl 308 (417)
|-|-|+.+-...+. .... + .... ..=++++++|-.- +...+++.||++|+++|+|.+..+.|.+.||.
T Consensus 150 l~~~g~~~~~~~~~------~~~~-~-~~~~~~~~D~vI~iS~sG~t~~~~~~~~~ak~~g~~vI~IT~~~s~l~~~ad~ 221 (284)
T PRK11302 150 FFRFNVPVVYFDDI------VMQR-M-SCMNSSDGDVVVLISHTGRTKSLVELAQLARENGATVIAITSAGSPLAREATL 221 (284)
T ss_pred HHhcCCceEecCCH------HHHH-H-HHHhCCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEECCCCChhHHhCCE
Confidence 56778777765431 1111 1 1122 3347778887644 56678899999999999999866789999998
Q ss_pred ccc
Q 014872 309 WVP 311 (417)
Q Consensus 309 ~fS 311 (417)
.|.
T Consensus 222 ~l~ 224 (284)
T PRK11302 222 ALT 224 (284)
T ss_pred EEe
Confidence 775
No 150
>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=69.97 E-value=8.6 Score=36.56 Aligned_cols=67 Identities=18% Similarity=0.163 Sum_probs=48.4
Q ss_pred chHHHHh--cceEEEEeCCCch-h-HHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRR--AGVFVKTVRDKPQ-A-ADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkR--AGV~VrtV~dKPq-A-AD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
+...|++ +|+.|-...-.|. . .| ...++.++...+++.|++.....+.+.+++.++++|+..-++|.
T Consensus 163 ~~~~~~~~~~G~~vv~~~~~~~~~~~d--~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 233 (342)
T cd06329 163 FKAMLAAKRPDIQIVGEDLHPLGKVKD--FSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKLPFYTP 233 (342)
T ss_pred HHHHHHhhcCCcEEeceeccCCCCCCc--hHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCceEEec
Confidence 4566777 8877754333332 1 22 33456667789999999998888999999999999998767765
No 151
>PRK13936 phosphoheptose isomerase; Provisional
Probab=69.73 E-value=20 Score=33.04 Aligned_cols=49 Identities=10% Similarity=0.203 Sum_probs=38.4
Q ss_pred hCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCCC-Cccccc---cccccc
Q 014872 263 SSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDSN-RGLGQH---ADLWVP 311 (417)
Q Consensus 263 ~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~~-~~L~R~---ADl~fS 311 (417)
..-=|+++++|-+ .+-..+++.|+++|+++|.|.+.. +.|.+. ||..+.
T Consensus 109 ~~~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~~iI~IT~~~~s~l~~l~~~ad~~l~ 164 (197)
T PRK13936 109 GQPGDVLLAISTSGNSANVIQAIQAAHEREMHVVALTGRDGGKMASLLLPEDVEIR 164 (197)
T ss_pred CCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhhhhhccCCEEEE
Confidence 3345999999965 667889999999999999999853 567774 887664
No 152
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=69.15 E-value=28 Score=36.83 Aligned_cols=98 Identities=24% Similarity=0.426 Sum_probs=68.3
Q ss_pred chHHHHHHHhhc---CCCCCCCch-----HHHHhcc----------eEEEEeCCC--chhHHHHHHHHHHHhhhCCcceE
Q 014872 210 NDKYNEAARSLL---KPKVGYGLG-----SELRRAG----------VFVKTVRDK--PQAADWALKRQMQHSMSSGVDWM 269 (417)
Q Consensus 210 ~~KY~~AArevL---~PKvGYGLA-----~ELkRAG----------V~VrtV~dK--PqAAD~ALkrhm~~~m~rgv~cL 269 (417)
-++|..-..+.- +|.+|+++. ..|+-.| |+|-++.+. ++|...|- ++=..|+.+-
T Consensus 292 GGRYD~Lv~~~gG~~~pavGFaiGveRl~~~l~~~~~~~~~~~~~~v~v~~~~~~~~~~a~~la~-----~LR~~g~~~~ 366 (429)
T COG0124 292 GGRYDGLVEEFGGKPTPAVGFAIGVERLILALEEEGKEDPVETRVDVYVVPLGEDAEPEALKLAQ-----KLRAAGISVE 366 (429)
T ss_pred CccchHHHHHhCCCCCCceeEehHHHHHHHHHHHcCCCCCcCCCCCEEEEEcCchhHHHHHHHHH-----HHHHcCCcEE
Confidence 366776666654 899998765 4466666 333333332 23332222 1234699999
Q ss_pred EEEeCCcchHHHHHHHHHcCCcE-EEEcCCCCccccccccccchhhhhcCcccccccccC
Q 014872 270 FLVSDDNDFKEMLRKARDANLGT-VVVGDSNRGLGQHADLWVPWIEVENGELTERDLVPR 328 (417)
Q Consensus 270 vLVSDDsdF~~~Lr~AR~~~v~T-VVVGd~~~~L~R~ADl~fSW~eV~~Gk~~~~~~~~~ 328 (417)
+-.++.. |..-++.|-+.|.+- |+||+ +|+++|.++=+||..+
T Consensus 367 ~~~~~r~-~k~q~k~A~~~g~~~~viiGe---------------~E~~~g~v~vKdl~t~ 410 (429)
T COG0124 367 VDYSGRK-LKKQFKYADKLGARFAVILGE---------------DELANGVVTVKDLATG 410 (429)
T ss_pred EEecccc-HHHHHHHHHHCCCCEEEEEcc---------------hHHhcCCEEEeeCCCC
Confidence 9999998 999999999999998 55666 4679999999998877
No 153
>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=69.15 E-value=9.7 Score=35.73 Aligned_cols=67 Identities=13% Similarity=0.151 Sum_probs=48.8
Q ss_pred chHHHHhcceEEEEe-CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKTV-RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV-~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
+...|++.|+.|-.. .=.|...| ....|.+++..+++.|++.+...+-..+++.++++|+...++|.
T Consensus 157 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~ 224 (312)
T cd06346 157 FTKAFEALGGTVTNVVAHEEGKSS--YSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDKFLLT 224 (312)
T ss_pred HHHHHHHcCCEEEEEEeeCCCCCC--HHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCceEee
Confidence 345677788876532 22233343 44667777889999999999999999999999999997655553
No 154
>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=68.94 E-value=27 Score=31.28 Aligned_cols=69 Identities=16% Similarity=0.171 Sum_probs=49.1
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.+....-... -.+..+..+.+.+++-+++.+-+.+ ...++.++++++..|+++..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~l~~~~~dgiii~~~~~~-~~~~~~~~~~~iPvv~~~~~ 87 (265)
T cd06285 19 EGIEEAAAERGYSTFVANTGDNPD--AQRRAIEMLLDRRVDGLILGDARSD-DHFLDELTRRGVPFVLVLRH 87 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEecCCCC-hHHHHHHHHcCCCEEEEccC
Confidence 588899999999987543322221 1334455567899999998764433 35689999999999999874
No 155
>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=68.79 E-value=9.7 Score=35.42 Aligned_cols=67 Identities=13% Similarity=0.122 Sum_probs=43.9
Q ss_pred chHHHHhcceEEEEeCCC-chhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDK-PQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dK-PqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
+...++..|+.+.....- +...| ....+..++..+++.|++.+++.+...+++.++++|++.-+++-
T Consensus 156 ~~~~~~~~G~~~~~~~~~~~~~~d--~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~~~~~ 223 (336)
T cd06326 156 VEKALAARGLKPVATASYERNTAD--VAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQFYNL 223 (336)
T ss_pred HHHHHHHcCCCeEEEEeecCCccc--HHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCcEEEE
Confidence 344556666554332222 22222 23445555667899999989888999999999999998766654
No 156
>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=68.72 E-value=39 Score=27.22 Aligned_cols=50 Identities=26% Similarity=0.347 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 249 AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 249 AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
++...|.......-..+++++++.+++ -...++..|.+.++..||+|...
T Consensus 46 ~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~I~~~~~~~~~dllviG~~~ 95 (124)
T cd01987 46 AERRRLAEALRLAEELGAEVVTLPGDD-VAEAIVEFAREHNVTQIVVGKSR 95 (124)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEeCCc-HHHHHHHHHHHcCCCEEEeCCCC
Confidence 444455554444445778776655544 57889999999999999999964
No 157
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=68.66 E-value=2.7 Score=31.14 Aligned_cols=26 Identities=27% Similarity=0.677 Sum_probs=22.2
Q ss_pred eecccCCCCCCCh-----HHHHHHHHHhhhh
Q 014872 157 YICGVCGRKCKTN-----LDLKKHFKQLHER 182 (417)
Q Consensus 157 Y~C~VCGRkf~T~-----~kL~kHFKQLHER 182 (417)
-.|..||+.+... ..|.+|++..|..
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~~ 49 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHPA 49 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCcC
Confidence 5899999998766 5999999988864
No 158
>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=68.62 E-value=13 Score=35.02 Aligned_cols=59 Identities=17% Similarity=0.140 Sum_probs=45.8
Q ss_pred HHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCc
Q 014872 231 SELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLG 291 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~ 291 (417)
..|+++|+.|-.+..-| ...| +..++..+...+++.|++..+-.+...+++.++++|+.
T Consensus 154 ~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~ 213 (333)
T cd06331 154 ALLEELGGEVVGEEYLPLGTSD--FGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLD 213 (333)
T ss_pred HHHHHcCCEEEEEEEecCCccc--HHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCC
Confidence 45778888775332222 3443 56777778889999999999999999999999999996
No 159
>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=68.35 E-value=10 Score=35.93 Aligned_cols=65 Identities=15% Similarity=0.112 Sum_probs=46.3
Q ss_pred hHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 014872 230 GSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVG 296 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVG 296 (417)
...|++.|+.|.....-| .+.| ....+.++...+++.|++.....+...+++.++++|+..-.+|
T Consensus 165 ~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~ 230 (344)
T cd06345 165 KALLPEAGLEVVSVERFSPDTTD--FTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIPTIG 230 (344)
T ss_pred HHHHHHcCCeEEEEEecCCCCCc--hHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCceEE
Confidence 456777888766432222 2333 3455666678899999999999999999999999998654443
No 160
>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=68.27 E-value=14 Score=35.64 Aligned_cols=68 Identities=12% Similarity=0.123 Sum_probs=47.5
Q ss_pred HHHHhcc--eEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEE----EEcCC
Q 014872 231 SELRRAG--VFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTV----VVGDS 298 (417)
Q Consensus 231 ~ELkRAG--V~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TV----VVGd~ 298 (417)
..|++.| +.|....-.+...+.-...++..+-..+++.|||.+-..+-..+++.|++.|+.+- ++|+.
T Consensus 147 ~~~~~~g~~i~v~~~~~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~ 220 (382)
T cd06380 147 DYLREKDNKWQVTARRVDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANL 220 (382)
T ss_pred HHHhccCCceEEEEEEecCCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccC
Confidence 3556667 66654321111122345666777778899999999999999999999999998874 66653
No 161
>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=68.08 E-value=3.7 Score=43.87 Aligned_cols=33 Identities=27% Similarity=0.470 Sum_probs=28.9
Q ss_pred eecccCCCCCCChHHHHHHHHHhhhhhHHHHHh
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQLHERERQKKLN 189 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQLHERER~KRLn 189 (417)
.+||+|.++|.+...+..|+.|-|...=..++.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~~l~P~lq 90 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPAGLKPKLQ 90 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhhhcChhhh
Confidence 399999999999999999999999987655553
No 162
>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=68.03 E-value=12 Score=35.66 Aligned_cols=65 Identities=18% Similarity=0.226 Sum_probs=47.3
Q ss_pred chHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 014872 229 LGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVV 295 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVV 295 (417)
+..+|+.+|+.|-....-|. +.| ...++..+.+.+++.|++.....+...+++.++++|+...++
T Consensus 164 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~ 229 (362)
T cd06343 164 LKDGLGDAGLEIVAETSYEVTEPD--FDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPTFL 229 (362)
T ss_pred HHHHHHHcCCeEEEEeeecCCCcc--HHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCceEE
Confidence 34567778887654433332 334 345566677899999999999999999999999999875333
No 163
>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=67.85 E-value=22 Score=31.67 Aligned_cols=65 Identities=8% Similarity=0.057 Sum_probs=45.6
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.......+ ...++.+.+.+++.|++++.+.+ ...++.++++++..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~------~~~~~~l~~~~vdgii~~~~~~~-~~~~~~~~~~~ipvV~~~~~ 83 (261)
T cd06272 19 TGINQAISKNGYNMNVSITPSL------AEAEDLFKENRFDGVIIFGESAS-DVEYLYKIKLAIPVVSYGVD 83 (261)
T ss_pred HHHHHHHHHcCCEEEEEecccH------HHHHHHHHHcCcCEEEEeCCCCC-hHHHHHHHHcCCCEEEEccc
Confidence 4778888999988877633211 12344466789999999875433 33578888999999999763
No 164
>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=67.49 E-value=9.7 Score=35.92 Aligned_cols=67 Identities=19% Similarity=0.281 Sum_probs=48.6
Q ss_pred chHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC--cEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL--GTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVGd 297 (417)
+...|+++|+.|-.....|. ..| ...++.++...+++.|++.+...+...+++.++++|+ +..++|.
T Consensus 155 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 224 (334)
T cd06327 155 ARKVVKANGGKVVGSVRHPLGTSD--FSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTKGQKLAGL 224 (334)
T ss_pred HHHHHHhcCCEEcCcccCCCCCcc--HHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCccCCcEEEe
Confidence 44567778877753333332 333 4567777788999999999999999999999999999 4555543
No 165
>PRK12342 hypothetical protein; Provisional
Probab=66.58 E-value=26 Score=34.50 Aligned_cols=66 Identities=17% Similarity=0.245 Sum_probs=45.6
Q ss_pred hHHHHhcceEEEEeCCCchhHHHH-HHHHHHHhhhCCcceEEEEeCC----cch---HHHHHHHHHc-CCcEEEEcCC
Q 014872 230 GSELRRAGVFVKTVRDKPQAADWA-LKRQMQHSMSSGVDWMFLVSDD----NDF---KEMLRKARDA-NLGTVVVGDS 298 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKPqAAD~A-Lkrhm~~~m~rgv~cLvLVSDD----sdF---~~~Lr~AR~~-~v~TVVVGd~ 298 (417)
|-.||+.|-.|..++..|..++.+ |.+. .+..|+|-.|||||+ +|- +.+|..+-++ +..=|+-|..
T Consensus 44 AlrLk~~g~~Vtvls~Gp~~a~~~~l~r~---alamGaD~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~ 118 (254)
T PRK12342 44 ASQLATDGDEIAALTVGGSLLQNSKVRKD---VLSRGPHSLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEG 118 (254)
T ss_pred HHHHhhcCCEEEEEEeCCChHhHHHHHHH---HHHcCCCEEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCC
Confidence 455666677888888888765444 5342 578999999999988 454 4555555443 6667888873
No 166
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=66.51 E-value=29 Score=33.44 Aligned_cols=69 Identities=14% Similarity=0.157 Sum_probs=47.1
Q ss_pred CCchHHHHhcc-eEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAG-VFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAG-V~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.| +.+..+....++. . ....+..+..++++-++|+.-++. ..+.++.++++++..|+++.
T Consensus 44 ~gi~~~a~~~g~~~~~~~~~~~~~~-~-~~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~ 114 (330)
T PRK15395 44 KAIEKDAKAAPDVQLLMNDSQNDQS-K-QNDQIDVLLAKGVKALAINLVDPAAAPTVIEKARGQDVPVVFFNK 114 (330)
T ss_pred HHHHHHHHhcCCeEEEEecCCCCHH-H-HHHHHHHHHHcCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcC
Confidence 46677888885 5666543222222 1 224555667899999999864444 44578999999999999986
No 167
>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=66.20 E-value=25 Score=31.13 Aligned_cols=68 Identities=15% Similarity=0.132 Sum_probs=45.8
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.......+. ....++..++. .+++.+++.+.+.+ ...+..+.+.++..|+++..
T Consensus 23 ~~i~~~~~~~g~~~~~~~~~~~~---~~~~~~~~~~~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 91 (268)
T cd06271 23 SGLSEALAEHGYDLVLLPVDPDE---DPLEVYRRLVESGLVDGVIISRTRPD-DPRVALLLERGFPFVTHGRT 91 (268)
T ss_pred HHHHHHHHHCCceEEEecCCCcH---HHHHHHHHHHHcCCCCEEEEecCCCC-ChHHHHHHhcCCCEEEECCc
Confidence 46788899999988876433321 12233444443 67999999875433 34577888899999999753
No 168
>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=66.07 E-value=29 Score=30.93 Aligned_cols=70 Identities=13% Similarity=0.107 Sum_probs=44.1
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
-|+..+++..|+.+.+....-.++ ...+.+..+..++++.|++.+-+.+-..+.......++..|+++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~~~~ipvV~i~~~ 88 (269)
T cd06275 19 RGVEQYCYRQGYNLILCNTEGDPE--RQRSYLRMLAQKRVDGLLVMCSEYDQPLLAMLERYRHIPMVVMDWG 88 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHhcCCCCEEEEecc
Confidence 467777888898887653222222 2445566677899999999875443222112223468888998764
No 169
>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=66.03 E-value=59 Score=30.01 Aligned_cols=79 Identities=19% Similarity=0.160 Sum_probs=46.6
Q ss_pred hcCCCCC-CCchHHHHhcceEEEEeCCCchhH-HHHHHHHHHHhhhCCc-ceEEEEeCCc-----chHHHHHHHHHcCCc
Q 014872 220 LLKPKVG-YGLGSELRRAGVFVKTVRDKPQAA-DWALKRQMQHSMSSGV-DWMFLVSDDN-----DFKEMLRKARDANLG 291 (417)
Q Consensus 220 vL~PKvG-YGLA~ELkRAGV~VrtV~dKPqAA-D~ALkrhm~~~m~rgv-~cLvLVSDDs-----dF~~~Lr~AR~~~v~ 291 (417)
.+.|--| .-+-..|+..|+.+-.+++++... ...|++. --.+. .-.|+.||+. +=..+++.+++.|+.
T Consensus 97 ~~~~~pg~~e~L~~L~~~g~~l~IvT~~~~~~~~~~l~~~----gl~~~f~d~ii~~~~~~~~KP~p~~~~~a~~~l~~~ 172 (253)
T TIGR01422 97 YSSPIPGVIEVIAYLRARGIKIGSTTGYTREMMDVVAPEA----ALQGYRPDYNVTTDDVPAGRPAPWMALKNAIELGVY 172 (253)
T ss_pred cCccCCCHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHHH----HhcCCCCceEEccccCCCCCCCHHHHHHHHHHcCCC
Confidence 3445445 456678888899988999988753 2223221 11221 1234455542 334567777888874
Q ss_pred ----EEEEcCCCCcc
Q 014872 292 ----TVVVGDSNRGL 302 (417)
Q Consensus 292 ----TVVVGd~~~~L 302 (417)
+|+|||+..++
T Consensus 173 ~~~~~l~IGDs~~Di 187 (253)
T TIGR01422 173 DVAACVKVGDTVPDI 187 (253)
T ss_pred CchheEEECCcHHHH
Confidence 78999976433
No 170
>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=65.85 E-value=48 Score=29.78 Aligned_cols=69 Identities=12% Similarity=0.194 Sum_probs=46.4
Q ss_pred CCchHHHHhc---ce--EEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC-cchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRA---GV--FVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD-NDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRA---GV--~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD-sdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++. |+ .+......-+++ . ....+..+...+++-|++.+-+ ..+.+++..++++|+..|+++.
T Consensus 19 ~~i~~~~~~~~~~g~~~~l~i~~~~~~~~-~-~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~ 93 (272)
T cd06300 19 DEFKAQAKELKKAGLISEFIVTSADGDVA-Q-QIADIRNLIAQGVDAIIINPASPTALNPVIEEACEAGIPVVSFDG 93 (272)
T ss_pred HHHHHHHHhhhccCCeeEEEEecCCCCHH-H-HHHHHHHHHHcCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEec
Confidence 3566677777 87 444443332222 1 2345555677899999998755 4467789999999998888865
No 171
>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=65.68 E-value=20 Score=36.75 Aligned_cols=67 Identities=16% Similarity=0.243 Sum_probs=47.3
Q ss_pred chHHHHhcceEEEE---eCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKT---VRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~Vrt---V~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
+..++++.|+-|-. ++..+... .+...+..+.. .+++.|||.+...+...+|+.|+++|+..+.||.
T Consensus 194 ~~~~~~~~gi~i~~~~~i~~~~~~~--d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~~~wigs 264 (458)
T cd06375 194 FEQEARLRNICIATSEKVGRSADRK--SYDSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNASFTWVAS 264 (458)
T ss_pred HHHHHHHCCeeEEEEEEecCCCCHH--HHHHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCcEEEEEe
Confidence 34567778877643 43333333 34444544443 6899999999999999999999999998777764
No 172
>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=65.21 E-value=19 Score=29.43 Aligned_cols=29 Identities=24% Similarity=0.330 Sum_probs=17.4
Q ss_pred hcCCCCC-CCchHHHHhcceEEEEeCCCch
Q 014872 220 LLKPKVG-YGLGSELRRAGVFVKTVRDKPQ 248 (417)
Q Consensus 220 vL~PKvG-YGLA~ELkRAGV~VrtV~dKPq 248 (417)
.++|.-| ..+-..|++.|+.+-.+++.+.
T Consensus 75 ~~~~~~~~~~~L~~l~~~~~~~~i~Sn~~~ 104 (176)
T PF13419_consen 75 KLQPYPGVRELLERLKAKGIPLVIVSNGSR 104 (176)
T ss_dssp GEEESTTHHHHHHHHHHTTSEEEEEESSEH
T ss_pred ccchhhhhhhhhhhcccccceeEEeecCCc
Confidence 4444444 3445566667777777777765
No 173
>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=64.84 E-value=31 Score=28.01 Aligned_cols=67 Identities=22% Similarity=0.223 Sum_probs=37.7
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEe-CCcchHHHHHHH---HHcCCc-EEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVS-DDNDFKEMLRKA---RDANLG-TVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVS-DDsdF~~~Lr~A---R~~~v~-TVVVGd~ 298 (417)
.-+|+.|+++|+.|.... -..-.| .+... +...+++.+++-+ -...+..+.+.+ |+.+=+ .||+|..
T Consensus 18 ~~la~~l~~~G~~v~~~d-~~~~~~-~l~~~---~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~ 89 (121)
T PF02310_consen 18 LYLAAYLRKAGHEVDILD-ANVPPE-ELVEA---LRAERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGP 89 (121)
T ss_dssp HHHHHHHHHTTBEEEEEE-SSB-HH-HHHHH---HHHTTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEES
T ss_pred HHHHHHHHHCCCeEEEEC-CCCCHH-HHHHH---HhcCCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECC
Confidence 457899999999999882 222111 12222 2345777665544 465655555554 445333 4566654
No 174
>TIGR03649 ergot_EASG ergot alkaloid biosynthesis protein, AFUA_2G17970 family. This family consists of fungal proteins of unknown function associated with secondary metabolite biosynthesis, such as of the ergot alkaloids such as ergovaline. Nomenclature differs because gene order differs - this is EasG in Neotyphodium lolii but is designated ergot alkaloid biosynthetic protein A in several other fungi.
Probab=64.78 E-value=9.2 Score=35.43 Aligned_cols=74 Identities=15% Similarity=0.212 Sum_probs=46.4
Q ss_pred CCCCchHHHHhcceEEEEeCCCchhH----------HHHHHHHHHHhhh-----CC-cceEEEEeCCc-----chHHHHH
Q 014872 225 VGYGLGSELRRAGVFVKTVRDKPQAA----------DWALKRQMQHSMS-----SG-VDWMFLVSDDN-----DFKEMLR 283 (417)
Q Consensus 225 vGYGLA~ELkRAGV~VrtV~dKPqAA----------D~ALkrhm~~~m~-----rg-v~cLvLVSDDs-----dF~~~Lr 283 (417)
+|--++.+|...|+.|+.....|+.+ |..=..-+...+. .| ++.+++++... ....++.
T Consensus 11 iG~~vv~~L~~~g~~V~~~~R~~~~~~~~~~~~~~~d~~d~~~l~~a~~~~~~~~g~~d~v~~~~~~~~~~~~~~~~~i~ 90 (285)
T TIGR03649 11 TASRIARLLQAASVPFLVASRSSSSSAGPNEKHVKFDWLDEDTWDNPFSSDDGMEPEISAVYLVAPPIPDLAPPMIKFID 90 (285)
T ss_pred HHHHHHHHHHhCCCcEEEEeCCCccccCCCCccccccCCCHHHHHHHHhcccCcCCceeEEEEeCCCCCChhHHHHHHHH
Confidence 45567778888888888666555422 1110111222231 56 99999887642 2446788
Q ss_pred HHHHcCCcEEEEcCC
Q 014872 284 KARDANLGTVVVGDS 298 (417)
Q Consensus 284 ~AR~~~v~TVVVGd~ 298 (417)
.|++.|++.+|.-.+
T Consensus 91 aa~~~gv~~~V~~Ss 105 (285)
T TIGR03649 91 FARSKGVRRFVLLSA 105 (285)
T ss_pred HHHHcCCCEEEEeec
Confidence 999999998887554
No 175
>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=64.68 E-value=34 Score=30.40 Aligned_cols=71 Identities=21% Similarity=0.138 Sum_probs=47.6
Q ss_pred CCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 226 GYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 226 GYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
-.|+..++++.|+.+.......+.+ .--+..+..+.+.+++.+++++-+.+=. .+..+.++|+..|+++..
T Consensus 18 ~~gi~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~~~~ipvv~~~~~ 88 (264)
T cd01574 18 LAAIESAAREAGYAVTLSMLAEADE-EALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAAPADVPVVFVDGS 88 (264)
T ss_pred HHHHHHHHHHCCCeEEEEeCCCCch-HHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHHhcCCCEEEEecc
Confidence 3678889999999988764432211 1233445556778899999876433222 345567899999999874
No 176
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=64.06 E-value=11 Score=39.76 Aligned_cols=79 Identities=20% Similarity=0.163 Sum_probs=51.2
Q ss_pred chHHHHhcce-EEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCC--ccccc
Q 014872 229 LGSELRRAGV-FVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNR--GLGQH 305 (417)
Q Consensus 229 LA~ELkRAGV-~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~--~L~R~ 305 (417)
+-..|+++|+ .+-.++++++..=.++-++ .|++.+.-.....+=..+++..+..+-.++.|||+.. ...+.
T Consensus 370 ~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~------lgi~~~f~~~~p~~K~~~i~~l~~~~~~v~~vGDg~nD~~al~~ 443 (536)
T TIGR01512 370 AIAELKALGIEKVVMLTGDRRAVAERVARE------LGIDEVHAELLPEDKLEIVKELREKYGPVAMVGDGINDAPALAA 443 (536)
T ss_pred HHHHHHHcCCCcEEEEcCCCHHHHHHHHHH------cCChhhhhccCcHHHHHHHHHHHhcCCEEEEEeCCHHHHHHHHh
Confidence 3468999999 9999999888442222222 2333221111122446677777888878999999754 34789
Q ss_pred cccccchh
Q 014872 306 ADLWVPWI 313 (417)
Q Consensus 306 ADl~fSW~ 313 (417)
||+.++|.
T Consensus 444 A~vgia~g 451 (536)
T TIGR01512 444 ADVGIAMG 451 (536)
T ss_pred CCEEEEeC
Confidence 99988874
No 177
>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=64.04 E-value=29 Score=31.79 Aligned_cols=65 Identities=20% Similarity=0.200 Sum_probs=48.0
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
-|+..+++..|+.+..+....+ ...+..+...+++.+++.+-+.. .+.++.+++.|+..|+++..
T Consensus 24 ~gi~~~a~~~g~~~~~~~~~~~------~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 24 AGVAEVLDAAGVNLLLLPASSE------DSDSALVVSALVDGFIVYGVPRD-DPLVAALLRRGLPVVVVDQP 88 (283)
T ss_pred HHHHHHHHHCCCEEEEecCccH------HHHHHHHHhcCCCEEEEeCCCCC-hHHHHHHHHcCCCEEEEecC
Confidence 4678899999999988754331 12334456789999999875433 36789999999999999764
No 178
>PRK13478 phosphonoacetaldehyde hydrolase; Provisional
Probab=63.75 E-value=36 Score=31.96 Aligned_cols=78 Identities=19% Similarity=0.200 Sum_probs=46.5
Q ss_pred cCCCCC-CCchHHHHhcceEEEEeCCCchhH-HHHHHHHHHHhhhCCc-ceEEEEeCCc-----chHHHHHHHHHcCCc-
Q 014872 221 LKPKVG-YGLGSELRRAGVFVKTVRDKPQAA-DWALKRQMQHSMSSGV-DWMFLVSDDN-----DFKEMLRKARDANLG- 291 (417)
Q Consensus 221 L~PKvG-YGLA~ELkRAGV~VrtV~dKPqAA-D~ALkrhm~~~m~rgv-~cLvLVSDDs-----dF~~~Lr~AR~~~v~- 291 (417)
+.|.-| -.+-..|++.|+.+=.+++++... +..|+. .-..+. .-.|+.+|+. +=.-+++.+++.|+.
T Consensus 100 ~~~~pg~~elL~~L~~~g~~l~I~T~~~~~~~~~~l~~----~~l~~~~~d~i~~~~~~~~~KP~p~~~~~a~~~l~~~~ 175 (267)
T PRK13478 100 ATPIPGVLEVIAALRARGIKIGSTTGYTREMMDVVVPL----AAAQGYRPDHVVTTDDVPAGRPYPWMALKNAIELGVYD 175 (267)
T ss_pred CCCCCCHHHHHHHHHHCCCEEEEEcCCcHHHHHHHHHH----HhhcCCCceEEEcCCcCCCCCCChHHHHHHHHHcCCCC
Confidence 344444 445578889999999999988753 223322 111222 1234455552 334567777888873
Q ss_pred ---EEEEcCCCCcc
Q 014872 292 ---TVVVGDSNRGL 302 (417)
Q Consensus 292 ---TVVVGd~~~~L 302 (417)
+|+|||+..++
T Consensus 176 ~~e~l~IGDs~~Di 189 (267)
T PRK13478 176 VAACVKVDDTVPGI 189 (267)
T ss_pred CcceEEEcCcHHHH
Confidence 68999986544
No 179
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=63.36 E-value=31 Score=32.68 Aligned_cols=70 Identities=21% Similarity=0.335 Sum_probs=52.5
Q ss_pred CCchHHHHhcce--EEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEe-CCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGV--FVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVS-DDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV--~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVS-DDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|...+-+..|+ .+.+....++.+ .=..++++++.+|++-|++.. |..-+.+++++|+++|+..|.+-..
T Consensus 53 ~g~~~~a~~~g~~~~~~~~~~~~d~~--~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~ 125 (322)
T COG1879 53 KGAEAAAKKLGVVVAVVIADAQNDVA--KQIAQIEDLIAQGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSD 125 (322)
T ss_pred HHHHHHHHHcCCcEEEEecccccChH--HHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecC
Confidence 578888899994 555554444433 234567778899999998865 6667999999999999998887664
No 180
>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=63.28 E-value=19 Score=33.99 Aligned_cols=63 Identities=17% Similarity=0.109 Sum_probs=47.4
Q ss_pred chHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEE
Q 014872 229 LGSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTV 293 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TV 293 (417)
+...|+++|+.|-.....| ...| ...++..+.+.+++.|++.....+.+.+++.+++.|+..-
T Consensus 152 ~~~~~~~~G~~v~~~~~~~~~~~d--~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~ 215 (333)
T cd06358 152 AKRYIAELGGEVVGEEYVPLGTTD--FTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR 215 (333)
T ss_pred HHHHHHHcCCEEeeeeeecCChHH--HHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc
Confidence 3456888898875433333 3454 4666777788999999888888999999999999999753
No 181
>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=63.23 E-value=21 Score=33.02 Aligned_cols=59 Identities=15% Similarity=0.199 Sum_probs=40.8
Q ss_pred ceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC--cEEEEcC
Q 014872 237 GVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL--GTVVVGD 297 (417)
Q Consensus 237 GV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVGd 297 (417)
|..|......+...|.+ .++.++...+++.|++.++..+-..+++.++++|+ +--++|.
T Consensus 160 ~~~~~~~~~~~~~~d~~--~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 220 (333)
T cd06332 160 GEVVEEVYTPLGQLDFS--AELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKKKIPLYGP 220 (333)
T ss_pred EEEeeEEecCCCCcchH--HHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCcccCCceecc
Confidence 43343333334444533 35555557889999998888999999999999999 6556664
No 182
>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=62.86 E-value=19 Score=34.06 Aligned_cols=63 Identities=11% Similarity=0.101 Sum_probs=46.5
Q ss_pred chHHHHhcceEEEEeCCCchh-HHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCc
Q 014872 229 LGSELRRAGVFVKTVRDKPQA-ADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLG 291 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqA-AD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~ 291 (417)
+...|++.|+.|.....-|.. .+.-+...+.++...+++.|++.....+...+++.|+++|+.
T Consensus 155 ~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~ 218 (350)
T cd06366 155 LVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMM 218 (350)
T ss_pred HHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCc
Confidence 456777888887644333321 123456666667778899999999999999999999999984
No 183
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=62.84 E-value=27 Score=34.84 Aligned_cols=66 Identities=11% Similarity=0.223 Sum_probs=46.2
Q ss_pred hHHHHhcceEEEE---eCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCCcchHHHHHHHHHcCC--cEEEEcC
Q 014872 230 GSELRRAGVFVKT---VRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDDNDFKEMLRKARDANL--GTVVVGD 297 (417)
Q Consensus 230 A~ELkRAGV~Vrt---V~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVGd 297 (417)
..++++.|+-|-. ++..+.+.| ....+.++.. .+++.+||.+...+...+++.|++.|+ +-+.||.
T Consensus 193 ~~~~~~~gi~i~~~~~~~~~~~~~d--~~~~l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~~~~~~i~~ 264 (452)
T cd06362 193 EKLAAERGICIAGSEKIPSSATEEE--FDNIIRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAEGHFQWIAS 264 (452)
T ss_pred HHHHHHCCeeEEEEEEcCCCCCHHH--HHHHHHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCcCceEEEEe
Confidence 4577778876653 333344444 3444555555 478999999999999999999999999 4566654
No 184
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=62.60 E-value=11 Score=36.23 Aligned_cols=74 Identities=15% Similarity=0.184 Sum_probs=52.2
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCccc
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLG 303 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~ 303 (417)
++.-|.+.|..+..+.+ + .-+..+... ..-++++.+|-+ .+-..+++.|+++|+++|.|.+. .+.|.
T Consensus 60 ~~~~l~~~g~~~~~~~~----~----~~~~~~~~~~~~~d~~i~iS~sG~t~~~~~~~~~ak~~g~~vI~iT~~~~s~la 131 (321)
T PRK11543 60 IAATLASTGTPAFFVHP----A----EALHGDLGMIESRDVMLFISYSGGAKELDLIIPRLEDKSIALLAMTGKPTSPLG 131 (321)
T ss_pred HHHHHHcCCCceeecCh----H----HHhhCCcCccCCCCEEEEEeCCCCcHHHHHHHHHHHHcCCeEEEEECCCCChhH
Confidence 34556778888887753 1 011111122 334788888876 56778889999999999999995 47899
Q ss_pred ccccccc
Q 014872 304 QHADLWV 310 (417)
Q Consensus 304 R~ADl~f 310 (417)
+.||.-|
T Consensus 132 ~~ad~~l 138 (321)
T PRK11543 132 LAAKAVL 138 (321)
T ss_pred HhCCEEE
Confidence 9999987
No 185
>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=62.23 E-value=20 Score=29.80 Aligned_cols=52 Identities=17% Similarity=0.322 Sum_probs=33.5
Q ss_pred CCeecccCCCCCCChHHHHHHHHHhhhhhHHH-------HHhhhhccccchhHHHHHHh
Q 014872 155 DPYICGVCGRKCKTNLDLKKHFKQLHERERQK-------KLNRMKSLKGKKRQKYKERY 206 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~kL~kHFKQLHERER~K-------RLnrL~S~KGkrR~rl~~~~ 206 (417)
.-+.|+.||..+.+.+......+.+=+--|.+ +|..+....|-....+...+
T Consensus 30 ~~~~C~~CGe~~~~~e~~~~~~~~i~~~~~~~~~~~~~~~i~~~r~~~gltq~~lA~~l 88 (127)
T TIGR03830 30 PGWYCPACGEELLDPEESKRNSAALADFYRKVDGLLTPPEIRRIRKKLGLSQREAAELL 88 (127)
T ss_pred eeeECCCCCCEEEcHHHHHHHHHHHHHHHHHccCCcCHHHHHHHHHHcCCCHHHHHHHh
Confidence 34699999999999888877777665544443 45555444555444444443
No 186
>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=61.65 E-value=18 Score=34.90 Aligned_cols=69 Identities=16% Similarity=0.194 Sum_probs=49.0
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCc-ceEEEEeCCc---chHHHHHHHHHcCCcEEEEcC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGV-DWMFLVSDDN---DFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv-~cLvLVSDDs---dF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|..+|+++|+.|++|++...+.=.|-.-. ..+..+|. .++.++|+.- .+.+..+....++.+|+|+=|
T Consensus 94 ~l~~~l~~~~i~vevIPGiSs~~aaaa~~g-~~lt~~g~~~~v~~~s~~~~~~~~~~~~~~~l~~~~~Tlvll~ 166 (257)
T TIGR00522 94 DLKLEAKRKGIETRIIHGASISSAVCGLTG-LQLYKFGKTATIVFFTDNYRPQTPYNVIKENRKIGLHTLVLLD 166 (257)
T ss_pred HHHHHHHHCCCeEEEECcHhHHHHHHHHcC-CCcccCCCcEEEEEecCCcCCCCHHHHHHHHHhcCCCcEEEEe
Confidence 456777999999999988776542222222 22334664 8899999775 455677888889999999965
No 187
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=60.70 E-value=23 Score=33.04 Aligned_cols=77 Identities=21% Similarity=0.294 Sum_probs=45.9
Q ss_pred hcCCCCC-CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcce---EEEEeCC-----cchHHHHHHHHHcCC
Q 014872 220 LLKPKVG-YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDW---MFLVSDD-----NDFKEMLRKARDANL 290 (417)
Q Consensus 220 vL~PKvG-YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~c---LvLVSDD-----sdF~~~Lr~AR~~~v 290 (417)
.+.|.-| .-+-..|+..|+.+-.+++++... +...+.+ .|+.. .|+.|++ ++=..+++.+++.|+
T Consensus 106 ~~~l~pgv~e~L~~L~~~g~~l~I~Tn~~~~~---~~~~l~~---~gl~~~Fd~iv~~~~~~~~KP~p~~~~~a~~~~~~ 179 (248)
T PLN02770 106 QLKPLNGLYKLKKWIEDRGLKRAAVTNAPREN---AELMISL---LGLSDFFQAVIIGSECEHAKPHPDPYLKALEVLKV 179 (248)
T ss_pred cCCcCccHHHHHHHHHHcCCeEEEEeCCCHHH---HHHHHHH---cCChhhCcEEEecCcCCCCCCChHHHHHHHHHhCC
Confidence 3444444 455667888899999999988654 2222222 33321 2455554 233445666677776
Q ss_pred c---EEEEcCCCCcc
Q 014872 291 G---TVVVGDSNRGL 302 (417)
Q Consensus 291 ~---TVVVGd~~~~L 302 (417)
. +++|||+..++
T Consensus 180 ~~~~~l~vgDs~~Di 194 (248)
T PLN02770 180 SKDHTFVFEDSVSGI 194 (248)
T ss_pred ChhHEEEEcCCHHHH
Confidence 5 69999976444
No 188
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=60.39 E-value=37 Score=31.18 Aligned_cols=71 Identities=27% Similarity=0.306 Sum_probs=50.2
Q ss_pred CCchHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCC------cchHHHHHHHHHcCCc---EEEEc
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDD------NDFKEMLRKARDANLG---TVVVG 296 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDD------sdF~~~Lr~AR~~~v~---TVVVG 296 (417)
.-+-.+|+.+|+..=.++.||+ -++..|+.| ..+...-+.++.+ ++-..++..+.+.|+. ++.||
T Consensus 95 ~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~-----gl~~~F~~i~g~~~~~~~KP~P~~l~~~~~~~~~~~~~~l~VG 169 (220)
T COG0546 95 KELLAALKSAGYKLGIVTNKPERELDILLKAL-----GLADYFDVIVGGDDVPPPKPDPEPLLLLLEKLGLDPEEALMVG 169 (220)
T ss_pred HHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHh-----CCccccceEEcCCCCCCCCcCHHHHHHHHHHhCCChhheEEEC
Confidence 5566789999999999999998 556666652 2332222344422 3456789999999998 89999
Q ss_pred CCCCcc
Q 014872 297 DSNRGL 302 (417)
Q Consensus 297 d~~~~L 302 (417)
|+..++
T Consensus 170 Ds~~Di 175 (220)
T COG0546 170 DSLNDI 175 (220)
T ss_pred CCHHHH
Confidence 986544
No 189
>PHA00732 hypothetical protein
Probab=60.00 E-value=3.5 Score=33.93 Aligned_cols=21 Identities=29% Similarity=0.626 Sum_probs=17.1
Q ss_pred CeecccCCCCCCChHHHHHHHHHh
Q 014872 156 PYICGVCGRKCKTNLDLKKHFKQL 179 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~kHFKQL 179 (417)
++.|++||+.|. .|..|++..
T Consensus 27 ~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 27 LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CCccCCCCCEeC---Chhhhhccc
Confidence 468999999998 588888554
No 190
>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=58.55 E-value=48 Score=30.98 Aligned_cols=69 Identities=9% Similarity=0.070 Sum_probs=44.7
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..++++.|+.+.......+.. . ....+..+...+++-||+++...+ ..++...++.++..|+++..
T Consensus 79 ~~i~~~~~~~g~~~~i~~~~~~~~-~-~~~~~~~l~~~~vdGiIi~~~~~~-~~~~~~l~~~~iPvV~~~~~ 147 (329)
T TIGR01481 79 RGIEDIATMYKYNIILSNSDEDPE-K-EVQVLNTLLSKQVDGIIFMGGTIT-EKLREEFSRSPVPVVLAGTV 147 (329)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH-H-HHHHHHHHHhCCCCEEEEeCCCCC-hHHHHHHHhcCCCEEEEecC
Confidence 356677778888887653322221 1 223344466789999999875422 34567777889999999753
No 191
>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=58.52 E-value=23 Score=37.42 Aligned_cols=79 Identities=18% Similarity=0.154 Sum_probs=52.2
Q ss_pred chHHHHhcc-eEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCCc--cccc
Q 014872 229 LGSELRRAG-VFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNRG--LGQH 305 (417)
Q Consensus 229 LA~ELkRAG-V~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~~--L~R~ 305 (417)
+-.+|+.+| +.+..++++++..=.++-+| .|++.++--....+=..+++..+..+-.++.|||+..+ -.+.
T Consensus 392 ~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~------lgi~~~f~~~~p~~K~~~v~~l~~~~~~v~~vGDg~nD~~al~~ 465 (556)
T TIGR01525 392 AIAALKRAGGIKLVMLTGDNRSAAEAVAAE------LGIDEVHAELLPEDKLAIVKELQEEGGVVAMVGDGINDAPALAA 465 (556)
T ss_pred HHHHHHHcCCCeEEEEeCCCHHHHHHHHHH------hCCCeeeccCCHHHHHHHHHHHHHcCCEEEEEECChhHHHHHhh
Confidence 346789999 99999999988542233332 34443322212233356777777777789999998543 3688
Q ss_pred cccccchh
Q 014872 306 ADLWVPWI 313 (417)
Q Consensus 306 ADl~fSW~ 313 (417)
||+.+.|-
T Consensus 466 A~vgia~g 473 (556)
T TIGR01525 466 ADVGIAMG 473 (556)
T ss_pred CCEeEEeC
Confidence 99988885
No 192
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=57.42 E-value=48 Score=31.22 Aligned_cols=68 Identities=9% Similarity=0.061 Sum_probs=47.6
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHH-cCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARD-ANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~-~~v~TVVVGd 297 (417)
.|+..+++..|+.+.+....-+.. -....+..+...+++.|+++..+ ...+.++.+++ .++..|+++.
T Consensus 79 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~-~~~~~~~~l~~~~~iPvV~~d~ 147 (341)
T PRK10703 79 EAVEKNCYQKGYTLILCNAWNNLE--KQRAYLSMLAQKRVDGLLVMCSE-YPEPLLAMLEEYRHIPMVVMDW 147 (341)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEecCC-CCHHHHHHHHhcCCCCEEEEec
Confidence 478888999999888764332222 12344555678899999987653 23467788888 7999999975
No 193
>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=57.35 E-value=26 Score=33.38 Aligned_cols=67 Identities=13% Similarity=0.188 Sum_probs=47.3
Q ss_pred chHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCc-chHHHHHHHHHcCCc-EEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDN-DFKEMLRKARDANLG-TVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDs-dF~~~Lr~AR~~~v~-TVVVGd 297 (417)
+...|+++|+.|-.....| .+.| ...++.+++..+++.|+++.... +|..+++.++..|+. ++++|.
T Consensus 156 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 225 (333)
T cd06328 156 FKAALEKLGAAIVTEEYAPTDTTD--FTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIEITLAG 225 (333)
T ss_pred HHHHHHhCCCEEeeeeeCCCCCcc--hHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCeEEecc
Confidence 3456888898886443333 3443 56677778889999988875444 899999999999888 444443
No 194
>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=57.33 E-value=15 Score=36.33 Aligned_cols=122 Identities=22% Similarity=0.296 Sum_probs=66.2
Q ss_pred ecccCCC-----CCCChHHHHHHHHHhhhhhHHHH----Hhhhh--------ccccchhHHHHHHhhccchHHHHHHHhh
Q 014872 158 ICGVCGR-----KCKTNLDLKKHFKQLHERERQKK----LNRMK--------SLKGKKRQKYKERYISGNDKYNEAARSL 220 (417)
Q Consensus 158 ~C~VCGR-----kf~T~~kL~kHFKQLHERER~KR----LnrL~--------S~KGkrR~rl~~~~a~k~~KY~~AArev 220 (417)
.|..|+. +.++.+.+...++.+.++-+.+. +...- -..-+.+..+...+..... -.+..-+
T Consensus 32 ~C~FC~~~~~~~r~~s~e~i~~~i~~~~~~~~~~~~~~~ikif~sgsf~D~~~~~~~~~~~i~~~l~~~~~-~~~i~~e- 109 (313)
T TIGR01210 32 GCYMCGYLADSSPEVTEENLINQFDEAIEKYKEKIKDFVIKIFTSGSFLDDREVPKETRNYIFEKIAQRDN-LKEVVVE- 109 (313)
T ss_pred cCccCCCCCCCCCCCChhHHHHHHHHHHHHhhcccccEEEEEecCCCcCCcCcCCHHHHHHHHHHHHhcCC-cceEEEE-
Confidence 5999972 24577789999988887654331 11110 0112233333333322100 0000001
Q ss_pred cCCC-CCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 221 LKPK-VGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 221 L~PK-vGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
.+|. +-..+-.+|++||+.++..-+--.+.|..|++ .|++|. +-.++..+++.++++|++.
T Consensus 110 srpd~i~~e~L~~l~~aG~~~~v~iG~ES~~d~~L~~----~inKg~-------t~~~~~~ai~~~~~~Gi~v 171 (313)
T TIGR01210 110 SRPEFIDEEKLEELRKIGVNVEVAVGLETANDRIREK----SINKGS-------TFEDFIRAAELARKYGAGV 171 (313)
T ss_pred eCCCcCCHHHHHHHHHcCCCEEEEEecCcCCHHHHHH----hhCCCC-------CHHHHHHHHHHHHHcCCcE
Confidence 1232 33566678999998654433444456666643 377774 3567888888888888873
No 195
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=57.26 E-value=32 Score=32.33 Aligned_cols=76 Identities=16% Similarity=0.181 Sum_probs=50.5
Q ss_pred hcceEEEEe-CCCchh--------HHHHHHHHHHHhhhCCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCc
Q 014872 235 RAGVFVKTV-RDKPQA--------ADWALKRQMQHSMSSGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRG 301 (417)
Q Consensus 235 RAGV~VrtV-~dKPqA--------AD~ALkrhm~~~m~rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~ 301 (417)
|-|+.+.-. .|.... .|.-..+++...+..| |+++.+|-+ .+-..+++.||++|+++|++... .+.
T Consensus 71 r~gl~a~~l~~d~~~~ta~and~~~~~~f~~ql~~~~~~g-Dvli~iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~~s~ 149 (196)
T PRK10886 71 RPSLPAIALNTDNVVLTAIANDRLHDEVYAKQVRALGHAG-DVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDGGE 149 (196)
T ss_pred CCCcceEEecCcHHHHHHHhccccHHHHHHHHHHHcCCCC-CEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCh
Confidence 556666633 333332 2344556665445454 888888875 45677889999999999999884 467
Q ss_pred cccc---cccccc
Q 014872 302 LGQH---ADLWVP 311 (417)
Q Consensus 302 L~R~---ADl~fS 311 (417)
|++. +|+-+-
T Consensus 150 l~~l~~~~D~~i~ 162 (196)
T PRK10886 150 LAGLLGPQDVEIR 162 (196)
T ss_pred hhhccccCCEEEE
Confidence 7775 676553
No 196
>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=57.17 E-value=17 Score=31.06 Aligned_cols=42 Identities=21% Similarity=0.408 Sum_probs=23.0
Q ss_pred HHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 255 KRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 255 krhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
-..++++...|+..+++.+. ..-.++++.|++.|++ ++|..+
T Consensus 69 ~~~v~~~~~~g~~~v~~~~g-~~~~~~~~~a~~~gi~--vigp~C 110 (116)
T PF13380_consen 69 PEIVDEAAALGVKAVWLQPG-AESEELIEAAREAGIR--VIGPNC 110 (116)
T ss_dssp HHHHHHHHHHT-SEEEE-TT-S--HHHHHHHHHTT-E--EEESS-
T ss_pred HHHHHHHHHcCCCEEEEEcc-hHHHHHHHHHHHcCCE--EEeCCc
Confidence 34455566677777777777 6666777777776655 555543
No 197
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=57.07 E-value=46 Score=32.77 Aligned_cols=70 Identities=17% Similarity=0.239 Sum_probs=50.0
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
-|+..+|++.|+.+-...-..... ..+..++.+...++|-||+.+ -..-...+....+.++..|+|+...
T Consensus 78 ~gi~~~~~~~gy~~~l~~~~~~~~--~e~~~~~~l~~~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~ 147 (333)
T COG1609 78 KGIEEAAREAGYSLLLANTDDDPE--KEREYLETLLQKRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSP 147 (333)
T ss_pred HHHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHHHcCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCC
Confidence 488999999999999775544222 345555667789999999998 2222334555666699999999854
No 198
>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=56.54 E-value=13 Score=30.99 Aligned_cols=42 Identities=14% Similarity=0.120 Sum_probs=31.3
Q ss_pred CcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCCCCccccccc
Q 014872 265 GVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDSNRGLGQHAD 307 (417)
Q Consensus 265 gv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~~~~L~R~AD 307 (417)
.-++++.+|-+ .+-..+++.||++|+++|.|.+ .+.|...||
T Consensus 43 ~~dl~I~iS~SG~t~e~i~~~~~a~~~g~~iI~IT~-~~~l~~~~~ 87 (119)
T cd05017 43 RKTLVIAVSYSGNTEETLSAVEQAKERGAKIVAITS-GGKLLEMAR 87 (119)
T ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEeC-CchHHHHHH
Confidence 34788888854 5678888999999999999985 334555444
No 199
>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=56.15 E-value=54 Score=29.16 Aligned_cols=67 Identities=16% Similarity=0.162 Sum_probs=42.9
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
-|+..+++..|+.+......-... .....+..+++.+++.+++.+-+.. .+.++.+++.+ ..|+++.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~-pvv~~~~ 85 (260)
T cd06286 19 DGIEKAALKHGYKVVLLQTNYDKE--KELEYLELLKTKQVDGLILCSREND-WEVIEPYTKYG-PIVLCEE 85 (260)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHhcCC-CEEEEec
Confidence 367777888898887653321211 1223344467789999999875433 45677777776 7787775
No 200
>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=56.12 E-value=39 Score=29.72 Aligned_cols=28 Identities=29% Similarity=0.415 Sum_probs=15.2
Q ss_pred EEeeCCCCCCCC-CchHHHHHHHHHHHHcCc
Q 014872 83 VLWDLDNKPPRG-PPYDAAMSLRRVAERFGE 112 (417)
Q Consensus 83 VlWDLDNKPP~~-pPY~AA~rLr~~As~FG~ 112 (417)
|+||+|.-==.+ +.+.. .++.++..+|.
T Consensus 1 viFD~DGTL~Ds~~~~~~--~~~~~~~~~~~ 29 (213)
T TIGR01449 1 VLFDLDGTLVDSAPDIAA--AVNMALAALGL 29 (213)
T ss_pred CeecCCCccccCHHHHHH--HHHHHHHHCCC
Confidence 578888542222 33333 44566666764
No 201
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=55.79 E-value=43 Score=34.30 Aligned_cols=106 Identities=25% Similarity=0.342 Sum_probs=63.3
Q ss_pred cceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHH---HHHHHcCCcEEEEcCCC-Ccc-cccccccc
Q 014872 236 AGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEML---RKARDANLGTVVVGDSN-RGL-GQHADLWV 310 (417)
Q Consensus 236 AGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~L---r~AR~~~v~TVVVGd~~-~~L-~R~ADl~f 310 (417)
|-.-|--| .-|.|+|.++.- +..|+.++|++|+.----|++ +.|+++| +.+||-.+ +.+ ...+=+.+
T Consensus 66 a~~svI~V-p~~~aadai~EA-----ida~i~liv~ITEgIP~~D~~~~~~~a~~~g--~~iiGPncpGiI~Pg~~kiGi 137 (293)
T COG0074 66 ANASVIFV-PPPFAADAILEA-----IDAGIKLVVIITEGIPVLDMLELKRYAREKG--TRLIGPNCPGIITPGECKIGI 137 (293)
T ss_pred CCEEEEec-CcHHHHHHHHHH-----HhCCCcEEEEEeCCCCHHHHHHHHHHHHhcC--CEEECCCCCccCcCCcceeee
Confidence 45555666 557799887764 899999999999987655555 5566666 88999876 333 33354544
Q ss_pred -chhhhhcCcccccccccCCCcccccc----cccCCCCceeeeecCcc
Q 014872 311 -PWIEVENGELTERDLVPRTRRTTTED----FERDGLGLFSLTEFDGV 353 (417)
Q Consensus 311 -SW~eV~~Gk~~~~~~~~~~~~~~~~~----~~~~~~~~f~~~~~~~~ 353 (417)
|=.-..-|++. +|++.- +-+++ .-.-+.|+....---||
T Consensus 138 mp~~i~~~G~IG---iVSrSG-TLTyE~~~qlt~~G~GqS~~IGiGGD 181 (293)
T COG0074 138 MPGNIYKPGNIG---IVSRSG-TLTYEAVSQLTEAGLGQSTAIGIGGD 181 (293)
T ss_pred chhhhccCCceE---EEecCc-chHHHHHHHHHhcCCceEEEEEeCCC
Confidence 22223345555 555443 12222 33345666655544444
No 202
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=55.72 E-value=5.2 Score=37.87 Aligned_cols=15 Identities=40% Similarity=0.879 Sum_probs=12.8
Q ss_pred CCeecccCCCCCCCh
Q 014872 155 DPYICGVCGRKCKTN 169 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~ 169 (417)
+.+.|||||..|.|.
T Consensus 4 k~~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 4 KKITCPVCGKEFKTK 18 (214)
T ss_pred CceECCCCCCeeeee
Confidence 568999999999865
No 203
>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=55.71 E-value=29 Score=33.39 Aligned_cols=66 Identities=23% Similarity=0.223 Sum_probs=44.4
Q ss_pred chHHHHhcceEEEEeCCCch---hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCc---EEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKPQ---AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLG---TVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPq---AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~---TVVVGd 297 (417)
+..+|++.|+.|..+..-|. +.|. ...+.++...+ +.+|+.....+...+|+.++++|+. .+++|.
T Consensus 158 ~~~~~~~~G~~v~~~~~~~~~~~~~d~--~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~ 229 (389)
T cd06352 158 LEAALREFNLTVSHVVFMEDNSGAEDL--LEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILI 229 (389)
T ss_pred HHHHHHhcCCeEEEEEEecCCccchhH--HHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 44566777877764432222 3442 34444455566 7778877779999999999999995 777764
No 204
>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=55.67 E-value=24 Score=33.33 Aligned_cols=68 Identities=24% Similarity=0.261 Sum_probs=49.3
Q ss_pred chHHHHhcceEEEEeCCC-chhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 229 LGSELRRAGVFVKTVRDK-PQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dK-PqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
+...|++.|+.|...... |...| ...++..++..+++.|++.....+...+++.+++.|+..-++|.+
T Consensus 155 ~~~~~~~~g~~v~~~~~~~~~~~d--~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 223 (340)
T cd06349 155 FVKAAEKLGGQVVAHEEYVPGEKD--FRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIPVVASS 223 (340)
T ss_pred HHHHHHHcCCEEEEEEEeCCCCCc--HHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCcEEccC
Confidence 445677778877643222 22222 345666678899999999999999999999999999987677653
No 205
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=54.97 E-value=1.6e+02 Score=26.81 Aligned_cols=98 Identities=15% Similarity=0.056 Sum_probs=54.9
Q ss_pred hHHHHHHHhhcCCCCC-CCchHHHHhcceEEEEeCCCchh-HHHHHHHHHHHhhhCCcceE-EEEeCC--------c---
Q 014872 211 DKYNEAARSLLKPKVG-YGLGSELRRAGVFVKTVRDKPQA-ADWALKRQMQHSMSSGVDWM-FLVSDD--------N--- 276 (417)
Q Consensus 211 ~KY~~AArevL~PKvG-YGLA~ELkRAGV~VrtV~dKPqA-AD~ALkrhm~~~m~rgv~cL-vLVSDD--------s--- 276 (417)
+.+.+..++.+.+.-| -.+-..|++.|+.+-.|++++.. +...|++++ ..-.+-|- ..++++ .
T Consensus 63 ~~~~~~~~~~~~l~pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~---~~~~i~~n~~~~~~~~~~~~kp~p~~~ 139 (219)
T PRK09552 63 EEIIQFLLETAEIREGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGLI---PKEQIYCNGSDFSGEYITITWPHPCDE 139 (219)
T ss_pred HHHHHHHHhCCCcCcCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHhC---CcCcEEEeEEEecCCeeEEeccCCccc
Confidence 3344444454555556 46777899999999999999983 444454431 11111111 112221 1
Q ss_pred --------chHHHHHHHHHcCCcEEEEcCCCCcc--ccccccccc
Q 014872 277 --------DFKEMLRKARDANLGTVVVGDSNRGL--GQHADLWVP 311 (417)
Q Consensus 277 --------dF~~~Lr~AR~~~v~TVVVGd~~~~L--~R~ADl~fS 311 (417)
....+++.-....-.+|+|||+..++ .+.||+-+.
T Consensus 140 ~~~~~~~~~K~~~l~~~~~~~~~~i~iGDs~~Di~aa~~Ag~~~a 184 (219)
T PRK09552 140 HCQNHCGCCKPSLIRKLSDTNDFHIVIGDSITDLEAAKQADKVFA 184 (219)
T ss_pred cccccCCCchHHHHHHhccCCCCEEEEeCCHHHHHHHHHCCccee
Confidence 12344544333334689999987544 667777554
No 206
>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=54.66 E-value=61 Score=33.29 Aligned_cols=69 Identities=17% Similarity=0.208 Sum_probs=48.2
Q ss_pred chHHHHhcceEEEE---eCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHH-HHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKT---VRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKE-MLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~Vrt---V~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~-~Lr~AR~~~v~TVVVGd 297 (417)
|..+|++.|+-|-. ++..++..+......+..+...+++.|||.+...+... +++.+|+.+.+.+.||.
T Consensus 192 ~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~~~~~~~l~~~~~~~~~~~~~wi~s 264 (469)
T cd06365 192 LREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGDTDSLLEVSFRLWQYLLIGKVWITT 264 (469)
T ss_pred HHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcCcHHHHHHHHHHHHhccCceEEEee
Confidence 45577888988764 43444333345566666677789999999999877755 46777777777788876
No 207
>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=54.33 E-value=56 Score=29.46 Aligned_cols=109 Identities=17% Similarity=0.229 Sum_probs=59.2
Q ss_pred CCcceEEEEeC---Cc---chHHHHHHHHHcCCcEEEEcCCCCccccc--------------------cccccchhhhhc
Q 014872 264 SGVDWMFLVSD---DN---DFKEMLRKARDANLGTVVVGDSNRGLGQH--------------------ADLWVPWIEVEN 317 (417)
Q Consensus 264 rgv~cLvLVSD---Ds---dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~--------------------ADl~fSW~eV~~ 317 (417)
.|+++++++.. +. ....++++|+++||+.+|.+......... -...++|--|..
T Consensus 63 ~g~d~v~~~~~~~~~~~~~~~~~li~Aa~~agVk~~v~ss~~~~~~~~~~~~p~~~~~~~k~~ie~~l~~~~i~~t~i~~ 142 (233)
T PF05368_consen 63 KGVDAVFSVTPPSHPSELEQQKNLIDAAKAAGVKHFVPSSFGADYDESSGSEPEIPHFDQKAEIEEYLRESGIPYTIIRP 142 (233)
T ss_dssp TTCSEEEEESSCSCCCHHHHHHHHHHHHHHHT-SEEEESEESSGTTTTTTSTTHHHHHHHHHHHHHHHHHCTSEBEEEEE
T ss_pred cCCceEEeecCcchhhhhhhhhhHHHhhhccccceEEEEEecccccccccccccchhhhhhhhhhhhhhhccccceeccc
Confidence 69999999998 33 45678999999999999987754322110 012344444444
Q ss_pred CcccccccccCCCcccccccccCCCCceeeeecCcc--cccc-cCCchhhhhhhhhhhccccC
Q 014872 318 GELTERDLVPRTRRTTTEDFERDGLGLFSLTEFDGV--VGFE-DETDLDSVVNELVAERTEFG 377 (417)
Q Consensus 318 Gk~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~-~~~~~~~~~~~~~~~~~~~~ 377 (417)
|-+.+.=+.+-.. ..+.... ...+ ....+++ ...+ +..|+-.++..++....+++
T Consensus 143 g~f~e~~~~~~~~---~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~Dvg~~va~il~~p~~~~ 200 (233)
T PF05368_consen 143 GFFMENLLPPFAP---VVDIKKS-KDVV-TLPGPGNQKAVPVTDTRDVGRAVAAILLDPEKHN 200 (233)
T ss_dssp -EEHHHHHTTTHH---TTCSCCT-SSEE-EEETTSTSEEEEEEHHHHHHHHHHHHHHSGGGTT
T ss_pred cchhhhhhhhhcc---ccccccc-ceEE-EEccCCCccccccccHHHHHHHHHHHHcChHHhc
Confidence 4444221111100 0011111 1112 2223332 4554 77888888888888877773
No 208
>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=54.32 E-value=33 Score=29.08 Aligned_cols=46 Identities=22% Similarity=0.302 Sum_probs=29.7
Q ss_pred CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 014872 244 RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVV 295 (417)
Q Consensus 244 ~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVV 295 (417)
..||.+. .-.++...++..++.++.|-|.. .+ ++.|+..|+.||.|
T Consensus 138 ~~KP~~~---~~~~~~~~~~~~~~~~~~vgD~~--~d-i~aA~~~G~~~i~v 183 (183)
T TIGR01509 138 RGKPDPD---IYLLALKKLGLKPEECLFVDDSP--AG-IEAAKAAGMHTVLV 183 (183)
T ss_pred CCCCCHH---HHHHHHHHcCCCcceEEEEcCCH--HH-HHHHHHcCCEEEeC
Confidence 3677654 33344444555667777775543 34 88899999998865
No 209
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=54.29 E-value=66 Score=28.43 Aligned_cols=68 Identities=16% Similarity=0.054 Sum_probs=43.8
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+.+....-..+ . ...-+..+...+++-|++.+.+..-. ++ .+..+|+..|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~-~-~~~~~~~~~~~~vdgiii~~~~~~~~-~~-~~~~~~ipvv~~~~~ 86 (267)
T cd06284 19 KGIEDEAREAGYGVLLGDTRSDPE-R-EQEYLDLLRRKQADGIILLDGSLPPT-AL-TALAKLPPIVQACEY 86 (267)
T ss_pred HHHHHHHHHcCCeEEEecCCCChH-H-HHHHHHHHHHcCCCEEEEecCCCCHH-HH-HHHhcCCCEEEEecc
Confidence 678888999999987664332221 0 12224446678999999987554432 33 345679999988763
No 210
>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=53.99 E-value=59 Score=28.85 Aligned_cols=67 Identities=22% Similarity=0.283 Sum_probs=41.1
Q ss_pred CchHHHHhcceEEEEeCCCchh-HHHHHHHH-HHHhhhCCcceEEEEeCCc----chHHHHHHHHHcCCc---EEEEcCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQA-ADWALKRQ-MQHSMSSGVDWMFLVSDDN----DFKEMLRKARDANLG---TVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqA-AD~ALkrh-m~~~m~rgv~cLvLVSDDs----dF~~~Lr~AR~~~v~---TVVVGd~ 298 (417)
.+=..|++.|+.+-.++++|.. ++..|+.. +.+. .+ .++.||+. +=..++..+++.|+. +++|||+
T Consensus 113 ~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~~gl~~~----f~-~~~~~~~~~~KP~p~~~~~~~~~~~~~~~~~i~vGD~ 187 (197)
T TIGR01548 113 GLLRELHRAPKGMAVVTGRPRKDAAKFLTTHGLEIL----FP-VQIWMEDCPPKPNPEPLILAAKALGVEACHAAMVGDT 187 (197)
T ss_pred HHHHHHHHcCCcEEEECCCCHHHHHHHHHHcCchhh----CC-EEEeecCCCCCcCHHHHHHHHHHhCcCcccEEEEeCC
Confidence 3446688999999999999875 44444432 1111 22 34555552 233456666666764 7999996
Q ss_pred C
Q 014872 299 N 299 (417)
Q Consensus 299 ~ 299 (417)
.
T Consensus 188 ~ 188 (197)
T TIGR01548 188 V 188 (197)
T ss_pred H
Confidence 5
No 211
>PLN03243 haloacid dehalogenase-like hydrolase; Provisional
Probab=53.94 E-value=75 Score=30.59 Aligned_cols=69 Identities=16% Similarity=0.226 Sum_probs=36.5
Q ss_pred CCchHHHHhcceEEEEeCCCchh-HHHHHHHHHHHhhhCC-cceEEEEeCCcc-----hHHHHHHHHHcCCc---EEEEc
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQA-ADWALKRQMQHSMSSG-VDWMFLVSDDND-----FKEMLRKARDANLG---TVVVG 296 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqA-AD~ALkrhm~~~m~rg-v~cLvLVSDDsd-----F~~~Lr~AR~~~v~---TVVVG 296 (417)
-.+-.+|+..|+.+-.+++++.. +...|+.+ -..+ .+. |+.|++.. =.-+++.+++.|+. +++||
T Consensus 115 ~e~L~~L~~~g~~l~I~Tn~~~~~~~~~l~~~----gl~~~Fd~-ii~~~d~~~~KP~Pe~~~~a~~~l~~~p~~~l~Ig 189 (260)
T PLN03243 115 REFVQALKKHEIPIAVASTRPRRYLERAIEAV----GMEGFFSV-VLAAEDVYRGKPDPEMFMYAAERLGFIPERCIVFG 189 (260)
T ss_pred HHHHHHHHHCCCEEEEEeCcCHHHHHHHHHHc----CCHhhCcE-EEecccCCCCCCCHHHHHHHHHHhCCChHHeEEEc
Confidence 34556777788888888888764 22223221 0011 222 44444432 12345555666665 57777
Q ss_pred CCCC
Q 014872 297 DSNR 300 (417)
Q Consensus 297 d~~~ 300 (417)
|+..
T Consensus 190 Ds~~ 193 (260)
T PLN03243 190 NSNS 193 (260)
T ss_pred CCHH
Confidence 7653
No 212
>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=53.57 E-value=30 Score=32.87 Aligned_cols=91 Identities=15% Similarity=0.155 Sum_probs=52.3
Q ss_pred chHHHHhcceEEEEeCCCc--hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC---CC-Ccc
Q 014872 229 LGSELRRAGVFVKTVRDKP--QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD---SN-RGL 302 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKP--qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd---~~-~~L 302 (417)
+...|++.|+.+.....+. ++... ....+..++++||.+..|=-+..++....... ....+|. +. ..+
T Consensus 24 i~~~l~~~~~~~~~~~t~~~~~~~~~-----~~~~~~~~~d~ivv~GGDGTl~~v~~~l~~~~-~~~~lgiiP~Gt~N~~ 97 (293)
T TIGR00147 24 VIMLLREEGMEIHVRVTWEKGDAARY-----VEEARKFGVDTVIAGGGDGTINEVVNALIQLD-DIPALGILPLGTANDF 97 (293)
T ss_pred HHHHHHHCCCEEEEEEecCcccHHHH-----HHHHHhcCCCEEEEECCCChHHHHHHHHhcCC-CCCcEEEEcCcCHHHH
Confidence 4556888898877554443 33321 22345678999999999999999998776532 1123442 11 244
Q ss_pred ccccccccchh----hhhcCccccccc
Q 014872 303 GQHADLWVPWI----EVENGELTERDL 325 (417)
Q Consensus 303 ~R~ADl~fSW~----eV~~Gk~~~~~~ 325 (417)
.|.-.+--.|+ .+.+|+...-|+
T Consensus 98 a~~l~i~~~~~~~~~~l~~~~~~~~Dl 124 (293)
T TIGR00147 98 ARSLGIPEDLDKAAKLVIAGDARAIDM 124 (293)
T ss_pred HHHcCCCCCHHHHHHHHHcCCceEEEE
Confidence 44333222333 345666655555
No 213
>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=53.28 E-value=27 Score=34.80 Aligned_cols=63 Identities=10% Similarity=0.117 Sum_probs=47.3
Q ss_pred HHhcceEEEE--eCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEE----EEcCC
Q 014872 233 LRRAGVFVKT--VRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTV----VVGDS 298 (417)
Q Consensus 233 LkRAGV~Vrt--V~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TV----VVGd~ 298 (417)
++..|+.|.. +.... |.-....+..+-..+.+.|||.+-...-..+|+.|++.|+.+- ++|+.
T Consensus 147 ~~~~g~~v~~~~~~~~~---~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~ 215 (371)
T cd06388 147 AGQNGWQVSAICVENFN---DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANL 215 (371)
T ss_pred hHhcCCeeeeEEeccCC---cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccC
Confidence 3555766554 33222 3345666777777899999999999999999999999999886 77773
No 214
>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=53.06 E-value=43 Score=30.08 Aligned_cols=86 Identities=15% Similarity=0.181 Sum_probs=49.1
Q ss_pred chHHHHhcceEEEEeCCCchhH-----HHHHHHHHHHhhh-CCcceEEE-EeCCcch----HHHHHH-HHHcC--C---c
Q 014872 229 LGSELRRAGVFVKTVRDKPQAA-----DWALKRQMQHSMS-SGVDWMFL-VSDDNDF----KEMLRK-ARDAN--L---G 291 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAA-----D~ALkrhm~~~m~-rgv~cLvL-VSDDsdF----~~~Lr~-AR~~~--v---~ 291 (417)
+=..|+.+|+.+=.++++|..+ -.++..++..++. .|+...+. .+++... .+++.. +.+.| + .
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 3456788999999999998742 2345555655554 55554333 3333212 234444 44444 2 3
Q ss_pred EEEEcCCCC--------c--cccccccccchhh
Q 014872 292 TVVVGDSNR--------G--LGQHADLWVPWIE 314 (417)
Q Consensus 292 TVVVGd~~~--------~--L~R~ADl~fSW~e 314 (417)
+++|||+.+ + -++.|-+.+=|.+
T Consensus 130 ~v~VGD~~~~~~~~~~~Di~aA~~aGi~~~~~~ 162 (166)
T TIGR01664 130 SFYVGDAAGRKLDFSDADIKFAKNLGLEFKYPE 162 (166)
T ss_pred cEEEECCCCCCCCCchhHHHHHHHCCCCcCChH
Confidence 899999741 2 2555656665543
No 215
>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=52.98 E-value=19 Score=35.77 Aligned_cols=47 Identities=15% Similarity=0.065 Sum_probs=39.1
Q ss_pred CcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCCC-Cccccccccccc
Q 014872 265 GVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDSN-RGLGQHADLWVP 311 (417)
Q Consensus 265 gv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~~-~~L~R~ADl~fS 311 (417)
-=|++|.+|-+ .+..++++.||++|.+||.|.... +.|.+.||+.+.
T Consensus 126 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tIaIT~~~~s~La~~aD~~I~ 176 (291)
T TIGR00274 126 KNDVVVGIAASGRTPYVIAGLQYARSLGALTISIACNPKSAASEIADIAIE 176 (291)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEe
Confidence 34888888865 567789999999999999998854 688999999765
No 216
>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=52.94 E-value=21 Score=35.00 Aligned_cols=52 Identities=27% Similarity=0.453 Sum_probs=42.8
Q ss_pred CCcceEEEEeCCcchH-HHHHHHHHcCCcEEEEcCCCCccccccccccchhhhhcC
Q 014872 264 SGVDWMFLVSDDNDFK-EMLRKARDANLGTVVVGDSNRGLGQHADLWVPWIEVENG 318 (417)
Q Consensus 264 rgv~cLvLVSDDsdF~-~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~eV~~G 318 (417)
.|+|-+|+=|...||. .+|+.|+.-.-+.|||+... +.|. .-.|+|..+..|
T Consensus 114 ~~iDF~vVDc~~~d~~~~vl~~~~~~~~GaVVV~~Na--~~r~-~~~~~w~~~~~~ 166 (218)
T PF07279_consen 114 KGIDFVVVDCKREDFAARVLRAAKLSPRGAVVVCYNA--FSRS-TNGFSWRSVLRG 166 (218)
T ss_pred cCCCEEEEeCCchhHHHHHHHHhccCCCceEEEEecc--ccCC-cCCccHHHhcCC
Confidence 6799999999999999 99999998667899999864 5553 357899987754
No 217
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS 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=52.65 E-value=32 Score=26.33 Aligned_cols=43 Identities=16% Similarity=0.352 Sum_probs=21.9
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD 275 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD 275 (417)
.++..||++|+.|.+-.. .. .+..++..+...|+.++++|.++
T Consensus 19 ~~~~~Lr~~g~~v~~d~~-~~----~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 19 EVAKKLSDAGIRVEVDLR-NE----KLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred HHHHHHHHCCCEEEEECC-CC----CHHHHHHHHHHcCCCEEEEECcc
Confidence 445666666666655321 11 24455555555666655555543
No 218
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=52.48 E-value=20 Score=35.55 Aligned_cols=47 Identities=17% Similarity=0.137 Sum_probs=39.4
Q ss_pred CcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCccccccccccc
Q 014872 265 GVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVP 311 (417)
Q Consensus 265 gv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fS 311 (417)
.=|++|.+|-+ .+..++++.||++|.+||.|... .+.|.+.||+-+.
T Consensus 131 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tI~IT~~~~s~La~~aD~~I~ 181 (299)
T PRK05441 131 AKDVVVGIAASGRTPYVIGALEYARERGALTIGISCNPGSPLSKEADIAIE 181 (299)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhhHhCCEEEE
Confidence 45888888865 67889999999999999999985 4688999998664
No 219
>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=52.34 E-value=5.6 Score=34.74 Aligned_cols=10 Identities=40% Similarity=0.869 Sum_probs=4.3
Q ss_pred ecccCCCCCC
Q 014872 158 ICGVCGRKCK 167 (417)
Q Consensus 158 ~C~VCGRkf~ 167 (417)
+|+.||.||+
T Consensus 11 ~Cp~CG~kFY 20 (108)
T PF09538_consen 11 TCPSCGAKFY 20 (108)
T ss_pred cCCCCcchhc
Confidence 3444444443
No 220
>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=52.15 E-value=51 Score=25.39 Aligned_cols=33 Identities=21% Similarity=0.312 Sum_probs=24.9
Q ss_pred hCCcceEEEEeCC--cchHHHHHHHHHcCCcEEEEcCCC
Q 014872 263 SSGVDWMFLVSDD--NDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 263 ~rgv~cLvLVSDD--sdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
+....-.+.|.|+ +| ++.|++.|++||.|..+.
T Consensus 18 ~~~~~~~~~VGD~~~~D----i~~a~~~G~~~ilV~tG~ 52 (75)
T PF13242_consen 18 GVDPSRCVMVGDSLETD----IEAAKAAGIDTILVLTGV 52 (75)
T ss_dssp TSGGGGEEEEESSTTTH----HHHHHHTTSEEEEESSSS
T ss_pred CCCHHHEEEEcCCcHhH----HHHHHHcCCcEEEECCCC
Confidence 4445667777777 55 668999999999998854
No 221
>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=52.02 E-value=73 Score=28.59 Aligned_cols=67 Identities=10% Similarity=0.110 Sum_probs=44.4
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
|+..++++.|+.+.......... .....+..+...+++.|++++-+.... .+ .+...++..|+|+..
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~~dgiii~~~~~~~~-~~-~~~~~~iPvV~~~~~ 86 (263)
T cd06280 20 AVEDAAYRAGLRVILCNTDEDPE--KEAMYLELMEEERVTGVIFAPTRATLR-RL-AELRLSFPVVLIDRA 86 (263)
T ss_pred HHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHhCCCCEEEEeCCCCCch-HH-HHHhcCCCEEEECCC
Confidence 66788899999987664433322 122344556678899999988543332 33 446778999999864
No 222
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=51.70 E-value=54 Score=29.33 Aligned_cols=82 Identities=22% Similarity=0.305 Sum_probs=47.7
Q ss_pred cCCCCC-CCchHHHHhcceEEEEeCCCchh-HHHHHHHHHHHhhhCCcce---EEEEeCCc-----chHHHHHHHHHcCC
Q 014872 221 LKPKVG-YGLGSELRRAGVFVKTVRDKPQA-ADWALKRQMQHSMSSGVDW---MFLVSDDN-----DFKEMLRKARDANL 290 (417)
Q Consensus 221 L~PKvG-YGLA~ELkRAGV~VrtV~dKPqA-AD~ALkrhm~~~m~rgv~c---LvLVSDDs-----dF~~~Lr~AR~~~v 290 (417)
..|--| ..+-..|++.|+.+-.+++++.. ++..|+. .|+.- .++.|++. +=..+.+.+++.++
T Consensus 81 ~~~~~g~~~~l~~L~~~g~~~~i~S~~~~~~~~~~l~~-------~gl~~~f~~i~~~~~~~~~Kp~p~~~~~~~~~~~~ 153 (214)
T PRK13288 81 VTEYETVYETLKTLKKQGYKLGIVTTKMRDTVEMGLKL-------TGLDEFFDVVITLDDVEHAKPDPEPVLKALELLGA 153 (214)
T ss_pred cccCcCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHH-------cCChhceeEEEecCcCCCCCCCcHHHHHHHHHcCC
Confidence 344445 56677888999998889888864 3333333 23221 13444442 22345556666665
Q ss_pred ---cEEEEcCCCCcc--ccccccc
Q 014872 291 ---GTVVVGDSNRGL--GQHADLW 309 (417)
Q Consensus 291 ---~TVVVGd~~~~L--~R~ADl~ 309 (417)
++++|||+..++ ++.|.+.
T Consensus 154 ~~~~~~~iGDs~~Di~aa~~aG~~ 177 (214)
T PRK13288 154 KPEEALMVGDNHHDILAGKNAGTK 177 (214)
T ss_pred CHHHEEEECCCHHHHHHHHHCCCe
Confidence 479999986544 4444443
No 223
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=51.65 E-value=29 Score=34.15 Aligned_cols=66 Identities=21% Similarity=0.265 Sum_probs=51.6
Q ss_pred HHHHhcceEE-EEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 231 SELRRAGVFV-KTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 231 ~ELkRAGV~V-rtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
..|+..|..+ ....-.|...| +...+.++...|++-|++.+.-.+.+.++|.++++|++..+++..
T Consensus 170 ~~l~~~G~~~~~~~~~~~~~~~--~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~~~~~~ 236 (366)
T COG0683 170 AALKALGGEVVVEEVYAPGDTD--FSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAKLIGGD 236 (366)
T ss_pred HHHHhCCCeEEEEEeeCCCCCC--hHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCcccccc
Confidence 4577788862 21223333434 888888899999999999999999999999999999999777663
No 224
>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=51.23 E-value=61 Score=29.83 Aligned_cols=66 Identities=18% Similarity=0.228 Sum_probs=44.8
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchH-HHHHHHHHc-CCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFK-EMLRKARDA-NLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~-~~Lr~AR~~-~v~TVVVGd 297 (417)
.|+..++++.|+.+...... ...+ ....+..+.+.+++-|++.+-. +. ......++. ++..|++|.
T Consensus 22 ~gi~~~~~~~gy~~~i~~~~-~~~~--~~~~i~~l~~~~vdgiI~~~~~--~~~~~~~~~~~~~~~PiV~i~~ 89 (265)
T cd06354 22 EGLERAAKELGIEYKYVESK-SDAD--YEPNLEQLADAGYDLIVGVGFL--LADALKEVAKQYPDQKFAIIDA 89 (265)
T ss_pred HHHHHHHHHcCCeEEEEecC-CHHH--HHHHHHHHHhCCCCEEEEcCcc--hHHHHHHHHHHCCCCEEEEEec
Confidence 47788999999998887433 2222 3455666778999999998522 22 344555554 788899986
No 225
>PHA00626 hypothetical protein
Probab=51.16 E-value=8.5 Score=31.07 Aligned_cols=21 Identities=24% Similarity=0.447 Sum_probs=15.8
Q ss_pred cCccC-CCCCeecccCCCCCCC
Q 014872 148 RGVAV-PNDPYICGVCGRKCKT 168 (417)
Q Consensus 148 ~G~v~-p~~PY~C~VCGRkf~T 168 (417)
-|.+. +.+.|.|+.||..|..
T Consensus 14 cg~cr~~snrYkCkdCGY~ft~ 35 (59)
T PHA00626 14 EKTMRGWSDDYVCCDCGYNDSK 35 (59)
T ss_pred eceecccCcceEcCCCCCeech
Confidence 34444 5789999999997753
No 226
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=51.01 E-value=75 Score=28.36 Aligned_cols=68 Identities=16% Similarity=0.126 Sum_probs=44.5
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++..|+.+-.......++ ..+.-+..+.+.+++-+++++.+..- +.++..+ .++..|++|..
T Consensus 19 ~gi~~~~~~~gy~~~~~~~~~~~~--~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~-~~iPvV~i~~~ 86 (265)
T cd06290 19 KGMERGLNGSGYSPIIATGHWNQS--RELEALELLKSRRVDALILLGGDLPE-EEILALA-EEIPVLAVGRR 86 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHCCCCEEEEeCCCCCh-HHHHHHh-cCCCEEEECCC
Confidence 577889999998887654332222 23333445678999999999755332 3344433 58999999864
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=51.00 E-value=35 Score=31.66 Aligned_cols=63 Identities=29% Similarity=0.360 Sum_probs=45.5
Q ss_pred CchHHHHhcceEEE-EeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 228 GLGSELRRAGVFVK-TVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 228 GLA~ELkRAGV~Vr-tV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
++...|+++|+.|- .+.=.+...| +...+.++...+++.|++.++..+-..+++.++++|+.-
T Consensus 154 ~~~~~~~~~G~~vv~~~~~~~~~~d--~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~ 217 (343)
T PF13458_consen 154 AFRKALEAAGGKVVGEIRYPPGDTD--FSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKP 217 (343)
T ss_dssp HHHHHHHHTTCEEEEEEEE-TTSSH--HHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCS
T ss_pred HHHHHHhhcCceeccceeccccccc--chHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhcccc
Confidence 46778899998862 2211223332 334555566789999999999999999999999999883
No 228
>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=50.57 E-value=67 Score=29.20 Aligned_cols=66 Identities=23% Similarity=0.357 Sum_probs=41.6
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHH-HHHHHc-CCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEML-RKARDA-NLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~L-r~AR~~-~v~TVVVGd 297 (417)
.|+..+++..|+.+...... ..++ ....+..++.++++-|++++-+ +.+.+ ..+.+. ++.-|+++.
T Consensus 21 ~gi~~~~~~~gy~~~~~~~~-~~~~--~~~~~~~l~~~~vdgiii~~~~--~~~~~~~~~~~~~~ipvv~~~~ 88 (260)
T cd06304 21 EGLEKAEKELGVEVKYVESV-EDAD--YEPNLRQLAAQGYDLIFGVGFG--FMDAVEKVAKEYPDVKFAIIDG 88 (260)
T ss_pred HHHHHHHHhcCceEEEEecC-CHHH--HHHHHHHHHHcCCCEEEECCcc--hhHHHHHHHHHCCCCEEEEecC
Confidence 36677888899998875332 2221 2344555677899999998744 33433 444443 677777765
No 229
>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=50.31 E-value=1.1e+02 Score=26.88 Aligned_cols=66 Identities=18% Similarity=0.177 Sum_probs=38.0
Q ss_pred HHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEE---EEe-CCcch--------------HH-HHHHHHHcCC-
Q 014872 231 SELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMF---LVS-DDNDF--------------KE-MLRKARDANL- 290 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLv---LVS-DDsdF--------------~~-~Lr~AR~~~v- 290 (417)
..|++.|+.|-.++..|+..=..+-++ .|++.++ |+. ++-.| .. +.+.+.+.++
T Consensus 97 ~~l~~~g~~v~ivS~s~~~~v~~~~~~------lg~~~~~~~~l~~~~~g~~~g~~~~~~~~g~~K~~~l~~~~~~~~~~ 170 (202)
T TIGR01490 97 RWHKAEGHTIVLVSASLTILVKPLARI------LGIDNAIGTRLEESEDGIYTGNIDGNNCKGEGKVHALAELLAEEQID 170 (202)
T ss_pred HHHHHCCCEEEEEeCCcHHHHHHHHHH------cCCcceEecceEEcCCCEEeCCccCCCCCChHHHHHHHHHHHHcCCC
Confidence 456889999999999998541122222 3444332 332 33112 12 3444566677
Q ss_pred --cEEEEcCCCCcc
Q 014872 291 --GTVVVGDSNRGL 302 (417)
Q Consensus 291 --~TVVVGd~~~~L 302 (417)
.++.+||+..++
T Consensus 171 ~~~~~~~gDs~~D~ 184 (202)
T TIGR01490 171 LKDSYAYGDSISDL 184 (202)
T ss_pred HHHcEeeeCCcccH
Confidence 578999987654
No 230
>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=50.26 E-value=57 Score=31.65 Aligned_cols=62 Identities=15% Similarity=0.107 Sum_probs=47.4
Q ss_pred chHHHHhcceEEEEe---CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 229 LGSELRRAGVFVKTV---RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 229 LA~ELkRAGV~VrtV---~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
+...|+.+|+.|-.. +-.|.+.| ...++..+.+.+++-|++..-..+...+++.+|++|+..
T Consensus 152 ~~~~~~~~G~~vv~~~~~~~~~~~~d--~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~ 216 (360)
T cd06357 152 MRDLLEQRGGEVLGERYLPLGASDED--FARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDP 216 (360)
T ss_pred HHHHHHHcCCEEEEEEEecCCCchhh--HHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCc
Confidence 456777888886432 22333555 356777788899999999999999999999999999984
No 231
>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=49.64 E-value=43 Score=32.53 Aligned_cols=62 Identities=16% Similarity=0.238 Sum_probs=43.0
Q ss_pred chHHHHhcce----EEEEeCC-CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 229 LGSELRRAGV----FVKTVRD-KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 229 LA~ELkRAGV----~VrtV~d-KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
+...|++.|+ .|..... .+...| ....+..+...+++.+||.+...+...+++.|++.|+..
T Consensus 174 ~~~~~~~~g~~~~~~v~~~~~~~~~~~d--~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~ 240 (377)
T cd06379 174 FETLLEEREIEFKIKVEKVVEFEPGEKN--VTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTG 240 (377)
T ss_pred HHHHHHhcCCccceeeeEEEecCCchhh--HHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCC
Confidence 3456666777 4432221 223333 445555566689999999999999999999999999853
No 232
>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=49.26 E-value=27 Score=35.73 Aligned_cols=49 Identities=29% Similarity=0.430 Sum_probs=38.3
Q ss_pred CCcceEEEEeCCcc-----hHHHHHHHHHcCCcEEEEcCCCCccccccccccch
Q 014872 264 SGVDWMFLVSDDND-----FKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPW 312 (417)
Q Consensus 264 rgv~cLvLVSDDsd-----F~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW 312 (417)
...++||++.-|.. ....|+.||++|.+-|||.-........||.|++=
T Consensus 169 ~~ad~il~~G~N~~~~~~~~~~~l~~ar~~GaklividPr~s~ta~~Ad~~l~i 222 (461)
T cd02750 169 YNADYIIMWGSNVPVTRTPDAHFLTEARYNGAKVVVVSPDYSPSAKHADLWVPI 222 (461)
T ss_pred hcCcEEEEECCChHHccCchHHHHHHHHHCCCEEEEEcCCCCcchhhcCEEecc
Confidence 45899999977643 23456779999999999977777888999999863
No 233
>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=49.13 E-value=42 Score=30.33 Aligned_cols=69 Identities=16% Similarity=0.052 Sum_probs=44.7
Q ss_pred CCchHHHHhcceEEEEeC---CCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc-hHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVR---DKPQAADWALKRQMQHSMSSGVDWMFLVSDDND-FKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~---dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd-F~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|..+-++. ...... ......+..+.. +++-|++++.+.+ +.++++.+.++|+..|+++.
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~~~-~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~ 91 (275)
T cd06307 19 AALEAAAAAFPDARIRVRIHFVESFDP-AALAAALLRLGA-RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVS 91 (275)
T ss_pred HHHHHHHhhhhccCceEEEEEccCCCH-HHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeC
Confidence 467778888875433321 111111 123445555566 9999999987644 46789999999999988875
No 234
>PRK11587 putative phosphatase; Provisional
Probab=48.99 E-value=1.2e+02 Score=27.34 Aligned_cols=29 Identities=28% Similarity=0.400 Sum_probs=17.7
Q ss_pred EEEeeCCCCCCCC-CchHHHHHHHHHHHHcCc
Q 014872 82 VVLWDLDNKPPRG-PPYDAAMSLRRVAERFGE 112 (417)
Q Consensus 82 ~VlWDLDNKPP~~-pPY~AA~rLr~~As~FG~ 112 (417)
.|+||+|.-==.+ +.+.. .+..++..||.
T Consensus 5 ~viFDlDGTL~Ds~~~~~~--a~~~~~~~~g~ 34 (218)
T PRK11587 5 GFLFDLDGTLVDSLPAVER--AWSNWADRHGI 34 (218)
T ss_pred EEEEcCCCCcCcCHHHHHH--HHHHHHHHcCC
Confidence 5899999553322 34433 45577778883
No 235
>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=48.89 E-value=49 Score=27.94 Aligned_cols=32 Identities=28% Similarity=0.359 Sum_probs=23.3
Q ss_pred CcceEEEEeCCcchHHHHHHHHHcCCc---EEEEcC
Q 014872 265 GVDWMFLVSDDNDFKEMLRKARDANLG---TVVVGD 297 (417)
Q Consensus 265 gv~cLvLVSDDsdF~~~Lr~AR~~~v~---TVVVGd 297 (417)
+++.|++.+| .....+++.+++.|+. ..++|-
T Consensus 182 ~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~ 216 (269)
T cd01391 182 KPDAIFACND-EMAAGALKAAREAGLTPGDISIIGF 216 (269)
T ss_pred CCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEec
Confidence 5776666666 7888999999999983 344444
No 236
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=48.59 E-value=13 Score=40.85 Aligned_cols=39 Identities=21% Similarity=0.530 Sum_probs=32.8
Q ss_pred CCCCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHhhhh
Q 014872 153 PNDPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLNRMK 192 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnrL~ 192 (417)
++.|..|-+||.||...+...+|. ++|-+.|.+.=-+++
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~m-d~H~dwh~r~n~~~r 453 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHM-DIHDDWHRRKNTTIR 453 (579)
T ss_pred cCCcchhcccccccccchhhhhHh-hhhhhhhhhhhhhcc
Confidence 567899999999999999999997 689998877655553
No 237
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549).
Probab=48.37 E-value=1.1e+02 Score=27.23 Aligned_cols=69 Identities=20% Similarity=0.153 Sum_probs=39.8
Q ss_pred CCchHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCc-----chHHHHHHHHHcCC---cEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDN-----DFKEMLRKARDANL---GTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDs-----dF~~~Lr~AR~~~v---~TVVVGd 297 (417)
-.+=..|+..|+.+=.|++.+. .+...|++.- +..=.+. |+.|++. +=..+++.+++.|+ ++|+|||
T Consensus 100 ~~~L~~L~~~g~~~~i~Tn~~~~~~~~~l~~~~---l~~~f~~-i~~~~~~~~~KP~~~~~~~~~~~~~~~~~~~~~igD 175 (221)
T TIGR02253 100 RDTLMELRESGYRLGIITDGLPVKQWEKLERLG---VRDFFDA-VITSEEEGVEKPHPKIFYAALKRLGVKPEEAVMVGD 175 (221)
T ss_pred HHHHHHHHHCCCEEEEEeCCchHHHHHHHHhCC---hHHhccE-EEEeccCCCCCCCHHHHHHHHHHcCCChhhEEEECC
Confidence 3455678888999999998875 3433343310 0011233 3444443 22345566667776 5799999
Q ss_pred CC
Q 014872 298 SN 299 (417)
Q Consensus 298 ~~ 299 (417)
+.
T Consensus 176 s~ 177 (221)
T TIGR02253 176 RL 177 (221)
T ss_pred Ch
Confidence 75
No 238
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=48.27 E-value=81 Score=29.35 Aligned_cols=67 Identities=16% Similarity=0.252 Sum_probs=41.6
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchH--HHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFK--EMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~--~~Lr~AR~~~v~TVVVGd 297 (417)
-|+..++++.|+.+.......++.. ....+..+.+.+++-|++.+-+.+.. .++. +..++..|+++.
T Consensus 76 ~gi~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~l~~~~vdGiI~~~~~~~~~~~~~l~--~~~~iPvV~i~~ 144 (327)
T PRK10423 76 RGVERSCFERGYSLVLCNTEGDEQR--MNRNLETLMQKRVDGLLLLCTETHQPSREIMQ--RYPSVPTVMMDW 144 (327)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHHH--HHHHHHHHHHcCCCEEEEeCCCcchhhHHHHH--hcCCCCEEEECC
Confidence 4778888999988776533222221 12334446778999999987554332 2232 225888899975
No 239
>COG5319 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.88 E-value=32 Score=31.88 Aligned_cols=25 Identities=32% Similarity=0.456 Sum_probs=14.6
Q ss_pred CCCC-CCchH-----HHHhcceEEEEeCCCc
Q 014872 223 PKVG-YGLGS-----ELRRAGVFVKTVRDKP 247 (417)
Q Consensus 223 PKvG-YGLA~-----ELkRAGV~VrtV~dKP 247 (417)
+..| ||=|+ +|-.-||.|-..+--|
T Consensus 108 ~eRGI~GeaS~eEa~aL~EdGvei~PLpv~p 138 (142)
T COG5319 108 DERGIYGEASHEEAKALAEDGVEIAPLPVFP 138 (142)
T ss_pred ccccccCcCCHHHHHHHHHcCceeccCCCCC
Confidence 4555 66543 5666777766554444
No 240
>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=47.72 E-value=30 Score=36.79 Aligned_cols=58 Identities=16% Similarity=0.223 Sum_probs=43.9
Q ss_pred CcceEEEEeCCcc-------------hHHHHHHHHHcCCcEEEEcCCCCcccc-ccccccc--------------hhhhh
Q 014872 265 GVDWMFLVSDDND-------------FKEMLRKARDANLGTVVVGDSNRGLGQ-HADLWVP--------------WIEVE 316 (417)
Q Consensus 265 gv~cLvLVSDDsd-------------F~~~Lr~AR~~~v~TVVVGd~~~~L~R-~ADl~fS--------------W~eV~ 316 (417)
..+|||++.-|.. +...++.||++|.+-|||.-....... .||.|++ ...+.
T Consensus 169 ~ad~il~wG~N~~~~~~~~~~~~~~~~~~~~~~a~~~GakiivIDPr~s~ta~~~AD~~l~irPGtD~aL~lam~~~ii~ 248 (609)
T cd02751 169 HSDLVVLFGANPLKTRQGGGGGPDHGSYYYLKQAKDAGVRFICIDPRYTDTAAVLAAEWIPIRPGTDVALMLAMAHTLIT 248 (609)
T ss_pred cCCEEEEECCCHHHhcCCCCCccCcchHHHHHHHHHCCCeEEEECCCCCccccccCCEEECCCCCcHHHHHHHHHHHHHH
Confidence 4899999976633 236788899999999999777666776 7999997 34566
Q ss_pred cCcccc
Q 014872 317 NGELTE 322 (417)
Q Consensus 317 ~Gk~~~ 322 (417)
+|..+.
T Consensus 249 ~~~~D~ 254 (609)
T cd02751 249 EDLHDQ 254 (609)
T ss_pred CcchhH
Confidence 676663
No 241
>KOG3456 consensus NADH:ubiquinone oxidoreductase, NDUFS6/13 kDa subunit [Energy production and conversion]
Probab=47.45 E-value=6.6 Score=35.28 Aligned_cols=15 Identities=40% Similarity=0.926 Sum_probs=13.0
Q ss_pred CCCeecccCCCCCCC
Q 014872 154 NDPYICGVCGRKCKT 168 (417)
Q Consensus 154 ~~PY~C~VCGRkf~T 168 (417)
+.|++|++||-+|..
T Consensus 102 ~~~~~CgYCGlrf~~ 116 (120)
T KOG3456|consen 102 PGPHICGYCGLRFVQ 116 (120)
T ss_pred CCCcccccchhhhhh
Confidence 478999999999875
No 242
>TIGR01549 HAD-SF-IA-v1 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E. HAD subfamilies caused by an overly broad single model.
Probab=47.40 E-value=1.1e+02 Score=25.70 Aligned_cols=68 Identities=22% Similarity=0.285 Sum_probs=41.8
Q ss_pred CchHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCc----chHHHHHHHHHcCC--cEEEEcCCCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDN----DFKEMLRKARDANL--GTVVVGDSNR 300 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDs----dF~~~Lr~AR~~~v--~TVVVGd~~~ 300 (417)
-+-..|+..|+.+-.+++.+. .++..++.++. .-.+. +..+|+. +=..+++.+++.|+ ++++|||+..
T Consensus 71 e~l~~L~~~g~~~~i~T~~~~~~~~~~~~~~l~----~~f~~-i~~~~~~~~Kp~~~~~~~~~~~~~~~~~~l~iGDs~~ 145 (154)
T TIGR01549 71 DLLKRLKEAGIKLGIISNGSLRAQKLLLRKHLG----DYFDL-ILGSDEFGAKPEPEIFLAALESLGLPPEVLHVGDNLN 145 (154)
T ss_pred HHHHHHHHCcCeEEEEeCCchHHHHHHHHHHHH----hcCcE-EEecCCCCCCcCHHHHHHHHHHcCCCCCEEEEeCCHH
Confidence 344577788999888888876 44444443322 22333 3445543 23445666777777 6899999753
No 243
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=47.30 E-value=2.3e+02 Score=26.05 Aligned_cols=29 Identities=24% Similarity=0.337 Sum_probs=15.7
Q ss_pred EEEeeCCCCCCCCCchHHHHHHHHHHHHcC
Q 014872 82 VVLWDLDNKPPRGPPYDAAMSLRRVAERFG 111 (417)
Q Consensus 82 ~VlWDLDNKPP~~pPY~AA~rLr~~As~FG 111 (417)
.|+||+|.-==.+-|. ....+..++..||
T Consensus 14 ~viFD~DGTL~Ds~~~-~~~a~~~~~~~~g 42 (229)
T PRK13226 14 AVLFDLDGTLLDSAPD-MLATVNAMLAARG 42 (229)
T ss_pred EEEEcCcCccccCHHH-HHHHHHHHHHHCC
Confidence 6899999653222222 3334455556555
No 244
>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=46.94 E-value=29 Score=35.45 Aligned_cols=50 Identities=24% Similarity=0.298 Sum_probs=38.3
Q ss_pred CCcceEEEEeCCc------chHHHHHHHHHcCCcEEEEcCCCCccccccccccchh
Q 014872 264 SGVDWMFLVSDDN------DFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWI 313 (417)
Q Consensus 264 rgv~cLvLVSDDs------dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~ 313 (417)
...++||++--|. -+..-++.||++|.+.|||.-......+.||.|++=.
T Consensus 155 ~~ad~il~~G~n~~~~~~~~~~~~~~~a~~~g~kiivIdPr~t~ta~~AD~~i~i~ 210 (454)
T cd02755 155 ENARYIILFGRNLAEAIIVVDARRLMKALENGAKVVVVDPRFSELASKADEWIPIK 210 (454)
T ss_pred hcCCEEEEECcCcccccccHHHHHHHHHHHCCCeEEEECCCCChhhHhhCEecCCC
Confidence 3478888885541 1356677899999999999987777888999998633
No 245
>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=46.89 E-value=46 Score=34.84 Aligned_cols=61 Identities=10% Similarity=0.190 Sum_probs=44.4
Q ss_pred hHHHHhcceEEEEe---CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 230 GSELRRAGVFVKTV---RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 230 A~ELkRAGV~VrtV---~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
..++++.|+-|-.. +..+.+. -+...+..+...+++.||+.+...+...+++.|+++|+.-
T Consensus 208 ~~~~~~~Gi~I~~~~~i~~~~~~~--d~~~~l~klk~~~a~vVvl~~~~~~~~~ll~qa~~~g~~~ 271 (510)
T cd06364 208 REEAEERDICIDFSELISQYSDEE--EIQRVVEVIQNSTAKVIVVFSSGPDLEPLIKEIVRRNITG 271 (510)
T ss_pred HHHHHHCCcEEEEEEEeCCCCCHH--HHHHHHHHHHhcCCeEEEEEeCcHHHHHHHHHHHHhCCCC
Confidence 45677888877543 2222233 3445555566688999999999999999999999999864
No 246
>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=46.88 E-value=48 Score=27.83 Aligned_cols=61 Identities=25% Similarity=0.303 Sum_probs=39.8
Q ss_pred CCCCCc------hHHHHhcceEEEEeCCC-----chhHHHHHHHHHHHhhh-CCcceEEEEeCCc-------chHHHHHH
Q 014872 224 KVGYGL------GSELRRAGVFVKTVRDK-----PQAADWALKRQMQHSMS-SGVDWMFLVSDDN-------DFKEMLRK 284 (417)
Q Consensus 224 KvGYGL------A~ELkRAGV~VrtV~dK-----PqAAD~ALkrhm~~~m~-rgv~cLvLVSDDs-------dF~~~Lr~ 284 (417)
+.||.| |..|+..|+.|+.|... ||..|.- .+ ..++.+|-+.+.. |=-.+.|.
T Consensus 23 ~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i--------~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~ 94 (112)
T cd00532 23 SDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAI--------AEKGKFDVVINLRDPRRDRCTDEDGTALLRL 94 (112)
T ss_pred HCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHH--------hCCCCEEEEEEcCCCCcccccCCChHHHHHH
Confidence 557655 88999999999988543 4443222 34 5677776665432 34567888
Q ss_pred HHHcCCcE
Q 014872 285 ARDANLGT 292 (417)
Q Consensus 285 AR~~~v~T 292 (417)
|.+.++--
T Consensus 95 A~~~~Ip~ 102 (112)
T cd00532 95 ARLYKIPV 102 (112)
T ss_pred HHHcCCCE
Confidence 88887643
No 247
>PRK06921 hypothetical protein; Provisional
Probab=46.40 E-value=1.3e+02 Score=29.19 Aligned_cols=21 Identities=14% Similarity=0.357 Sum_probs=15.9
Q ss_pred hhccCccCCCCCeecccCCCC
Q 014872 145 LERRGVAVPNDPYICGVCGRK 165 (417)
Q Consensus 145 lE~~G~v~p~~PY~C~VCGRk 165 (417)
|...|.+..+.+|.||.|+..
T Consensus 21 l~~~g~~~~~~~~~Cp~C~dt 41 (266)
T PRK06921 21 TTTKPEESDAERYDCPKCKDR 41 (266)
T ss_pred HHhCCCCCcCCCCCCCCCCCC
Confidence 445677666667999999987
No 248
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=45.97 E-value=2.2e+02 Score=25.42 Aligned_cols=22 Identities=18% Similarity=0.117 Sum_probs=15.5
Q ss_pred CchHHHHhcceEEEEeCCCchh
Q 014872 228 GLGSELRRAGVFVKTVRDKPQA 249 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqA 249 (417)
.+-..|+..|+.+-.|++++..
T Consensus 94 ~~L~~L~~~g~~~~ivT~~~~~ 115 (220)
T TIGR03351 94 EAFRSLRSSGIKVALTTGFDRD 115 (220)
T ss_pred HHHHHHHHCCCEEEEEeCCchH
Confidence 4456777778877777777764
No 249
>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=45.96 E-value=7.7 Score=28.80 Aligned_cols=14 Identities=29% Similarity=0.857 Sum_probs=11.5
Q ss_pred CCCeecccCCCCCC
Q 014872 154 NDPYICGVCGRKCK 167 (417)
Q Consensus 154 ~~PY~C~VCGRkf~ 167 (417)
+++-.|++||.+|.
T Consensus 27 ~~~~~CpYCg~~yv 40 (40)
T PF10276_consen 27 PGPVVCPYCGTRYV 40 (40)
T ss_dssp TCEEEETTTTEEEE
T ss_pred CCeEECCCCCCEEC
Confidence 45789999999873
No 250
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=45.25 E-value=12 Score=33.78 Aligned_cols=23 Identities=52% Similarity=0.922 Sum_probs=16.0
Q ss_pred CCeecccCCCCCCChHHHHHHHHHhh
Q 014872 155 DPYICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
.-.+|=.||++|++ |++|+++-|
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~ 93 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHH 93 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT
T ss_pred CeeEEccCCcccch---HHHHHHHcc
Confidence 34699999999998 499999876
No 251
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=44.97 E-value=10 Score=30.90 Aligned_cols=39 Identities=23% Similarity=0.458 Sum_probs=30.3
Q ss_pred hhcchhhccCccCCCCCeecccCCCCCCChHHHHHHHHHhhhh
Q 014872 140 KQFDILERRGVAVPNDPYICGVCGRKCKTNLDLKKHFKQLHER 182 (417)
Q Consensus 140 k~ld~lE~~G~v~p~~PY~C~VCGRkf~T~~kL~kHFKQLHER 182 (417)
|+..+..++|.+- ++||-||.-|+...+..+|--.-|-.
T Consensus 5 KA~Kv~~RDGE~~----lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 5 KAIKVRDRDGEEF----LRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred eeeEeeccCCcee----eeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 4445555666554 89999999999999999998877654
No 252
>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=44.87 E-value=1e+02 Score=28.68 Aligned_cols=79 Identities=14% Similarity=0.069 Sum_probs=45.7
Q ss_pred CchHHHHhcceEEEEeCCCchh-HHHHHHH-HHHHhhhCCcceEEEEeCC------------cchHHHHHHHHHcCCcEE
Q 014872 228 GLGSELRRAGVFVKTVRDKPQA-ADWALKR-QMQHSMSSGVDWMFLVSDD------------NDFKEMLRKARDANLGTV 293 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqA-AD~ALkr-hm~~~m~rgv~cLvLVSDD------------sdF~~~Lr~AR~~~v~TV 293 (417)
-+-..||+.| .+-.|+++++. ++..+++ .+.+.+. --|..++ ..=..+++..++.|.+++
T Consensus 75 ell~~lk~~~-~~~IVS~~~~~~~~~il~~lgi~~~~a-----n~l~~~~~g~~tG~~~~~~~~K~~~l~~l~~~~~~~v 148 (203)
T TIGR02137 75 EFVDWLRERF-QVVILSDTFYEFSQPLMRQLGFPTLLC-----HKLEIDDSDRVVGYQLRQKDPKRQSVIAFKSLYYRVI 148 (203)
T ss_pred HHHHHHHhCC-eEEEEeCChHHHHHHHHHHcCCchhhc-----eeeEEecCCeeECeeecCcchHHHHHHHHHhhCCCEE
Confidence 4556777766 88899999884 3333322 1222221 0122222 233446777778888999
Q ss_pred EEcCCCCcc--ccccccccch
Q 014872 294 VVGDSNRGL--GQHADLWVPW 312 (417)
Q Consensus 294 VVGd~~~~L--~R~ADl~fSW 312 (417)
.|||+..++ .+.|++.+-|
T Consensus 149 ~vGDs~nDl~ml~~Ag~~ia~ 169 (203)
T TIGR02137 149 AAGDSYNDTTMLSEAHAGILF 169 (203)
T ss_pred EEeCCHHHHHHHHhCCCCEEe
Confidence 999986543 5666655443
No 253
>COG2237 Predicted membrane protein [Function unknown]
Probab=44.78 E-value=46 Score=34.97 Aligned_cols=74 Identities=23% Similarity=0.288 Sum_probs=55.6
Q ss_pred CCCchHHHHhcc--eEEEEeCCCch---hHHHHHHHHHHHhhh-CCcceEEEEeCCcchHHHHHHHHHc----CCcEEEE
Q 014872 226 GYGLGSELRRAG--VFVKTVRDKPQ---AADWALKRQMQHSMS-SGVDWMFLVSDDNDFKEMLRKARDA----NLGTVVV 295 (417)
Q Consensus 226 GYGLA~ELkRAG--V~VrtV~dKPq---AAD~ALkrhm~~~m~-rgv~cLvLVSDDsdF~~~Lr~AR~~----~v~TVVV 295 (417)
|.-+-++||+.| |.|-+|++-+. .||..+.+|++.... .+++-.++|||-.+=.-++.--+.+ .++.|||
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 456779999999 55556666655 999999999999887 6799999999977655555544443 4677888
Q ss_pred cCCC
Q 014872 296 GDSN 299 (417)
Q Consensus 296 Gd~~ 299 (417)
--+.
T Consensus 133 rQs~ 136 (364)
T COG2237 133 RQSR 136 (364)
T ss_pred ecCC
Confidence 6644
No 254
>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=44.73 E-value=60 Score=31.01 Aligned_cols=59 Identities=14% Similarity=0.099 Sum_probs=46.1
Q ss_pred hHHHHhcceEEEEeCC-CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC
Q 014872 230 GSELRRAGVFVKTVRD-KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL 290 (417)
Q Consensus 230 A~ELkRAGV~VrtV~d-KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v 290 (417)
...|++.|..|-.... .+.++| ...++.++...+++.|++...-.+...+++.++++|+
T Consensus 153 ~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~ 212 (334)
T cd06356 153 RKIVEENGGEVVGEEFIPLDVSD--FGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL 212 (334)
T ss_pred HHHHHHcCCEEEeeeecCCCchh--HHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC
Confidence 3567888987753322 334555 5777888888999999998888899999999999999
No 255
>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=44.71 E-value=29 Score=33.51 Aligned_cols=46 Identities=22% Similarity=0.106 Sum_probs=38.0
Q ss_pred CcceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCcccccccccc
Q 014872 265 GVDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWV 310 (417)
Q Consensus 265 gv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~f 310 (417)
.-|++|.+|-+ .+..++++.||++|..||.|... .+.|.+.||.-+
T Consensus 118 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~I~It~~~~s~L~~~aD~~I 167 (257)
T cd05007 118 ERDVVIGIAASGRTPYVLGALRYARARGALTIGIACNPGSPLLQLADIAI 167 (257)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEE
Confidence 45788888864 67888999999999999999875 478899998865
No 256
>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=44.68 E-value=63 Score=31.94 Aligned_cols=69 Identities=17% Similarity=0.223 Sum_probs=44.7
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCC-cceEEEEeCC-----cchHHHHHHHHHcCCcE---EEEcC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSG-VDWMFLVSDD-----NDFKEMLRKARDANLGT---VVVGD 297 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rg-v~cLvLVSDD-----sdF~~~Lr~AR~~~v~T---VVVGd 297 (417)
++...|+..|+.|..+..-+. .+.-+...+..+.+.+ ++.||+.+.. .+-..+++.|++.|+.+ +.||.
T Consensus 151 ~l~~~l~~~gi~v~~~~~~~~-~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~ 228 (382)
T cd06371 151 KLASALRAHGLPVGLVTSMGP-DEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPY 228 (382)
T ss_pred HHHHHHHHCCCcEEEEEEecC-CHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEe
Confidence 456677888877664433321 2234667777777777 5666665554 34578999999999983 66654
No 257
>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=44.43 E-value=59 Score=33.12 Aligned_cols=67 Identities=12% Similarity=0.173 Sum_probs=44.7
Q ss_pred chHHHHhcceEEEEe---CCCchhHHHHHHHHHHHhhhCCcceEEEE--eCCcchHHHHHHHHHcCCcE--EEEcC
Q 014872 229 LGSELRRAGVFVKTV---RDKPQAADWALKRQMQHSMSSGVDWMFLV--SDDNDFKEMLRKARDANLGT--VVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV---~dKPqAAD~ALkrhm~~~m~rgv~cLvLV--SDDsdF~~~Lr~AR~~~v~T--VVVGd 297 (417)
+..+|++.|+-|-.+ +..+.+ .-+..++..+...+.+..|+| +...+...+++.|+++|+.. +.||.
T Consensus 206 ~~~~~~~~gi~i~~~~~i~~~~~~--~d~~~~l~~lk~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~~~~~wi~s 279 (472)
T cd06374 206 FKELAAHEGLCIAHSDKIYSNAGE--QSFDRLLRKLRSRLPKARVVVCFCEGMTVRGLLMAMRRLGVGGEFQLIGS 279 (472)
T ss_pred HHHHHHHCCeeEEEEEEecCCCch--HHHHHHHHHHHhcCCCcEEEEEEechHHHHHHHHHHHHhcCCCceEEEEe
Confidence 446778888877633 333333 345566666776666665554 66677889999999999963 66665
No 258
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.42 E-value=12 Score=41.77 Aligned_cols=25 Identities=28% Similarity=0.715 Sum_probs=21.4
Q ss_pred eecccCCCCCC---------------ChHHHHHHHHHhhh
Q 014872 157 YICGVCGRKCK---------------TNLDLKKHFKQLHE 181 (417)
Q Consensus 157 Y~C~VCGRkf~---------------T~~kL~kHFKQLHE 181 (417)
|.|.+|++.|. +-..|++|+.++|.
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~ 139 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHK 139 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhh
Confidence 78889988884 67899999999986
No 259
>PRK11382 frlB fructoselysine-6-P-deglycase; Provisional
Probab=44.37 E-value=29 Score=34.48 Aligned_cols=47 Identities=15% Similarity=0.131 Sum_probs=39.0
Q ss_pred ceEEEEeC---CcchHHHHHHHHHcCCcEEEEcCC-CCccccccccccchh
Q 014872 267 DWMFLVSD---DNDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVPWI 313 (417)
Q Consensus 267 ~cLvLVSD---DsdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fSW~ 313 (417)
+++|.+|= ..+-..+++.||++|.+||.|.+. ++.|.+.||.-+...
T Consensus 94 ~lvI~iS~SGeT~e~i~al~~ak~~Ga~~I~IT~~~~S~L~~~ad~~l~~~ 144 (340)
T PRK11382 94 CAVIGVSDYGKTEEVIKALELGRACGALTAAFTKRADSPITSAAEFSIDYQ 144 (340)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCCEEEEeC
Confidence 56677774 478889999999999999999775 579999999988665
No 260
>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=44.17 E-value=40 Score=25.10 Aligned_cols=43 Identities=23% Similarity=0.382 Sum_probs=23.2
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSD 274 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSD 274 (417)
+.++..||.+|+.|.+...... +..++..+-..|+.+++++.+
T Consensus 18 ~~i~~~Lr~~g~~v~~~~~~~~-----~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 18 LELAEQLRDAGIKAEIDYGGRK-----LKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred HHHHHHHHHCCCEEEEecCCCC-----HHHHHHHHHHcCCCEEEEEcH
Confidence 3556677777776665432211 344444445566666555554
No 261
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=44.14 E-value=37 Score=29.76 Aligned_cols=37 Identities=30% Similarity=0.425 Sum_probs=32.6
Q ss_pred hhCCcceEEEEe--CCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 262 MSSGVDWMFLVS--DDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 262 m~rgv~cLvLVS--DDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
+=|++.|-|||- |+.|...++.+|.++||.-.+++|.
T Consensus 51 LLRRvP~~vLVr~~~~pd~~Hl~~LA~ekgVpVe~~~d~ 89 (100)
T PF15608_consen 51 LLRRVPWKVLVRDPDDPDLAHLLLLAEEKGVPVEVYPDL 89 (100)
T ss_pred HHhcCCCEEEECCCCCccHHHHHHHHHHcCCcEEEeCCC
Confidence 347799999996 6789999999999999999999985
No 262
>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=43.98 E-value=43 Score=26.34 Aligned_cols=41 Identities=22% Similarity=0.487 Sum_probs=21.8
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSD 274 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSD 274 (417)
++..|+++|+.|..-.... -+.++|.++...|+.++++|-+
T Consensus 21 l~~~L~~~gi~v~~d~~~~-----~~~k~~~~a~~~g~p~~iiiG~ 61 (94)
T PF03129_consen 21 LANKLRKAGIRVELDDSDK-----SLGKQIKYADKLGIPFIIIIGE 61 (94)
T ss_dssp HHHHHHHTTSEEEEESSSS-----THHHHHHHHHHTTESEEEEEEH
T ss_pred HHHHHHHCCCEEEEECCCC-----chhHHHHHHhhcCCeEEEEECc
Confidence 4566666665555442111 1345555556666666666554
No 263
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=43.80 E-value=15 Score=34.43 Aligned_cols=21 Identities=29% Similarity=0.624 Sum_probs=13.4
Q ss_pred hhcchhhccCccCCCCCeecccCCCCC
Q 014872 140 KQFDILERRGVAVPNDPYICGVCGRKC 166 (417)
Q Consensus 140 k~ld~lE~~G~v~p~~PY~C~VCGRkf 166 (417)
+.|+.++..- -|+|+|||.-+
T Consensus 124 ~~Le~~~~~~------~~vC~vCGy~~ 144 (166)
T COG1592 124 GLLERLEEGK------VWVCPVCGYTH 144 (166)
T ss_pred HHHHhhhcCC------EEEcCCCCCcc
Confidence 4566554322 68999998854
No 264
>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=43.71 E-value=32 Score=35.78 Aligned_cols=50 Identities=16% Similarity=0.237 Sum_probs=39.2
Q ss_pred CCcceEEEEeCCc-----chHHHHHHHHHcCCcEEEEcCCCCccccccccccchh
Q 014872 264 SGVDWMFLVSDDN-----DFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWI 313 (417)
Q Consensus 264 rgv~cLvLVSDDs-----dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~ 313 (417)
...+||+++--+. .+...++.||++|.+-|||.-......+.||.|++-.
T Consensus 156 ~~ad~il~~G~Np~~s~p~~~~~~~~a~~~GaklivvDPr~t~ta~~Ad~~l~i~ 210 (501)
T cd02766 156 VNADLIVIWGINPAATNIHLMRIIQEARKRGAKVVVIDPYRTATAARADLHIQIR 210 (501)
T ss_pred hcCCEEEEECCChhhhchhHHHHHHHHHHCCCEEEEECCCCCccHHHhCeeeccC
Confidence 4588998886553 2445677899999999999887778899999999753
No 265
>PRK10490 sensor protein KdpD; Provisional
Probab=43.47 E-value=90 Score=35.32 Aligned_cols=51 Identities=27% Similarity=0.407 Sum_probs=38.1
Q ss_pred hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCC
Q 014872 249 AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNR 300 (417)
Q Consensus 249 AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~ 300 (417)
+.-..|.+++.-+-+.|++..++ .++.--..+++.||+.|+-.||+|-+.+
T Consensus 297 ~~~~~l~~~~~lA~~lGa~~~~~-~~~dva~~i~~~A~~~~vt~IViG~s~~ 347 (895)
T PRK10490 297 KKRRAILSALRLAQELGAETATL-SDPAEEKAVLRYAREHNLGKIIIGRRAS 347 (895)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEE-eCCCHHHHHHHHHHHhCCCEEEECCCCC
Confidence 34345667775444699995555 5555668999999999999999999764
No 266
>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=43.05 E-value=92 Score=28.50 Aligned_cols=67 Identities=6% Similarity=-0.011 Sum_probs=42.4
Q ss_pred CCchHHHHhcc-eEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAG-VFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAG-V~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
-|+...|+..| +.+-+.....+ -.+..+ ..++.+++-+|++|-..+=.......++.++..|+++..
T Consensus 18 ~~i~~~l~~~g~~~l~~~~~~~~----~~~~~~-~~~~~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~ 85 (247)
T cd06276 18 NSFVNTLGKNAQVDLYFHHYNED----LFKNII-SNTKGKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHS 85 (247)
T ss_pred HHHHHHHHhcCcEEEEEEcCchH----HHHHHH-HHHhcCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCc
Confidence 47888999999 87776544431 122222 235789999999985422111344445578889999863
No 267
>TIGR01761 thiaz-red thiazolinyl imide reductase. This reductase is found associated with gene clusters for the biosynthesis of various non-ribosomal peptide derived natural products in which cysteine is cyclized to a thiazoline ring containing an imide double bond. Examples include yersiniabactin (irp3/YbtU) and pyochelin (PchG).
Probab=42.92 E-value=24 Score=35.89 Aligned_cols=124 Identities=14% Similarity=0.138 Sum_probs=70.8
Q ss_pred CCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHhhhhccccchhHHHHHHhhc-cchHHHHHHHh-----hcCC-----
Q 014872 155 DPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLNRMKSLKGKKRQKYKERYIS-GNDKYNEAARS-----LLKP----- 223 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnrL~S~KGkrR~rl~~~~a~-k~~KY~~AAre-----vL~P----- 223 (417)
.+++..|||-+|- ..|.+.+.+....-+|.-+-+..-+|.+++.++|-- .-..|++...+ |.+|
T Consensus 2 ~~~rVgViG~~~G-----~~h~~al~~~~~~~eLvaV~d~~~erA~~~A~~~gi~~y~~~eell~d~Di~~V~ipt~~P~ 76 (343)
T TIGR01761 2 DVQSVVVCGTRFG-----QFYLAAFAAAPERFELAGILAQGSERSRALAHRLGVPLYCEVEELPDDIDIACVVVRSAIVG 76 (343)
T ss_pred CCcEEEEEeHHHH-----HHHHHHHHhCCCCcEEEEEEcCCHHHHHHHHHHhCCCccCCHHHHhcCCCEEEEEeCCCCCC
Confidence 5678889997652 246665544332234444555444555677777742 23556666542 4433
Q ss_pred CCCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhh-hCCcceEEEEeCCcchHHHHHHHHHcC
Q 014872 224 KVGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSM-SSGVDWMFLVSDDNDFKEMLRKARDAN 289 (417)
Q Consensus 224 KvGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m-~rgv~cLvLVSDDsdF~~~Lr~AR~~~ 289 (417)
..+|.+|-++-+||.+|= -.||-|.+.|- .|..+. ..|+- +.|.--..+...+|..-+.+
T Consensus 77 ~~H~e~a~~aL~aGkHVL--~EKPla~~Ea~--el~~~A~~~g~~--l~v~~f~p~~~~vr~~i~~~ 137 (343)
T TIGR01761 77 GQGSALARALLARGIHVL--QEHPLHPRDIQ--DLLRLAERQGRR--YLVNTFYPHLPAVRRFIEYA 137 (343)
T ss_pred ccHHHHHHHHHhCCCeEE--EcCCCCHHHHH--HHHHHHHHcCCE--EEEEecCHHHHHHHHHHHcc
Confidence 356899999999999885 38999854442 233333 34543 44543333444455555555
No 268
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=42.89 E-value=58 Score=29.02 Aligned_cols=49 Identities=16% Similarity=0.289 Sum_probs=31.8
Q ss_pred CCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 245 DKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 245 dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
.||.+. .-.+..+-++...+..+.|- |+. .+ +..|++.|+++|.+.+..
T Consensus 140 ~KP~p~---~~~~~~~~~~~~p~~~l~vg-D~~-~d-i~aA~~aG~~~i~~~~~~ 188 (199)
T PRK09456 140 RKPEAR---IYQHVLQAEGFSAADAVFFD-DNA-DN-IEAANALGITSILVTDKQ 188 (199)
T ss_pred CCCCHH---HHHHHHHHcCCChhHeEEeC-CCH-HH-HHHHHHcCCEEEEecCCc
Confidence 467655 33344334555555556664 443 45 889999999999998854
No 269
>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=42.83 E-value=47 Score=25.13 Aligned_cols=61 Identities=13% Similarity=0.125 Sum_probs=39.4
Q ss_pred chHHHHhc-ceEEEEeCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEc
Q 014872 229 LGSELRRA-GVFVKTVRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVG 296 (417)
Q Consensus 229 LA~ELkRA-GV~VrtV~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVG 296 (417)
++..|.+. |..|..+.+-- ..+...... ..=++++++|-. .+-..+++.||++|.++|++.
T Consensus 16 ~~~~l~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~d~~i~iS~sg~t~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 16 FALELLELTGIEVVALIATE-------LEHASLLSLLRKGDVVIALSYSGRTEELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred HHHHHhcccCCceEEeCCcH-------HHHHHHHhcCCCCCEEEEEECCCCCHHHHHHHHHHHHcCCeEEEEe
Confidence 34455666 88887764311 112221222 345778888855 567788999999999999886
No 270
>cd02753 MopB_Formate-Dh-H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. Members of the MopB_Formate-Dh-H CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=42.74 E-value=36 Score=34.94 Aligned_cols=48 Identities=15% Similarity=0.303 Sum_probs=37.9
Q ss_pred CCcceEEEEeCCc-----chHHHHHHHHHcCCcEEEEcCCCCccccccccccc
Q 014872 264 SGVDWMFLVSDDN-----DFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVP 311 (417)
Q Consensus 264 rgv~cLvLVSDDs-----dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fS 311 (417)
...++||++..|. .+..-++.|+++|.+.|||+-........||.|++
T Consensus 155 ~~ad~il~~G~n~~~~~~~~~~~i~~a~~~G~k~i~Idp~~s~ta~~Ad~~l~ 207 (512)
T cd02753 155 EEADVILVIGSNTTEAHPVIARRIKRAKRNGAKLIVADPRRTELARFADLHLQ 207 (512)
T ss_pred HhCCEEEEECCChhhhhHHHHHHHHHHHHCCCeEEEEcCCCccchHhhCeeeC
Confidence 3578998887664 34455778899999999999877777888999986
No 271
>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=42.67 E-value=50 Score=31.11 Aligned_cols=40 Identities=13% Similarity=0.264 Sum_probs=34.6
Q ss_pred HHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 253 ALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 253 ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
-+...+.++...+++.||+.+...+-..+++.|++.|+.+
T Consensus 169 d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~ 208 (327)
T cd06382 169 DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMS 208 (327)
T ss_pred cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccc
Confidence 3556666677889999999999999999999999999876
No 272
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.26 E-value=22 Score=28.20 Aligned_cols=31 Identities=26% Similarity=0.506 Sum_probs=20.7
Q ss_pred ecccCCCCCCChHHHHHHHHHhh-hhhHHHHH
Q 014872 158 ICGVCGRKCKTNLDLKKHFKQLH-ERERQKKL 188 (417)
Q Consensus 158 ~C~VCGRkf~T~~kL~kHFKQLH-ERER~KRL 188 (417)
+|+||||-|.-+.+-.+-...+. -.||-+|+
T Consensus 14 ICpvCqRPFsWRkKW~~cWDeVKyCSeRCrr~ 45 (54)
T COG4338 14 ICPVCQRPFSWRKKWARCWDEVKYCSERCRRL 45 (54)
T ss_pred hhhhhcCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999987777766655443 23444433
No 273
>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=41.84 E-value=35 Score=32.13 Aligned_cols=62 Identities=29% Similarity=0.324 Sum_probs=40.9
Q ss_pred chHHHHhcceEEEEeCC-CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 229 LGSELRRAGVFVKTVRD-KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~d-KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
+...|++.|+.|..... .+...| ....+.++...+++.|++.++-.+...+++.++++|++.
T Consensus 153 ~~~~~~~~G~~v~~~~~~~~~~~d--~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~ 215 (341)
T cd06341 153 LARSLAAAGVSVAGIVVITATAPD--PTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTP 215 (341)
T ss_pred HHHHHHHcCCccccccccCCCCCC--HHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCC
Confidence 34555666765543222 222233 223444456678999998888889999999999999875
No 274
>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=41.54 E-value=52 Score=31.26 Aligned_cols=59 Identities=17% Similarity=0.232 Sum_probs=40.4
Q ss_pred hhccchHHHHHHHhhcCCCCC-----CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhh----CCcceEEEE
Q 014872 206 YISGNDKYNEAARSLLKPKVG-----YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMS----SGVDWMFLV 272 (417)
Q Consensus 206 ~a~k~~KY~~AArevL~PKvG-----YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~----rgv~cLvLV 272 (417)
++-.+.+|.. +.+..| -.|+..|++.||.|.+..|..... +++.|.+... .+.+|+|+|
T Consensus 12 lII~n~~f~~-----~~~r~g~~~D~~~l~~~f~~lgF~V~~~~dlt~~e---m~~~l~~~~~~~~~~~~d~~v~~ 79 (241)
T smart00115 12 LIINNENFHS-----LPRRNGTDVDAENLTELFQSLGYEVHVKNNLTAEE---MLEELKEFAERPEHSDSDSFVCV 79 (241)
T ss_pred EEEECccCCC-----CcCCCCcHHHHHHHHHHHHHCCCEEEEecCCCHHH---HHHHHHHHHhccccCCCCEEEEE
Confidence 4556667753 444444 679999999999999999987765 5555544443 256776554
No 275
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=41.40 E-value=1.7e+02 Score=27.64 Aligned_cols=100 Identities=19% Similarity=0.183 Sum_probs=58.0
Q ss_pred HHHHHHhhcCCCCC-CCchHHHHhcceEEEEeCCCchhHHHHHHHH--HHHhh------hCC--cceE-EEEeCCcchHH
Q 014872 213 YNEAARSLLKPKVG-YGLGSELRRAGVFVKTVRDKPQAADWALKRQ--MQHSM------SSG--VDWM-FLVSDDNDFKE 280 (417)
Q Consensus 213 Y~~AArevL~PKvG-YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrh--m~~~m------~rg--v~cL-vLVSDDsdF~~ 280 (417)
=++...+.++...| --|...||.+|..|-.|+..|+=-=.-+.+. +.... .-| -.++ --+++...=..
T Consensus 68 v~~~~~~~~~l~~ga~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~l~~~dG~ltG~v~g~~~~~~~K~~ 147 (212)
T COG0560 68 LEEVREEFLRLTPGAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANELEIDDGKLTGRVVGPICDGEGKAK 147 (212)
T ss_pred HHHHHHhcCcCCccHHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeEEEEeCCEEeceeeeeecCcchHHH
Confidence 33444443333333 6788999999999999999998210112221 11111 012 0111 12344444455
Q ss_pred HH-HHHHHcCCc---EEEEcCCCCccccccccccch
Q 014872 281 ML-RKARDANLG---TVVVGDSNRGLGQHADLWVPW 312 (417)
Q Consensus 281 ~L-r~AR~~~v~---TVVVGd~~~~L~R~ADl~fSW 312 (417)
.| +.+++.|+. |+.||||..+|+...=+.++|
T Consensus 148 ~l~~~~~~~g~~~~~~~a~gDs~nDlpml~~ag~~i 183 (212)
T COG0560 148 ALRELAAELGIPLEETVAYGDSANDLPMLEAAGLPI 183 (212)
T ss_pred HHHHHHHHcCCCHHHeEEEcCchhhHHHHHhCCCCe
Confidence 55 788889997 999999987776655444444
No 276
>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=41.23 E-value=41 Score=35.65 Aligned_cols=49 Identities=20% Similarity=0.295 Sum_probs=38.7
Q ss_pred CCcceEEEEeCCc-----chHHHHHHHHHcCCcEEEEcCCCCccccccccccch
Q 014872 264 SGVDWMFLVSDDN-----DFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPW 312 (417)
Q Consensus 264 rgv~cLvLVSDDs-----dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW 312 (417)
...++||++.-+. -+...+..||++|.+.|||.-........||.|++=
T Consensus 158 ~~ad~il~~G~Np~~s~~~~~~~~~~a~~~GakliviDPr~s~ta~~Ad~~l~i 211 (567)
T cd02765 158 VNAKTIIIWGSNILETQFQDAEFFLDARENGAKIVVIDPVYSTTAAKADQWVPI 211 (567)
T ss_pred hcCcEEEEECCChHHccchhHHHHHHHHHcCCeEEEECCCCCcchhhcCEEecc
Confidence 4678888887663 244566789999999999987777888999999863
No 277
>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=41.17 E-value=72 Score=34.06 Aligned_cols=76 Identities=16% Similarity=0.183 Sum_probs=49.4
Q ss_pred HHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCCc--ccccccc
Q 014872 231 SELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNRG--LGQHADL 308 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~~--L~R~ADl 308 (417)
.+||+.|+.+-.++++++..=.++-++ .|++...-+ ...+-..+++..++.+=+++.|||+..+ ..+.||+
T Consensus 415 ~~Lk~~Gi~v~ilSgd~~~~a~~ia~~------lgi~~~~~~-~p~~K~~~v~~l~~~~~~v~~VGDg~nD~~al~~A~v 487 (562)
T TIGR01511 415 QALKRRGIEPVMLTGDNRKTAKAVAKE------LGINVRAEV-LPDDKAALIKELQEKGRVVAMVGDGINDAPALAQADV 487 (562)
T ss_pred HHHHHcCCeEEEEcCCCHHHHHHHHHH------cCCcEEccC-ChHHHHHHHHHHHHcCCEEEEEeCCCccHHHHhhCCE
Confidence 469999999999999888542222222 355421111 1235566777777777788999998543 3677998
Q ss_pred ccchh
Q 014872 309 WVPWI 313 (417)
Q Consensus 309 ~fSW~ 313 (417)
.+.|.
T Consensus 488 gia~g 492 (562)
T TIGR01511 488 GIAIG 492 (562)
T ss_pred EEEeC
Confidence 76664
No 278
>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=40.85 E-value=35 Score=35.15 Aligned_cols=53 Identities=11% Similarity=0.144 Sum_probs=34.9
Q ss_pred CCCchHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 226 GYGLGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 226 GYGLA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
-..+...|++||+. .+.=..| ..+..|++ |++|.. -.+...+++.+++.|+.+
T Consensus 286 ~~e~l~~l~~aG~~--~v~iGiES~s~~~L~~-----~~K~~~-------~~~~~~~i~~~~~~Gi~v 339 (472)
T TIGR03471 286 DYETLKVMKENGLR--LLLVGYESGDQQILKN-----IKKGLT-------VEIARRFTRDCHKLGIKV 339 (472)
T ss_pred CHHHHHHHHHcCCC--EEEEcCCCCCHHHHHH-----hcCCCC-------HHHHHHHHHHHHHCCCeE
Confidence 35788999999975 3333444 44555554 566632 346777888888888875
No 279
>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=40.68 E-value=1.3e+02 Score=26.64 Aligned_cols=67 Identities=12% Similarity=0.058 Sum_probs=44.2
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
|+..+++..|+.+.+......+. -.+..+..+...+++-|++.+-+.+-. ......+++..|+++..
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 66778888899988775554442 123445556778999999987543322 22345678899998753
No 280
>cd02759 MopB_Acetylene-hydratase The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=40.64 E-value=41 Score=34.50 Aligned_cols=48 Identities=23% Similarity=0.272 Sum_probs=38.5
Q ss_pred CCcceEEEEeCCc------chHHHHHHHHHcCCcEEEEcCCCCccccccccccc
Q 014872 264 SGVDWMFLVSDDN------DFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVP 311 (417)
Q Consensus 264 rgv~cLvLVSDDs------dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fS 311 (417)
...++||++.-|. .....++.||++|.+-|||.-........||.|++
T Consensus 159 ~~ad~Il~~G~n~~~~~~~~~~~~~~~ar~~g~klividpr~s~ta~~Ad~~l~ 212 (477)
T cd02759 159 ENPECIVLWGKNPLNSNLDLQGHWLVAAMKRGAKLIVVDPRLTWLAARADLWLP 212 (477)
T ss_pred hcCCEEEEEccChhhhCcHHHHHHHHHHHHCCCEEEEECCCCChhhHhhCeeec
Confidence 4589999998764 34456778999998888887777778899999986
No 281
>TIGR00338 serB phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins.
Probab=40.63 E-value=1.1e+02 Score=27.28 Aligned_cols=28 Identities=21% Similarity=0.169 Sum_probs=20.1
Q ss_pred cCCCCC-CCchHHHHhcceEEEEeCCCch
Q 014872 221 LKPKVG-YGLGSELRRAGVFVKTVRDKPQ 248 (417)
Q Consensus 221 L~PKvG-YGLA~ELkRAGV~VrtV~dKPq 248 (417)
+.|.-| -.+-..|+..|+.+-.+++.+.
T Consensus 84 ~~~~~g~~~~l~~l~~~g~~~~IvS~~~~ 112 (219)
T TIGR00338 84 LPLTEGAEELVKTLKEKGYKVAVISGGFD 112 (219)
T ss_pred CCcCCCHHHHHHHHHHCCCEEEEECCCcH
Confidence 344444 4466788889999999998775
No 282
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=40.47 E-value=16 Score=38.99 Aligned_cols=57 Identities=19% Similarity=0.339 Sum_probs=35.0
Q ss_pred Ccee--eeecccccCccccCchHHHHHHHhhhhcchhhccCccCCCCCeecccCCCCCCChHH
Q 014872 111 GEVT--DISAYANRHAFIHLPQWVIQERRERKQFDILERRGVAVPNDPYICGVCGRKCKTNLD 171 (417)
Q Consensus 111 G~Vv--~isAYANRhAFs~vP~~vre~Rkerk~ld~lE~~G~v~p~~PY~C~VCGRkf~T~~k 171 (417)
|+-+ ..+.|-|...++-|=.|=..+ +||.|.--+++- ...+.|.||.|+++|..-+-
T Consensus 85 Gr~~~~~~YyyInY~~~idvVKyKlh~--m~krled~~~d~--t~~~~Y~Cp~C~kkyt~Lea 143 (436)
T KOG2593|consen 85 GRAVDKHTYYYINYAQVIDVVKYKLHQ--MRKRLEDRLRDD--TNVAGYVCPNCQKKYTSLEA 143 (436)
T ss_pred CcceeeeEEEEeehHHHHHHHHHHHHH--HHHHHHHHhhhc--cccccccCCccccchhhhHH
Confidence 6666 367777777766655554444 344444333332 23468999999999875443
No 283
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=40.34 E-value=2.8e+02 Score=25.02 Aligned_cols=67 Identities=13% Similarity=0.094 Sum_probs=34.5
Q ss_pred chHHHHhcceEEEEeCCCchh-HHHHHHHHHHHhhhCCcc---eEEEEeCC-----cchHHHHHHHHHcCCc---EEEEc
Q 014872 229 LGSELRRAGVFVKTVRDKPQA-ADWALKRQMQHSMSSGVD---WMFLVSDD-----NDFKEMLRKARDANLG---TVVVG 296 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqA-AD~ALkrhm~~~m~rgv~---cLvLVSDD-----sdF~~~Lr~AR~~~v~---TVVVG 296 (417)
+-..|++.|+.+=.+++.+.. .+..|++ .|+. ..++.|++ ++=..+++.+++.|+. +++||
T Consensus 100 ~l~~l~~~g~~~~i~S~~~~~~~~~~l~~-------~~l~~~f~~~~~~~~~~~~Kp~~~~~~~~~~~~~~~~~~~~~ig 172 (222)
T PRK10826 100 ALALCKAQGLKIGLASASPLHMLEAVLTM-------FDLRDYFDALASAEKLPYSKPHPEVYLNCAAKLGVDPLTCVALE 172 (222)
T ss_pred HHHHHHHCCCeEEEEeCCcHHHHHHHHHh-------CcchhcccEEEEcccCCCCCCCHHHHHHHHHHcCCCHHHeEEEc
Confidence 345677778877777776543 2222222 2211 12334433 2223456666666663 57777
Q ss_pred CCCCcc
Q 014872 297 DSNRGL 302 (417)
Q Consensus 297 d~~~~L 302 (417)
|+..++
T Consensus 173 Ds~~Di 178 (222)
T PRK10826 173 DSFNGM 178 (222)
T ss_pred CChhhH
Confidence 765433
No 284
>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=40.25 E-value=1.2e+02 Score=29.14 Aligned_cols=77 Identities=18% Similarity=0.184 Sum_probs=44.8
Q ss_pred hHHHHhcceEEEEeCCCch-hHHHH-HHHHHHHhhhCCcceEEEEeCCcchH-HHHHHHHHcCCcEEEEcCCCCcccccc
Q 014872 230 GSELRRAGVFVKTVRDKPQ-AADWA-LKRQMQHSMSSGVDWMFLVSDDNDFK-EMLRKARDANLGTVVVGDSNRGLGQHA 306 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKPq-AAD~A-Lkrhm~~~m~rgv~cLvLVSDDsdF~-~~Lr~AR~~~v~TVVVGd~~~~L~R~A 306 (417)
...|+.+|+.|.+.++... +.|.+ +...+. ..+++ ++|.|.-.|. ...+..|..+.+++++.|-.. -.-.|
T Consensus 46 ~~~i~~~g~~v~~~~~~~~~~~d~~~~~~~l~---~~~~d--~vV~D~y~~~~~~~~~~k~~~~~l~~iDD~~~-~~~~~ 119 (279)
T TIGR03590 46 IDLLLSAGFPVYELPDESSRYDDALELINLLE---EEKFD--ILIVDHYGLDADWEKLIKEFGRKILVIDDLAD-RPHDC 119 (279)
T ss_pred HHHHHHcCCeEEEecCCCchhhhHHHHHHHHH---hcCCC--EEEEcCCCCCHHHHHHHHHhCCeEEEEecCCC-CCcCC
Confidence 4567777887777765432 11221 222222 24677 4466765544 334555677889999999531 23388
Q ss_pred ccccch
Q 014872 307 DLWVPW 312 (417)
Q Consensus 307 Dl~fSW 312 (417)
|+.+-.
T Consensus 120 D~vin~ 125 (279)
T TIGR03590 120 DLLLDQ 125 (279)
T ss_pred CEEEeC
Confidence 888744
No 285
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=39.86 E-value=12 Score=25.80 Aligned_cols=15 Identities=33% Similarity=0.753 Sum_probs=11.4
Q ss_pred CCCCeecccCCCCCC
Q 014872 153 PNDPYICGVCGRKCK 167 (417)
Q Consensus 153 p~~PY~C~VCGRkf~ 167 (417)
|-..|+|+-||..|.
T Consensus 2 p~Y~y~C~~Cg~~fe 16 (41)
T smart00834 2 PIYEYRCEDCGHTFE 16 (41)
T ss_pred CCEEEEcCCCCCEEE
Confidence 345689999999775
No 286
>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=39.79 E-value=1e+02 Score=23.75 Aligned_cols=62 Identities=32% Similarity=0.411 Sum_probs=39.5
Q ss_pred CchHHHHhcce-EEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEe---CCcchHHHHHHHHHcC--CcEEEEcCC
Q 014872 228 GLGSELRRAGV-FVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVS---DDNDFKEMLRKARDAN--LGTVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV-~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVS---DDsdF~~~Lr~AR~~~--v~TVVVGd~ 298 (417)
++...|++.|+ .|.++.+..+|-.. ++. ...+ ++++. .+-+-.++++..|..+ .+.|++++.
T Consensus 13 ~l~~~l~~~~~~~v~~~~~~~~~~~~-~~~-------~~~d-~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~~ 80 (112)
T PF00072_consen 13 LLEKLLERAGYEEVTTASSGEEALEL-LKK-------HPPD-LIIIDLELPDGDGLELLEQIRQINPSIPIIVVTDE 80 (112)
T ss_dssp HHHHHHHHTTEEEEEEESSHHHHHHH-HHH-------STES-EEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEESS
T ss_pred HHHHHHHhCCCCEEEEECCHHHHHHH-hcc-------cCce-EEEEEeeeccccccccccccccccccccEEEecCC
Confidence 45678889999 89988776555422 233 2244 34433 4556667777777755 677878764
No 287
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.55 E-value=20 Score=37.65 Aligned_cols=21 Identities=14% Similarity=0.558 Sum_probs=16.1
Q ss_pred eecccCCCCCCChHHHHHHHHH
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQ 178 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQ 178 (417)
..||+|+++.+. ..++.|...
T Consensus 182 v~CPiC~~~~~~-~~i~~Hld~ 202 (397)
T TIGR00599 182 VQCPICQQRMPE-KAVERHLDS 202 (397)
T ss_pred ccCCCcccccCH-HHHHHHHhc
Confidence 589999997664 447888775
No 288
>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=39.34 E-value=46 Score=28.81 Aligned_cols=33 Identities=12% Similarity=0.268 Sum_probs=24.6
Q ss_pred CCcceEEEEeCC---cchHHHHHHHHHcCCcEEEEc
Q 014872 264 SGVDWMFLVSDD---NDFKEMLRKARDANLGTVVVG 296 (417)
Q Consensus 264 rgv~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVG 296 (417)
+-=|+||.+|.+ ..-.++++.||++|++||.+.
T Consensus 102 ~~gDvli~iS~SG~s~~vi~a~~~Ak~~G~~vIalT 137 (138)
T PF13580_consen 102 RPGDVLIVISNSGNSPNVIEAAEEAKERGMKVIALT 137 (138)
T ss_dssp -TT-EEEEEESSS-SHHHHHHHHHHHHTT-EEEEEE
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEEe
Confidence 445999999874 566788999999999999874
No 289
>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=39.12 E-value=48 Score=27.59 Aligned_cols=52 Identities=25% Similarity=0.406 Sum_probs=34.4
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHH-----HH-----HhhhCCcceEEEEeCCcchHH
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQ-----MQ-----HSMSSGVDWMFLVSDDNDFKE 280 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrh-----m~-----~~m~rgv~cLvLVSDDsdF~~ 280 (417)
..|+.+|++.|+.|... -|.+.....+.. +. ...-.+++|+||.++...|..
T Consensus 20 ~~l~~~L~~~g~~V~~~--DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h~~f~~ 81 (106)
T PF03720_consen 20 LELIEELKERGAEVSVY--DPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDHDEFRE 81 (106)
T ss_dssp HHHHHHHHHTT-EEEEE---TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--GGGGC
T ss_pred HHHHHHHHHCCCEEEEE--CCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecCHHHhc
Confidence 56889999999999988 355444444441 11 122479999999999999986
No 290
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=39.09 E-value=64 Score=30.94 Aligned_cols=34 Identities=21% Similarity=0.302 Sum_probs=25.0
Q ss_pred hhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 262 MSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 262 m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
|+..++-+| |-.|.=|+|+| .+.++|++||.|=-
T Consensus 106 m~l~~~~vv-mVGDqL~TDVl-ggnr~G~~tIlV~P 139 (175)
T COG2179 106 MNLPPEEVV-MVGDQLFTDVL-GGNRAGMRTILVEP 139 (175)
T ss_pred cCCChhHEE-EEcchhhhhhh-cccccCcEEEEEEE
Confidence 555555444 44778999988 57889999998865
No 291
>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=38.92 E-value=80 Score=27.30 Aligned_cols=65 Identities=18% Similarity=0.164 Sum_probs=36.2
Q ss_pred CchHHHHhcceEEEEeCCC-chhHHHHHHHHHHHhhhCCcceEEEEeCC---c---chHHHHHHHHHcCCcEEEEcCCC
Q 014872 228 GLGSELRRAGVFVKTVRDK-PQAADWALKRQMQHSMSSGVDWMFLVSDD---N---DFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dK-PqAAD~ALkrhm~~~m~rgv~cLvLVSDD---s---dF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
.+-.+|+++|+.+..+++- +..+-...+ ..|+...+..+.. + -|..+++.-...+=.+++|||+.
T Consensus 134 ~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~-------~lgi~~~~v~a~~~~kP~~k~~~~~i~~l~~~~~~v~~vGDg~ 205 (215)
T PF00702_consen 134 EALQELKEAGIKVAILTGDNESTASAIAK-------QLGIFDSIVFARVIGKPEPKIFLRIIKELQVKPGEVAMVGDGV 205 (215)
T ss_dssp HHHHHHHHTTEEEEEEESSEHHHHHHHHH-------HTTSCSEEEEESHETTTHHHHHHHHHHHHTCTGGGEEEEESSG
T ss_pred hhhhhhhccCcceeeeecccccccccccc-------ccccccccccccccccccchhHHHHHHHHhcCCCEEEEEccCH
Confidence 3446788899988888744 334422222 2677544444443 2 23344444332223789999974
No 292
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. 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=38.83 E-value=13 Score=34.01 Aligned_cols=13 Identities=31% Similarity=0.398 Sum_probs=10.8
Q ss_pred CeecccCCCCCCC
Q 014872 156 PYICGVCGRKCKT 168 (417)
Q Consensus 156 PY~C~VCGRkf~T 168 (417)
-.+|+.||+||+.
T Consensus 9 Kr~Cp~cg~kFYD 21 (129)
T TIGR02300 9 KRICPNTGSKFYD 21 (129)
T ss_pred cccCCCcCccccc
Confidence 3689999999985
No 293
>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=38.56 E-value=44 Score=26.01 Aligned_cols=33 Identities=21% Similarity=0.235 Sum_probs=18.1
Q ss_pred CCcceEEEEeCCcchHHHHHHHHHcCCc-EEEEcC
Q 014872 264 SGVDWMFLVSDDNDFKEMLRKARDANLG-TVVVGD 297 (417)
Q Consensus 264 rgv~cLvLVSDDsdF~~~Lr~AR~~~v~-TVVVGd 297 (417)
.|+.+.+-.+ ...+..-++.|...|+. .++||+
T Consensus 30 ~g~~v~~d~~-~~~l~k~i~~a~~~g~~~~iiiG~ 63 (94)
T cd00861 30 AGVDVLLDDR-NERPGVKFADADLIGIPYRIVVGK 63 (94)
T ss_pred CCCEEEEECC-CCCcccchhHHHhcCCCEEEEECC
Confidence 4555443333 23566666666666666 456665
No 294
>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=38.53 E-value=90 Score=30.97 Aligned_cols=46 Identities=7% Similarity=0.125 Sum_probs=38.4
Q ss_pred HHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEE----EEcCC
Q 014872 253 ALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTV----VVGDS 298 (417)
Q Consensus 253 ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TV----VVGd~ 298 (417)
.....+..+-+.+.+.|||.+-..+-..+|+.|++.|+.+- ++|+.
T Consensus 164 d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~ 213 (370)
T cd06389 164 AYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANL 213 (370)
T ss_pred HHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccC
Confidence 45555666667899999999999999999999999999776 67763
No 295
>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=38.18 E-value=94 Score=29.54 Aligned_cols=32 Identities=28% Similarity=0.183 Sum_probs=19.9
Q ss_pred hhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 014872 262 MSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVG 296 (417)
Q Consensus 262 m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVG 296 (417)
++...+-++.|+|.. .=+..|+++|++||.|-
T Consensus 165 lgv~p~e~lfVgDs~---~Di~AA~~AG~~ti~v~ 196 (220)
T TIGR01691 165 LGSPPREILFLSDII---NELDAARKAGLHTGQLV 196 (220)
T ss_pred hCcChhHEEEEeCCH---HHHHHHHHcCCEEEEEE
Confidence 344445566777652 33667888888877663
No 296
>TIGR02663 nifX nitrogen fixation protein NifX. Members of this family are NifX proteins encoded within operons for nitrogen fixation in a number of bacteria. NifX, NafY, and the C-terminal region of NifB all belong to the Pfam family pfam02579 and are involved in MoFe cofactor biosynthesis. NifX is a nitrogenase accessory protein with a role in expression of the MoFe cofactor.
Probab=37.81 E-value=35 Score=29.10 Aligned_cols=51 Identities=16% Similarity=0.205 Sum_probs=37.5
Q ss_pred HhhcCCCCCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceE
Q 014872 218 RSLLKPKVGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWM 269 (417)
Q Consensus 218 revL~PKvGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cL 269 (417)
.-|++-..|.+....|+++|+.|-++ ..+...+.||+.=+..+-.....||
T Consensus 65 ~vvi~~~IG~~a~~~L~~~gI~~~~~-~~~~~v~eal~~l~~~~~~~~~~w~ 115 (119)
T TIGR02663 65 AILYCLAIGGPAAAKVVAAKIHPIKV-NEPESISELLERLQKMLKGNPPPWL 115 (119)
T ss_pred cEEEEhhcCccHHHHHHHcCCeeEec-CCCccHHHHHHHHHHHHcCCCCHHH
Confidence 45889999999999999999999876 5555667778764444334555554
No 297
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=37.74 E-value=1.4e+02 Score=26.97 Aligned_cols=69 Identities=14% Similarity=0.272 Sum_probs=42.7
Q ss_pred CCCCchHHHHhcceEEEEeCCCchhH-HHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC---cEEEEcCCCC
Q 014872 225 VGYGLGSELRRAGVFVKTVRDKPQAA-DWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL---GTVVVGDSNR 300 (417)
Q Consensus 225 vGYGLA~ELkRAGV~VrtV~dKPqAA-D~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v---~TVVVGd~~~ 300 (417)
.|+++ ..|++.|+.+-.++.+|... ...++. .|+..+.- ..+.--..+.+.+.+.|+ .+++|||+..
T Consensus 53 d~~~i-~~L~~~Gi~v~I~T~~~~~~v~~~l~~-------lgl~~~f~-g~~~k~~~l~~~~~~~gl~~~ev~~VGDs~~ 123 (183)
T PRK09484 53 DGYGI-RCLLTSGIEVAIITGRKSKLVEDRMTT-------LGITHLYQ-GQSNKLIAFSDLLEKLAIAPEQVAYIGDDLI 123 (183)
T ss_pred chHHH-HHHHHCCCEEEEEeCCCcHHHHHHHHH-------cCCceeec-CCCcHHHHHHHHHHHhCCCHHHEEEECCCHH
Confidence 35666 45788999999999998754 222222 34443222 333334556666677787 5899999865
Q ss_pred cc
Q 014872 301 GL 302 (417)
Q Consensus 301 ~L 302 (417)
++
T Consensus 124 D~ 125 (183)
T PRK09484 124 DW 125 (183)
T ss_pred HH
Confidence 44
No 298
>TIGR01457 HAD-SF-IIA-hyp2 HAD-superfamily subfamily IIA hydrolase, TIGR01457. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram positive (low-GC) bacteria. Sequences found in this model are annotated variously as related to NagD or 4-nitrophenyl phosphatase, and this hypothetical equivalog, of all of those within the Class IIA subfamily, is most closely related to the E. coli NagD enzyme and the PGP_euk equivalog (TIGR01452). However, there is presently no evidence that this hypothetical equivalog has the same function of either those.
Probab=37.45 E-value=79 Score=29.88 Aligned_cols=64 Identities=23% Similarity=0.327 Sum_probs=40.1
Q ss_pred chHHHHhc-ceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 229 LGSELRRA-GVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 229 LA~ELkRA-GV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
++..|..+ |... +...||... +-++....++...+.++.|.|+- ..| +..|+..|++||.|.-+
T Consensus 161 ~~~~i~~~~~~~~-~~~gKP~~~---~~~~~~~~~~~~~~~~~~VGD~~-~~D-i~~a~~~G~~~v~v~~G 225 (249)
T TIGR01457 161 LITVLEVATGVKP-VYIGKPNAI---IMEKAVEHLGTEREETLMVGDNY-LTD-IRAGIDAGIDTLLVHTG 225 (249)
T ss_pred HHHHHHHHhCCCc-cccCCChHH---HHHHHHHHcCCCcccEEEECCCc-hhh-HHHHHHcCCcEEEEcCC
Confidence 44555544 5544 234798766 43444344555667788888762 233 34899999999999654
No 299
>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=37.36 E-value=1.5e+02 Score=26.96 Aligned_cols=96 Identities=15% Similarity=0.122 Sum_probs=52.0
Q ss_pred HHHHHHHhhcCCCCC-CCchHHHHhcceEEEEeCCCchh-HHHHHHHHHHHhhhCCcceE-EEEeCC--------c-c--
Q 014872 212 KYNEAARSLLKPKVG-YGLGSELRRAGVFVKTVRDKPQA-ADWALKRQMQHSMSSGVDWM-FLVSDD--------N-D-- 277 (417)
Q Consensus 212 KY~~AArevL~PKvG-YGLA~ELkRAGV~VrtV~dKPqA-AD~ALkrhm~~~m~rgv~cL-vLVSDD--------s-d-- 277 (417)
.+.+.+.+-+.+.-| ..+-..|++.|+.+-.|++++.. ....|+.+. ..-.+.|- ..++++ + .
T Consensus 60 ~~~~~~~~~~~l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~---~~~~i~~n~~~~~~~~~~~~~p~~~~~~ 136 (214)
T TIGR03333 60 EITSFVLETAEIREGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGIV---EKDRIYCNEADFSNEYIHIDWPHPCDGT 136 (214)
T ss_pred HHHHHHHhcCcccccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhhC---CcccEEeceeEeeCCeeEEeCCCCCccc
Confidence 444433333334444 45667788899999999999873 333343321 11112211 122221 1 1
Q ss_pred --------hHHHHHHHHHcCCcEEEEcCCCCcc--cccccccc
Q 014872 278 --------FKEMLRKARDANLGTVVVGDSNRGL--GQHADLWV 310 (417)
Q Consensus 278 --------F~~~Lr~AR~~~v~TVVVGd~~~~L--~R~ADl~f 310 (417)
-..+++..+...=++++|||+..++ .+.||+.|
T Consensus 137 ~~~~cg~~K~~~l~~~~~~~~~~i~iGDg~~D~~~a~~Ad~~~ 179 (214)
T TIGR03333 137 CQNQCGCCKPSLIRKLSEPNDYHIVIGDSVTDVEAAKQSDLCF 179 (214)
T ss_pred cccCCCCCHHHHHHHHhhcCCcEEEEeCCHHHHHHHHhCCeeE
Confidence 1356665555555789999987544 55666643
No 300
>TIGR00213 GmhB_yaeD D,D-heptose 1,7-bisphosphate phosphatase. This family of proteins formerly designated yaeD resembles the histidinol phosphatase domain of the bifunctional protein HisB. The member from E. coli has been characterized as D,D-heptose 1,7-bisphosphate phosphatase, GmhB, involved in inner core LPS assembly (PubMed:11751812).
Probab=37.36 E-value=2e+02 Score=25.47 Aligned_cols=20 Identities=20% Similarity=0.248 Sum_probs=13.4
Q ss_pred chHHHHhcceEEEEeCCCch
Q 014872 229 LGSELRRAGVFVKTVRDKPQ 248 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPq 248 (417)
+=..|+.+|+.+=.++++|.
T Consensus 34 ~L~~Lk~~G~~l~i~TN~~~ 53 (176)
T TIGR00213 34 ALRELKKMGYALVLVTNQSG 53 (176)
T ss_pred HHHHHHHCCCEEEEEeCCcc
Confidence 44566777777777777763
No 301
>PF13945 NST1: Salt tolerance down-regulator
Probab=37.29 E-value=6.7 Score=37.51 Aligned_cols=28 Identities=36% Similarity=0.700 Sum_probs=16.6
Q ss_pred hhhhcchhhccCccC---C--CCCeecccCCCC
Q 014872 138 ERKQFDILERRGVAV---P--NDPYICGVCGRK 165 (417)
Q Consensus 138 erk~ld~lE~~G~v~---p--~~PY~C~VCGRk 165 (417)
||+.|..+|..-+.. . --.-.|.|||||
T Consensus 118 ERr~LVkIEKe~VLkkmKeqq~h~C~C~vCgr~ 150 (190)
T PF13945_consen 118 ERRSLVKIEKEAVLKKMKEQQKHSCSCSVCGRK 150 (190)
T ss_pred HHHHHHHhhHHHHHHHHHHHhccCcccHHHhch
Confidence 455555555544433 1 123589999996
No 302
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=37.22 E-value=1.2e+02 Score=29.96 Aligned_cols=64 Identities=23% Similarity=0.265 Sum_probs=42.7
Q ss_pred hHHHHhc--ceEEEEeCCCchhHH--HHHHHHHHHhhhCCcceEEEEeCCc----ch---HHHHHHHHH-cCCcEEEEcC
Q 014872 230 GSELRRA--GVFVKTVRDKPQAAD--WALKRQMQHSMSSGVDWMFLVSDDN----DF---KEMLRKARD-ANLGTVVVGD 297 (417)
Q Consensus 230 A~ELkRA--GV~VrtV~dKPqAAD--~ALkrhm~~~m~rgv~cLvLVSDDs----dF---~~~Lr~AR~-~~v~TVVVGd 297 (417)
|--||.. |-.|..++..|..|+ .+|+. ++..|+|-.|||||+. |- +.+|..+-+ .+..=|+-|.
T Consensus 45 Alrlke~~~g~~Vtvvs~Gp~~a~~~~~lr~----aLAmGaD~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~ 120 (256)
T PRK03359 45 ACQLKQQAAEAQVTALSVGGKALTNAKGRKD----VLSRGPDELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGD 120 (256)
T ss_pred HHHHhhhcCCCEEEEEEECCcchhhHHHHHH----HHHcCCCEEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 4445554 368888888887655 56776 6788999999999882 21 334444433 3666788886
No 303
>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=36.95 E-value=27 Score=29.85 Aligned_cols=72 Identities=22% Similarity=0.272 Sum_probs=47.4
Q ss_pred CCCCchHHHHhcceEEEEeCCCchhHHH-----------HHHHHHHHhhhCCcceEEEEeC-----CcchHHHHHHHHHc
Q 014872 225 VGYGLGSELRRAGVFVKTVRDKPQAADW-----------ALKRQMQHSMSSGVDWMFLVSD-----DNDFKEMLRKARDA 288 (417)
Q Consensus 225 vGYGLA~ELkRAGV~VrtV~dKPqAAD~-----------ALkrhm~~~m~rgv~cLvLVSD-----DsdF~~~Lr~AR~~ 288 (417)
+|.-|+.+|.+.|..|+.+...|+.++. -=...+...+. |++.++.+-. ......+++.+++.
T Consensus 10 vG~~l~~~L~~~~~~V~~~~R~~~~~~~~~~~~~~~~d~~d~~~~~~al~-~~d~vi~~~~~~~~~~~~~~~~~~a~~~~ 88 (183)
T PF13460_consen 10 VGRALAKQLLRRGHEVTALVRSPSKAEDSPGVEIIQGDLFDPDSVKAALK-GADAVIHAAGPPPKDVDAAKNIIEAAKKA 88 (183)
T ss_dssp HHHHHHHHHHHTTSEEEEEESSGGGHHHCTTEEEEESCTTCHHHHHHHHT-TSSEEEECCHSTTTHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHCCCEEEEEecCchhcccccccccceeeehhhhhhhhhhh-hcchhhhhhhhhccccccccccccccccc
Confidence 4677899999999999977777775442 00122333344 7887765543 23356678888999
Q ss_pred CCcEEEEcC
Q 014872 289 NLGTVVVGD 297 (417)
Q Consensus 289 ~v~TVVVGd 297 (417)
|++.+|+-.
T Consensus 89 ~~~~~v~~s 97 (183)
T PF13460_consen 89 GVKRVVYLS 97 (183)
T ss_dssp TSSEEEEEE
T ss_pred ccccceeee
Confidence 998876633
No 304
>PLN02530 histidine-tRNA ligase
Probab=36.92 E-value=1.8e+02 Score=30.69 Aligned_cols=105 Identities=19% Similarity=0.308 Sum_probs=63.2
Q ss_pred ccchHHHHHHHhh---cCCCCCCCchHH-----HHhcceE--------EEEeCCCchhHHHHHHHHHHHhhhCCcceEEE
Q 014872 208 SGNDKYNEAARSL---LKPKVGYGLGSE-----LRRAGVF--------VKTVRDKPQAADWALKRQMQHSMSSGVDWMFL 271 (417)
Q Consensus 208 ~k~~KY~~AArev---L~PKvGYGLA~E-----LkRAGV~--------VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvL 271 (417)
.+-++|..-.... -+|.+|+++..+ |+..|.. |-.+.-....-+.|++ -...+-+.|+.+.+-
T Consensus 356 ~gGGRYD~Li~~fgg~~~pAvGFa~g~~~l~~~l~~~g~~p~~~~~~dVlVi~~~~~~~~~A~~-ia~~LR~~Gi~vevd 434 (487)
T PLN02530 356 CGGGRYDRLLSTFGGEDTPACGFGFGDAVIVELLKEKGLLPELPHQVDDVVFALDEDLQGAAAG-VASRLREKGRSVDLV 434 (487)
T ss_pred eecccHHHHHHHhCCCCCCeeEEEEhHHHHHHHHHhcCCCCCCCCCCcEEEEEcChHHHHHHHH-HHHHHHHCCCeEEEe
Confidence 3447788776543 469999877643 2444421 1112111122222332 333445688887665
Q ss_pred EeCCcchHHHHHHHHHcCCcE-EEEcCCCCccccccccccchhhhhcCcccccccccCC
Q 014872 272 VSDDNDFKEMLRKARDANLGT-VVVGDSNRGLGQHADLWVPWIEVENGELTERDLVPRT 329 (417)
Q Consensus 272 VSDDsdF~~~Lr~AR~~~v~T-VVVGd~~~~L~R~ADl~fSW~eV~~Gk~~~~~~~~~~ 329 (417)
..+ ..+...++.|.+.++.. |+||+ +|+++|.++-+++.++.
T Consensus 435 ~~~-~~l~k~ik~A~k~g~~~iviiG~---------------~E~~~~~V~vK~l~sge 477 (487)
T PLN02530 435 LEP-KKLKWVFKHAERIGAKRLVLVGA---------------SEWERGMVRVKDLSSGE 477 (487)
T ss_pred cCC-CCHHHHHHHHHHCCCCEEEEEch---------------hHHhCCeEEEEECCCCc
Confidence 544 45899999999999876 67776 47788888766665443
No 305
>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=36.40 E-value=1.3e+02 Score=26.75 Aligned_cols=22 Identities=32% Similarity=0.223 Sum_probs=12.7
Q ss_pred CCchHHHHhcceEEEEeCCCch
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQ 248 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPq 248 (417)
--+-..|++.|+.+-.++++++
T Consensus 81 ~~~L~~L~~~g~~~~i~Sn~~~ 102 (205)
T TIGR01454 81 PELLAELRADGVGTAIATGKSG 102 (205)
T ss_pred HHHHHHHHHCCCeEEEEeCCch
Confidence 3344456666666666666554
No 306
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain 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. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=36.35 E-value=72 Score=24.48 Aligned_cols=13 Identities=23% Similarity=0.087 Sum_probs=6.3
Q ss_pred hHHHHhcceEEEE
Q 014872 230 GSELRRAGVFVKT 242 (417)
Q Consensus 230 A~ELkRAGV~Vrt 242 (417)
+..||++|+.|..
T Consensus 24 ~~~Lr~~g~~v~~ 36 (94)
T cd00738 24 LNALLANGIRVLY 36 (94)
T ss_pred HHHHHHCCCEEEe
Confidence 4445555554443
No 307
>PRK07666 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=36.12 E-value=1.8e+02 Score=25.94 Aligned_cols=70 Identities=14% Similarity=0.266 Sum_probs=42.8
Q ss_pred CCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHH-----cCCcEEEEcCC
Q 014872 225 VGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARD-----ANLGTVVVGDS 298 (417)
Q Consensus 225 vGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~-----~~v~TVVVGd~ 298 (417)
+|..|+..|...|..|..+.-.+++.+.... .+ -..+....++..|-++...+....++ .++..||...+
T Consensus 19 iG~~l~~~L~~~G~~Vi~~~r~~~~~~~~~~-~~---~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~id~vi~~ag 93 (239)
T PRK07666 19 IGRAVAIALAKEGVNVGLLARTEENLKAVAE-EV---EAYGVKVVIATADVSDYEEVTAAIEQLKNELGSIDILINNAG 93 (239)
T ss_pred HHHHHHHHHHHCCCEEEEEeCCHHHHHHHHH-HH---HHhCCeEEEEECCCCCHHHHHHHHHHHHHHcCCccEEEEcCc
Confidence 4566788899999999988666655443322 22 23455555666776666555444443 26777776654
No 308
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=36.09 E-value=17 Score=42.53 Aligned_cols=29 Identities=21% Similarity=0.446 Sum_probs=15.4
Q ss_pred ccCccccchhhhhccccccccccccccCCcccccc
Q 014872 20 NKSDFHFSQSLVLEKLPTHFNTKLALKPSKCCIKT 54 (417)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 54 (417)
|+-.|.=-+|.++..+|..||. -.||.|.
T Consensus 895 fTP~~~~~~p~S~~~~p~~~~~------In~~~~s 923 (1516)
T KOG1832|consen 895 FTPSFSSKQPFSHDALPQSTQR------INCCSNS 923 (1516)
T ss_pred cCccccCCCCCCCCccchhhhh------hhccCCC
Confidence 3334444556666666666552 2466554
No 309
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=36.08 E-value=32 Score=37.35 Aligned_cols=33 Identities=21% Similarity=0.507 Sum_probs=26.0
Q ss_pred eecccCCCCCCChHHHHHHHHHhhhhhHHHHHhhhh
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQLHERERQKKLNRMK 192 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnrL~ 192 (417)
+-|.||.+.|+|.--|++|-..--. .+.|+.|+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKH---kenv~eLr 325 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKH---KENVAELR 325 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHH---HHHHHHHH
Confidence 8999999999999999999876544 44444443
No 310
>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=35.89 E-value=69 Score=28.51 Aligned_cols=48 Identities=21% Similarity=0.276 Sum_probs=28.8
Q ss_pred CCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 245 DKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 245 dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.||++. .-.++.+.++...+..+.| ||+.. =+..|++.|++||.|.+.
T Consensus 151 ~KP~p~---~~~~~~~~~g~~~~~~l~i-~D~~~--di~aA~~aG~~~i~v~~~ 198 (211)
T TIGR02247 151 RKPDPR---IYQLMLERLGVAPEECVFL-DDLGS--NLKPAAALGITTIKVSDE 198 (211)
T ss_pred CCCCHH---HHHHHHHHcCCCHHHeEEE-cCCHH--HHHHHHHcCCEEEEECCH
Confidence 477654 3333333344444445556 66532 377899999999988763
No 311
>PTZ00175 diphthine synthase; Provisional
Probab=35.72 E-value=84 Score=31.06 Aligned_cols=67 Identities=16% Similarity=0.254 Sum_probs=47.2
Q ss_pred CCchHHHHhcceEEEEeCCCch--hHHHHHHHHHHHhhhCC-cceEEEEeCC---cchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQ--AADWALKRQMQHSMSSG-VDWMFLVSDD---NDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPq--AAD~ALkrhm~~~m~rg-v~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.-|..+|+++|+.|+.+++..- |+ |.- .+ +.-.+| +.++..++++ .-|-+.++..+++|++|.|.=|
T Consensus 94 ~~l~~~~~~~gi~vevIPGvSi~sA~--~~~-Gl-~~~~fg~~~sv~~~t~~~~~~s~~~~i~~n~~~glhTl~lld 166 (270)
T PTZ00175 94 TDLYLRAKKKGIEVEVIHNASIMNAI--GCT-GL-QLYRFGETVSIPFFTETWKPDSFYDKIKANRDNGLHTLCLLD 166 (270)
T ss_pred HHHHHHHHHCCCcEEEECCcCHHHHH--hhc-CC-CcCCCCceEEEEEEeCCCCCCChhHHHHHHHHcCCceEEEEe
Confidence 4566788899999999985543 33 221 11 111333 6778888875 4577889999999999999966
No 312
>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=35.67 E-value=58 Score=31.77 Aligned_cols=22 Identities=23% Similarity=0.285 Sum_probs=18.4
Q ss_pred CCchHHHHhcceEEEEeCCCch
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQ 248 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPq 248 (417)
||||....|.|+.|+...+.+.
T Consensus 57 ~GLAlAA~rrG~~vev~~~~~~ 78 (207)
T PF11814_consen 57 FGLALAAARRGFKVEVWVSTDG 78 (207)
T ss_pred HHHHHHHHHcCCceEEEECCCC
Confidence 9999999999999996655444
No 313
>cd02770 MopB_DmsA-EC This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=35.39 E-value=60 Score=34.70 Aligned_cols=50 Identities=16% Similarity=0.217 Sum_probs=38.6
Q ss_pred CCcceEEEEeCCcc--------hHHHHHHHHHcCCcEEEEcCCCCcccc-ccccccchh
Q 014872 264 SGVDWMFLVSDDND--------FKEMLRKARDANLGTVVVGDSNRGLGQ-HADLWVPWI 313 (417)
Q Consensus 264 rgv~cLvLVSDDsd--------F~~~Lr~AR~~~v~TVVVGd~~~~L~R-~ADl~fSW~ 313 (417)
...+|||++.-+.- ....++.||++|.+-|||.-......+ .||+|++=.
T Consensus 165 ~~a~~ii~wG~N~~~~~~~~~~~~~~~~~a~~~G~klivIDPr~t~tA~~~AD~~i~ir 223 (617)
T cd02770 165 KDSKLVVLFGHNPAETRMGGGGSTYYYLQAKKAGAKFIVIDPRYTDTAVTLADEWIPIR 223 (617)
T ss_pred hcCCEEEEECCCHHHhcCCCCchHHHHHHHHHcCCeEEEECCCCCccccccCCEEECCC
Confidence 45899999987743 335678899999999999776666775 899998744
No 314
>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=35.25 E-value=78 Score=26.46 Aligned_cols=42 Identities=12% Similarity=0.336 Sum_probs=29.0
Q ss_pred ceEEEEe-CCc---chHHHHHHHHHcCCcEEEEcCCCCccccccccc
Q 014872 267 DWMFLVS-DDN---DFKEMLRKARDANLGTVVVGDSNRGLGQHADLW 309 (417)
Q Consensus 267 ~cLvLVS-DDs---dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~ 309 (417)
++++++| .+. .-..+++.+++.|.++|+|++.... .+.+|.-
T Consensus 63 ~~vi~is~~g~t~~~~~~~~~~~~~~~~~vi~it~~~~s-~~~~d~~ 108 (153)
T cd05009 63 TPVIFLAPEDRLEEKLESLIKEVKARGAKVIVITDDGDA-KDLADVV 108 (153)
T ss_pred CcEEEEecCChhHHHHHHHHHHHHHcCCEEEEEecCCcc-cccCCeE
Confidence 4566666 333 2557899999999999999886533 4555543
No 315
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.23 E-value=18 Score=29.48 Aligned_cols=17 Identities=18% Similarity=0.583 Sum_probs=13.1
Q ss_pred CCCCeecccCCCCCCCh
Q 014872 153 PNDPYICGVCGRKCKTN 169 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T~ 169 (417)
++....|++||++|+-+
T Consensus 45 ~~gev~CPYC~t~y~l~ 61 (62)
T COG4391 45 DEGEVVCPYCSTRYRLN 61 (62)
T ss_pred CCCcEecCccccEEEec
Confidence 44567899999998743
No 316
>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=35.02 E-value=1.8e+02 Score=25.48 Aligned_cols=30 Identities=13% Similarity=0.082 Sum_probs=23.3
Q ss_pred eEEEEeCCcchHHHHHHHHHcCCc--EEEEcC
Q 014872 268 WMFLVSDDNDFKEMLRKARDANLG--TVVVGD 297 (417)
Q Consensus 268 cLvLVSDDsdF~~~Lr~AR~~~v~--TVVVGd 297 (417)
..|++++|.....+++.++++|++ --+||-
T Consensus 183 ~~i~~~~d~~a~~~~~~l~~~g~~~~i~ivg~ 214 (267)
T cd01536 183 DAIFAANDSMALGAVAALKAAGRKGDVKIVGV 214 (267)
T ss_pred cEEEEecCCchHHHHHHHHhcCCCCCceEEec
Confidence 467888888889999999999983 344544
No 317
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=34.93 E-value=83 Score=31.41 Aligned_cols=64 Identities=14% Similarity=0.139 Sum_probs=46.3
Q ss_pred HHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEc
Q 014872 231 SELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVG 296 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVG 296 (417)
..|++.|+.|-...-.| -+.| ...++..+...+++.|++...-.+...++|.++++|++.-+++
T Consensus 155 ~~~~~~G~~vv~~~~~~~g~~D--f~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~~~~ 219 (374)
T TIGR03669 155 VIAKENGAEVVGEEFIPLSVSQ--FSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLPMGT 219 (374)
T ss_pred HHHHHcCCeEEeEEecCCCcch--HHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCcccc
Confidence 45678887764322222 3443 4566677788999999999888899999999999999753433
No 318
>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=34.93 E-value=1.9e+02 Score=26.49 Aligned_cols=68 Identities=18% Similarity=0.207 Sum_probs=43.7
Q ss_pred CCCchHHHHhcceEEEEeCCCchhH-HHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC---cEEEEcCCCCc
Q 014872 226 GYGLGSELRRAGVFVKTVRDKPQAA-DWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL---GTVVVGDSNRG 301 (417)
Q Consensus 226 GYGLA~ELkRAGV~VrtV~dKPqAA-D~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v---~TVVVGd~~~~ 301 (417)
|+|+ ..|++.|+.+-.++.+++.. ...|+. .|+..++-..- +.-..+...+...++ .+++|||+..+
T Consensus 40 ~~~~-~~L~~~Gi~laIiT~k~~~~~~~~l~~-------lgi~~~f~~~k-pkp~~~~~~~~~l~~~~~ev~~iGD~~nD 110 (169)
T TIGR02726 40 GMGV-IVLQLCGIDVAIITSKKSGAVRHRAEE-------LKIKRFHEGIK-KKTEPYAQMLEEMNISDAEVCYVGDDLVD 110 (169)
T ss_pred HHHH-HHHHHCCCEEEEEECCCcHHHHHHHHH-------CCCcEEEecCC-CCHHHHHHHHHHcCcCHHHEEEECCCHHH
Confidence 4444 47899999999999999854 333332 45554443332 233456666666776 48999998654
Q ss_pred c
Q 014872 302 L 302 (417)
Q Consensus 302 L 302 (417)
+
T Consensus 111 i 111 (169)
T TIGR02726 111 L 111 (169)
T ss_pred H
Confidence 4
No 319
>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=34.78 E-value=1.2e+02 Score=27.75 Aligned_cols=50 Identities=22% Similarity=0.267 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhhh-CC-----cceEEEEeCCcc-------hHHHHHHHHHcCCcEEEEcCCC
Q 014872 250 ADWALKRQMQHSMS-SG-----VDWMFLVSDDND-------FKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 250 AD~ALkrhm~~~m~-rg-----v~cLvLVSDDsd-------F~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
-..||+..+++... .| ..-+||++|-.. ...+.+.+|+.||+..+||.+.
T Consensus 87 ~~~AL~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~ 149 (192)
T cd01473 87 IVEALKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGA 149 (192)
T ss_pred HHHHHHHHHHHhccCCCCcccCCeEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEecc
Confidence 34456554444332 11 456799998654 4566788899999999999963
No 320
>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=34.68 E-value=99 Score=27.38 Aligned_cols=70 Identities=29% Similarity=0.395 Sum_probs=41.4
Q ss_pred CCCCCchHHHHhcceEEEEeCCCch-hHHHHHHH-------HHHHhhhCCcceEEE-EeCCcchHHHHHHHHHc---CCc
Q 014872 224 KVGYGLGSELRRAGVFVKTVRDKPQ-AADWALKR-------QMQHSMSSGVDWMFL-VSDDNDFKEMLRKARDA---NLG 291 (417)
Q Consensus 224 KvGYGLA~ELkRAGV~VrtV~dKPq-AAD~ALkr-------hm~~~m~rgv~cLvL-VSDDsdF~~~Lr~AR~~---~v~ 291 (417)
|||.-|+..|+++|+.|..|...-+ .++.|-.. .+.+. ...+|.++| |+|| ....+...-... .=+
T Consensus 20 rVG~~La~aL~~ag~~v~~v~srs~~sa~~a~~~~~~~~~~~~~~~-~~~aDlv~iavpDd-aI~~va~~La~~~~~~~g 97 (127)
T PF10727_consen 20 RVGTALARALARAGHEVVGVYSRSPASAERAAAFIGAGAILDLEEI-LRDADLVFIAVPDD-AIAEVAEQLAQYGAWRPG 97 (127)
T ss_dssp CCCCHHHHHHHHTTSEEEEESSCHH-HHHHHHC--TT-----TTGG-GCC-SEEEE-S-CC-HHHHHHHHHHCC--S-TT
T ss_pred HHHHHHHHHHHHCCCeEEEEEeCCcccccccccccccccccccccc-cccCCEEEEEechH-HHHHHHHHHHHhccCCCC
Confidence 8899999999999999999876554 44444321 11111 255777766 4555 666666555544 224
Q ss_pred EEEE
Q 014872 292 TVVV 295 (417)
Q Consensus 292 TVVV 295 (417)
++||
T Consensus 98 ~iVv 101 (127)
T PF10727_consen 98 QIVV 101 (127)
T ss_dssp -EEE
T ss_pred cEEE
Confidence 5555
No 321
>cd02762 MopB_1 The MopB_1 CD includes a group of related uncharacterized bacterial 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=34.61 E-value=46 Score=34.80 Aligned_cols=102 Identities=16% Similarity=0.137 Sum_probs=60.6
Q ss_pred CCcceEEEEeCCcc-----------hHHHHHHHHHcCCcEEEEcCCCCccccccccccchh--------------hhhcC
Q 014872 264 SGVDWMFLVSDDND-----------FKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWI--------------EVENG 318 (417)
Q Consensus 264 rgv~cLvLVSDDsd-----------F~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~--------------eV~~G 318 (417)
...++||++--|.- +...++.|+++|.+-|||.-........||.|++=. -+++|
T Consensus 155 ~~ad~il~~G~N~~~s~~~~~~~~~~~~~~~~a~~~G~kliviDPr~t~ta~~AD~~l~irPGtD~aL~~a~~~~ii~~~ 234 (539)
T cd02762 155 DRTDYLLILGANPLQSNGSLRTAPDRVLRLKAAKDRGGSLVVIDPRRTETAKLADEHLFVRPGTDAWLLAAMLAVLLAEG 234 (539)
T ss_pred hhCCEEEEEecChHhhCCccccccCHHHHHHHHHhCCCEEEEECCCCchhhHhcCEeeCcCCCcHHHHHHHHHHHHHHCC
Confidence 44788888865543 334678899999999999877667788999999743 34455
Q ss_pred cccccccccCCCcccccccccCCCCceeeeecC----cccccccCCchhhhhhhhhhhc
Q 014872 319 ELTERDLVPRTRRTTTEDFERDGLGLFSLTEFD----GVVGFEDETDLDSVVNELVAER 373 (417)
Q Consensus 319 k~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~----~~~~~~~~~~~~~~~~~~~~~~ 373 (417)
..+++-+...+. ++. ++-+ .+.+|+ ..|-|.++.++..+.+++...+
T Consensus 235 ~~D~~fi~~~t~-Gf~-~~~~------~~~~~t~e~~~~~tGv~~~~I~~lA~~~a~~~ 285 (539)
T cd02762 235 LTDRRFLAEHCD-GLD-EVRA------ALAEFTPEAYAPRCGVPAETIRRLAREFAAAP 285 (539)
T ss_pred CCChHHHHHHcC-cHH-HHHH------HHhcCCHHHHHHHHCcCHHHHHHHHHHHhcCC
Confidence 555333322211 111 0000 122333 2355667777777777766543
No 322
>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=34.23 E-value=23 Score=27.02 Aligned_cols=19 Identities=32% Similarity=0.566 Sum_probs=14.9
Q ss_pred eecccCCCCCCChHHHHHH
Q 014872 157 YICGVCGRKCKTNLDLKKH 175 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kH 175 (417)
=+|++|||-|.-+.+..+-
T Consensus 9 K~C~~C~rpf~WRKKW~~~ 27 (42)
T PF10013_consen 9 KICPVCGRPFTWRKKWARC 27 (42)
T ss_pred CcCcccCCcchHHHHHHHh
Confidence 3899999999877666543
No 323
>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=34.16 E-value=77 Score=30.50 Aligned_cols=37 Identities=14% Similarity=0.212 Sum_probs=30.1
Q ss_pred hhCCcceEEEEeCCcchHHHHHHHHHcCCc----EEEEcCC
Q 014872 262 MSSGVDWMFLVSDDNDFKEMLRKARDANLG----TVVVGDS 298 (417)
Q Consensus 262 m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~----TVVVGd~ 298 (417)
-..+++.+||.+...+-..+|+.|++.|+. +.+++++
T Consensus 191 ~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~ 231 (362)
T cd06367 191 KKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGEL 231 (362)
T ss_pred HhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcc
Confidence 446788999999999999999999999995 4555554
No 324
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=34.02 E-value=78 Score=31.59 Aligned_cols=77 Identities=18% Similarity=0.205 Sum_probs=0.0
Q ss_pred hcCCCCCCCchHHHHhcceEEE---EeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHH---------
Q 014872 220 LLKPKVGYGLGSELRRAGVFVK---TVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARD--------- 287 (417)
Q Consensus 220 vL~PKvGYGLA~ELkRAGV~Vr---tV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~--------- 287 (417)
+..|+-+..|+..|+..|..|- ++.=.|-..+.++...+.++.....+|||+.|-.. ...++...++
T Consensus 16 vtr~~~a~~la~~L~~~G~~~~~~P~i~i~~~~~~~~~~~~~~~l~~~~~d~vvfTS~ng-v~~~~~~l~~~~~~~~~~~ 94 (381)
T PRK07239 16 VTAARRAEELAALLERRGARVVHAPALRIVPLADDDELRAATRALIAAPPDIVVATTGIG-FRGWVEAADGWGLADELLE 94 (381)
T ss_pred EeccCCHHHHHHHHHHcCCeEEEecCEEEecCCCcHHHHHHHHHHHcCCCCEEEEeChHH-HHHHHHHHHHcCChHHHHH
Q ss_pred --cCCcEEEEcC
Q 014872 288 --ANLGTVVVGD 297 (417)
Q Consensus 288 --~~v~TVVVGd 297 (417)
.+++.++||.
T Consensus 95 ~l~~~~i~aVG~ 106 (381)
T PRK07239 95 ALSSARLLARGP 106 (381)
T ss_pred HHcCCeEEEECc
No 325
>TIGR02252 DREG-2 REG-2-like, HAD superfamily (subfamily IA) hydrolase. Most likely, these sequences, like the vast majority of HAD sequences, represent phosphatase enzymes.
Probab=33.80 E-value=2.2e+02 Score=25.10 Aligned_cols=64 Identities=19% Similarity=0.182 Sum_probs=37.1
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcc---eEEEEeCCcc-----hHHHHHHHHHcCC---cEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVD---WMFLVSDDND-----FKEMLRKARDANL---GTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~---cLvLVSDDsd-----F~~~Lr~AR~~~v---~TVVVGd 297 (417)
+-..|++.|+.+-.+++.+......|++ .|+. ..|+.|++.. =.-+.+.+++.|+ ++|+|||
T Consensus 113 ~l~~L~~~g~~~~i~Sn~~~~~~~~l~~-------~~l~~~fd~i~~s~~~~~~KP~~~~~~~~~~~~~~~~~~~~~IgD 185 (203)
T TIGR02252 113 LLKDLRERGLILGVISNFDSRLRGLLEA-------LGLLEYFDFVVTSYEVGAEKPDPKIFQEALERAGISPEEALHIGD 185 (203)
T ss_pred HHHHHHHCCCEEEEEeCCchhHHHHHHH-------CCcHHhcceEEeecccCCCCCCHHHHHHHHHHcCCChhHEEEECC
Confidence 4457788899888888887643222211 2321 2345555532 2234556666665 4789999
Q ss_pred CC
Q 014872 298 SN 299 (417)
Q Consensus 298 ~~ 299 (417)
+.
T Consensus 186 ~~ 187 (203)
T TIGR02252 186 SL 187 (203)
T ss_pred Cc
Confidence 74
No 326
>TIGR03479 DMSO_red_II_alp DMSO reductase family type II enzyme, molybdopterin subunit. This model represents the molybdopterin subunit, typically called the alpha subunit, of various proteins that also contain an iron-sulfur subunit and a heme b subunit. The group includes two distinct but very closely related periplasmic proteins of anaerobic respiration, selenate reductase and chlorate reductase. Other members of this family include dimethyl sulphide dehydrogenase, ethylbenzene dehydrogenase, and an archaeal respiratory nitrate reductase. This alpha subunit has a twin-arginine translocation (TAT) signal for Sec-independent translocation across the plasma membrane.
Probab=33.67 E-value=53 Score=37.14 Aligned_cols=50 Identities=22% Similarity=0.333 Sum_probs=38.8
Q ss_pred CCcceEEEEeCCc-----chHHHHHHHHHcCCcEEEEcCCCCccccccccccchh
Q 014872 264 SGVDWMFLVSDDN-----DFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWI 313 (417)
Q Consensus 264 rgv~cLvLVSDDs-----dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~ 313 (417)
...+|||++--+. -....|+.||++|.+-|||.-........||.|++=.
T Consensus 223 ~na~~Il~~G~Np~~t~~~~~~~l~~a~~~GaklVvIdPr~t~tA~~AD~wlpir 277 (912)
T TIGR03479 223 FNADYIIMWGSNPSVTRIPDAHFLSEARYNGARVVSIAPDYNPSTIHADLWLPVR 277 (912)
T ss_pred hcCcEEEEecCChHHcCCchHHHHHHHHhcCCeEEEECCCCChhhhhCCeecCCC
Confidence 4688998886553 2345677899999999999776667888999999854
No 327
>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=33.61 E-value=3e+02 Score=23.44 Aligned_cols=89 Identities=12% Similarity=0.086 Sum_probs=48.0
Q ss_pred CCCCC-CCchHHHHhcceEEEEeCCCchh-HHHHHHHH-HHHhhhC-----------Cc------ceEEEEeCCcc--hH
Q 014872 222 KPKVG-YGLGSELRRAGVFVKTVRDKPQA-ADWALKRQ-MQHSMSS-----------GV------DWMFLVSDDND--FK 279 (417)
Q Consensus 222 ~PKvG-YGLA~ELkRAGV~VrtV~dKPqA-AD~ALkrh-m~~~m~r-----------gv------~cLvLVSDDsd--F~ 279 (417)
.+.-| ..+-..|+..|+.+-.+++.+.. ....++.+ +.+.... |. .|.+..+.... =.
T Consensus 72 ~l~~g~~~ll~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~~f~~i~~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~K~ 151 (188)
T TIGR01489 72 PIDPGFKEFIAFIKEHGIDFIVISDGNDFFIDPVLEGIGEKDVFIEIYSNPASFDNDGRHIVWPHHCHGCCSCPCGCCKG 151 (188)
T ss_pred CCCccHHHHHHHHHHcCCcEEEEeCCcHHHHHHHHHHcCChhheeEEeccCceECCCCcEEEecCCCCccCcCCCCCCHH
Confidence 34334 44557888899999999888763 33333321 1111100 00 01111111111 13
Q ss_pred HHHHHHHHc-CCcEEEEcCCCCcc--cccccccc
Q 014872 280 EMLRKARDA-NLGTVVVGDSNRGL--GQHADLWV 310 (417)
Q Consensus 280 ~~Lr~AR~~-~v~TVVVGd~~~~L--~R~ADl~f 310 (417)
.+++..++. .-++|.|||+...+ .+.||+-|
T Consensus 152 ~~~~~~~~~~~~~~i~iGD~~~D~~aa~~~d~~~ 185 (188)
T TIGR01489 152 KVIHKLSEPKYQHIIYIGDGVTDVCPAKLSDVVF 185 (188)
T ss_pred HHHHHHHhhcCceEEEECCCcchhchHhcCCccc
Confidence 477777676 66899999987644 66677765
No 328
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=33.19 E-value=83 Score=29.78 Aligned_cols=60 Identities=20% Similarity=0.241 Sum_probs=39.4
Q ss_pred hhccchHHHHHHHhhcCCCCC-----CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhh---CCcceEEEE
Q 014872 206 YISGNDKYNEAARSLLKPKVG-----YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMS---SGVDWMFLV 272 (417)
Q Consensus 206 ~a~k~~KY~~AArevL~PKvG-----YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~---rgv~cLvLV 272 (417)
++-.+.+|.. -+.|..| -.|+..|++.||.|.+..|.-... +++.+.+... .+.+|+|+|
T Consensus 13 LII~n~~f~~----~~~~r~g~~~D~~~l~~~f~~lgF~V~~~~nlt~~~---~~~~l~~f~~~~~~~~d~~v~~ 80 (243)
T cd00032 13 LIINNENFDK----GLKDRDGTDVDAENLTKLFESLGYEVEVKNNLTAEE---ILEELKEFASPDHSDSDSFVCV 80 (243)
T ss_pred EEEechhcCC----CCCCCCChHHHHHHHHHHHHHCCCEEEEeCCCCHHH---HHHHHHHHHhccCCCCCeeEEE
Confidence 5556677754 1333333 779999999999999998887655 5555544442 566776544
No 329
>PF02590 SPOUT_MTase: Predicted SPOUT methyltransferase; InterPro: IPR003742 This family of proteins are predicted to be SPOUT methyltransferases []. ; GO: 0008168 methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1VH0_E 4FAK_A 1TO0_G 1O6D_A 1NS5_B.
Probab=33.07 E-value=1.6e+02 Score=27.05 Aligned_cols=74 Identities=11% Similarity=0.286 Sum_probs=40.5
Q ss_pred eEEEEeCCCc----hhHHHHHHHHHHHhhh---CCcceEEEEe------CCcchHHHHHHHHHcCCcE--EEEcCCCC--
Q 014872 238 VFVKTVRDKP----QAADWALKRQMQHSMS---SGVDWMFLVS------DDNDFKEMLRKARDANLGT--VVVGDSNR-- 300 (417)
Q Consensus 238 V~VrtV~dKP----qAAD~ALkrhm~~~m~---rgv~cLvLVS------DDsdF~~~Lr~AR~~~v~T--VVVGd~~~-- 300 (417)
+.+..+++.+ +..+.++...-..++. .+ +++|+.. ++.+|++.|...+..|... -+||..+|
T Consensus 33 ~e~~e~~~~~~~~~~~~~~~~~~E~~~il~~i~~~-~~~i~Ld~~Gk~~sS~~fA~~l~~~~~~g~~~i~F~IGG~~G~~ 111 (155)
T PF02590_consen 33 LEIIELKEEKIAKAQSIEKIKEKEGERILKKIPPN-DYVILLDERGKQLSSEEFAKKLERWMNQGKSDIVFIIGGADGLS 111 (155)
T ss_dssp EEEEEE------TCHHHHHHHHHHHHHHHCTSHTT-SEEEEE-TTSEE--HHHHHHHHHHHHHTTS-EEEEEE-BTTB--
T ss_pred eeEEEeccccccccccHHHHHHHHHHHHHhhccCC-CEEEEEcCCCccCChHHHHHHHHHHHhcCCceEEEEEecCCCCC
Confidence 5556666665 3344444444344443 34 3344443 5779999999999999755 57888775
Q ss_pred -ccccccccccch
Q 014872 301 -GLGQHADLWVPW 312 (417)
Q Consensus 301 -~L~R~ADl~fSW 312 (417)
.+...||..+|-
T Consensus 112 ~~~~~~a~~~lSL 124 (155)
T PF02590_consen 112 EEVRKRADEKLSL 124 (155)
T ss_dssp HHHHHH-SEEEES
T ss_pred HHHHhhcCceEEE
Confidence 556667766553
No 330
>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=33.04 E-value=98 Score=30.43 Aligned_cols=63 Identities=14% Similarity=0.212 Sum_probs=43.8
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
+|...|+..|+.|.... .+...+.-+...+..+.+.+ +.+|+.....+...+++.|++.|+..
T Consensus 167 ~l~~~~~~~gi~v~~~~-~~~~~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~ 229 (405)
T cd06385 167 GLYMELKKNNITVVDLV-FEEDDLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPS 229 (405)
T ss_pred HHHHHHHhCCeEEEEee-ccCCchhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCC
Confidence 34557788888886543 33211334556666555554 88888888999999999999999865
No 331
>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=33.01 E-value=1.3e+02 Score=30.48 Aligned_cols=65 Identities=18% Similarity=0.407 Sum_probs=44.4
Q ss_pred HHHHhc-ceEEEE---eCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCCcchHHHHHHHHHcCCcE--EEEcC
Q 014872 231 SELRRA-GVFVKT---VRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDDNDFKEMLRKARDANLGT--VVVGD 297 (417)
Q Consensus 231 ~ELkRA-GV~Vrt---V~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T--VVVGd 297 (417)
.++++. |+-|-+ ++..+.+.| +..++..+.. .+++.|||.+...+-..+++.|+++|+-- +.||.
T Consensus 194 ~~~~~~g~~~v~~~~~i~~~~~~~d--~~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a~~~~~~g~~~wig~ 265 (463)
T cd06376 194 QISREAGGVCIAQSIKIPREPRPGE--FDKIIKRLLETPNARAVIIFANEDDIRRVLEAAKRANQVGHFLWVGS 265 (463)
T ss_pred HHHHHcCCceEEEEEecCCCCCHHH--HHHHHHHHhccCCCeEEEEecChHHHHHHHHHHHhcCCcCceEEEEe
Confidence 344554 444433 334555544 5566666654 69999999999999999999999999753 54553
No 332
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=32.89 E-value=2.3e+02 Score=21.74 Aligned_cols=37 Identities=19% Similarity=0.321 Sum_probs=28.7
Q ss_pred hCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 263 SSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 263 ~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
..|+..-..+...+....+.+.+++.+...||+|-..
T Consensus 67 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~ 103 (130)
T cd00293 67 EAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRG 103 (130)
T ss_pred cCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCC
Confidence 3577765555455558899999999999999999854
No 333
>PRK09449 dUMP phosphatase; Provisional
Probab=32.53 E-value=2.2e+02 Score=25.48 Aligned_cols=28 Identities=32% Similarity=0.544 Sum_probs=16.4
Q ss_pred EEEeeCCCCCCCCCchHHHHHHHHHHHHcCc
Q 014872 82 VVLWDLDNKPPRGPPYDAAMSLRRVAERFGE 112 (417)
Q Consensus 82 ~VlWDLDNKPP~~pPY~AA~rLr~~As~FG~ 112 (417)
.|+||||+-==. ++....+..++..+|.
T Consensus 5 ~iiFDlDGTLid---~~~~~~~~~~~~~~g~ 32 (224)
T PRK09449 5 WILFDADETLFH---FDAFAGLQRMFSRYGV 32 (224)
T ss_pred EEEEcCCCchhc---chhhHHHHHHHHHhCC
Confidence 589999965111 1222345677777873
No 334
>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=32.49 E-value=1.2e+02 Score=29.57 Aligned_cols=60 Identities=13% Similarity=0.167 Sum_probs=42.6
Q ss_pred hHHHHhcceEEEEeCCCc-hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCc
Q 014872 230 GSELRRAGVFVKTVRDKP-QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLG 291 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKP-qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~ 291 (417)
...|+++|+.|-...-.| .+.| ...++.+++..++|-|++.....+-+.+++.+++.|+.
T Consensus 155 ~~~~~~~G~~vv~~~~~~~~~~D--~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~ 215 (359)
T TIGR03407 155 KAYLKSLGGTVVGEDYTPLGHTD--FQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGIT 215 (359)
T ss_pred HHHHHHcCCEEEeeEEecCChHh--HHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCC
Confidence 456788898875443333 3444 44777788899999776554555567899999999996
No 335
>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=32.47 E-value=3.1e+02 Score=23.20 Aligned_cols=67 Identities=22% Similarity=0.244 Sum_probs=39.6
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcc---eEEEEeCCcch-----HHHHHHHHHcCC---cEEEEc
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVD---WMFLVSDDNDF-----KEMLRKARDANL---GTVVVG 296 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~---cLvLVSDDsdF-----~~~Lr~AR~~~v---~TVVVG 296 (417)
.+-..|++.|+.+-.+++.+... ..+..+ .|+. -.++.|++... .-..+.+++.|+ .+|+||
T Consensus 92 ~~l~~l~~~g~~~~i~Tn~~~~~-~~~~~~------~~l~~~f~~i~~~~~~~~~KP~~~~~~~~~~~~~~~~~~~~~vg 164 (183)
T TIGR01509 92 PLLEALRARGKKLALLTNSPRDH-AVLVQE------LGLRDLFDVVIFSGDVGRGKPDPDIYLLALKKLGLKPEECLFVD 164 (183)
T ss_pred HHHHHHHHCCCeEEEEeCCchHH-HHHHHh------cCCHHHCCEEEEcCCCCCCCCCHHHHHHHHHHcCCCcceEEEEc
Confidence 34467888999999999988766 333322 3322 12444554322 234445555565 479999
Q ss_pred CCCCc
Q 014872 297 DSNRG 301 (417)
Q Consensus 297 d~~~~ 301 (417)
|+...
T Consensus 165 D~~~d 169 (183)
T TIGR01509 165 DSPAG 169 (183)
T ss_pred CCHHH
Confidence 97643
No 336
>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=32.40 E-value=99 Score=27.75 Aligned_cols=64 Identities=13% Similarity=0.121 Sum_probs=38.0
Q ss_pred CCchHHHHhcceE----EE--Ee--CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVF----VK--TV--RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~----Vr--tV--~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..+++++|+. |. .. ...++.+ ...++.+.+.+++-+|+++.+... .+ .++..++..|++|.
T Consensus 18 ~gi~~~~~~~g~~~g~~v~l~~~~~~~~~~~~----~~~~~~l~~~~vd~iI~~~~~~~~--~~-~~~~~~iPvV~~~~ 89 (281)
T cd06325 18 KGFKDGLKEAGYKEGKNVKIDYQNAQGDQSNL----PTIARKFVADKPDLIVAIATPAAQ--AA-ANATKDIPIVFTAV 89 (281)
T ss_pred HHHHHHHHHhCccCCceEEEEEecCCCCHHHH----HHHHHHHHhcCCCEEEEcCcHHHH--HH-HHcCCCCCEEEEec
Confidence 4788899999862 22 22 2223222 233444567899999998765332 22 25567777787774
No 337
>TIGR01591 Fdh-alpha formate dehydrogenase, alpha subunit, archaeal-type. This model is well-defined, with only a single fragmentary sequence falling between trusted and noise. The alpha subunit of a version of nitrate reductase is closely related.
Probab=32.32 E-value=62 Score=34.45 Aligned_cols=48 Identities=17% Similarity=0.335 Sum_probs=37.6
Q ss_pred CCcceEEEEeCCc-----chHHHHHHHHHcCCcEEEEcCCCCccccccccccc
Q 014872 264 SGVDWMFLVSDDN-----DFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVP 311 (417)
Q Consensus 264 rgv~cLvLVSDDs-----dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fS 311 (417)
...++|+++-.|. .....|+.|+++|.+.|||.-....+...||.|++
T Consensus 154 ~~ad~il~~G~n~~~~~~~~~~~i~~a~~~G~klvvidp~~s~ta~~ad~~i~ 206 (671)
T TIGR01591 154 ENADLIVIIGYNPAESHPVVAQYLKNAKRNGAKIIVIDPRKTETAKIADLHIP 206 (671)
T ss_pred HhCCEEEEECCChhhccCHHHHHHHHHHHCCCeEEEECCCCChhhHhhCcccC
Confidence 3478888886553 35667888999999999998766677888999986
No 338
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=32.32 E-value=63 Score=32.14 Aligned_cols=46 Identities=13% Similarity=0.130 Sum_probs=37.4
Q ss_pred cceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCC-CCccccccccccc
Q 014872 266 VDWMFLVSDD---NDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVP 311 (417)
Q Consensus 266 v~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fS 311 (417)
=|++|.+|-+ .+-.++++.|+++|..||.+... .+.|.+.||.-+.
T Consensus 128 ~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~IaIT~~~~s~La~~aD~~I~ 177 (296)
T PRK12570 128 DDVVVGIAASGRTPYVIGALEYAKQIGATTIALSCNPDSPIAKIADIAIS 177 (296)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEe
Confidence 3888888864 55678899999999999999875 4688999997753
No 339
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=32.26 E-value=26 Score=25.20 Aligned_cols=14 Identities=43% Similarity=1.058 Sum_probs=12.0
Q ss_pred CCCCCeecccCCCC
Q 014872 152 VPNDPYICGVCGRK 165 (417)
Q Consensus 152 ~p~~PY~C~VCGRk 165 (417)
.|+..|+|..|+.+
T Consensus 4 ~pP~~Y~C~~C~~~ 17 (32)
T PF13696_consen 4 KPPPGYVCHRCGQK 17 (32)
T ss_pred CCCCCCEeecCCCC
Confidence 47789999999985
No 340
>PRK11009 aphA acid phosphatase/phosphotransferase; Provisional
Probab=32.23 E-value=62 Score=31.36 Aligned_cols=22 Identities=9% Similarity=-0.017 Sum_probs=14.4
Q ss_pred CCchHHHHhcceEEEEeCCCch
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQ 248 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPq 248 (417)
-.+-..|+..|+.+=.|+++++
T Consensus 120 ~elL~~L~~~G~~I~iVTnR~~ 141 (237)
T PRK11009 120 RQLIDMHVKRGDSIYFITGRTA 141 (237)
T ss_pred HHHHHHHHHCCCeEEEEeCCCC
Confidence 3455666777777777777553
No 341
>COG3019 Predicted metal-binding protein [General function prediction only]
Probab=32.00 E-value=84 Score=29.52 Aligned_cols=49 Identities=27% Similarity=0.381 Sum_probs=37.8
Q ss_pred CCCC--CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 223 PKVG--YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 223 PKvG--YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
|.-| ---+..|+-+||.|+.|.-.+-.| ||+.| ||. ...+.-+|.||++
T Consensus 34 PnCGCC~~w~~~mk~~Gf~Vk~~~~~d~~a---lK~~~------gIp-----------------~e~~SCHT~VI~G 84 (149)
T COG3019 34 PNCGCCDEWAQHMKANGFEVKVVETDDFLA---LKRRL------GIP-----------------YEMQSCHTAVING 84 (149)
T ss_pred CCCccHHHHHHHHHhCCcEEEEeecCcHHH---HHHhc------CCC-----------------hhhccccEEEEcC
Confidence 6666 345778999999999998888777 88863 554 3456679999988
No 342
>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=31.94 E-value=27 Score=24.79 Aligned_cols=15 Identities=40% Similarity=0.970 Sum_probs=11.1
Q ss_pred cCCCCCeecccCCCC
Q 014872 151 AVPNDPYICGVCGRK 165 (417)
Q Consensus 151 v~p~~PY~C~VCGRk 165 (417)
+.+..|.+|+.||.+
T Consensus 12 ~~~~~~irC~~CG~R 26 (32)
T PF03604_consen 12 LKPGDPIRCPECGHR 26 (32)
T ss_dssp BSTSSTSSBSSSS-S
T ss_pred cCCCCcEECCcCCCe
Confidence 345678999999986
No 343
>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=31.88 E-value=63 Score=31.58 Aligned_cols=61 Identities=11% Similarity=0.158 Sum_probs=38.6
Q ss_pred HHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 231 SELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
..|+..|+.|..+.-.+..+..-+...+..+...+ +.||+.....+...+++.|++.|+..
T Consensus 168 ~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~ 228 (396)
T cd06373 168 TVLKEENITVSDFPFDEDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTS 228 (396)
T ss_pred HHHhhcCceeeEEeecCCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCC
Confidence 45566676655433333210112334444445555 88888888889999999999999865
No 344
>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=31.70 E-value=82 Score=26.59 Aligned_cols=34 Identities=12% Similarity=0.048 Sum_probs=22.5
Q ss_pred hCCcceEEEEeCCcchHHHHHHHHHcCCc-EEEEcCC
Q 014872 263 SSGVDWMFLVSDDNDFKEMLRKARDANLG-TVVVGDS 298 (417)
Q Consensus 263 ~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~-TVVVGd~ 298 (417)
+.|+.+.+-.+ ..+..-++.|.+.|.+ .++||+.
T Consensus 53 ~~gi~v~~d~~--~sl~kqlk~A~k~g~~~~iiiG~~ 87 (121)
T cd00858 53 ELGFSVKYDDS--GSIGRRYARQDEIGTPFCVTVDFD 87 (121)
T ss_pred HCCCEEEEeCC--CCHHHHHHHhHhcCCCEEEEECcC
Confidence 45666655444 5677777777777777 5666763
No 345
>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=31.14 E-value=1.5e+02 Score=28.10 Aligned_cols=43 Identities=12% Similarity=0.134 Sum_probs=35.1
Q ss_pred HHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC--cEEEEcC
Q 014872 255 KRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL--GTVVVGD 297 (417)
Q Consensus 255 krhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVGd 297 (417)
..++.++...+++-|++.....+...+++.+++.|+ +..++|.
T Consensus 176 ~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~ 220 (333)
T cd06359 176 SAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKKDIPLYSP 220 (333)
T ss_pred HHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCcccCCeeecc
Confidence 346666778999988887777788999999999999 7678875
No 346
>TIGR00509 bisC_fam molybdopterin guanine dinucleotide-containing S/N-oxide reductases. This enzyme family shares sequence similarity and a requirement for a molydenum cofactor as the only prosthetic group. The form of the cofactor is a single molybdenum atom coordinated by two molybdopterin guanine dinucleotide molecules. Members of the family include biotin sulfoxide reductase, dimethylsulfoxide reductase, and trimethylamine-N-oxide reductase, although a single member may show all those activities and related activities; it may not be possible to resolve the primary function for members of this family by sequence comparison alone. A number of similar molybdoproteins in which the N-terminal region contains a CXXXC motif and may bind an iron-sulfur cluster are excluded from this set, including formate dehydrogenases and nitrate reductases. Also excluded is the A chain of a heteromeric, anaerobic DMSO reductase, which also contains the CXXXC motif.
Probab=31.00 E-value=72 Score=35.09 Aligned_cols=108 Identities=10% Similarity=0.107 Sum_probs=64.5
Q ss_pred CCcceEEEEeCCcc-------------hHHHHHHHHHcCCcEEEEcCCCCccccc-cccccchh--------------hh
Q 014872 264 SGVDWMFLVSDDND-------------FKEMLRKARDANLGTVVVGDSNRGLGQH-ADLWVPWI--------------EV 315 (417)
Q Consensus 264 rgv~cLvLVSDDsd-------------F~~~Lr~AR~~~v~TVVVGd~~~~L~R~-ADl~fSW~--------------eV 315 (417)
...+|||++.-+.- ....|+.||++|.+-|||--........ ||+|++=. -|
T Consensus 166 ~~a~~il~~G~Np~~t~~~~~~~~~~~~~~~~~~a~~~G~klIvIDPr~t~tA~~aaD~~l~irPGTD~AL~lam~~~ii 245 (770)
T TIGR00509 166 ENSKVLVLWGADPLKTSQIAWGIPDHGGYEYLERLKAKGKRVISIDPVRTETAEFFGAEWIPPNPQTDVALMLGLAHTLV 245 (770)
T ss_pred hcCCEEEEeCCCHHHhCccccccCCcchHHHHHHHHHcCCEEEEEcCCCCcchhhccCeEeCcCCCcHHHHHHHHHHHHH
Confidence 46888888866532 3367788999999999998876667776 58998743 56
Q ss_pred hcCcccccccccCCCcccc---cccccCCCC-ceeeeecCcccccccCCchhhhhhhhhhhc
Q 014872 316 ENGELTERDLVPRTRRTTT---EDFERDGLG-LFSLTEFDGVVGFEDETDLDSVVNELVAER 373 (417)
Q Consensus 316 ~~Gk~~~~~~~~~~~~~~~---~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 373 (417)
++|-.+.+ .+.+.-.+|. +-..+.+|| .|+. ++-..|-|..+.++..+..++...+
T Consensus 246 ~e~l~D~~-fi~~~t~gfe~~~~~l~~~~~g~~~tp-e~aa~itGV~a~~I~~lA~~~a~~~ 305 (770)
T TIGR00509 246 TEGLYDKD-FLAKYTSGFEKFLPYLLGETDGTPKTA-EWASKITGVPAETIKELARLFASKR 305 (770)
T ss_pred HcccccHH-HHHHHcccHHHHHHHhcCCCCCCcCCH-HHHHHHHCcCHHHHHHHHHHHHhcc
Confidence 66666633 2322211221 101111122 2221 1224577788888888888887654
No 347
>cd02769 MopB_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always 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. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=30.97 E-value=74 Score=34.09 Aligned_cols=108 Identities=8% Similarity=0.097 Sum_probs=66.1
Q ss_pred CCcceEEEEeCCcc--------------hHHHHHHHHHcCCcEEEEcCCCCccccccc-cccchh--------------h
Q 014872 264 SGVDWMFLVSDDND--------------FKEMLRKARDANLGTVVVGDSNRGLGQHAD-LWVPWI--------------E 314 (417)
Q Consensus 264 rgv~cLvLVSDDsd--------------F~~~Lr~AR~~~v~TVVVGd~~~~L~R~AD-l~fSW~--------------e 314 (417)
.+.+|||++.-+.- ....|..||++|.+-|||--........|| .|++=. -
T Consensus 169 ~~a~~il~wG~Np~~t~~~~~~~~~~~~~~~~~~~ar~~GaklIvIDPr~t~tA~~add~~l~irPGTD~ALalam~~~i 248 (609)
T cd02769 169 EHTELVVAFGADPLKNAQIAWGGIPDHQAYSYLKALKDRGIRFISISPLRDDTAAELGAEWIAIRPGTDVALMLALAHTL 248 (609)
T ss_pred hhCCeEEEECCChHHhCcccccccCCcchHHHHHHHHhCCCEEEEEcCCCCcchhhhcCcEeccCCCcHHHHHHHHHHHH
Confidence 57899999987743 235677899999999999887777888886 888754 5
Q ss_pred hhcCcccccccccCCCcccc---cccccCCCC-ceeeeecCcccccccCCchhhhhhhhhhhc
Q 014872 315 VENGELTERDLVPRTRRTTT---EDFERDGLG-LFSLTEFDGVVGFEDETDLDSVVNELVAER 373 (417)
Q Consensus 315 V~~Gk~~~~~~~~~~~~~~~---~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 373 (417)
|++|..+.+ .+.+.-.+|. +-..+..|| .|+.. .-..|-|.++.++..+.+++...+
T Consensus 249 i~e~~~D~~-Fv~~~t~Gfe~~~~~l~~~~dg~~~tpe-~aa~itGV~ae~I~~lA~~~a~~~ 309 (609)
T cd02769 249 VTEGLHDKA-FLARYTVGFDKFLPYLLGESDGVPKTPE-WAAAICGIPAETIRELARRFASKR 309 (609)
T ss_pred HHcCCccHH-HHHHHccCHHHHHHHhcCCCCCCcCCHH-HHHHHHCcCHHHHHHHHHHHhhcC
Confidence 667766643 3322211221 111111122 22211 114477778888888888876543
No 348
>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=30.73 E-value=1.5e+02 Score=26.69 Aligned_cols=62 Identities=16% Similarity=0.079 Sum_probs=42.2
Q ss_pred CCchHHHHh-cceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRR-AGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkR-AGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+++. .|+.+-..... . .++++.+..++++-+++.+.+. ++++...+.++..|.++..
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 467788888 67777654321 1 4555556678899998876432 4556777889899999753
No 349
>cd00368 Molybdopterin-Binding Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=30.54 E-value=79 Score=30.40 Aligned_cols=48 Identities=21% Similarity=0.408 Sum_probs=37.6
Q ss_pred CCcceEEEEeCCc-----chHHHHHHHHHcCCcEEEEcCCCCccccccccccc
Q 014872 264 SGVDWMFLVSDDN-----DFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVP 311 (417)
Q Consensus 264 rgv~cLvLVSDDs-----dF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fS 311 (417)
...++||++--|. .+...++.|++.|.+.|||+-....+...||.|++
T Consensus 155 ~~ad~il~~G~n~~~~~~~~~~~~~~a~~~g~kvv~idp~~s~t~~~ad~~i~ 207 (374)
T cd00368 155 ENADLILLWGSNPAETHPVLAARLRRAKKRGAKLIVIDPRRTETAAKADEWLP 207 (374)
T ss_pred hhCCEEEEEcCChHHhChHHHHHHHHHHHCCCeEEEEcCCCCcchHhhCEeeC
Confidence 3588888887554 34566788888999999999877777889999884
No 350
>PRK05967 cystathionine beta-lyase; Provisional
Probab=30.37 E-value=1.4e+02 Score=30.93 Aligned_cols=68 Identities=15% Similarity=0.080 Sum_probs=43.7
Q ss_pred hhcCCCCCCCchH-----HHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEe------CCcchHHHHHHHHH
Q 014872 219 SLLKPKVGYGLGS-----ELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVS------DDNDFKEMLRKARD 287 (417)
Q Consensus 219 evL~PKvGYGLA~-----ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVS------DDsdF~~~Lr~AR~ 287 (417)
.++.|.-+||--. .|++.|+.|+.+...+ ..+|+. .+..+...|++-| .-.|...+.+.|++
T Consensus 105 ~Vlv~~~~Y~~~~~l~~~~l~~~Gi~v~~vd~~~---~e~l~~----al~~~TklV~lesPsNP~l~v~dl~~I~~la~~ 177 (395)
T PRK05967 105 HALIVDSVYYPTRHFCDTMLKRLGVEVEYYDPEI---GAGIAK----LMRPNTKVVHTEAPGSNTFEMQDIPAIAEAAHR 177 (395)
T ss_pred EEEEccCCcHHHHHHHHHHHHhcCeEEEEeCCCC---HHHHHH----hcCcCceEEEEECCCCCCCcHHHHHHHHHHHHH
Confidence 3666777888643 5799999999994322 123444 3444444444443 55688899999999
Q ss_pred cCCcEE
Q 014872 288 ANLGTV 293 (417)
Q Consensus 288 ~~v~TV 293 (417)
+|+-.|
T Consensus 178 ~g~~vv 183 (395)
T PRK05967 178 HGAIVM 183 (395)
T ss_pred hCCEEE
Confidence 986543
No 351
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=30.33 E-value=1.9e+02 Score=29.14 Aligned_cols=85 Identities=22% Similarity=0.226 Sum_probs=50.0
Q ss_pred cCCCCC-CCchHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEE--------------E----EeCCcchHH
Q 014872 221 LKPKVG-YGLGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMF--------------L----VSDDNDFKE 280 (417)
Q Consensus 221 L~PKvG-YGLA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLv--------------L----VSDDsdF~~ 280 (417)
+++.-| --+-..|+++|+.+-.+++.+. -++..+++ .|++.++ . |+....=..
T Consensus 180 l~l~pGa~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~~-------Lgld~~~an~lei~dg~ltg~v~g~iv~~k~K~~~ 252 (322)
T PRK11133 180 LPLMPGLTELVLKLQALGWKVAIASGGFTYFADYLRDK-------LRLDAAVANELEIMDGKLTGNVLGDIVDAQYKADT 252 (322)
T ss_pred CCCChhHHHHHHHHHHcCCEEEEEECCcchhHHHHHHH-------cCCCeEEEeEEEEECCEEEeEecCccCCcccHHHH
Confidence 444333 5566899999999999999885 34433332 2322210 0 111222233
Q ss_pred HHHHHHHcCC---cEEEEcCCCCcc--ccccccccch
Q 014872 281 MLRKARDANL---GTVVVGDSNRGL--GQHADLWVPW 312 (417)
Q Consensus 281 ~Lr~AR~~~v---~TVVVGd~~~~L--~R~ADl~fSW 312 (417)
+.+.|++.|+ .||+|||+..++ .+.|.+.+-|
T Consensus 253 L~~la~~lgi~~~qtIaVGDg~NDl~m~~~AGlgiA~ 289 (322)
T PRK11133 253 LTRLAQEYEIPLAQTVAIGDGANDLPMIKAAGLGIAY 289 (322)
T ss_pred HHHHHHHcCCChhhEEEEECCHHHHHHHHHCCCeEEe
Confidence 4455566676 589999987656 4567666655
No 352
>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=30.29 E-value=1.2e+02 Score=28.64 Aligned_cols=42 Identities=14% Similarity=0.327 Sum_probs=33.2
Q ss_pred HHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 256 RQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 256 rhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
..+.+++..+++-|++...-.+...+++.+++++.+.-++|.
T Consensus 182 ~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 223 (332)
T cd06344 182 TAVSQAINNGATVLVLFPDTDTLDKALEVAKANKGRLTLLGG 223 (332)
T ss_pred HHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCCCceEEec
Confidence 345556778899999988877899999999999887666664
No 353
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=30.24 E-value=83 Score=32.93 Aligned_cols=69 Identities=20% Similarity=0.375 Sum_probs=50.8
Q ss_pred HHHHHHhhhCCcceEEEEeCC-cchHHHHHHHHHcCCcEEEEcCCCCcc-ccccccccchhhhhcCcccccccc
Q 014872 255 KRQMQHSMSSGVDWMFLVSDD-NDFKEMLRKARDANLGTVVVGDSNRGL-GQHADLWVPWIEVENGELTERDLV 326 (417)
Q Consensus 255 krhm~~~m~rgv~cLvLVSDD-sdF~~~Lr~AR~~~v~TVVVGd~~~~L-~R~ADl~fSW~eV~~Gk~~~~~~~ 326 (417)
..|++.++++|++.||+++=| ..++++++.|...|++.|-. +|-+ .-.+|.+++.+--.=|+.--.-|+
T Consensus 71 ~~qien~i~qg~~vlvi~a~d~~~l~~~i~~A~~~gikViaY---DRlI~n~dvd~YvsFDN~~VG~lQa~~l~ 141 (341)
T COG4213 71 LAQIENMINQGVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAY---DRLINNADVDFYVSFDNEKVGELQAKALV 141 (341)
T ss_pred HHHHHHHHhcCCCEEEEEeccchhHHHHHHHHHHcCCeEEEe---ecccccCCccEEEEecchhHHHHHHHHHH
Confidence 456788899999999999854 57999999999999875433 3322 345666888887777776655553
No 354
>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=30.15 E-value=2.5e+02 Score=24.78 Aligned_cols=64 Identities=14% Similarity=0.096 Sum_probs=41.7
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc----hHHHHHHHHHcCCc--EEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND----FKEMLRKARDANLG--TVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd----F~~~Lr~AR~~~v~--TVVVGd 297 (417)
.+..|+-+||.|-.. ..-+.++..+.. +...+++.++|-|=+.. +..+++.-++++.. .|++|.
T Consensus 22 v~~~l~~~GfeVi~l-g~~~s~e~~v~a----a~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG 91 (132)
T TIGR00640 22 IATAYADLGFDVDVG-PLFQTPEEIARQ----AVEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGG 91 (132)
T ss_pred HHHHHHhCCcEEEEC-CCCCCHHHHHHH----HHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeC
Confidence 356799999999865 333333333433 33568999988887654 44566667777763 477775
No 355
>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=30.12 E-value=1.6e+02 Score=33.32 Aligned_cols=78 Identities=15% Similarity=0.166 Sum_probs=49.0
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcc---------------------------eEEEEeCCcchHHH
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVD---------------------------WMFLVSDDNDFKEM 281 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~---------------------------cLvLVSDDsdF~~~ 281 (417)
.-..|+++|+.|..+++.....=.++-++ .|+. .++==....+=..+
T Consensus 536 ~i~~l~~~Gi~v~miTGD~~~tA~~ia~~------~Gi~~~~~~~v~g~~l~~~~~~~l~~~~~~~~Vfar~~P~~K~~i 609 (884)
T TIGR01522 536 AVTTLITGGVRIIMITGDSQETAVSIARR------LGMPSKTSQSVSGEKLDAMDDQQLSQIVPKVAVFARASPEHKMKI 609 (884)
T ss_pred HHHHHHHCCCeEEEECCCCHHHHHHHHHH------cCCCCCCCceeEhHHhHhCCHHHHHHHhhcCeEEEECCHHHHHHH
Confidence 34678999999999988776332233232 2221 01110122244668
Q ss_pred HHHHHHcCCcEEEEcCCCC--ccccccccccch
Q 014872 282 LRKARDANLGTVVVGDSNR--GLGQHADLWVPW 312 (417)
Q Consensus 282 Lr~AR~~~v~TVVVGd~~~--~L~R~ADl~fSW 312 (417)
++..++.|-.+.+|||+-- .--+.||+.++|
T Consensus 610 v~~lq~~g~~v~mvGDGvND~pAl~~AdVGia~ 642 (884)
T TIGR01522 610 VKALQKRGDVVAMTGDGVNDAPALKLADIGVAM 642 (884)
T ss_pred HHHHHHCCCEEEEECCCcccHHHHHhCCeeEec
Confidence 8888889977889999743 225889998887
No 356
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=29.81 E-value=79 Score=31.48 Aligned_cols=82 Identities=22% Similarity=0.352 Sum_probs=51.5
Q ss_pred hHHHHh--cceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHH--------HHH-HHHHcCCcEEEEcCC
Q 014872 230 GSELRR--AGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKE--------MLR-KARDANLGTVVVGDS 298 (417)
Q Consensus 230 A~ELkR--AGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~--------~Lr-~AR~~~v~TVVVGd~ 298 (417)
|--||- -|-.|..++..|..|..+|.. ++..|+|-.+|++|+. |.. +|. .++..+..=|+.|.-
T Consensus 46 AlrLke~~~~~eV~vlt~Gp~~a~~~lr~----aLAmGaDraili~d~~-~~~~d~~~ta~~Laa~~~~~~~~LVl~G~q 120 (260)
T COG2086 46 ALRLKEKGYGGEVTVLTMGPPQAEEALRE----ALAMGADRAILITDRA-FAGADPLATAKALAAAVKKIGPDLVLTGKQ 120 (260)
T ss_pred HHHhhccCCCceEEEEEecchhhHHHHHH----HHhcCCCeEEEEeccc-ccCccHHHHHHHHHHHHHhcCCCEEEEecc
Confidence 334444 456788888898888888887 7899999999999854 322 222 234455555777762
Q ss_pred --C---Cccccccccccchhhhh
Q 014872 299 --N---RGLGQHADLWVPWIEVE 316 (417)
Q Consensus 299 --~---~~L~R~ADl~fSW~eV~ 316 (417)
+ +.++-.-=.++-|-.+.
T Consensus 121 a~D~~t~qvg~~lAe~Lg~P~~t 143 (260)
T COG2086 121 AIDGDTGQVGPLLAELLGWPQVT 143 (260)
T ss_pred cccCCccchHHHHHHHhCCceee
Confidence 2 33433333455565543
No 357
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=29.66 E-value=17 Score=33.61 Aligned_cols=20 Identities=20% Similarity=0.331 Sum_probs=17.1
Q ss_pred CeecccCCCCCCChHHHHHH
Q 014872 156 PYICGVCGRKCKTNLDLKKH 175 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~kH 175 (417)
.|.|+-||++|.|.+++..=
T Consensus 28 ~~~c~~c~~~f~~~e~~~~~ 47 (154)
T PRK00464 28 RRECLACGKRFTTFERVELV 47 (154)
T ss_pred eeeccccCCcceEeEeccCc
Confidence 49999999999999887644
No 358
>COG1231 Monoamine oxidase [Amino acid transport and metabolism]
Probab=29.66 E-value=58 Score=35.05 Aligned_cols=89 Identities=20% Similarity=0.192 Sum_probs=59.7
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeC---Cc-------chHHHHHHHHHcCCcE---EEE
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSD---DN-------DFKEMLRKARDANLGT---VVV 295 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSD---Ds-------dF~~~Lr~AR~~~v~T---VVV 295 (417)
-|+||+|||+.|...+-.+++- ..+-.+-. ++ |. -.-..|..+++.||.+ |+.
T Consensus 22 AA~eL~kaG~~v~ilEar~r~G-------------GR~~t~r~-~~~~~d~gG~~i~p~~~~~l~~~k~~gv~~~~fi~~ 87 (450)
T COG1231 22 AAYELKKAGYQVQILEARDRVG-------------GRSLTARA-GGEYTDLGGQYINPTHDALLAYAKEFGVPLEPFIRD 87 (450)
T ss_pred HHHHHhhcCcEEEEEeccCCcC-------------ceeEEEec-cceeeccCCcccCccchhhhhhHHhcCCCCCceecc
Confidence 3789999999999987776653 11111111 21 11 2456899999999976 565
Q ss_pred cCCC------------CccccccccccchhhhhcCcccccccccCCCc
Q 014872 296 GDSN------------RGLGQHADLWVPWIEVENGELTERDLVPRTRR 331 (417)
Q Consensus 296 Gd~~------------~~L~R~ADl~fSW~eV~~Gk~~~~~~~~~~~~ 331 (417)
|+.. +...-.||+-..|.+.++++...+-+-+.--+
T Consensus 88 g~~~~~~~~~~~~~p~~~~~~~~d~~~~~~~~~~~a~~~~~~~~~~t~ 135 (450)
T COG1231 88 GDNVIGYVGSSKSTPKRSLTAAADVRGLVAELEAKARSAGELDPGLTP 135 (450)
T ss_pred CcccccccccccccchhccchhhhhcchhhhhhhhhhcccccCcccCc
Confidence 5532 12244679999999999999887666655443
No 359
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=29.47 E-value=21 Score=40.80 Aligned_cols=24 Identities=33% Similarity=0.307 Sum_probs=17.0
Q ss_pred CCCCCchHHHHHHHHHHHHcCcee
Q 014872 91 PPRGPPYDAAMSLRRVAERFGEVT 114 (417)
Q Consensus 91 PP~~pPY~AA~rLr~~As~FG~Vv 114 (417)
+|..+||.+-++|--++..-|+=-
T Consensus 801 ~p~~~~~~~q~S~p~lr~~~g~~q 824 (1007)
T KOG3623|consen 801 FPGLPPYMLQMSLPMLRLFKGRPQ 824 (1007)
T ss_pred CCcccccccccccchhhhccCCcc
Confidence 467788888888777776666533
No 360
>PLN02575 haloacid dehalogenase-like hydrolase
Probab=29.43 E-value=2.9e+02 Score=28.99 Aligned_cols=85 Identities=16% Similarity=0.239 Sum_probs=45.4
Q ss_pred hHHHHHHHhhcCCCCC-CCchHHHHhcceEEEEeCCCch-hHHHHHHHH-HHHhhhCCcceEEEEeCCc-----chHHHH
Q 014872 211 DKYNEAARSLLKPKVG-YGLGSELRRAGVFVKTVRDKPQ-AADWALKRQ-MQHSMSSGVDWMFLVSDDN-----DFKEML 282 (417)
Q Consensus 211 ~KY~~AArevL~PKvG-YGLA~ELkRAGV~VrtV~dKPq-AAD~ALkrh-m~~~m~rgv~cLvLVSDDs-----dF~~~L 282 (417)
+.|.+.......|.-| --+-..|+..|+.+-.+++++. .++..|+++ |.+. .+. |+.+++. +=.-++
T Consensus 205 ~~y~~~~~~~~~l~pGa~ElL~~Lk~~GiklaIaSn~~~~~~~~~L~~lgL~~y----Fd~-Iv~sddv~~~KP~Peifl 279 (381)
T PLN02575 205 EIYQALQGGIYRLRTGSQEFVNVLMNYKIPMALVSTRPRKTLENAIGSIGIRGF----FSV-IVAAEDVYRGKPDPEMFI 279 (381)
T ss_pred HHHHHHhccCCCcCcCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCCHHH----ceE-EEecCcCCCCCCCHHHHH
Confidence 3444444334444444 5566778888888888888875 343344431 1111 222 3334442 223445
Q ss_pred HHHHHcCCc---EEEEcCCCC
Q 014872 283 RKARDANLG---TVVVGDSNR 300 (417)
Q Consensus 283 r~AR~~~v~---TVVVGd~~~ 300 (417)
+.+++.|+. +|+|||+..
T Consensus 280 ~A~~~lgl~Peecl~IGDS~~ 300 (381)
T PLN02575 280 YAAQLLNFIPERCIVFGNSNQ 300 (381)
T ss_pred HHHHHcCCCcccEEEEcCCHH
Confidence 566666653 688888653
No 361
>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=29.38 E-value=1.4e+02 Score=27.08 Aligned_cols=59 Identities=17% Similarity=0.188 Sum_probs=42.9
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..+++..|+.+..... +... . ....+++.|++++..+. +.++.+.++++..|+++.
T Consensus 24 ~gi~~~~~~~g~~~~~~~~-~~~~----~-----~~~~~vdgii~~~~~~~--~~~~~~~~~~~pvV~~~~ 82 (270)
T cd01544 24 LGIEKRAQELGIELTKFFR-DDDL----L-----EILEDVDGIIAIGKFSQ--EQLAKLAKLNPNLVFVDS 82 (270)
T ss_pred HHHHHHHHHcCCEEEEEec-cchh----H-----HhccCcCEEEEecCCCH--HHHHHHHhhCCCEEEECC
Confidence 5778888889988876533 2211 1 14578999999876544 778888899999999975
No 362
>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=29.25 E-value=1.3e+02 Score=28.12 Aligned_cols=55 Identities=22% Similarity=0.316 Sum_probs=34.1
Q ss_pred hhhCCcceEEEEe--CC----cchHHHHHHHHHcCCcEEEEcCCCCccccccccccchhhhhcCccc
Q 014872 261 SMSSGVDWMFLVS--DD----NDFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWIEVENGELT 321 (417)
Q Consensus 261 ~m~rgv~cLvLVS--DD----sdF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~eV~~Gk~~ 321 (417)
+-..|++.+++-. ++ .++..+|+.+++.|+..||-|+.... .--.|.|-.-.++.
T Consensus 54 A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~g~~~vv~G~i~sd------~~~~~~e~~~~~~g 114 (194)
T cd01994 54 AEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEEGVDAVVFGAILSE------YQRTRVERVCERLG 114 (194)
T ss_pred HHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHcCCCEEEECccccH------HHHHHHHHHHHHcC
Confidence 3457888665542 22 34556677777778999999997633 23345555555544
No 363
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily (variant 3, TIGR01509).
Probab=29.19 E-value=1.3e+02 Score=26.30 Aligned_cols=44 Identities=18% Similarity=0.311 Sum_probs=27.6
Q ss_pred CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 014872 246 KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVV 295 (417)
Q Consensus 246 KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVV 295 (417)
||++. .+. +....++...+-.+.|-|. ..+ +..|++.|++||.|
T Consensus 141 KP~p~--~~~-~~~~~~~~~~~~~l~vgD~--~~d-i~aA~~~G~~~i~v 184 (184)
T TIGR01993 141 KPSPQ--AYE-KALREAGVDPERAIFFDDS--ARN-IAAAKALGMKTVLV 184 (184)
T ss_pred CCCHH--HHH-HHHHHhCCCccceEEEeCC--HHH-HHHHHHcCCEEeeC
Confidence 88754 333 3333345555555566664 245 88999999999865
No 364
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=29.12 E-value=40 Score=35.72 Aligned_cols=39 Identities=15% Similarity=0.290 Sum_probs=32.9
Q ss_pred CCCCCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHhh
Q 014872 152 VPNDPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLNR 190 (417)
Q Consensus 152 ~p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnr 190 (417)
..+-||.|.+|.|+|+....-.+|.+-.--++..+++.|
T Consensus 64 ~~~~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~r 102 (390)
T KOG2785|consen 64 EAESVVYCEACNKSFASPKAHENHLKSKKHVENLSNHQR 102 (390)
T ss_pred hcccceehHHhhccccChhhHHHHHHHhhcchhhhhhhc
Confidence 345689999999999999999999998877777777766
No 365
>PF14336 DUF4392: Domain of unknown function (DUF4392)
Probab=29.09 E-value=1.5e+02 Score=29.62 Aligned_cols=87 Identities=20% Similarity=0.286 Sum_probs=56.5
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHh-----------------------------hhCCcceEEEE-----
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHS-----------------------------MSSGVDWMFLV----- 272 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~-----------------------------m~rgv~cLvLV----- 272 (417)
.-||..|+.-|..|..|.|.+.+. +++.-.... ...+.+.||-+
T Consensus 66 ~aLa~aL~~lG~~~~ivtd~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~lIaIERpGr 143 (291)
T PF14336_consen 66 AALARALQALGKEVVIVTDERCAP--VVKAAVRAAGLQGVDKVEIPPFFPDDFAQAFLEADGLLKEPRPDLLIAIERPGR 143 (291)
T ss_pred HHHHHHHHHcCCeEEEEECHHHHH--HHHHHHHHHhhCcccccccccccccchhhhHHHHhhccccCCCCEEEEeCCccc
Confidence 457899999999999999988744 232221100 01122222221
Q ss_pred --------------e-CCcchHHHHHHHHHcCCcEEEEcCCCCccccccccccchhhhhcCcccccccccCCC
Q 014872 273 --------------S-DDNDFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWIEVENGELTERDLVPRTR 330 (417)
Q Consensus 273 --------------S-DDsdF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~eV~~Gk~~~~~~~~~~~ 330 (417)
+ --..|-.++..|++.|+.|+-|||+. .|+=||++. +.+.+.-
T Consensus 144 a~dG~Y~nmrG~~I~~~~a~~D~lf~~a~~~gi~tigIGDGG-------------NEiGMG~v~--~~v~~~i 201 (291)
T PF14336_consen 144 AADGNYYNMRGEDISHLVAPLDDLFLAAKEPGIPTIGIGDGG-------------NEIGMGNVK--EAVKKHI 201 (291)
T ss_pred CCCCCEecCcCCcCccccccHHHHHHHhhcCCCCEEEECCCc-------------hhcccChHH--HHHHHhC
Confidence 2 14578889999999999999999976 356678884 4554443
No 366
>PRK10671 copA copper exporting ATPase; Provisional
Probab=28.92 E-value=1.1e+02 Score=34.14 Aligned_cols=76 Identities=16% Similarity=0.205 Sum_probs=48.4
Q ss_pred HHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCC--cccccccc
Q 014872 231 SELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNR--GLGQHADL 308 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~--~L~R~ADl 308 (417)
..|++.|+.+-.++..++..=.++-++ .|++.++--.-..+=..+++..+..+-.++.|||+.. ..-+.||+
T Consensus 660 ~~L~~~gi~v~~~Tgd~~~~a~~ia~~------lgi~~~~~~~~p~~K~~~i~~l~~~~~~v~~vGDg~nD~~al~~Agv 733 (834)
T PRK10671 660 QRLHKAGYRLVMLTGDNPTTANAIAKE------AGIDEVIAGVLPDGKAEAIKRLQSQGRQVAMVGDGINDAPALAQADV 733 (834)
T ss_pred HHHHHCCCeEEEEcCCCHHHHHHHHHH------cCCCEEEeCCCHHHHHHHHHHHhhcCCEEEEEeCCHHHHHHHHhCCe
Confidence 678999999988888777432222222 4544332211123445677777777778999999753 34678999
Q ss_pred ccch
Q 014872 309 WVPW 312 (417)
Q Consensus 309 ~fSW 312 (417)
.+.|
T Consensus 734 gia~ 737 (834)
T PRK10671 734 GIAM 737 (834)
T ss_pred eEEe
Confidence 6665
No 367
>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=28.84 E-value=1.1e+02 Score=24.50 Aligned_cols=59 Identities=24% Similarity=0.267 Sum_probs=36.0
Q ss_pred CchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhh-hCCcceEEEEeC--Cc----chHHHHHHHHHcCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSM-SSGVDWMFLVSD--DN----DFKEMLRKARDANL 290 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m-~rgv~cLvLVSD--Ds----dF~~~Lr~AR~~~v 290 (417)
|-|..|+..|+.|+|+..|+.... .++.+.+ +..++.+|-.++ +. |=..+-|.|-+.++
T Consensus 21 gTa~~L~~~Gi~~~~~~~ki~~~~----~~i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~I 86 (90)
T smart00851 21 GTAKFLREAGLPVKTLHPKVHGGI----LAILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDI 86 (90)
T ss_pred HHHHHHHHCCCcceeccCCCCCCC----HHHHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCC
Confidence 448999999999997767775321 1233334 466787766654 22 12246666666665
No 368
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=28.78 E-value=23 Score=25.74 Aligned_cols=15 Identities=33% Similarity=0.800 Sum_probs=11.0
Q ss_pred CCCCeecccCCCCCC
Q 014872 153 PNDPYICGVCGRKCK 167 (417)
Q Consensus 153 p~~PY~C~VCGRkf~ 167 (417)
|-.-|+|+-||..|-
T Consensus 2 P~Yey~C~~Cg~~fe 16 (42)
T PF09723_consen 2 PIYEYRCEECGHEFE 16 (42)
T ss_pred CCEEEEeCCCCCEEE
Confidence 345688999988764
No 369
>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=28.65 E-value=1.5e+02 Score=27.60 Aligned_cols=66 Identities=17% Similarity=0.171 Sum_probs=37.6
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcce----EEEEeCCcchHHHHHH-HHHcCC---cEEEEcCCC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDW----MFLVSDDNDFKEMLRK-ARDANL---GTVVVGDSN 299 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~c----LvLVSDDsdF~~~Lr~-AR~~~v---~TVVVGd~~ 299 (417)
+-.+|+++|+.+-.++++++-.-. +... +...|++. .|+-|++. -...|+. +++.++ +.++|||+.
T Consensus 32 ~L~~L~~~G~~~~ivTN~~~~~~~-~~~~---L~~~gl~~~~~~~Ii~s~~~-~~~~l~~~~~~~~~~~~~~~~vGd~~ 105 (242)
T TIGR01459 32 NLNKIIAQGKPVYFVSNSPRNIFS-LHKT---LKSLGINADLPEMIISSGEI-AVQMILESKKRFDIRNGIIYLLGHLE 105 (242)
T ss_pred HHHHHHHCCCEEEEEeCCCCChHH-HHHH---HHHCCCCccccceEEccHHH-HHHHHHhhhhhccCCCceEEEeCCcc
Confidence 456789999999999998874311 1111 22345443 34444433 2344444 444444 379999965
No 370
>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=28.36 E-value=1.6e+02 Score=27.25 Aligned_cols=62 Identities=15% Similarity=0.141 Sum_probs=44.3
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
.|+..+|++.|+.+-+.....+ .+ .+...+++-+++++.+.+ .+.++..++.++..|+++..
T Consensus 27 ~~i~~~~~~~gy~~~~~~~~~~-~~--------~l~~~~vdgiIi~~~~~~-~~~~~~l~~~~iPvV~i~~~ 88 (269)
T cd06287 27 AAAAESALERGLALCLVPPHEA-DS--------PLDALDIDGAILVEPMAD-DPQVARLRQRGIPVVSIGRP 88 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCc-hh--------hhhccCcCeEEEecCCCC-CHHHHHHHHcCCCEEEeCCC
Confidence 6788999999999987644321 11 123678999999875433 25667778889999999863
No 371
>cd02754 MopB_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. Members of the MopB_Nitrate-R-NapA CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=28.35 E-value=77 Score=33.11 Aligned_cols=48 Identities=23% Similarity=0.327 Sum_probs=36.5
Q ss_pred CCcceEEEEeCCcc-----hHHHHHHHHHc--CCcEEEEcCCCCccccccccccc
Q 014872 264 SGVDWMFLVSDDND-----FKEMLRKARDA--NLGTVVVGDSNRGLGQHADLWVP 311 (417)
Q Consensus 264 rgv~cLvLVSDDsd-----F~~~Lr~AR~~--~v~TVVVGd~~~~L~R~ADl~fS 311 (417)
...++||++--|.. ....++.||++ |.+.|||.-........||.|++
T Consensus 156 ~~ad~Il~~G~n~~~s~~~~~~~~~~a~~~~~G~klividP~~t~ta~~Ad~~l~ 210 (565)
T cd02754 156 EHADCFFLIGSNMAECHPILFRRLLDRKKANPGAKIIVVDPRRTRTADIADLHLP 210 (565)
T ss_pred hhCCEEEEECCChhhhhhHHHHHHHHHHhcCCCCEEEEEcCCCCcchHHhCeeeC
Confidence 45788888776643 33456778887 99999998877778889999885
No 372
>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=28.35 E-value=74 Score=30.81 Aligned_cols=73 Identities=14% Similarity=0.146 Sum_probs=36.3
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcc---eEEEEeCCcch--HHHHHHHHHcCCcEEEEcCCCCc
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVD---WMFLVSDDNDF--KEMLRKARDANLGTVVVGDSNRG 301 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~---cLvLVSDDsdF--~~~Lr~AR~~~v~TVVVGd~~~~ 301 (417)
-.+-..|+..|+.+=.|+++.+.--..+-..+... .|++ .+++=+|+... .+-...+.+.++ ++.|||+..+
T Consensus 120 ~elL~~l~~~G~~i~iVTnr~~~k~~~~a~~ll~~--lGi~~~f~~i~~~d~~~~~Kp~~~~~l~~~~i-~i~vGDs~~D 196 (237)
T TIGR01672 120 RQLIDMHQRRGDAIFFVTGRTPGKTDTVSKTLAKN--FHIPAMNPVIFAGDKPGQYQYTKTQWIQDKNI-RIHYGDSDND 196 (237)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCCcCHHHHHHHHHH--hCCchheeEEECCCCCCCCCCCHHHHHHhCCC-eEEEeCCHHH
Confidence 34556888899999999888432101111111111 2332 23333343211 011233455665 7889998655
Q ss_pred c
Q 014872 302 L 302 (417)
Q Consensus 302 L 302 (417)
+
T Consensus 197 I 197 (237)
T TIGR01672 197 I 197 (237)
T ss_pred H
Confidence 5
No 373
>cd02763 MopB_2 The MopB_2 CD includes a group of related uncharacterized bacterial 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=28.23 E-value=85 Score=34.92 Aligned_cols=96 Identities=19% Similarity=0.239 Sum_probs=61.6
Q ss_pred CCcceEEEEeCCcc-----hHHHHHHHHHcCCcEEEEcCCCCccccccccccchh--------------hhhcCcccccc
Q 014872 264 SGVDWMFLVSDDND-----FKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWI--------------EVENGELTERD 324 (417)
Q Consensus 264 rgv~cLvLVSDDsd-----F~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~--------------eV~~Gk~~~~~ 324 (417)
...++||++.-+.+ +.-.++.||++|.+-|||.-......+.||.|++=. .+++|.++.+-
T Consensus 154 ~~Ad~Ivl~G~n~~~~~~p~~~~i~~ak~~GaKlIvIDPr~t~ta~~AD~wl~irPGTD~aL~lal~~~Li~~g~~D~~F 233 (679)
T cd02763 154 EHTKYFMMIGVAEDHHSNPFKIGIQKLKRRGGKFVAVNPVRTGYAAIADEWVPIKPGTDGAFILALAHELLKAGLIDWEF 233 (679)
T ss_pred HhCCEEEEECCCCcccCchHHHHHHHHHhCCCcEEEEcCcCCcchHhhCeecCcCCCcHHHHHHHHHHHHHHCCCcCHHH
Confidence 35788888854322 344577889999999999776667899999999743 56667666443
Q ss_pred cccCCCcccccccccCCCCceeeeecC----cccccccCCchhhhhhhhhhh
Q 014872 325 LVPRTRRTTTEDFERDGLGLFSLTEFD----GVVGFEDETDLDSVVNELVAE 372 (417)
Q Consensus 325 ~~~~~~~~~~~~~~~~~~~~f~~~~~~----~~~~~~~~~~~~~~~~~~~~~ 372 (417)
+...+. | |.+..|. ..|-|.+..++..+.+++..+
T Consensus 234 l~~~t~------------g-~~l~~ytpe~aa~itGV~ae~I~~lA~~~a~~ 272 (679)
T cd02763 234 LKRYTN------------A-AELVDYTPEWVEKITGIPADTIRRIAKELGVT 272 (679)
T ss_pred HHHHcC------------c-HHhhcCCHHHHHHHHCcCHHHHHHHHHHHHhc
Confidence 322111 1 1133343 336677777777777777654
No 374
>PLN02779 haloacid dehalogenase-like hydrolase family protein
Probab=28.18 E-value=1.5e+02 Score=28.69 Aligned_cols=22 Identities=23% Similarity=0.185 Sum_probs=14.3
Q ss_pred CCchHHHHhcceEEEEeCCCch
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQ 248 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPq 248 (417)
..+-..|+..|+.+=.++++++
T Consensus 150 ~elL~~L~~~g~~l~IvTn~~~ 171 (286)
T PLN02779 150 LRLMDEALAAGIKVAVCSTSNE 171 (286)
T ss_pred HHHHHHHHHCCCeEEEEeCCCH
Confidence 3344556677777777777765
No 375
>PRK09186 flagellin modification protein A; Provisional
Probab=28.14 E-value=1.3e+02 Score=27.05 Aligned_cols=69 Identities=20% Similarity=0.235 Sum_probs=38.6
Q ss_pred CCCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhh-hCCcceEEEEeCCcch---HHHHHHHHHc--CCcEEEE
Q 014872 224 KVGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSM-SSGVDWMFLVSDDNDF---KEMLRKARDA--NLGTVVV 295 (417)
Q Consensus 224 KvGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m-~rgv~cLvLVSDDsdF---~~~Lr~AR~~--~v~TVVV 295 (417)
-+|..+|..|.+.|..|..+.-.+..++.++.. +.... ...+. ++++|=+|. ..++..+.+. ++..||-
T Consensus 15 giG~~~a~~l~~~g~~v~~~~r~~~~~~~~~~~-l~~~~~~~~~~--~~~~Dl~d~~~~~~~~~~~~~~~~~id~vi~ 89 (256)
T PRK09186 15 LIGSALVKAILEAGGIVIAADIDKEALNELLES-LGKEFKSKKLS--LVELDITDQESLEEFLSKSAEKYGKIDGAVN 89 (256)
T ss_pred hHHHHHHHHHHHCCCEEEEEecChHHHHHHHHH-HHhhcCCCcee--EEEecCCCHHHHHHHHHHHHHHcCCccEEEE
Confidence 457889999999999999886666555544432 31111 12222 335555554 4445544442 2555554
No 376
>PRK14988 GMP/IMP nucleotidase; Provisional
Probab=28.11 E-value=3.7e+02 Score=24.91 Aligned_cols=96 Identities=14% Similarity=0.070 Sum_probs=0.0
Q ss_pred HHHHHHhhccchHHHHHHHhhcCCCCC-CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC---
Q 014872 200 QKYKERYISGNDKYNEAARSLLKPKVG-YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD--- 275 (417)
Q Consensus 200 ~rl~~~~a~k~~KY~~AArevL~PKvG-YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD--- 275 (417)
..+.+.+-.....+......-+.|.-| -.+-..|+..|+.+-.+++++... +...+.+.--..-=-.|+.|++
T Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~e~L~~Lk~~g~~~~i~Tn~~~~~---~~~~l~~~~l~~~fd~iv~s~~~~~ 147 (224)
T PRK14988 71 DYWSERLGLDICAMTTEQGPRAVLREDTVPFLEALKASGKRRILLTNAHPHN---LAVKLEHTGLDAHLDLLLSTHTFGY 147 (224)
T ss_pred HHHHHHhCCCHHHHHHHHhccCCcCCCHHHHHHHHHhCCCeEEEEeCcCHHH---HHHHHHHCCcHHHCCEEEEeeeCCC
Q ss_pred --cchHHHHHHHHHcCCc---EEEEcCC
Q 014872 276 --NDFKEMLRKARDANLG---TVVVGDS 298 (417)
Q Consensus 276 --sdF~~~Lr~AR~~~v~---TVVVGd~ 298 (417)
.+=...++.+++.|+. +++|||+
T Consensus 148 ~KP~p~~~~~~~~~~~~~p~~~l~igDs 175 (224)
T PRK14988 148 PKEDQRLWQAVAEHTGLKAERTLFIDDS 175 (224)
T ss_pred CCCCHHHHHHHHHHcCCChHHEEEEcCC
No 377
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=28.07 E-value=2.5e+02 Score=26.06 Aligned_cols=61 Identities=20% Similarity=0.224 Sum_probs=42.2
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC----cchHHHHHHHHHcCCcEEE
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD----NDFKEMLRKARDANLGTVV 294 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD----sdF~~~Lr~AR~~~v~TVV 294 (417)
++..|+-+||.|-.- .--|+.|.++... +...++.|++-|=+ ..+..+...+|++|+.-+.
T Consensus 32 ia~~l~d~GfeVi~~-g~~~tp~e~v~aA----~~~dv~vIgvSsl~g~h~~l~~~lve~lre~G~~~i~ 96 (143)
T COG2185 32 IARALADAGFEVINL-GLFQTPEEAVRAA----VEEDVDVIGVSSLDGGHLTLVPGLVEALREAGVEDIL 96 (143)
T ss_pred HHHHHHhCCceEEec-CCcCCHHHHHHHH----HhcCCCEEEEEeccchHHHHHHHHHHHHHHhCCcceE
Confidence 578899999999854 3334445555543 34566666555543 4678889999999998755
No 378
>PRK09492 treR trehalose repressor; Provisional
Probab=28.04 E-value=2.2e+02 Score=26.40 Aligned_cols=66 Identities=12% Similarity=0.025 Sum_probs=39.8
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..++++.|+.+-.....-++. .....+..+..++++.+++++-+..-.+.| +..+...|+|+.
T Consensus 82 ~~i~~~~~~~gy~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiIi~~~~~~~~~~l---~~~~~pvv~i~~ 147 (315)
T PRK09492 82 RTMLPAFYEQGYDPIIMESQFSPE--KVNEHLGVLKRRNVDGVILFGFTGITEEML---APWQDKLVLLAR 147 (315)
T ss_pred HHHHHHHHHcCCeEEEEecCCChH--HHHHHHHHHHhcCCCEEEEeCCCcccHHHH---HhcCCCEEEEec
Confidence 366788889998886653322221 122334456678999999987432222333 344667888874
No 379
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=28.03 E-value=74 Score=33.92 Aligned_cols=45 Identities=16% Similarity=0.219 Sum_probs=35.7
Q ss_pred ceEEEEeC---CcchHHHHHHHHHcCCcEEEEcCC-CCccccccccccc
Q 014872 267 DWMFLVSD---DNDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVP 311 (417)
Q Consensus 267 ~cLvLVSD---DsdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fS 311 (417)
+.+|.||= ..+-..+++.|+++|+.||.|.+. ++.|.+.||..+.
T Consensus 338 dlvI~iS~SG~T~e~i~a~~~ak~~ga~~IaIT~~~~S~La~~aD~~l~ 386 (604)
T PRK00331 338 TLVIAISQSGETADTLAALRLAKELGAKTLAICNVPGSTIARESDAVLY 386 (604)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHCCCCEEEEECCCCChhHHhcCcEEE
Confidence 55566764 346778899999999999999985 5789999997654
No 380
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=27.96 E-value=25 Score=25.79 Aligned_cols=16 Identities=31% Similarity=0.816 Sum_probs=11.3
Q ss_pred CCCCeecccCCCCCCC
Q 014872 153 PNDPYICGVCGRKCKT 168 (417)
Q Consensus 153 p~~PY~C~VCGRkf~T 168 (417)
|-.-|+|.-||..|--
T Consensus 2 P~Yey~C~~Cg~~fe~ 17 (52)
T TIGR02605 2 PIYEYRCTACGHRFEV 17 (52)
T ss_pred CCEEEEeCCCCCEeEE
Confidence 3456888888887753
No 381
>PRK13582 thrH phosphoserine phosphatase; Provisional
Probab=27.94 E-value=1.3e+02 Score=26.58 Aligned_cols=82 Identities=12% Similarity=0.095 Sum_probs=44.2
Q ss_pred CchHHHHhcceEEEEeCCCchh-HHHHHHHH-HHHhhhCCc---ceEEEE----eCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 228 GLGSELRRAGVFVKTVRDKPQA-ADWALKRQ-MQHSMSSGV---DWMFLV----SDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~dKPqA-AD~ALkrh-m~~~m~rgv---~cLvLV----SDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
-+-..|+.+ +.+-.+++++.. ++..|.++ +.+...-.+ +.-+++ ........+++.....+-.+|+|||+
T Consensus 75 e~L~~L~~~-~~~~IvS~~~~~~~~~~l~~~gl~~~f~~~~~~~~~~~i~~~~~~~p~~k~~~l~~~~~~~~~~v~iGDs 153 (205)
T PRK13582 75 EFLDWLRER-FQVVILSDTFYEFAGPLMRQLGWPTLFCHSLEVDEDGMITGYDLRQPDGKRQAVKALKSLGYRVIAAGDS 153 (205)
T ss_pred HHHHHHHhc-CCEEEEeCCcHHHHHHHHHHcCCchhhcceEEECCCCeEECccccccchHHHHHHHHHHhCCeEEEEeCC
Confidence 455667777 777788888884 33333321 111110000 000011 11124456677777777889999998
Q ss_pred CCcc--cccccccc
Q 014872 299 NRGL--GQHADLWV 310 (417)
Q Consensus 299 ~~~L--~R~ADl~f 310 (417)
..++ .+.|++.+
T Consensus 154 ~~D~~~~~aa~~~v 167 (205)
T PRK13582 154 YNDTTMLGEADAGI 167 (205)
T ss_pred HHHHHHHHhCCCCE
Confidence 7654 66677644
No 382
>TIGR01460 HAD-SF-IIA Haloacid Dehalogenase Superfamily Class (subfamily) IIA. Many of the genes in this subfamily have been annotated as "pNPPase" "4-nitrophenyl phosphatase" or "NPPase". These all refer to the same activity versus a common lab test compound used to determine phosphatase activity. There is no evidence that this activity is physiologically relevant.
Probab=27.76 E-value=2.1e+02 Score=26.72 Aligned_cols=64 Identities=19% Similarity=0.217 Sum_probs=36.5
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCC-cceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSG-VDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rg-v~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
++..+..++-..-++..||... .-.++...++.. .++.+.|-|+ -..|+ ..|++.|++||.|..
T Consensus 171 ~~~~i~~~~g~~~~~~~KP~~~---~~~~~~~~~~~~~~~~~~~IGD~-~~~Di-~~A~~~G~~~i~v~~ 235 (236)
T TIGR01460 171 IAAGIKELSGREPTVVGKPSPA---IYRAALNLLQARPERRDVMVGDN-LRTDI-LGAKNAGFDTLLVLT 235 (236)
T ss_pred HHHHHHHHhCceeeeecCCCHH---HHHHHHHHhCCCCccceEEECCC-cHHHH-HHHHHCCCcEEEEec
Confidence 3455666554444456899765 333333334333 3444566654 44443 379999999999853
No 383
>PRK15456 universal stress protein UspG; Provisional
Probab=27.67 E-value=3.2e+02 Score=22.78 Aligned_cols=35 Identities=20% Similarity=0.080 Sum_probs=26.2
Q ss_pred CcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 265 GVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 265 gv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
++..-+.+...+--..+++.|.+.+..-||+|...
T Consensus 81 ~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g 115 (142)
T PRK15456 81 PSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRN 115 (142)
T ss_pred CcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCC
Confidence 44434445555667779999999999999999954
No 384
>COG0569 TrkA K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
Probab=27.54 E-value=1.3e+02 Score=28.38 Aligned_cols=154 Identities=15% Similarity=0.147 Sum_probs=86.3
Q ss_pred CCCCCchHHHHhcceEEEEeCCCchhHHHHHHHHH------------HHhhhCC---cceEEEEeCC--cchHHHHHHHH
Q 014872 224 KVGYGLGSELRRAGVFVKTVRDKPQAADWALKRQM------------QHSMSSG---VDWMFLVSDD--NDFKEMLRKAR 286 (417)
Q Consensus 224 KvGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm------------~~~m~rg---v~cLvLVSDD--sdF~~~Lr~AR 286 (417)
.+|+.+|..|.+.|..|-.+...+.....++.... .-+...| ++.+|-++++ ....-.+-.++
T Consensus 10 ~vG~~va~~L~~~g~~Vv~Id~d~~~~~~~~~~~~~~~~v~gd~t~~~~L~~agi~~aD~vva~t~~d~~N~i~~~la~~ 89 (225)
T COG0569 10 RVGRSVARELSEEGHNVVLIDRDEERVEEFLADELDTHVVIGDATDEDVLEEAGIDDADAVVAATGNDEVNSVLALLALK 89 (225)
T ss_pred HHHHHHHHHHHhCCCceEEEEcCHHHHHHHhhhhcceEEEEecCCCHHHHHhcCCCcCCEEEEeeCCCHHHHHHHHHHHH
Confidence 46899999999999999999998888777665321 2222333 6667666655 34444455556
Q ss_pred HcCCcEEEEcCCC----Ccccc-ccccccchhhhhcCcccccccccCCCcccccccccCCCCceeeeecCc-ccccccCC
Q 014872 287 DANLGTVVVGDSN----RGLGQ-HADLWVPWIEVENGELTERDLVPRTRRTTTEDFERDGLGLFSLTEFDG-VVGFEDET 360 (417)
Q Consensus 287 ~~~v~TVVVGd~~----~~L~R-~ADl~fSW~eV~~Gk~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~~~~ 360 (417)
+.|+.+|++=..+ ..|.+ .+|.-++=+...+-.+. ..+...+-..+ .++.+.+...+-++-..+ .+.|--
T Consensus 90 ~~gv~~viar~~~~~~~~~~~~~g~~~ii~Pe~~~~~~l~-~~i~~p~~~~~-~~~~~~~~~~~~~~v~~~~~~~g~~-- 165 (225)
T COG0569 90 EFGVPRVIARARNPEHEKVLEKLGADVIISPEKLAAKRLA-RLIVTPGALDV-LELAGGDAEVIEEKVAEDSPLAGKT-- 165 (225)
T ss_pred hcCCCcEEEEecCHHHHHHHHHcCCcEEECHHHHHHHHHH-HHhcCCChheE-EeecCCcceEEEEEecCCCccCCcC--
Confidence 6899998876643 23333 36777665554444443 23333332211 223222233443333333 344422
Q ss_pred chhhhhhhhhhhccccCceeeeeccCC
Q 014872 361 DLDSVVNELVAERTEFGGVRISMFSEG 387 (417)
Q Consensus 361 ~~~~~~~~~~~~~~~~~~~~~s~f~~~ 387 (417)
+.|+- -|-.++..-++.+-.+
T Consensus 166 -----L~el~-~~~~~~~~vvai~r~~ 186 (225)
T COG0569 166 -----LRELD-LRLPYDVNVIAIKRGG 186 (225)
T ss_pred -----HHHhc-ccCCCCcEEEEEecCC
Confidence 22222 3445666677777665
No 385
>PLN03086 PRLI-interacting factor K; Provisional
Probab=27.45 E-value=43 Score=36.86 Aligned_cols=17 Identities=24% Similarity=0.585 Sum_probs=12.1
Q ss_pred cCCCCCeecccCCCCCC
Q 014872 151 AVPNDPYICGVCGRKCK 167 (417)
Q Consensus 151 v~p~~PY~C~VCGRkf~ 167 (417)
.-|.+|+.|+.||..|.
T Consensus 499 hCp~Kpi~C~fC~~~v~ 515 (567)
T PLN03086 499 TCPLRLITCRFCGDMVQ 515 (567)
T ss_pred cCCCCceeCCCCCCccc
Confidence 34667788888887774
No 386
>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=27.45 E-value=2.5e+02 Score=24.47 Aligned_cols=36 Identities=11% Similarity=0.172 Sum_probs=27.0
Q ss_pred CcceEEEEeCCcc------------hHHH---HHHHHHcCCcEEEEcCCCC
Q 014872 265 GVDWMFLVSDDND------------FKEM---LRKARDANLGTVVVGDSNR 300 (417)
Q Consensus 265 gv~cLvLVSDDsd------------F~~~---Lr~AR~~~v~TVVVGd~~~ 300 (417)
+...|||+||=.+ ..++ .+.|++.|+...+||.+..
T Consensus 103 ~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~~ 153 (174)
T cd01454 103 KRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEVFGITIDRD 153 (174)
T ss_pred cCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEEEEEEecCc
Confidence 3567999998543 3355 7888999999999998653
No 387
>TIGR00433 bioB biotin synthetase. Catalyzes the last step of the biotin biosynthesis pathway.
Probab=27.27 E-value=1.1e+02 Score=28.91 Aligned_cols=17 Identities=18% Similarity=0.071 Sum_probs=11.3
Q ss_pred CCchHHHHhcceEEEEe
Q 014872 227 YGLGSELRRAGVFVKTV 243 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV 243 (417)
-..+..||+||+..-.+
T Consensus 123 ~e~l~~Lk~aG~~~v~i 139 (296)
T TIGR00433 123 PEQAKRLKDAGLDYYNH 139 (296)
T ss_pred HHHHHHHHHcCCCEEEE
Confidence 45567789999754443
No 388
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=27.23 E-value=23 Score=40.50 Aligned_cols=38 Identities=32% Similarity=0.630 Sum_probs=31.2
Q ss_pred chhhccCccCCCCCeecccCCCCCCChHHHHHHHHHhhhhhHH
Q 014872 143 DILERRGVAVPNDPYICGVCGRKCKTNLDLKKHFKQLHERERQ 185 (417)
Q Consensus 143 d~lE~~G~v~p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~ 185 (417)
+.-|+.| -.||.|..|-+-|++..+|.-|- .||--|..
T Consensus 913 HKYEHsG----qRPyqC~iCkKAFKHKHHLtEHk-RLHSGEKP 950 (1007)
T KOG3623|consen 913 HKYEHSG----QRPYQCIICKKAFKHKHHLTEHK-RLHSGEKP 950 (1007)
T ss_pred hhhhhcC----CCCcccchhhHhhhhhhhhhhhh-hhccCCCc
Confidence 3445555 48999999999999999999994 58988875
No 389
>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=27.12 E-value=69 Score=28.78 Aligned_cols=79 Identities=22% Similarity=0.254 Sum_probs=43.8
Q ss_pred hcCCCCC-CCchHHHHhcceEEEEeCCCc--------hhHHHHHHHHHHHhhh-CCcceE--EEEe-----CCcch----
Q 014872 220 LLKPKVG-YGLGSELRRAGVFVKTVRDKP--------QAADWALKRQMQHSMS-SGVDWM--FLVS-----DDNDF---- 278 (417)
Q Consensus 220 vL~PKvG-YGLA~ELkRAGV~VrtV~dKP--------qAAD~ALkrhm~~~m~-rgv~cL--vLVS-----DDsdF---- 278 (417)
.++|--| ..+-..|+..|+.+=.+++++ ++.-.+.+..+..+.. .|+. + +.+| ++...
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 4455555 566778888899888888874 2322233334444443 5555 3 3444 44211
Q ss_pred HHHHH-HHHHcCC---cEEEEcCCC
Q 014872 279 KEMLR-KARDANL---GTVVVGDSN 299 (417)
Q Consensus 279 ~~~Lr-~AR~~~v---~TVVVGd~~ 299 (417)
.+++. .+++.++ .+++|||+.
T Consensus 106 ~~~~~~~~~~~~~~~~e~l~IGD~~ 130 (161)
T TIGR01261 106 IKLLEPYLKKNLIDKARSYVIGDRE 130 (161)
T ss_pred HHHHHHHHHHcCCCHHHeEEEeCCH
Confidence 23433 3444554 378999875
No 390
>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=27.05 E-value=32 Score=23.86 Aligned_cols=11 Identities=45% Similarity=1.162 Sum_probs=8.0
Q ss_pred eecccCCCCCC
Q 014872 157 YICGVCGRKCK 167 (417)
Q Consensus 157 Y~C~VCGRkf~ 167 (417)
|+|++||....
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 78888887543
No 391
>PLN03086 PRLI-interacting factor K; Provisional
Probab=26.91 E-value=44 Score=36.77 Aligned_cols=26 Identities=27% Similarity=0.654 Sum_probs=21.8
Q ss_pred CCCeecccCCCCCCChHHHHHHHHHhh
Q 014872 154 NDPYICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 154 ~~PY~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
+.++.|+.||..|. ...|.+|.+.-|
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H 476 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH 476 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC
Confidence 46789999999995 678999988765
No 392
>PRK06947 glucose-1-dehydrogenase; Provisional
Probab=26.87 E-value=2.3e+02 Score=25.32 Aligned_cols=59 Identities=12% Similarity=0.068 Sum_probs=34.8
Q ss_pred CCCCCchHHHHhcceEEEEe-CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHH
Q 014872 224 KVGYGLGSELRRAGVFVKTV-RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKAR 286 (417)
Q Consensus 224 KvGYGLA~ELkRAGV~VrtV-~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR 286 (417)
-+|+.++..|-++|..|-.+ ...++.++ ++..++.. .+..+..+..|-++...+.....
T Consensus 13 giG~~la~~l~~~g~~v~~~~~~~~~~~~-~~~~~~~~---~~~~~~~~~~Dl~~~~~~~~~~~ 72 (248)
T PRK06947 13 GIGRATAVLAAARGWSVGINYARDAAAAE-ETADAVRA---AGGRACVVAGDVANEADVIAMFD 72 (248)
T ss_pred cHHHHHHHHHHHCCCEEEEEeCCCHHHHH-HHHHHHHh---cCCcEEEEEeccCCHHHHHHHHH
Confidence 45788999999999988654 33333332 34444422 34456666666666655544433
No 393
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=26.76 E-value=6e+02 Score=24.73 Aligned_cols=82 Identities=15% Similarity=0.076 Sum_probs=48.1
Q ss_pred CchHHHHhcceEEEEe-----CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCCcc
Q 014872 228 GLGSELRRAGVFVKTV-----RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNRGL 302 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV-----~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~~L 302 (417)
.+.+-.+|.|+.+..+ ...|.+++.+ +=+..+-..+|.||+.-+.-+. .-+=..|++.|++.+++.--....
T Consensus 188 af~Yl~~~~gl~~~~~~~~~~~~eps~~~l~--~l~~~ik~~~v~~If~e~~~~~-~~~~~ia~~~g~~v~~l~~l~~~~ 264 (286)
T cd01019 188 AYGYFEKRYGLTQAGVFTIDPEIDPGAKRLA--KIRKEIKEKGATCVFAEPQFHP-KIAETLAEGTGAKVGELDPLGGLI 264 (286)
T ss_pred cHHHHHHHcCCceeeeecCCCCCCCCHHHHH--HHHHHHHHcCCcEEEecCCCCh-HHHHHHHHhcCceEEEeccccccc
Confidence 4567788889887643 3455566543 3223334689999987555322 344445888998777665433333
Q ss_pred ccccccccch
Q 014872 303 GQHADLWVPW 312 (417)
Q Consensus 303 ~R~ADl~fSW 312 (417)
+..++-|++|
T Consensus 265 ~~~~~~Y~~~ 274 (286)
T cd01019 265 ELGKNSYVNF 274 (286)
T ss_pred ccchhhHHHH
Confidence 3334455554
No 394
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=26.72 E-value=71 Score=33.95 Aligned_cols=91 Identities=25% Similarity=0.369 Sum_probs=54.0
Q ss_pred hhhhhHHHHHhh--------------hhccccchhHHHHHHhhccchHHHHHHHhhcCCCCCCCchHHHHhcceEEEEeC
Q 014872 179 LHERERQKKLNR--------------MKSLKGKKRQKYKERYISGNDKYNEAARSLLKPKVGYGLGSELRRAGVFVKTVR 244 (417)
Q Consensus 179 LHERER~KRLnr--------------L~S~KGkrR~rl~~~~a~k~~KY~~AArevL~PKvGYGLA~ELkRAGV~VrtV~ 244 (417)
+|+|.|.-+++- +--+--..||.+..++..-+.-|+.- -+-|-|.- +.||+|
T Consensus 237 ~~~r~rLPK~~y~lls~s~ik~KLse~GLst~G~kQ~likRh~~~v~lyNsn-cD~l~Pvs----~ael~r--------- 302 (442)
T KOG0287|consen 237 VHKRKRLPKTVYNLLSDSDIKKKLSEHGLSTQGNKQQLIKRHQEFVHLYNSN-CDALHPVS----AAELVR--------- 302 (442)
T ss_pred HhhcccCchhhHhhccHHHHHHHHHHcCCCCcchHHHHHHHHHHHHHHHhcc-ccccCCcC----HHHHHH---------
Confidence 777777555442 22233344667777777667777765 34455542 344443
Q ss_pred CCchhHHHHHHHHHHHhhhCCcceEEEEeCC------------------cchHHHHHHHHH
Q 014872 245 DKPQAADWALKRQMQHSMSSGVDWMFLVSDD------------------NDFKEMLRKARD 287 (417)
Q Consensus 245 dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD------------------sdF~~~Lr~AR~ 287 (417)
|--+|- +-||.--.+.|++-+++.-.| +||+.+++.|+.
T Consensus 303 ---ql~~we-~t~~k~~~~~g~ek~mv~~~d~~~~~~~~i~~~w~k~~~~dFa~LI~~Ak~ 359 (442)
T KOG0287|consen 303 ---QLENWE-KTRMKLEASKGNEKVMVFTKDQTEKEIDEIHSKWRKKHKSDFALLIDQAKK 359 (442)
T ss_pred ---HHHHHH-HHhhccccccCceeeEeecCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 111221 122333335889998888777 899999999987
No 395
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=26.72 E-value=1.6e+02 Score=23.17 Aligned_cols=49 Identities=12% Similarity=0.260 Sum_probs=36.3
Q ss_pred hHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 230 GSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 230 A~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
-..|+.+|+.+++++--++.. .++| ++|-.+..|...++...++.|+..
T Consensus 18 ek~lk~~gi~~~liP~P~~i~-----------~~CG---~al~~~~~d~~~i~~~l~~~~i~~ 66 (73)
T PF11823_consen 18 EKLLKKNGIPVRLIPTPREIS-----------AGCG---LALRFEPEDLEKIKEILEENGIEY 66 (73)
T ss_pred HHHHHHCCCcEEEeCCChhcc-----------CCCC---EEEEEChhhHHHHHHHHHHCCCCe
Confidence 347999999999995443322 4566 556667789999999999998653
No 396
>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=26.69 E-value=1.2e+02 Score=29.84 Aligned_cols=62 Identities=15% Similarity=0.162 Sum_probs=42.5
Q ss_pred CchHHHHhcceEEEEeCC-CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcE
Q 014872 228 GLGSELRRAGVFVKTVRD-KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 228 GLA~ELkRAGV~VrtV~d-KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
|++..|++.|+.|....- .+...| +...+..+- .+++.|++.+...+...+++.|++.|+..
T Consensus 167 ~~~~~~~~~gi~v~~~~~~~~~~~d--~~~~l~~ik-~~~~vIi~~~~~~~~~~i~~qa~~~g~~~ 229 (399)
T cd06384 167 GVFLALQEENANVSAHPYHIEKNSD--IIEIIQFIK-QNGRIVYICGPLETFLEIMLQAQREGLTP 229 (399)
T ss_pred HHHHHHHhcCceEEEEEEeccchhh--HHHHHHHHh-hcccEEEEeCCchHHHHHHHHHHHcCCCC
Confidence 566777888877764321 222332 333333333 37888888899999999999999999866
No 397
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=26.67 E-value=14 Score=31.93 Aligned_cols=12 Identities=33% Similarity=0.921 Sum_probs=9.5
Q ss_pred CCCeecccCCCC
Q 014872 154 NDPYICGVCGRK 165 (417)
Q Consensus 154 ~~PY~C~VCGRk 165 (417)
-++|.||+||++
T Consensus 33 ~~~~~Cp~C~~~ 44 (89)
T COG1997 33 RAKHVCPFCGRT 44 (89)
T ss_pred hcCCcCCCCCCc
Confidence 467899999884
No 398
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=26.58 E-value=1.5e+02 Score=29.36 Aligned_cols=27 Identities=15% Similarity=0.168 Sum_probs=13.1
Q ss_pred CcceEEEEeCCcchHHHHHHHHHcCCc
Q 014872 265 GVDWMFLVSDDNDFKEMLRKARDANLG 291 (417)
Q Consensus 265 gv~cLvLVSDDsdF~~~Lr~AR~~~v~ 291 (417)
+.|.||-...|=-..+++-..-+.+..
T Consensus 58 ~~D~via~GGDGTv~evingl~~~~~~ 84 (301)
T COG1597 58 GYDTVIAAGGDGTVNEVANGLAGTDDP 84 (301)
T ss_pred CCCEEEEecCcchHHHHHHHHhcCCCC
Confidence 455555555554444444444444444
No 399
>PF14353 CpXC: CpXC protein
Probab=26.47 E-value=30 Score=29.64 Aligned_cols=18 Identities=28% Similarity=0.711 Sum_probs=14.2
Q ss_pred CeecccCCCCCCChHHHH
Q 014872 156 PYICGVCGRKCKTNLDLK 173 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~ 173 (417)
-|.||.||.+|+-...+.
T Consensus 38 ~~~CP~Cg~~~~~~~p~l 55 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLL 55 (128)
T ss_pred EEECCCCCCceecCCCEE
Confidence 589999999988655554
No 400
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=26.47 E-value=67 Score=31.80 Aligned_cols=41 Identities=12% Similarity=0.096 Sum_probs=28.9
Q ss_pred ceEEEEeCC---cchHHHHHHHHHcCCcEEEEcCCCCcccccccc
Q 014872 267 DWMFLVSDD---NDFKEMLRKARDANLGTVVVGDSNRGLGQHADL 308 (417)
Q Consensus 267 ~cLvLVSDD---sdF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl 308 (417)
+++|.+|.+ .+-..+++.|+++|.++|+|++ .+.|.+.||.
T Consensus 80 dlvI~iS~SG~T~e~~~a~~~a~~~ga~vIaIT~-~~~L~~~a~~ 123 (337)
T PRK08674 80 TLVIAVSYSGNTEETLSAVEQALKRGAKIIAITS-GGKLKEMAKE 123 (337)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHCCCeEEEECC-CchHHHHHHh
Confidence 556666654 3455778889999999998886 4457776664
No 401
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase (isomerizing). The member from Methanococcus jannaschii contains an intein.
Probab=26.35 E-value=87 Score=33.45 Aligned_cols=45 Identities=18% Similarity=0.163 Sum_probs=35.9
Q ss_pred ceEEEEeC---CcchHHHHHHHHHcCCcEEEEcCC-CCccccccccccc
Q 014872 267 DWMFLVSD---DNDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVP 311 (417)
Q Consensus 267 ~cLvLVSD---DsdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fS 311 (417)
+.+|.+|- ..+-..+++.||++|+.||.|.+. ++.|.+.||..+.
T Consensus 340 dlvI~iS~SG~T~e~v~a~~~ak~~ga~~IaIT~~~~S~La~~ad~~l~ 388 (607)
T TIGR01135 340 TLVIAISQSGETADTLAALRLAKELGAKTLGICNVPGSTLVRESDHTLY 388 (607)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCChHHhhcCceEE
Confidence 55666664 346778899999999999999985 5789999997665
No 402
>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=26.34 E-value=2.4e+02 Score=25.82 Aligned_cols=70 Identities=9% Similarity=0.020 Sum_probs=40.1
Q ss_pred HHHHhhhCCc-ceEEEEeCCcchHHHHHHHHHcCCc--EEEEcCCCC--cccc----ccccccchhhhhcCcccccccc
Q 014872 257 QMQHSMSSGV-DWMFLVSDDNDFKEMLRKARDANLG--TVVVGDSNR--GLGQ----HADLWVPWIEVENGELTERDLV 326 (417)
Q Consensus 257 hm~~~m~rgv-~cLvLVSDDsdF~~~Lr~AR~~~v~--TVVVGd~~~--~L~R----~ADl~fSW~eV~~Gk~~~~~~~ 326 (417)
.+..++..+. -..|+.+.|.--.++++.++++|++ -.|||-.+. .+.. ..++.+.|.--+.|...-+++.
T Consensus 180 ~~~~~l~~~~~~~ai~~~nd~~A~g~l~al~~~G~~~dv~vvg~d~~~~~~~~~~~g~~~~tv~~~~~~~g~~~~~~~~ 258 (280)
T cd06303 180 ATSDILSNNPDVDFIYACSTDIALGASDALKELGREDDILINGWGGGSAELDAIQQGELDVTVMRMNDDTGVAMAEAIK 258 (280)
T ss_pred HHHHHHHhCCCCcEEEECCcHHHHHHHHHHHHcCCCCCcEEEecCCCHHHHHHHHcCCceEEEecCchHhHHHHHHHHH
Confidence 4555555443 2356677777777999999999985 355555331 1122 2234455555555555544443
No 403
>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=26.30 E-value=2.4e+02 Score=25.45 Aligned_cols=65 Identities=20% Similarity=0.268 Sum_probs=41.6
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEE----EeCCcchHHHHHHHHHcCCcE--EEEcCC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFL----VSDDNDFKEMLRKARDANLGT--VVVGDS 298 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvL----VSDDsdF~~~Lr~AR~~~v~T--VVVGd~ 298 (417)
++..|+.+||.|--. ..-+.++.-++.- ...+++-|.| .+--..+..+++..|++|++. |+||..
T Consensus 21 v~~~l~~~GfeVi~L-G~~v~~e~~v~aa----~~~~adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivGG~ 91 (134)
T TIGR01501 21 LDHAFTNAGFNVVNL-GVLSPQEEFIKAA----IETKADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVGGN 91 (134)
T ss_pred HHHHHHHCCCEEEEC-CCCCCHHHHHHHH----HHcCCCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEecCC
Confidence 367899999999866 4555555444442 3345554432 233445888899999999844 556663
No 404
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=25.83 E-value=27 Score=31.96 Aligned_cols=29 Identities=24% Similarity=0.498 Sum_probs=19.9
Q ss_pred CCCCeeccc----CCCCCCChHHHHHHHHHhhhh
Q 014872 153 PNDPYICGV----CGRKCKTNLDLKKHFKQLHER 182 (417)
Q Consensus 153 p~~PY~C~V----CGRkf~T~~kL~kHFKQLHER 182 (417)
+..||.||. |+- -.....|..||..-|..
T Consensus 41 ~~~p~~CP~~~~~C~~-~G~~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 41 PFRPCSCPFPGSGCDW-QGSYKELLDHLRDKHSW 73 (198)
T ss_dssp TTSEEE-SSSSTT----EEECCCHHHHHHHHTTT
T ss_pred CCcCCcCCCCCCCccc-cCCHHHHHHHHHHHCCC
Confidence 568999999 543 22566899999999954
No 405
>PRK10725 fructose-1-P/6-phosphogluconate phosphatase; Provisional
Probab=25.81 E-value=1.8e+02 Score=25.17 Aligned_cols=29 Identities=24% Similarity=0.422 Sum_probs=17.6
Q ss_pred EEEeeCCCCCCCC-CchHHHHHHHHHHHHcCc
Q 014872 82 VVLWDLDNKPPRG-PPYDAAMSLRRVAERFGE 112 (417)
Q Consensus 82 ~VlWDLDNKPP~~-pPY~AA~rLr~~As~FG~ 112 (417)
.|+||+|.-==.+ +.+.. .+..++..+|.
T Consensus 7 ~viFD~DGTLiDs~~~~~~--a~~~~~~~~g~ 36 (188)
T PRK10725 7 GLIFDMDGTILDTEPTHRK--AWREVLGRYGL 36 (188)
T ss_pred EEEEcCCCcCccCHHHHHH--HHHHHHHHcCC
Confidence 5899999653322 33333 34466677884
No 406
>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=25.74 E-value=81 Score=28.41 Aligned_cols=71 Identities=21% Similarity=0.267 Sum_probs=48.8
Q ss_pred chHHHHhcceEEEEeC---CCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc--hHHHHH-----HHHHcCCcEEEEcCC
Q 014872 229 LGSELRRAGVFVKTVR---DKPQAADWALKRQMQHSMSSGVDWMFLVSDDND--FKEMLR-----KARDANLGTVVVGDS 298 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~---dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd--F~~~Lr-----~AR~~~v~TVVVGd~ 298 (417)
|+..|++.|+.+-.++ -.|...+..|...+.++...+.++||..|-..- |...|+ ...-.+++-++||..
T Consensus 3 l~~~l~~~G~~~~~~P~i~~~~~~~~~~l~~~l~~l~~~~~d~viftS~~av~~~~~~l~~~~~~~~~~~~~~i~avG~~ 82 (231)
T PF02602_consen 3 LAALLRALGAEVIELPLIEIEPLPDLASLEAALEQLPPGNYDWVIFTSPNAVRAFFKALQSAGADLRLLKNIKIFAVGPK 82 (231)
T ss_dssp HHHHHHHTTEEEEEEESEEEEECCHHHHHHHHHHHHTGCCSSEEEESSHHHHHHHHHHHHHTTHHHHHHHHSEEEESSHH
T ss_pred HHHHHHHCCCcEEEECCEEEEeCCCHHHHHHHHHhcccCCCCEEEEECHHHHHHHHHHHhhhhhhhhhccCCeEEEEcHH
Confidence 6889999999987443 244455556777777777789999999997653 334443 222346677888885
Q ss_pred C
Q 014872 299 N 299 (417)
Q Consensus 299 ~ 299 (417)
.
T Consensus 83 T 83 (231)
T PF02602_consen 83 T 83 (231)
T ss_dssp H
T ss_pred H
Confidence 4
No 407
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=25.45 E-value=2.8e+02 Score=24.44 Aligned_cols=65 Identities=14% Similarity=0.081 Sum_probs=0.0
Q ss_pred HHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCc-----chHHHHHHHHHcCCc---EEEEcCC
Q 014872 231 SELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDN-----DFKEMLRKARDANLG---TVVVGDS 298 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDs-----dF~~~Lr~AR~~~v~---TVVVGd~ 298 (417)
..|++.|+.+-.+++.+... +...+.+.--...=-.|+.|++. +=.-....+++.|+. +++|||+
T Consensus 102 ~~L~~~g~~~~i~Sn~~~~~---~~~~l~~~gl~~~fd~i~~s~~~~~~KP~~~~~~~~~~~~~~~p~~~~~vgD~ 174 (198)
T TIGR01428 102 RALKERGYRLAILSNGSPAM---LKSLVKHAGLDDPFDAVLSADAVRAYKPAPQVYQLALEALGVPPDEVLFVASN 174 (198)
T ss_pred HHHHHCCCeEEEEeCCCHHH---HHHHHHHCCChhhhheeEehhhcCCCCCCHHHHHHHHHHhCCChhhEEEEeCC
No 408
>cd02757 MopB_Arsenate-R This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=25.32 E-value=94 Score=32.74 Aligned_cols=48 Identities=17% Similarity=0.312 Sum_probs=36.3
Q ss_pred CCcceEEEEeCCcc-------hHHHHHHHHHcCCcEEEEcCCCCccccccccccc
Q 014872 264 SGVDWMFLVSDDND-------FKEMLRKARDANLGTVVVGDSNRGLGQHADLWVP 311 (417)
Q Consensus 264 rgv~cLvLVSDDsd-------F~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fS 311 (417)
...++||++.-|.- +..-+..|+++|.+-|||.-........||.|++
T Consensus 161 ~~a~~Il~~G~n~~~t~~~~~~~~~~~~a~~~gakliviDPr~s~ta~~AD~~l~ 215 (523)
T cd02757 161 ANAKYILFFGADPLESNRQNPHAQRIWGGKMDQAKVVVVDPRLSNTAAKADEWLP 215 (523)
T ss_pred hcCcEEEEECCChHHhCCCcHHHHHHHHHHHCCCEEEEECCCCChhhHhcCEeeC
Confidence 56889999985532 2234556788999999998776677788999995
No 409
>COG5200 LUC7 U1 snRNP component, mediates U1 snRNP association with cap-binding complex [RNA processing and modification]
Probab=25.19 E-value=37 Score=33.90 Aligned_cols=48 Identities=29% Similarity=0.605 Sum_probs=33.5
Q ss_pred HHHHHHHhhh--hcchhhccCccCCCCCeecccCCCC---CCChHHHHHHHHH
Q 014872 131 WVIQERRERK--QFDILERRGVAVPNDPYICGVCGRK---CKTNLDLKKHFKQ 178 (417)
Q Consensus 131 ~vre~Rkerk--~ld~lE~~G~v~p~~PY~C~VCGRk---f~T~~kL~kHFKQ 178 (417)
.++++|+|-+ .+...|..|.-+-.+--+|++||-- .-|--+|-.||--
T Consensus 158 rl~~~rkei~~~v~sm~en~gq~thqklqvC~iCgayLsrlDtdrrladHf~G 210 (258)
T COG5200 158 RLREERKEIKEAVYSMVENNGQGTHQKLQVCGICGAYLSRLDTDRRLADHFNG 210 (258)
T ss_pred HHHHHHHHHHHHHHHHhhCcchhhhhhhhhhhhhhhHHHhcchhhHHHHHhcc
Confidence 5677777765 4445777776655566799999974 4466778888853
No 410
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=25.18 E-value=3.4e+02 Score=25.82 Aligned_cols=67 Identities=6% Similarity=0.023 Sum_probs=39.7
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCc-EEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLG-TVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~-TVVVGd 297 (417)
.|+..++++.|+.+-......+.. .....+..++..+++-|++++.+.+- +.+....+ ++- .|+++.
T Consensus 79 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiIi~~~~~~~-~~~~~~~~-~~p~vV~i~~ 146 (343)
T PRK10727 79 KAVEQVAYHTGNFLLIGNGYHNEQ--KERQAIEQLIRHRCAALVVHAKMIPD-AELASLMK-QIPGMVLINR 146 (343)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHHhcCCCEEEEecCCCCh-HHHHHHHh-cCCCEEEEec
Confidence 467788888998886553222221 11233455678899999998753332 23333333 566 677875
No 411
>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=25.16 E-value=9e+02 Score=26.22 Aligned_cols=105 Identities=15% Similarity=0.187 Sum_probs=61.2
Q ss_pred HHhhccchHHHHHHHhhcC--CCCC-------CCchHHHHhcceEEEEe-----CCCchhHHHHHHHHHHHhhhCCcceE
Q 014872 204 ERYISGNDKYNEAARSLLK--PKVG-------YGLGSELRRAGVFVKTV-----RDKPQAADWALKRQMQHSMSSGVDWM 269 (417)
Q Consensus 204 ~~~a~k~~KY~~AArevL~--PKvG-------YGLA~ELkRAGV~VrtV-----~dKPqAAD~ALkrhm~~~m~rgv~cL 269 (417)
++|..+..+..+..++.+. |+.+ ..+.+-+++.|+.+..+ ...|.++|. ++=+..+-..+|.||
T Consensus 347 ~ay~~eL~~Ld~~~~~~la~ip~k~r~vvt~H~af~YLa~~YGL~~~~~~~~~~~~ePS~~~L--~~Li~~IK~~~V~~I 424 (479)
T TIGR03772 347 SAYIHRLERLDTYVRRTIATIPPSRRHLITTHDAYSYLGQAYGLNIAGFVTPNPAVEPSLADR--RRLTRTIENLKVPAV 424 (479)
T ss_pred HHHHHHHHHHHHHHHHHhhhccccCCEEEEECCcHHHHHHHCCCeEEeeeccCCCCCCCHHHH--HHHHHHHHHcCCCEE
Confidence 4444455444454444444 3222 56777888888887753 334566643 333333456999999
Q ss_pred EEEeCCc-chHHHHHHHHHcCCcEEEE-cCCCCccccccccccchh
Q 014872 270 FLVSDDN-DFKEMLRKARDANLGTVVV-GDSNRGLGQHADLWVPWI 313 (417)
Q Consensus 270 vLVSDDs-dF~~~Lr~AR~~~v~TVVV-Gd~~~~L~R~ADl~fSW~ 313 (417)
+.=+--+ .-..+-..|++.|++.+.+ |+ .|...++-|+.|-
T Consensus 425 F~Epq~~~~~~~l~~IA~e~Gv~V~~l~~d---~l~~~~~tY~~~M 467 (479)
T TIGR03772 425 FLEPNLAARSTTLNEIADELGVRVCAIYGD---TFDDDVTNYVDLM 467 (479)
T ss_pred EEeCCCCCchHHHHHHHHHcCCcEEeeecC---CCCCccccHHHHH
Confidence 8855443 3234667899999987665 34 2433445455543
No 412
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=25.16 E-value=94 Score=34.29 Aligned_cols=46 Identities=17% Similarity=0.138 Sum_probs=37.5
Q ss_pred cceEEEEeC---CcchHHHHHHHHHcCCcEEEEcCC-CCccccccccccc
Q 014872 266 VDWMFLVSD---DNDFKEMLRKARDANLGTVVVGDS-NRGLGQHADLWVP 311 (417)
Q Consensus 266 v~cLvLVSD---DsdF~~~Lr~AR~~~v~TVVVGd~-~~~L~R~ADl~fS 311 (417)
-+++|+||- ..+-..+++.||++|.+||.|... ++.|.+.||.-+.
T Consensus 411 ~~lvI~ISqSGeT~eti~Al~~Ak~~Ga~~IaITn~~~S~La~~ad~~i~ 460 (680)
T PLN02981 411 EDTAVFVSQSGETADTLRALEYAKENGALCVGITNTVGSAISRGTHCGVH 460 (680)
T ss_pred CCeEEEEeCCcCCHHHHHHHHHHHHCCCcEEEEECCCCChhHhccCeeEE
Confidence 467888985 457788999999999999999875 5799999997543
No 413
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, 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), 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=25.00 E-value=36 Score=24.00 Aligned_cols=12 Identities=33% Similarity=0.910 Sum_probs=8.8
Q ss_pred CeecccCCCCCC
Q 014872 156 PYICGVCGRKCK 167 (417)
Q Consensus 156 PY~C~VCGRkf~ 167 (417)
-|+|++||.-+.
T Consensus 2 ~~~C~~CG~i~~ 13 (34)
T cd00729 2 VWVCPVCGYIHE 13 (34)
T ss_pred eEECCCCCCEeE
Confidence 378999997543
No 414
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=24.93 E-value=55 Score=31.65 Aligned_cols=14 Identities=36% Similarity=0.681 Sum_probs=8.9
Q ss_pred ccCCccccCeEEee
Q 014872 384 FSEGEEEEDYWVTE 397 (417)
Q Consensus 384 f~~~~~~~d~~~~~ 397 (417)
|.|+++|+||....
T Consensus 35 f~Eee~D~ef~~~~ 48 (240)
T PF05764_consen 35 FQEEEDDEEFESEE 48 (240)
T ss_pred ccccCCCccccCCC
Confidence 66666666666554
No 415
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=24.86 E-value=2.5e+02 Score=30.62 Aligned_cols=71 Identities=20% Similarity=0.313 Sum_probs=45.6
Q ss_pred HHHHhcceEEEEeCCCchhH-----HHHHHHHHHHhhh-CCcceEEEEeCCcch-----HHHHHHHHH-cC----C---c
Q 014872 231 SELRRAGVFVKTVRDKPQAA-----DWALKRQMQHSMS-SGVDWMFLVSDDNDF-----KEMLRKARD-AN----L---G 291 (417)
Q Consensus 231 ~ELkRAGV~VrtV~dKPqAA-----D~ALkrhm~~~m~-rgv~cLvLVSDDsdF-----~~~Lr~AR~-~~----v---~ 291 (417)
..|+.+|+.+-.+++++.-+ -..++.+|..++. .|+.--+.++-+.+. .+|+..+-+ .+ + +
T Consensus 207 ~~L~~~Gy~IvIvTNQ~gI~~G~~~~~~~~~ki~~iL~~lgipfdviia~~~~~~RKP~pGm~~~a~~~~~~~~~Id~~~ 286 (526)
T TIGR01663 207 KELEADGFKICIFTNQGGIARGKINADDFKAKIEAIVAKLGVPFQVFIAIGAGFYRKPLTGMWDHLKEEANDGTEIQEDD 286 (526)
T ss_pred HHHHHCCCEEEEEECCcccccCcccHHHHHHHHHHHHHHcCCceEEEEeCCCCCCCCCCHHHHHHHHHhcCcccCCCHHH
Confidence 56788999999999988821 1235556666664 566544555554432 466665544 43 3 5
Q ss_pred EEEEcCCCCc
Q 014872 292 TVVVGDSNRG 301 (417)
Q Consensus 292 TVVVGd~~~~ 301 (417)
+++|||..+.
T Consensus 287 S~~VGDaagr 296 (526)
T TIGR01663 287 CFFVGDAAGR 296 (526)
T ss_pred eEEeCCcccc
Confidence 7999997654
No 416
>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=24.86 E-value=3.8e+02 Score=21.83 Aligned_cols=45 Identities=20% Similarity=0.307 Sum_probs=32.5
Q ss_pred CCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 014872 245 DKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVV 295 (417)
Q Consensus 245 dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVV 295 (417)
.||... +-+++..-++...+.+++|.|+. .=+..|+++|++||-|
T Consensus 132 ~Kp~~~---~~~~~~~~~~~~p~~~~~vgD~~---~d~~~A~~~G~~~i~v 176 (176)
T PF13419_consen 132 RKPDPD---AYRRALEKLGIPPEEILFVGDSP---SDVEAAKEAGIKTIWV 176 (176)
T ss_dssp STTSHH---HHHHHHHHHTSSGGGEEEEESSH---HHHHHHHHTTSEEEEE
T ss_pred hhhHHH---HHHHHHHHcCCCcceEEEEeCCH---HHHHHHHHcCCeEEeC
Confidence 355444 44555555577778888888876 5578999999999876
No 417
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=24.46 E-value=1.6e+02 Score=27.69 Aligned_cols=58 Identities=9% Similarity=0.115 Sum_probs=38.3
Q ss_pred CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 227 YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 227 YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.|+..+++..|+.+-+..+..+. ....+++-|+|++-++ .++++.+++.++..|+++.
T Consensus 87 ~~i~~~~~~~g~~~~~~~~~~~~-----------~~~~~vDgiI~~~~~~--~~~~~~l~~~~~pvV~~~~ 144 (327)
T PRK10339 87 HGIETQCEKLGIELTNCYEHSGL-----------PDIKNVTGILIVGKPT--PALRAAASALTDNICFIDF 144 (327)
T ss_pred HHHHHHHHHCCCEEEEeeccccc-----------cccccCCEEEEeCCCC--HHHHHHHHhcCCCEEEEeC
Confidence 35666777888877665332211 0147899998887533 3567777888888888865
No 418
>PRK11914 diacylglycerol kinase; Reviewed
Probab=24.45 E-value=1.6e+02 Score=28.51 Aligned_cols=104 Identities=16% Similarity=0.190 Sum_probs=60.2
Q ss_pred hcCCCCCCC--------chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCc
Q 014872 220 LLKPKVGYG--------LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLG 291 (417)
Q Consensus 220 vL~PKvGYG--------LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~ 291 (417)
++-|.-|-| +...|+++|+.+..+.-... .| ....+..+...+.+.||.+..|--..+++......++-
T Consensus 14 I~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t~~~-~~--~~~~a~~~~~~~~d~vvv~GGDGTi~evv~~l~~~~~~ 90 (306)
T PRK11914 14 LTNPLSGHGAAPHAAERAIARLHHRGVDVVEIVGTDA-HD--ARHLVAAALAKGTDALVVVGGDGVISNALQVLAGTDIP 90 (306)
T ss_pred EECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEeCCH-HH--HHHHHHHHHhcCCCEEEEECCchHHHHHhHHhccCCCc
Confidence 344666533 34478899988765433332 22 11222334568889999999999999988777554433
Q ss_pred EEEEcCCC-Cccccccccc-----cchhhhhcCcccccccc
Q 014872 292 TVVVGDSN-RGLGQHADLW-----VPWIEVENGELTERDLV 326 (417)
Q Consensus 292 TVVVGd~~-~~L~R~ADl~-----fSW~eV~~Gk~~~~~~~ 326 (417)
--+|-.+. -.+.|.-.+- -.++.+..|....-|+-
T Consensus 91 lgiiP~GT~NdfAr~lg~~~~~~~~a~~~i~~g~~~~iDlg 131 (306)
T PRK11914 91 LGIIPAGTGNDHAREFGIPTGDPEAAADVIVDGWTETVDLG 131 (306)
T ss_pred EEEEeCCCcchhHHHcCCCCCCHHHHHHHHHcCCceEEEEE
Confidence 33333322 2555543332 22355677877766653
No 419
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=24.34 E-value=1.5e+02 Score=25.60 Aligned_cols=70 Identities=17% Similarity=0.179 Sum_probs=42.0
Q ss_pred CchhHHHHHHHHHHHhh-------hCCcceEEEEeCCcch---------HHHHHHHH---HcCCcEEEEcCCCCcccccc
Q 014872 246 KPQAADWALKRQMQHSM-------SSGVDWMFLVSDDNDF---------KEMLRKAR---DANLGTVVVGDSNRGLGQHA 306 (417)
Q Consensus 246 KPqAAD~ALkrhm~~~m-------~rgv~cLvLVSDDsdF---------~~~Lr~AR---~~~v~TVVVGd~~~~L~R~A 306 (417)
.|.++|..+..|+..+. .|-+-+++++.+...- +..|+..- ..+...|+||= +|..+..-
T Consensus 17 aps~~d~~~~~q~~~L~~~~~~l~eRdi~v~~i~~~~~~~~~~~~~~~~~~~lr~~l~~~~~~f~~vLiGK-DG~vK~r~ 95 (118)
T PF13778_consen 17 APSADDPRYQQQLEELQNNRCGLDERDIVVIVITGDGARSPGKPLSPEDIQALRKRLRIPPGGFTVVLIGK-DGGVKLRW 95 (118)
T ss_pred CCCCCCHHHHHHHHHHHhhhhccccCceEEEEEeCCccccccCcCCHHHHHHHHHHhCCCCCceEEEEEeC-CCcEEEec
Confidence 35556655666654444 4557777776554422 22344333 34455688887 77787777
Q ss_pred ccccchhhhh
Q 014872 307 DLWVPWIEVE 316 (417)
Q Consensus 307 Dl~fSW~eV~ 316 (417)
+.-++|+++-
T Consensus 96 ~~p~~~~~lf 105 (118)
T PF13778_consen 96 PEPIDPEELF 105 (118)
T ss_pred CCCCCHHHHH
Confidence 8888888874
No 420
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=24.33 E-value=45 Score=22.62 Aligned_cols=15 Identities=27% Similarity=0.740 Sum_probs=11.5
Q ss_pred CCCCeecccCCCCCC
Q 014872 153 PNDPYICGVCGRKCK 167 (417)
Q Consensus 153 p~~PY~C~VCGRkf~ 167 (417)
|..--.|+.||..|.
T Consensus 11 ~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 11 PESAKFCPHCGYDFE 25 (26)
T ss_pred hhhcCcCCCCCCCCc
Confidence 445568999999885
No 421
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=24.26 E-value=30 Score=29.87 Aligned_cols=13 Identities=38% Similarity=0.795 Sum_probs=11.2
Q ss_pred CCeecccCCCCCC
Q 014872 155 DPYICGVCGRKCK 167 (417)
Q Consensus 155 ~PY~C~VCGRkf~ 167 (417)
.|++|+.||.-|+
T Consensus 78 ~~~rC~eCG~~fk 90 (97)
T cd00924 78 KPKRCPECGHVFK 90 (97)
T ss_pred CceeCCCCCcEEE
Confidence 6899999998664
No 422
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=24.25 E-value=4.6e+02 Score=26.88 Aligned_cols=108 Identities=17% Similarity=0.226 Sum_probs=0.0
Q ss_pred cccchhHHHHHHhhccchHHHHHHHhhcCCCCCCCchHHHHh----------cceEEEEeCCCchhHHHHHHHHHHHhhh
Q 014872 194 LKGKKRQKYKERYISGNDKYNEAARSLLKPKVGYGLGSELRR----------AGVFVKTVRDKPQAADWALKRQMQHSMS 263 (417)
Q Consensus 194 ~KGkrR~rl~~~~a~k~~KY~~AArevL~PKvGYGLA~ELkR----------AGV~VrtV~dKPqAAD~ALkrhm~~~m~ 263 (417)
..|.|=++|..+|...... .|.+|+.+.-+--- .-..|-.++....++ ..+-...+-.
T Consensus 294 ~~GGRYD~L~~~f~~~~~~---------~pAvGfa~~~~~l~~~l~~~~~~~~~~dvlI~~~~~~~~---a~~ia~~Lr~ 361 (423)
T PRK12420 294 GSGGRYDNIIGAFRGDDMN---------YPTVGISFGLDVIYTALSQKETISSTADVFIIPLGTELQ---CLQIAQQLRS 361 (423)
T ss_pred cCCccHHHHHHHhCCCCCC---------CCceeEEEcHHHHHHHHHhcCCCCCCceEEEEEcCCHHH---HHHHHHHHHh
Q ss_pred -CCcceEEEEeCCcchHHHHHHHHHcCC-cEEEEcCCCCccccccccccchhhhhcCcccccccccCC
Q 014872 264 -SGVDWMFLVSDDNDFKEMLRKARDANL-GTVVVGDSNRGLGQHADLWVPWIEVENGELTERDLVPRT 329 (417)
Q Consensus 264 -rgv~cLvLVSDDsdF~~~Lr~AR~~~v-~TVVVGd~~~~L~R~ADl~fSW~eV~~Gk~~~~~~~~~~ 329 (417)
.|+.+-+-.+ +..+...++.|++.|+ ..|+||+ +|+++|.++=+++..+.
T Consensus 362 ~~Gi~ve~~~~-~~~l~~~i~~A~~~g~~~iviig~---------------~e~~~~~v~vr~~~~~~ 413 (423)
T PRK12420 362 TTGLKVELELA-GRKLKKALNYANKENIPYVLIIGE---------------EEVSTGTVMLRNMKEGS 413 (423)
T ss_pred hcCCeEEEecC-CcCHHHHHHHHHHcCCCEEEEECh---------------hHHhcCeEEEEECCCCc
No 423
>PRK05948 precorrin-2 methyltransferase; Provisional
Probab=24.20 E-value=1.9e+02 Score=27.97 Aligned_cols=86 Identities=14% Similarity=0.079 Sum_probs=48.9
Q ss_pred HhhcCCCCC----CCchHHHHhc------ceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHH
Q 014872 218 RSLLKPKVG----YGLGSELRRA------GVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARD 287 (417)
Q Consensus 218 revL~PKvG----YGLA~ELkRA------GV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~ 287 (417)
+.+..-+.| ||...+|.++ |+.|.+|++.+.++-.|-.-++ .+..+-+.|.+++...+...+ +.+..
T Consensus 93 ~~v~~l~~GDp~~ys~~~~l~~~l~~~~~~~~veivPGIss~~a~aa~~g~--pL~~~~e~l~ii~~~~~~~~l-~~~l~ 169 (238)
T PRK05948 93 EDVAFACEGDVSFYSTFTYLAQTLQELYPQVAIQTIPGVCSPLAAAAALGI--PLTLGSQRLAILPALYHLEEL-EQALT 169 (238)
T ss_pred CeEEEEeCCChHHHHHHHHHHHHHHhcCCCCCEEEECChhHHHHHHHHhCC--CeecCCCeEEEEcCCCCHHHH-HHHHh
Confidence 345556666 8888875554 9999999999986633333222 333445677777766554433 33322
Q ss_pred cCCcEEEEcCCCCccccccc
Q 014872 288 ANLGTVVVGDSNRGLGQHAD 307 (417)
Q Consensus 288 ~~v~TVVVGd~~~~L~R~AD 307 (417)
. -.|||+=...+.+.+.++
T Consensus 170 ~-~~~vVlmk~~~~~~~i~~ 188 (238)
T PRK05948 170 W-ADVVVLMKVSSVYPQVWQ 188 (238)
T ss_pred C-CCEEEEEECCccHHHHHH
Confidence 2 246655443333344433
No 424
>PF00958 GMP_synt_C: GMP synthase C terminal domain domain; InterPro: IPR001674 The amidotransferase family of enzymes utilises the ammonia derived from the hydrolysis of glutamine for a subsequent chemical reaction catalyzed by the same enzyme. The ammonia intermediate does not dissociate into solution during the chemical transformations []. GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. The C-terminal domain is specific to the GMP synthases 6.3.5.2 from EC. In prokaryotes this domain mediates dimerisation. Eukaryotic GMP synthases are monomers. This domain in eukaryotes includes several large insertions that may form globular domains [].; GO: 0003922 GMP synthase (glutamine-hydrolyzing) activity, 0005524 ATP binding, 0006164 purine nucleotide biosynthetic process, 0006177 GMP biosynthetic process; PDB: 2VXO_A 2YWC_D 2YWB_D 2DPL_B 3A4I_A 3UOW_B 3TQI_D 1GPM_C.
Probab=23.99 E-value=40 Score=29.09 Aligned_cols=22 Identities=27% Similarity=0.459 Sum_probs=11.7
Q ss_pred eeccCCCeEEEEeeCCCCCCCC
Q 014872 73 YTQKQNNKVVVLWDLDNKPPRG 94 (417)
Q Consensus 73 ~~~~~~~~V~VlWDLDNKPP~~ 94 (417)
++.+-+.=--|++||.+|||..
T Consensus 69 I~n~v~~V~RV~yDiT~KPP~T 90 (93)
T PF00958_consen 69 ITNEVPGVNRVVYDITSKPPAT 90 (93)
T ss_dssp HHHHSTTEEEEEEE---BTTS-
T ss_pred HHHcCCCccEEEEeccCCCCCC
Confidence 3333334457899999999964
No 425
>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=23.68 E-value=2.6e+02 Score=23.44 Aligned_cols=64 Identities=22% Similarity=0.141 Sum_probs=37.1
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhh-CCcceEEEEeCCc---chHHHHHHHHHcCC-cEEEEcCC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMS-SGVDWMFLVSDDN---DFKEMLRKARDANL-GTVVVGDS 298 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDs---dF~~~Lr~AR~~~v-~TVVVGd~ 298 (417)
+|+.|+++|+.|...... ..|..+.. +.. ...+.+.+=+=.. ....+++..|+++- -+||+|..
T Consensus 8 ~aa~l~~~g~~v~~~~~~--~~~~~~~~----~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p~~~iv~GG~ 76 (127)
T cd02068 8 LAAVLEDAGFIVAEHDVL--SADDIVED----IKELLKPDVVGISLMTSAIYEALELAKIAKEVLPNVIVVVGGP 76 (127)
T ss_pred HHHHHHHCCCeeeecCCC--CHHHHHHH----HHHhcCCCEEEEeeccccHHHHHHHHHHHHHHCCCCEEEECCc
Confidence 688999999998887543 33444443 222 5566554433333 33446677777764 34556653
No 426
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=23.66 E-value=47 Score=35.41 Aligned_cols=45 Identities=20% Similarity=0.451 Sum_probs=35.4
Q ss_pred CccCCCCCeecccCCCCCCChHHHHHHHHHhhhhhHHHHHhhhhc
Q 014872 149 GVAVPNDPYICGVCGRKCKTNLDLKKHFKQLHERERQKKLNRMKS 193 (417)
Q Consensus 149 G~v~p~~PY~C~VCGRkf~T~~kL~kHFKQLHERER~KRLnrL~S 193 (417)
.++.--.-|.|+.|.-.|.....|.+|++.-|-+.+.=|+..+.-
T Consensus 256 Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~ 300 (467)
T KOG3608|consen 256 HVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDT 300 (467)
T ss_pred HHHHhhhcccccccccCCCChHHHHHHHHhhhccCCCccccchhh
Confidence 333333459999999999999999999999999877766665543
No 427
>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=23.64 E-value=2.5e+02 Score=24.65 Aligned_cols=74 Identities=11% Similarity=0.076 Sum_probs=42.6
Q ss_pred chHHHHhcceEEEEeCCCchhH-HHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHH-HHHcCC---cEEEEcCCCCccc
Q 014872 229 LGSELRRAGVFVKTVRDKPQAA-DWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRK-ARDANL---GTVVVGDSNRGLG 303 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAA-D~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~-AR~~~v---~TVVVGd~~~~L~ 303 (417)
.-.+|+..|+.+-.++.+|... ...|+. .|+..++--. .+. ..++.. +.+.|+ .++.|||+..++.
T Consensus 36 ~i~~Lk~~G~~i~IvTn~~~~~~~~~l~~-------~gi~~~~~~~-~~k-~~~~~~~~~~~~~~~~~~~~vGDs~~D~~ 106 (154)
T TIGR01670 36 GIRCALKSGIEVAIITGRKAKLVEDRCKT-------LGITHLYQGQ-SNK-LIAFSDILEKLALAPENVAYIGDDLIDWP 106 (154)
T ss_pred HHHHHHHCCCEEEEEECCCCHHHHHHHHH-------cCCCEEEecc-cch-HHHHHHHHHHcCCCHHHEEEECCCHHHHH
Confidence 3678999999999999999742 222222 4554433222 222 444444 455554 4799999875553
Q ss_pred cccccccc
Q 014872 304 QHADLWVP 311 (417)
Q Consensus 304 R~ADl~fS 311 (417)
....+.++
T Consensus 107 ~~~~ag~~ 114 (154)
T TIGR01670 107 VMEKVGLS 114 (154)
T ss_pred HHHHCCCe
Confidence 33333344
No 428
>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=23.62 E-value=89 Score=24.19 Aligned_cols=24 Identities=25% Similarity=0.520 Sum_probs=20.4
Q ss_pred EEEEeCCcchHHHHHHHHHcCCcE
Q 014872 269 MFLVSDDNDFKEMLRKARDANLGT 292 (417)
Q Consensus 269 LvLVSDDsdF~~~Lr~AR~~~v~T 292 (417)
+|.++.|+|+..++..|++.+-++
T Consensus 53 ~V~i~sd~Dl~~a~~~~~~~~~~~ 76 (84)
T PF00564_consen 53 LVTISSDEDLQEAIEQAKESGSKT 76 (84)
T ss_dssp EEEESSHHHHHHHHHHHHHCTTSC
T ss_pred EEEeCCHHHHHHHHHHHHhcCCCc
Confidence 689999999999999999875443
No 429
>cd06556 ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), 2-methylisocitrate lyase (MICL), and ketopantoate hydroxymethyltransferase (KPHMT).
Probab=23.55 E-value=4.3e+02 Score=25.79 Aligned_cols=49 Identities=8% Similarity=0.095 Sum_probs=35.6
Q ss_pred hhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 248 QAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 248 qAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
...|.|++| ...+...|+++|++-+- +-..+-+.+++-.+-++.+|.+.
T Consensus 153 ~~~~~ai~R-a~ay~~AGAd~i~~e~~--~~e~~~~i~~~~~~P~~~~gag~ 201 (240)
T cd06556 153 EAGEQLIAD-ALAYAPAGADLIVMECV--PVELAKQITEALAIPLAGIGAGS 201 (240)
T ss_pred HHHHHHHHH-HHHHHHcCCCEEEEcCC--CHHHHHHHHHhCCCCEEEEecCc
Confidence 356666666 44556799999999766 66667777777788888887754
No 430
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=23.48 E-value=1.4e+02 Score=33.84 Aligned_cols=14 Identities=29% Similarity=0.622 Sum_probs=11.1
Q ss_pred eecccCCCCCCChH
Q 014872 157 YICGVCGRKCKTNL 170 (417)
Q Consensus 157 Y~C~VCGRkf~T~~ 170 (417)
-.|||||+.++...
T Consensus 458 ~~CPvCg~~l~~~~ 471 (908)
T COG0419 458 EKCPVCGQELPEEH 471 (908)
T ss_pred CCCCCCCCCCCcHH
Confidence 47999998777665
No 431
>PRK13222 phosphoglycolate phosphatase; Provisional
Probab=23.30 E-value=3.5e+02 Score=23.96 Aligned_cols=92 Identities=21% Similarity=0.202 Sum_probs=46.6
Q ss_pred HHHHHHhhcCCCCC-CCchHHHHhcceEEEEeCCCchh-HHHHHHHHHHHhhhCCcceEEEEeCC-----cchHHHHHHH
Q 014872 213 YNEAARSLLKPKVG-YGLGSELRRAGVFVKTVRDKPQA-ADWALKRQMQHSMSSGVDWMFLVSDD-----NDFKEMLRKA 285 (417)
Q Consensus 213 Y~~AArevL~PKvG-YGLA~ELkRAGV~VrtV~dKPqA-AD~ALkrhm~~~m~rgv~cLvLVSDD-----sdF~~~Lr~A 285 (417)
|.........|--| ..+-..|+..|+.+-.+++.+.. ++..|+++= +..-.+. ++-+++ ++-..+.+.+
T Consensus 84 ~~~~~~~~~~~~~g~~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~---l~~~f~~-~~~~~~~~~~kp~~~~~~~~~ 159 (226)
T PRK13222 84 YAENVAGGSRLYPGVKETLAALKAAGYPLAVVTNKPTPFVAPLLEALG---IADYFSV-VIGGDSLPNKKPDPAPLLLAC 159 (226)
T ss_pred HHHhccccCccCCCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcC---CccCccE-EEcCCCCCCCCcChHHHHHHH
Confidence 44333333344444 55667778889888888888753 333333320 1111232 222222 1223345555
Q ss_pred HHcCC---cEEEEcCCCCcc--cccccc
Q 014872 286 RDANL---GTVVVGDSNRGL--GQHADL 308 (417)
Q Consensus 286 R~~~v---~TVVVGd~~~~L--~R~ADl 308 (417)
++.++ ++++|||+..++ .+.|.+
T Consensus 160 ~~~~~~~~~~i~igD~~~Di~~a~~~g~ 187 (226)
T PRK13222 160 EKLGLDPEEMLFVGDSRNDIQAARAAGC 187 (226)
T ss_pred HHcCCChhheEEECCCHHHHHHHHHCCC
Confidence 66666 478899975444 444443
No 432
>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=23.19 E-value=1.3e+02 Score=25.25 Aligned_cols=34 Identities=9% Similarity=0.135 Sum_probs=30.4
Q ss_pred ceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCC
Q 014872 267 DWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNR 300 (417)
Q Consensus 267 ~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~ 300 (417)
.++|-..+-.+...+++.|++.+++-.+.|.+.+
T Consensus 2 ~~vv~P~s~~ev~~~v~~a~~~~~~v~~~g~G~~ 35 (139)
T PF01565_consen 2 AAVVRPKSVEEVQAIVKFANENGVPVRVRGGGHS 35 (139)
T ss_dssp SEEEEESSHHHHHHHHHHHHHTTSEEEEESSSTT
T ss_pred cEEEEeCCHHHHHHHHHHHHHcCCcEEEEcCCCC
Confidence 5778888999999999999999999999998654
No 433
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=23.19 E-value=42 Score=29.88 Aligned_cols=17 Identities=24% Similarity=0.292 Sum_probs=11.3
Q ss_pred CCeecccCCCCCCChHH
Q 014872 155 DPYICGVCGRKCKTNLD 171 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~k 171 (417)
.-|.||-||.+|...+-
T Consensus 98 ~~Y~Cp~C~~~y~~~ea 114 (147)
T smart00531 98 AYYKCPNCQSKYTFLEA 114 (147)
T ss_pred cEEECcCCCCEeeHHHH
Confidence 46777777777765443
No 434
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=23.15 E-value=1.9e+02 Score=25.55 Aligned_cols=59 Identities=17% Similarity=0.158 Sum_probs=47.8
Q ss_pred HHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCC--cEEEEcCCCCccccccccccch
Q 014872 253 ALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANL--GTVVVGDSNRGLGQHADLWVPW 312 (417)
Q Consensus 253 ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVGd~~~~L~R~ADl~fSW 312 (417)
++..+......+|+.-|+-||-|+-|+ ..+.+.+.++ .-.+++|.++.+.+.-+++...
T Consensus 52 ~~~~~~~~f~~~g~~~V~~iS~D~~~~-~~~~~~~~~~~~~f~lLsD~~~~~~~~ygv~~~~ 112 (155)
T cd03013 52 GYVENADELKAKGVDEVICVSVNDPFV-MKAWGKALGAKDKIRFLADGNGEFTKALGLTLDL 112 (155)
T ss_pred HHHHhHHHHHHCCCCEEEEEECCCHHH-HHHHHHhhCCCCcEEEEECCCHHHHHHcCCCccc
Confidence 678888888889997789999999997 6667888887 5679999888888888877654
No 435
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=23.11 E-value=39 Score=31.57 Aligned_cols=21 Identities=38% Similarity=0.566 Sum_probs=18.0
Q ss_pred eecccCCCCCCChHHHHHHHHHhh
Q 014872 157 YICGVCGRKCKTNLDLKKHFKQLH 180 (417)
Q Consensus 157 Y~C~VCGRkf~T~~kL~kHFKQLH 180 (417)
.+|=-||++|++ |++|+.+-|
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~ 97 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHY 97 (148)
T ss_pred EEEeccCcchHH---HHHHHhccc
Confidence 499999999984 899998755
No 436
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=23.08 E-value=40 Score=27.01 Aligned_cols=11 Identities=36% Similarity=1.177 Sum_probs=8.7
Q ss_pred eecccCCCCCC
Q 014872 157 YICGVCGRKCK 167 (417)
Q Consensus 157 Y~C~VCGRkf~ 167 (417)
+.||+||.|-+
T Consensus 5 i~CP~CgnKTR 15 (55)
T PF14205_consen 5 ILCPICGNKTR 15 (55)
T ss_pred EECCCCCCccc
Confidence 68999998643
No 437
>TIGR01656 Histidinol-ppas histidinol-phosphate phosphatase family domain. This domain is a member of the haloacid-dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. This superfamily is distinguished by the presence of three motifs: an N-terminal motif containing the nucleophilic aspartate, a central motif containing an conserved serine or threonine, and a C-terminal motif containing a conserved lysine (or arginine) and conserved aspartates. More specifically, the domian modelled here is a member of subfamily III of the HAD-superfamily by virtue of lacking a "capping" domain in either of the two common positions, between motifs 1 and 2, or between motifs 2 and 3.
Probab=23.03 E-value=2.2e+02 Score=24.45 Aligned_cols=47 Identities=26% Similarity=0.443 Sum_probs=29.8
Q ss_pred CCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcC
Q 014872 245 DKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 245 dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd 297 (417)
.||.+. ...++...++-.++-.+.|-|+ ..+ +..|+..|++||.|=+
T Consensus 100 ~KP~~~---~~~~~~~~~~~~~~e~i~IGDs--~~D-i~~A~~~Gi~~v~i~~ 146 (147)
T TIGR01656 100 RKPKPG---LILEALKRLGVDASRSLVVGDR--LRD-LQAARNAGLAAVLLVD 146 (147)
T ss_pred CCCCHH---HHHHHHHHcCCChHHEEEEcCC--HHH-HHHHHHCCCCEEEecC
Confidence 366654 3333333345555566667765 333 7899999999998754
No 438
>PLN02294 cytochrome c oxidase subunit Vb
Probab=22.96 E-value=36 Score=32.53 Aligned_cols=15 Identities=20% Similarity=0.592 Sum_probs=12.2
Q ss_pred CCCCeecccCCCCCC
Q 014872 153 PNDPYICGVCGRKCK 167 (417)
Q Consensus 153 p~~PY~C~VCGRkf~ 167 (417)
..+|++|+.||.-|+
T Consensus 138 kGkp~RCpeCG~~fk 152 (174)
T PLN02294 138 KGKSFECPVCTQYFE 152 (174)
T ss_pred CCCceeCCCCCCEEE
Confidence 346899999999775
No 439
>PRK05866 short chain dehydrogenase; Provisional
Probab=22.95 E-value=3.3e+02 Score=25.94 Aligned_cols=71 Identities=15% Similarity=0.251 Sum_probs=42.4
Q ss_pred CCCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHH---HHHHHHHc--CCcEEEEcCC
Q 014872 224 KVGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKE---MLRKARDA--NLGTVVVGDS 298 (417)
Q Consensus 224 KvGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~---~Lr~AR~~--~v~TVVVGd~ 298 (417)
-+|..+|..|.+.|..|-.+...++.++.. ...+ ...|..+.++..|=.|... ++..+.+. ++..||...+
T Consensus 51 gIG~~la~~La~~G~~Vi~~~R~~~~l~~~-~~~l---~~~~~~~~~~~~Dl~d~~~v~~~~~~~~~~~g~id~li~~AG 126 (293)
T PRK05866 51 GIGEAAAEQFARRGATVVAVARREDLLDAV-ADRI---TRAGGDAMAVPCDLSDLDAVDALVADVEKRIGGVDILINNAG 126 (293)
T ss_pred HHHHHHHHHHHHCCCEEEEEECCHHHHHHH-HHHH---HhcCCcEEEEEccCCCHHHHHHHHHHHHHHcCCCCEEEECCC
Confidence 446888899999999998776655554432 2222 2235555556566555544 44444333 6777776554
No 440
>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=22.82 E-value=1.2e+02 Score=25.77 Aligned_cols=28 Identities=29% Similarity=0.424 Sum_probs=22.5
Q ss_pred ceEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 014872 267 DWMFLVSDDNDFKEMLRKARDANLGTVVV 295 (417)
Q Consensus 267 ~cLvLVSDDsdF~~~Lr~AR~~~v~TVVV 295 (417)
+|+ |..=|+|..+.+..||..|.++|.+
T Consensus 54 D~V-llT~D~DL~e~v~iar~~g~~~v~L 81 (86)
T cd06409 54 DIV-LITSDSDLVAAVLVARSAGLKKLDL 81 (86)
T ss_pred CEE-EEeccchHHHHHHHHHHcCCCEEEE
Confidence 454 4455689999999999999999864
No 441
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=22.82 E-value=30 Score=34.22 Aligned_cols=19 Identities=26% Similarity=0.483 Sum_probs=14.1
Q ss_pred CccCCCCCeecccCCCCCC
Q 014872 149 GVAVPNDPYICGVCGRKCK 167 (417)
Q Consensus 149 G~v~p~~PY~C~VCGRkf~ 167 (417)
.+.+++.+..||.|||=.+
T Consensus 214 ~V~~~d~iv~CP~CgRILy 232 (239)
T COG1579 214 KVRKKDEIVFCPYCGRILY 232 (239)
T ss_pred HHhcCCCCccCCccchHHH
Confidence 3455778889999999443
No 442
>PTZ00170 D-ribulose-5-phosphate 3-epimerase; Provisional
Probab=22.80 E-value=4.3e+02 Score=25.14 Aligned_cols=67 Identities=18% Similarity=0.255 Sum_probs=47.1
Q ss_pred hcCCCCCCCc--hHHHHhcc----eEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeC-Ccc-hHHHHHHHHHcCCc
Q 014872 220 LLKPKVGYGL--GSELRRAG----VFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSD-DND-FKEMLRKARDANLG 291 (417)
Q Consensus 220 vL~PKvGYGL--A~ELkRAG----V~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSD-Dsd-F~~~Lr~AR~~~v~ 291 (417)
...|..++|+ -.+||+.+ +.|.++.+.|... ++.+...|++++.+-.. ... ...+++.+++.|.+
T Consensus 44 ~fvpn~~~G~~~v~~lr~~~~~~~lDvHLm~~~p~~~-------i~~~~~~Gad~itvH~ea~~~~~~~~l~~ik~~G~~ 116 (228)
T PTZ00170 44 HFVPNLSFGPPVVKSLRKHLPNTFLDCHLMVSNPEKW-------VDDFAKAGASQFTFHIEATEDDPKAVARKIREAGMK 116 (228)
T ss_pred ccCCCcCcCHHHHHHHHhcCCCCCEEEEECCCCHHHH-------HHHHHHcCCCEEEEeccCCchHHHHHHHHHHHCCCe
Confidence 5678888875 45888887 6677775555433 34456789998865544 333 67899999999976
Q ss_pred EE
Q 014872 292 TV 293 (417)
Q Consensus 292 TV 293 (417)
.-
T Consensus 117 ~g 118 (228)
T PTZ00170 117 VG 118 (228)
T ss_pred EE
Confidence 53
No 443
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=22.80 E-value=5e+02 Score=26.11 Aligned_cols=100 Identities=25% Similarity=0.353 Sum_probs=55.3
Q ss_pred cchHHHHHHHh---hcCCCCCCCchH-----HHHhcc---eEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcc
Q 014872 209 GNDKYNEAARS---LLKPKVGYGLGS-----ELRRAG---VFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDND 277 (417)
Q Consensus 209 k~~KY~~AAre---vL~PKvGYGLA~-----ELkRAG---V~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsd 277 (417)
+-++|..-... .-+|.+|+++.- .|...+ +.|-.++-.+...+.|++ -...+-..|+.+.+-. .+..
T Consensus 279 ~GGRYD~L~~~f~~~~~pavGfs~~le~l~~~l~~~~~~~~~vlI~~~~~~~~~~a~~-i~~~Lr~~Gi~v~i~~-~~~~ 356 (412)
T PRK00037 279 GGGRYDGLVEQFGGPPTPAVGFAIGVERLLLLLEELGEEPVDVYVVPLGEDAELAALK-LAEKLRAAGIRVELDY-GGRK 356 (412)
T ss_pred eccchhHHHHHhCCCCCceEEEEEcHHHHHHHHHhcCCCCCCEEEEEeChHHHHHHHH-HHHHHHHCCCeEEEeC-CCCC
Confidence 33566655543 356899966543 243333 333333311222222332 2333345788766533 3357
Q ss_pred hHHHHHHHHHcCCcE-EEEcCCCCccccccccccchhhhhcCccccccc
Q 014872 278 FKEMLRKARDANLGT-VVVGDSNRGLGQHADLWVPWIEVENGELTERDL 325 (417)
Q Consensus 278 F~~~Lr~AR~~~v~T-VVVGd~~~~L~R~ADl~fSW~eV~~Gk~~~~~~ 325 (417)
+...++.|.++|+.. |+||. +++++|.++-+++
T Consensus 357 ~~~~~~~a~~~gi~~~viig~---------------~e~~~~~v~vr~~ 390 (412)
T PRK00037 357 LKKQFKYADKSGARFVLILGE---------------DELANGTVTVKDL 390 (412)
T ss_pred HHHHHHHHHHcCCCEEEEECh---------------hHHhCCeEEEEEC
Confidence 899999999999887 45565 5566676654433
No 444
>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=22.78 E-value=1.3e+02 Score=31.12 Aligned_cols=60 Identities=15% Similarity=0.246 Sum_probs=39.0
Q ss_pred CCCchHHHHhcceEEEEeCCCch-hHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHc--CCc---EEEEcC
Q 014872 226 GYGLGSELRRAGVFVKTVRDKPQ-AADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDA--NLG---TVVVGD 297 (417)
Q Consensus 226 GYGLA~ELkRAGV~VrtV~dKPq-AAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~--~v~---TVVVGd 297 (417)
--.|...|+++|-.+..++=..| ..|..|+. |+|+. +-.+|..+++.+|+. ++. +++||-
T Consensus 243 ~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~-----M~R~~-------~~~~~~~~i~~lr~~~~~i~i~~d~IvG~ 308 (439)
T PRK14328 243 SDDLIEAIADCDKVCEHIHLPVQSGSNRILKK-----MNRHY-------TREYYLELVEKIKSNIPDVAITTDIIVGF 308 (439)
T ss_pred CHHHHHHHHhCCCcCceeeeCCCcCCHHHHHh-----CCCCC-------CHHHHHHHHHHHHHhCCCCEEEEEEEEEC
Confidence 34577788888733455655666 55556655 78873 356788888888887 432 366664
No 445
>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=22.67 E-value=3.7e+02 Score=24.21 Aligned_cols=43 Identities=14% Similarity=0.179 Sum_probs=26.9
Q ss_pred HHHHhhhCCcc-eEEEEeCCcchHHHHHHHHHcCC--cEEEEcCCC
Q 014872 257 QMQHSMSSGVD-WMFLVSDDNDFKEMLRKARDANL--GTVVVGDSN 299 (417)
Q Consensus 257 hm~~~m~rgv~-cLvLVSDDsdF~~~Lr~AR~~~v--~TVVVGd~~ 299 (417)
.+..++....+ +.|..+.|.-..++++..+++|+ .-.|||-.+
T Consensus 172 ~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~~di~vig~d~ 217 (275)
T cd06320 172 VATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQGKVLVVGTDG 217 (275)
T ss_pred HHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCCCCeEEEecCC
Confidence 34444443322 34555667777789999999998 445666643
No 446
>PRK05613 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=22.64 E-value=2.9e+02 Score=28.89 Aligned_cols=70 Identities=17% Similarity=0.199 Sum_probs=44.8
Q ss_pred hhcCCCCCCCch-----HHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC------cchHHHHHHHHH
Q 014872 219 SLLKPKVGYGLG-----SELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD------NDFKEMLRKARD 287 (417)
Q Consensus 219 evL~PKvGYGLA-----~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD------sdF~~~Lr~AR~ 287 (417)
.|++|..-||-- ..|++.|+.|..+.+ |.-. .+|+. .+..+...|++.+=. .|...+-+.|++
T Consensus 110 ~VI~~~~~y~~t~~~~~~~l~~~Gi~v~~vd~-~~d~-e~l~~----~l~~~tk~V~~e~~~Np~~~v~di~~I~~la~~ 183 (437)
T PRK05613 110 HIVTSPRLYGGTETLFLVTLNRLGIEVTFVEN-PDDP-ESWQA----AVQPNTKAFFGETFANPQADVLDIPAVAEVAHR 183 (437)
T ss_pred EEEECCCccHHHHHHHHHHHHhcCeEEEEECC-CCCH-HHHHH----hCCccCeEEEEECCCCCCCcccCHHHHHHHHHH
Confidence 477777777743 567999999999963 2211 12333 444444445543322 488999999999
Q ss_pred cCCcEEE
Q 014872 288 ANLGTVV 294 (417)
Q Consensus 288 ~~v~TVV 294 (417)
+|+-.||
T Consensus 184 ~gi~liv 190 (437)
T PRK05613 184 NQVPLIV 190 (437)
T ss_pred cCCeEEE
Confidence 9977655
No 447
>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.
Probab=22.44 E-value=3.1e+02 Score=27.39 Aligned_cols=70 Identities=13% Similarity=0.211 Sum_probs=45.7
Q ss_pred CCchHHHHhcceE--EEEeCCCchhHHHHHHHHHHHhhhCCcceE---EEEe---CCc-chHHHHHHHHHcCCcEEEEc
Q 014872 227 YGLGSELRRAGVF--VKTVRDKPQAADWALKRQMQHSMSSGVDWM---FLVS---DDN-DFKEMLRKARDANLGTVVVG 296 (417)
Q Consensus 227 YGLA~ELkRAGV~--VrtV~dKPqAAD~ALkrhm~~~m~rgv~cL---vLVS---DDs-dF~~~Lr~AR~~~v~TVVVG 296 (417)
-.++..|+++|+. |-+....|..-.....+.+..+...|+... ||.. |+. .+.++++.+.+.|+....+-
T Consensus 187 ~ell~~L~~~g~~v~i~l~~~h~~el~~~~~~ai~~L~~~Gi~v~~q~vLl~gvNd~~~~l~~l~~~l~~~gv~pyyl~ 265 (321)
T TIGR03822 187 PALIAALKTSGKTVYVALHANHARELTAEARAACARLIDAGIPMVSQSVLLRGVNDDPETLAALMRAFVECRIKPYYLH 265 (321)
T ss_pred HHHHHHHHHcCCcEEEEecCCChhhcCHHHHHHHHHHHHcCCEEEEEeeEeCCCCCCHHHHHHHHHHHHhcCCeeEEEE
Confidence 3667889988854 444444454322345566777778887664 4554 554 48999999999998865443
No 448
>PRK13337 putative lipid kinase; Reviewed
Probab=22.44 E-value=1.8e+02 Score=28.16 Aligned_cols=100 Identities=13% Similarity=0.159 Sum_probs=58.7
Q ss_pred hcCCCCCCC--------chHHHHhcceEEEEe--CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcC
Q 014872 220 LLKPKVGYG--------LGSELRRAGVFVKTV--RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDAN 289 (417)
Q Consensus 220 vL~PKvGYG--------LA~ELkRAGV~VrtV--~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~ 289 (417)
++-|+-|-| +...|+.+|+.+..+ +..-.|...| + +....+.++||.+..|=-..+++.-....+
T Consensus 7 I~Np~aG~~~~~~~~~~~~~~l~~~~~~~~~~~t~~~~~a~~~a-~----~~~~~~~d~vvv~GGDGTl~~vv~gl~~~~ 81 (304)
T PRK13337 7 IYNPTSGRELFKKNLPDVLQKLEQAGYETSAHATTGPGDATLAA-E----RAVERKFDLVIAAGGDGTLNEVVNGIAEKE 81 (304)
T ss_pred EECCcccchhHHHHHHHHHHHHHHcCCEEEEEEecCCCCHHHHH-H----HHHhcCCCEEEEEcCCCHHHHHHHHHhhCC
Confidence 344666643 244688899876643 3232343222 2 234677899999999999999998655443
Q ss_pred CcEEEEcC---CC-Cccccccccccchhh----hhcCccccccc
Q 014872 290 LGTVVVGD---SN-RGLGQHADLWVPWIE----VENGELTERDL 325 (417)
Q Consensus 290 v~TVVVGd---~~-~~L~R~ADl~fSW~e----V~~Gk~~~~~~ 325 (417)
-+ +.+|. +. -.+.|.-.+-.+|++ +..|....-|+
T Consensus 82 ~~-~~lgiiP~GT~NdfAr~lgi~~~~~~a~~~i~~g~~~~vDl 124 (304)
T PRK13337 82 NR-PKLGIIPVGTTNDFARALHVPRDIEKAADVIIEGHTVPVDI 124 (304)
T ss_pred CC-CcEEEECCcCHhHHHHHcCCCCCHHHHHHHHHcCCeEEEEE
Confidence 22 23333 22 256666666666655 45565544444
No 449
>PRK10725 fructose-1-P/6-phosphogluconate phosphatase; Provisional
Probab=22.35 E-value=1.8e+02 Score=25.18 Aligned_cols=19 Identities=32% Similarity=0.379 Sum_probs=9.5
Q ss_pred HHHHHHHcCCc---EEEEcCCC
Q 014872 281 MLRKARDANLG---TVVVGDSN 299 (417)
Q Consensus 281 ~Lr~AR~~~v~---TVVVGd~~ 299 (417)
+++.+++.|+. +|+|||+.
T Consensus 148 ~~~~~~~~~~~~~~~l~igDs~ 169 (188)
T PRK10725 148 FLRCAQLMGVQPTQCVVFEDAD 169 (188)
T ss_pred HHHHHHHcCCCHHHeEEEeccH
Confidence 44444555442 46666653
No 450
>COG4196 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.33 E-value=1.6e+02 Score=33.07 Aligned_cols=90 Identities=30% Similarity=0.368 Sum_probs=61.8
Q ss_pred HHHHHHhhccchHHHHHHHhhcCCCC--CCCchHHHHhcceEEEEeCCCch--------hHHHHHHHHHHHhhhCCcceE
Q 014872 200 QKYKERYISGNDKYNEAARSLLKPKV--GYGLGSELRRAGVFVKTVRDKPQ--------AADWALKRQMQHSMSSGVDWM 269 (417)
Q Consensus 200 ~rl~~~~a~k~~KY~~AArevL~PKv--GYGLA~ELkRAGV~VrtV~dKPq--------AAD~ALkrhm~~~m~rgv~cL 269 (417)
..-.+.|+.-...-+.||..+=-|-+ |||+.-.+| ..+.+|..-|- ||-+|=.+++...+
T Consensus 322 ~e~le~fleLva~~EaAA~~ig~PV~IEGYgpP~D~R---l~~i~v~Pdpgvievni~paa~~~d~~~~~~t~------- 391 (808)
T COG4196 322 TEALEHFLELVAAVEAAATTIGCPVVIEGYGPPHDPR---LNSIRVAPDPGVIEVNIAPAASFADCRQQLETL------- 391 (808)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCcEEEeccCCCCCcc---cceEEecCCCCeeEEeeccchhHHHHHHHHHHH-------
Confidence 34456777777788889998888866 999999998 66666644442 66677666664332
Q ss_pred EEEeCCcchHHHHHHHHHcCCcE-----------------EEEcCC---CCccccccccccc
Q 014872 270 FLVSDDNDFKEMLRKARDANLGT-----------------VVVGDS---NRGLGQHADLWVP 311 (417)
Q Consensus 270 vLVSDDsdF~~~Lr~AR~~~v~T-----------------VVVGd~---~~~L~R~ADl~fS 311 (417)
-..||...++| ||+|+. ++-|-|.-|+..|
T Consensus 392 ------------YeqArlaRL~te~F~idG~H~gTGGgNHi~lGg~tpndsP~lRrPDLL~S 441 (808)
T COG4196 392 ------------YEQARLARLGTEKFDIDGRHGGTGGGNHITLGGVTPNDSPLLRRPDLLVS 441 (808)
T ss_pred ------------HHHhhhhhccchhccccCcccCcCCCCeEEecCCCCCCCccccCchHHHH
Confidence 33344444433 999984 4678899998766
No 451
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=22.30 E-value=1.9e+02 Score=23.95 Aligned_cols=46 Identities=20% Similarity=0.303 Sum_probs=27.6
Q ss_pred CCchhHHHHHHHHHHHhhh-CCcceEEEEeCCcchHHHHHHHHHcCCcEEEE
Q 014872 245 DKPQAADWALKRQMQHSMS-SGVDWMFLVSDDNDFKEMLRKARDANLGTVVV 295 (417)
Q Consensus 245 dKPqAAD~ALkrhm~~~m~-rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVV 295 (417)
.||.+. ++. ++.+.++ ...+.++.|-|++. .+ +..|+..|+.||.|
T Consensus 84 ~KP~~~--~~~-~~~~~~~~~~~~~~v~IGD~~~-~D-i~~A~~~Gi~~i~~ 130 (132)
T TIGR01662 84 RKPKPG--MFL-EALKRFNEIDPEESVYVGDQDL-TD-LQAAKRAGLAFILV 130 (132)
T ss_pred CCCChH--HHH-HHHHHcCCCChhheEEEcCCCc-cc-HHHHHHCCCeEEEe
Confidence 466544 222 3333342 55667777877322 22 67889999999876
No 452
>cd00609 AAT_like Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary hi
Probab=22.14 E-value=2.1e+02 Score=26.43 Aligned_cols=78 Identities=15% Similarity=0.172 Sum_probs=48.4
Q ss_pred hhcCCCCC-CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCc---------chHHHHHHHHHc
Q 014872 219 SLLKPKVG-YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDN---------DFKEMLRKARDA 288 (417)
Q Consensus 219 evL~PKvG-YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDs---------dF~~~Lr~AR~~ 288 (417)
.++.|.-+ ++....+++.|+.+..++-.+.-...-.+..+.......+.++++++-.. ++..++..|++.
T Consensus 85 ~vl~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~~tG~~~~~~~l~~l~~~~~~~ 164 (350)
T cd00609 85 EVLVPDPTYPGYEAAARLAGAEVVPVPLDEEGGFLLDLELLEAAKTPKTKLLYLNNPNNPTGAVLSEEELEELAELAKKH 164 (350)
T ss_pred EEEEcCCCchhHHHHHHHCCCEEEEEecccccCCccCHHHHHhhcCccceEEEEECCCCCCCcccCHHHHHHHHHHHHhC
Confidence 37777666 45888899999999988665543221101222223455677777766321 566777899999
Q ss_pred CCcEEEEc
Q 014872 289 NLGTVVVG 296 (417)
Q Consensus 289 ~v~TVVVG 296 (417)
|+..+|=+
T Consensus 165 ~~~~ivD~ 172 (350)
T cd00609 165 GILIISDE 172 (350)
T ss_pred CeEEEEec
Confidence 87655433
No 453
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=22.06 E-value=38 Score=34.04 Aligned_cols=69 Identities=13% Similarity=0.219 Sum_probs=39.7
Q ss_pred HHHHHHHhhhCCcceEEEEeCCcchH------------H---HHHHHHHcCCcE--EEEcCCCCc----cccccccccch
Q 014872 254 LKRQMQHSMSSGVDWMFLVSDDNDFK------------E---MLRKARDANLGT--VVVGDSNRG----LGQHADLWVPW 312 (417)
Q Consensus 254 Lkrhm~~~m~rgv~cLvLVSDDsdF~------------~---~Lr~AR~~~v~T--VVVGd~~~~----L~R~ADl~fSW 312 (417)
+.+.++-+...++..|.|+ |..-+. . .+...++.+|-. ||.|...|. ....+|+-+.|
T Consensus 145 i~r~~e~A~~~~lPlV~l~-dsgGarmqEgi~sL~~~ak~~~a~~~~~~a~vP~IsVv~gpt~GG~aas~a~~~D~iia~ 223 (292)
T PRK05654 145 IVRAVERAIEEKCPLVIFS-ASGGARMQEGLLSLMQMAKTSAALKRLSEAGLPYISVLTDPTTGGVSASFAMLGDIIIAE 223 (292)
T ss_pred HHHHHHHHHHcCCCEEEEE-cCCCcchhhhhhHHHhHHHHHHHHHHHHcCCCCEEEEEeCCCchHHHHHHHHcCCEEEEe
Confidence 3456677778899866655 655432 1 111122334544 455665543 35568999989
Q ss_pred hhhhcCccccc
Q 014872 313 IEVENGELTER 323 (417)
Q Consensus 313 ~eV~~Gk~~~~ 323 (417)
..-.-|-+...
T Consensus 224 p~A~ig~aGpr 234 (292)
T PRK05654 224 PKALIGFAGPR 234 (292)
T ss_pred cCcEEEecCHH
Confidence 86666666643
No 454
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=22.03 E-value=1.2e+02 Score=32.25 Aligned_cols=102 Identities=23% Similarity=0.258 Sum_probs=69.6
Q ss_pred ccchhHHHHHHhhccc----------hHHHHHHHhhc--C-----C-----CCC-------CCchHHHHhcceEEEEeCC
Q 014872 195 KGKKRQKYKERYISGN----------DKYNEAARSLL--K-----P-----KVG-------YGLGSELRRAGVFVKTVRD 245 (417)
Q Consensus 195 KGkrR~rl~~~~a~k~----------~KY~~AArevL--~-----P-----KvG-------YGLA~ELkRAGV~VrtV~d 245 (417)
-|.|=+.|.+.|.++. ++=-.|..+.= . + ..| +.+|..||.+|+.|.+--.
T Consensus 291 gGGRYD~Lv~~~gG~~~pavGFaiGveRl~~~l~~~~~~~~~~~~~~v~v~~~~~~~~~~a~~la~~LR~~g~~~~~~~~ 370 (429)
T COG0124 291 GGGRYDGLVEEFGGKPTPAVGFAIGVERLILALEEEGKEDPVETRVDVYVVPLGEDAEPEALKLAQKLRAAGISVEVDYS 370 (429)
T ss_pred cCccchHHHHHhCCCCCCceeEehHHHHHHHHHHHcCCCCCcCCCCCEEEEEcCchhHHHHHHHHHHHHHcCCcEEEEec
Confidence 5677788998887542 44444444331 1 1 112 5689999999999997644
Q ss_pred CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCCCCccccccccccchhhhh
Q 014872 246 KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWIEVE 316 (417)
Q Consensus 246 KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~eV~ 316 (417)
... ++.||..+-..|+.++|++-++.. .-++|.|=| |...-+.-++|+++.
T Consensus 371 ~r~-----~k~q~k~A~~~g~~~~viiGe~E~-----------~~g~v~vKd----l~t~eq~~v~~~~~~ 421 (429)
T COG0124 371 GRK-----LKKQFKYADKLGARFAVILGEDEL-----------ANGVVTVKD----LATGEQEEVPLDELV 421 (429)
T ss_pred ccc-----HHHHHHHHHHCCCCEEEEEcchHH-----------hcCCEEEee----CCCCccceecHHHHH
Confidence 433 899999999999999999988653 236788777 333356666776664
No 455
>PRK00075 cbiD cobalt-precorrin-6A synthase; Reviewed
Probab=22.01 E-value=1.3e+02 Score=31.35 Aligned_cols=88 Identities=25% Similarity=0.410 Sum_probs=48.5
Q ss_pred HHHHHhhcCCCCC-CCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCC-----------------
Q 014872 214 NEAARSLLKPKVG-YGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDD----------------- 275 (417)
Q Consensus 214 ~~AArevL~PKvG-YGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDD----------------- 275 (417)
++.|+.-+-|++| -|==|.|=--| .|+.++..-..+ .+...|......|.+.|||+...
T Consensus 151 eelAkkT~NprLGI~GGISILGTTG-iV~P~S~~a~~~--si~~~l~va~a~g~~~vvl~~G~~ge~~a~~~~~l~~~~~ 227 (361)
T PRK00075 151 EELAKKTLNPRLGIVGGISILGTTG-IVEPMSEEAYLA--SIKQELDVARANGLDHVVLVTGNNGEDYARKLLGLPEDAI 227 (361)
T ss_pred HHHHHhccchhcCccCCeEecccCE-EEEECCHHHHHH--HHHHHHHHHHHcCCCeEEEccChHHHHHHHHhcCCChhhE
Confidence 4567777778887 22223443333 255553322211 22222332223455555554432
Q ss_pred ---cch-HHHHHHHHHcCCcEEEEcCCCCcccc
Q 014872 276 ---NDF-KEMLRKARDANLGTVVVGDSNRGLGQ 304 (417)
Q Consensus 276 ---sdF-~~~Lr~AR~~~v~TVVVGd~~~~L~R 304 (417)
+|| ..+|+.|.+++++.|++..-.|+|-.
T Consensus 228 V~~gnfiG~~L~~A~~~g~~~i~l~G~~GKl~K 260 (361)
T PRK00075 228 IKMGNFVGPMLKAAARLGVKKVLLVGHPGKLIK 260 (361)
T ss_pred EEeehhHHHHHHHHHHcCCCEEEEEeeHHHHHH
Confidence 133 37899999999999999887776633
No 456
>PRK13225 phosphoglycolate phosphatase; Provisional
Probab=21.89 E-value=5.6e+02 Score=24.96 Aligned_cols=29 Identities=24% Similarity=0.355 Sum_probs=18.4
Q ss_pred EEEeeCCCCCCCC-CchHHHHHHHHHHHHcCc
Q 014872 82 VVLWDLDNKPPRG-PPYDAAMSLRRVAERFGE 112 (417)
Q Consensus 82 ~VlWDLDNKPP~~-pPY~AA~rLr~~As~FG~ 112 (417)
.|+||+|.-==.+ |-+.. .+..+++.+|.
T Consensus 64 ~vIFDlDGTLiDS~~~~~~--a~~~~~~~~G~ 93 (273)
T PRK13225 64 AIIFDFDGTLVDSLPTVVA--IANAHAPDFGY 93 (273)
T ss_pred EEEECCcCccccCHHHHHH--HHHHHHHHCCC
Confidence 6899999654444 33333 45567788874
No 457
>TIGR01580 narG respiratory nitrate reductase, alpha subunit. The Nitrate reductase enzyme complex allows bacteria to use nitrate as an electron acceptor during anaerobic growth. The enzyme complex consists of a tetramer that has an alpha, beta and 2 gamma subunits. The alpha and beta subunits have catalytic activity and the gamma subunits attach the enzyme to the membrane and is a b-type cytochrome that receives electrons from the quinone pool and transfers them to the beta subunit. This model is specific for the alpha subunit for nitrate reductase I (narG) and nitrate reductase II (narZ) for gram positive and gram negative bacteria.A few thermophiles and archaea also match the model The seed members used to make the model include Nitrate reductases from Pseudomonas fluorescens, E.coli and B.subtilis. All seed members are experimentally characterized. Some unpublished nitrate reductases, that are shorter sequences, and probably fragments fall in between the noise and trusted cutoffs. P
Probab=21.82 E-value=1.1e+02 Score=36.69 Aligned_cols=49 Identities=12% Similarity=0.207 Sum_probs=38.4
Q ss_pred CCcceEEEEeCCcc-----hHHHHHHHHHcCCcEEEEcCCCCccccccccccch
Q 014872 264 SGVDWMFLVSDDND-----FKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPW 312 (417)
Q Consensus 264 rgv~cLvLVSDDsd-----F~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW 312 (417)
.+.++||+.--+.- .+..|..||++|.+.|||.-........||.|++=
T Consensus 244 ~nS~~II~WGsN~~~T~~p~a~~l~eAr~rGaKvVVVDPr~t~tA~~AD~WLpI 297 (1235)
T TIGR01580 244 YNSSYIIAWGSNVPQTRTPDAHFFTEVRYKGTKTVAITPDYAEIAKLCDLWLAP 297 (1235)
T ss_pred hcCCEEEEECCChhhhcchhHHHHHHHHHcCCeEEEEcCCCChhhHhhCEEeCC
Confidence 36888888765532 24567889999999999988777788899999973
No 458
>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=21.49 E-value=3.5e+02 Score=22.98 Aligned_cols=33 Identities=24% Similarity=0.386 Sum_probs=24.5
Q ss_pred ceEEEEeCCc---chHHHHHHHHH-cCCcEEEEcCCC
Q 014872 267 DWMFLVSDDN---DFKEMLRKARD-ANLGTVVVGDSN 299 (417)
Q Consensus 267 ~cLvLVSDDs---dF~~~Lr~AR~-~~v~TVVVGd~~ 299 (417)
..+||+||-. +-..+.+..|. .++.++.||.++
T Consensus 105 ~~villTDG~~~~~~~~~~~~l~~~~~v~v~~vg~g~ 141 (163)
T cd01476 105 KVVVVLTDGRSHDDPEKQARILRAVPNIETFAVGTGD 141 (163)
T ss_pred eEEEEECCCCCCCchHHHHHHHhhcCCCEEEEEECCC
Confidence 5689999842 24556677777 899999999865
No 459
>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=21.39 E-value=44 Score=22.66 Aligned_cols=10 Identities=40% Similarity=0.992 Sum_probs=8.5
Q ss_pred CCeecccCCC
Q 014872 155 DPYICGVCGR 164 (417)
Q Consensus 155 ~PY~C~VCGR 164 (417)
.+|.||-||.
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4799999994
No 460
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=21.38 E-value=21 Score=37.78 Aligned_cols=30 Identities=40% Similarity=0.760 Sum_probs=22.4
Q ss_pred hccCccCCCCCeecccCCCCCCChHHHHHH
Q 014872 146 ERRGVAVPNDPYICGVCGRKCKTNLDLKKH 175 (417)
Q Consensus 146 E~~G~v~p~~PY~C~VCGRkf~T~~kL~kH 175 (417)
-++|-+..++||+|+||-++.+.-..|.-|
T Consensus 388 ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 388 PHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred CcceeeeccCcccChhhhhhhccCCCCCce
Confidence 356667788999999999987765555444
No 461
>CHL00194 ycf39 Ycf39; Provisional
Probab=21.30 E-value=1.4e+02 Score=28.66 Aligned_cols=70 Identities=17% Similarity=0.176 Sum_probs=39.9
Q ss_pred CCCchHHHHhcceEEEEeCCCchhHHHHHH--------------HHHHHhhhCCcceEEEEeC-----Ccch--------
Q 014872 226 GYGLGSELRRAGVFVKTVRDKPQAADWALK--------------RQMQHSMSSGVDWMFLVSD-----DNDF-------- 278 (417)
Q Consensus 226 GYGLA~ELkRAGV~VrtV~dKPqAAD~ALk--------------rhm~~~m~rgv~cLvLVSD-----DsdF-------- 278 (417)
|--|+.+|..+|+.|+.+...+..+. .+. ..+..++ .|++.++-.+. ...|
T Consensus 13 G~~lv~~Ll~~g~~V~~l~R~~~~~~-~l~~~~v~~v~~Dl~d~~~l~~al-~g~d~Vi~~~~~~~~~~~~~~~~~~~~~ 90 (317)
T CHL00194 13 GRQIVRQALDEGYQVRCLVRNLRKAS-FLKEWGAELVYGDLSLPETLPPSF-KGVTAIIDASTSRPSDLYNAKQIDWDGK 90 (317)
T ss_pred HHHHHHHHHHCCCeEEEEEcChHHhh-hHhhcCCEEEECCCCCHHHHHHHH-CCCCEEEECCCCCCCCccchhhhhHHHH
Confidence 44577788888888886644443221 110 1122222 57887764321 1122
Q ss_pred HHHHHHHHHcCCcEEEEcC
Q 014872 279 KEMLRKARDANLGTVVVGD 297 (417)
Q Consensus 279 ~~~Lr~AR~~~v~TVVVGd 297 (417)
..+++.|++.|++.+|.-.
T Consensus 91 ~~l~~aa~~~gvkr~I~~S 109 (317)
T CHL00194 91 LALIEAAKAAKIKRFIFFS 109 (317)
T ss_pred HHHHHHHHHcCCCEEEEec
Confidence 4688999999998876543
No 462
>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=21.23 E-value=4.7e+02 Score=21.56 Aligned_cols=35 Identities=29% Similarity=0.416 Sum_probs=25.4
Q ss_pred CCcc--eEEEEeCCcchHHHHHHHHHcCCcEEEEcCCC
Q 014872 264 SGVD--WMFLVSDDNDFKEMLRKARDANLGTVVVGDSN 299 (417)
Q Consensus 264 rgv~--cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~~ 299 (417)
.|+. .+++. ++.--..+++.|.+.++..||+|...
T Consensus 77 ~~~~~~~~~~~-g~~~~~~I~~~a~~~~~dlIV~Gs~g 113 (146)
T cd01989 77 KGVQCEDVVLE-DDDVAKAIVEYVADHGITKLVMGASS 113 (146)
T ss_pred cCCeEEEEEEe-CCcHHHHHHHHHHHcCCCEEEEeccC
Confidence 4544 33433 33456789999999999999999965
No 463
>PRK07478 short chain dehydrogenase; Provisional
Probab=21.16 E-value=2.8e+02 Score=25.06 Aligned_cols=70 Identities=16% Similarity=0.104 Sum_probs=43.3
Q ss_pred CCCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHc-----CCcEEEEcC
Q 014872 224 KVGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDA-----NLGTVVVGD 297 (417)
Q Consensus 224 KvGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~-----~v~TVVVGd 297 (417)
-+|..++..|.++|..|-.+.-.+...+.+. .++. ..|....++..|-++...+-+.+.+. .+..+|...
T Consensus 17 giG~~ia~~l~~~G~~v~~~~r~~~~~~~~~-~~~~---~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~id~li~~a 91 (254)
T PRK07478 17 GIGRAAAKLFAREGAKVVVGARRQAELDQLV-AEIR---AEGGEAVALAGDVRDEAYAKALVALAVERFGGLDIAFNNA 91 (254)
T ss_pred hHHHHHHHHHHHCCCEEEEEeCCHHHHHHHH-HHHH---hcCCcEEEEEcCCCCHHHHHHHHHHHHHhcCCCCEEEECC
Confidence 3467788999999999987755555544333 3332 34556667777777766655544432 566665544
No 464
>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=21.14 E-value=92 Score=26.08 Aligned_cols=27 Identities=19% Similarity=0.476 Sum_probs=22.6
Q ss_pred CCeecccCCCCCCChHHHHHHHHHhhhh
Q 014872 155 DPYICGVCGRKCKTNLDLKKHFKQLHER 182 (417)
Q Consensus 155 ~PY~C~VCGRkf~T~~kL~kHFKQLHER 182 (417)
+-.+|..|+..... ..+..|++..|-.
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~ 36 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHI 36 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhccc
Confidence 45699999998777 9999999988753
No 465
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=21.09 E-value=2.8e+02 Score=24.30 Aligned_cols=66 Identities=20% Similarity=0.281 Sum_probs=35.7
Q ss_pred CCCchHHHHhcceEEE---EeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchH--HHHHHHHHcCCcEEEEcC
Q 014872 226 GYGLGSELRRAGVFVK---TVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFK--EMLRKARDANLGTVVVGD 297 (417)
Q Consensus 226 GYGLA~ELkRAGV~Vr---tV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~--~~Lr~AR~~~v~TVVVGd 297 (417)
++-|++.|++.|+.|. +++|.++. |.+++.++.. +.| ||++|.-+-+. |..+.|-++-.++++-|-
T Consensus 29 ~~~l~~~l~~~G~~v~~~~~v~Dd~~~----i~~~l~~~~~-~~D-liIttGG~g~g~~D~t~~ai~~~g~~~~~gv 99 (144)
T TIGR00177 29 GPLLAALLEEAGFNVSRLGIVPDDPEE----IREILRKAVD-EAD-VVLTTGGTGVGPRDVTPEALEELGEKEIPGF 99 (144)
T ss_pred HHHHHHHHHHCCCeEEEEeecCCCHHH----HHHHHHHHHh-CCC-EEEECCCCCCCCCccHHHHHHHhCcEEEeee
Confidence 5678899999999888 55555443 5555555443 455 44444422221 222333222226666655
No 466
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=21.07 E-value=1.2e+02 Score=24.06 Aligned_cols=37 Identities=19% Similarity=0.208 Sum_probs=29.1
Q ss_pred HhhcCCCCCCCchHHHHhcceEEEEeCCCchhHHHHHHH
Q 014872 218 RSLLKPKVGYGLGSELRRAGVFVKTVRDKPQAADWALKR 256 (417)
Q Consensus 218 revL~PKvGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkr 256 (417)
.-+++.+.|.+....|+.+|+.|-+... ...+.||+.
T Consensus 65 ~~vi~~~iG~~~~~~l~~~gI~v~~~~~--~~i~~vl~~ 101 (103)
T cd00851 65 DVVIVGGIGPRALNKLRNAGIKVYKGAE--GTVEEAIEA 101 (103)
T ss_pred CEEEeCCCCcCHHHHHHHCCCEEEEcCC--CCHHHHHHh
Confidence 3488899999999999999999998765 344456654
No 467
>PRK12937 short chain dehydrogenase; Provisional
Probab=21.05 E-value=3.4e+02 Score=24.05 Aligned_cols=71 Identities=18% Similarity=0.160 Sum_probs=42.3
Q ss_pred CCCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHc-----CCcEEEEcC
Q 014872 224 KVGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDA-----NLGTVVVGD 297 (417)
Q Consensus 224 KvGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~-----~v~TVVVGd 297 (417)
-+|..+|..|.+.|..|-.+.........++...+ -..+....++..|-++...+.+...+. ++..|+-..
T Consensus 16 ~iG~~la~~l~~~g~~v~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~Dl~~~~~~~~~~~~~~~~~~~id~vi~~a 91 (245)
T PRK12937 16 GIGAAIARRLAADGFAVAVNYAGSAAAADELVAEI---EAAGGRAIAVQADVADAAAVTRLFDAAETAFGRIDVLVNNA 91 (245)
T ss_pred hHHHHHHHHHHHCCCEEEEecCCCHHHHHHHHHHH---HhcCCeEEEEECCCCCHHHHHHHHHHHHHHcCCCCEEEECC
Confidence 45788999999999988755333322222333323 234556667777878777666555542 455555443
No 468
>cd02760 MopB_Phenylacetyl-CoA-OR The MopB_Phenylacetyl-CoA-OR CD contains the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), and other related proteins. The phenylacetyl-CoA:acceptor oxidoreductase has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=21.03 E-value=1.5e+02 Score=33.41 Aligned_cols=50 Identities=16% Similarity=0.145 Sum_probs=38.2
Q ss_pred CCcceEEEEeCCcc------hHHHHHHHHHcCCcEEEEcCCCCccccccccccchh
Q 014872 264 SGVDWMFLVSDDND------FKEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWI 313 (417)
Q Consensus 264 rgv~cLvLVSDDsd------F~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~ 313 (417)
...++||++--+.. +...+..||++|.+-|||--........||.|++-.
T Consensus 172 ~~ad~Il~~G~Np~~s~~~~~~~~~~~ar~~GaKlIvVDPr~t~ta~~AD~wlpir 227 (760)
T cd02760 172 PLANYVISFGSNVEASGGPCAVTRHADARVRGYKRVQVEPHLSVTGACSAEWVPIR 227 (760)
T ss_pred hcCCEEEEECCCchHhcCcHHHHHHHHHHHcCCeEEEEcCCCCcchhhcCeEeCcC
Confidence 45788888865542 334567789999999999766677888999999865
No 469
>TIGR01990 bPGM beta-phosphoglucomutase. The enzyme from L. lactis has been extensively characterized including a remarkable crystal structure which traps the pentacoordinate transition state.
Probab=21.00 E-value=1.9e+02 Score=24.82 Aligned_cols=29 Identities=21% Similarity=0.323 Sum_probs=17.3
Q ss_pred EEEeeCCCCCCCC-CchHHHHHHHHHHHHcCc
Q 014872 82 VVLWDLDNKPPRG-PPYDAAMSLRRVAERFGE 112 (417)
Q Consensus 82 ~VlWDLDNKPP~~-pPY~AA~rLr~~As~FG~ 112 (417)
.|+||+|.-==.+ +.+. ..+..++..+|.
T Consensus 1 ~iiFD~DGTL~ds~~~~~--~~~~~~~~~~g~ 30 (185)
T TIGR01990 1 AVIFDLDGVITDTAEYHY--LAWKALADELGI 30 (185)
T ss_pred CeEEcCCCccccChHHHH--HHHHHHHHHcCC
Confidence 3789999653322 3222 344667888884
No 470
>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional
Probab=20.99 E-value=2.7e+02 Score=27.62 Aligned_cols=35 Identities=14% Similarity=0.360 Sum_probs=20.7
Q ss_pred HHHhhhCCcceEEEEeCCc-----------------chHHHHHHHHHcCCcE
Q 014872 258 MQHSMSSGVDWMFLVSDDN-----------------DFKEMLRKARDANLGT 292 (417)
Q Consensus 258 m~~~m~rgv~cLvLVSDDs-----------------dF~~~Lr~AR~~~v~T 292 (417)
++.+...|++++-++.--| ....+++.||+.|+.+
T Consensus 85 ie~A~~~g~~~v~i~~~~s~~~~~~n~~~~~~e~l~~~~~~v~~ak~~g~~v 136 (287)
T PRK05692 85 LEAALAAGADEVAVFASASEAFSQKNINCSIAESLERFEPVAEAAKQAGVRV 136 (287)
T ss_pred HHHHHHcCCCEEEEEEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCEE
Confidence 4455566777775553222 2456777778877653
No 471
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=20.96 E-value=4.4e+02 Score=23.62 Aligned_cols=58 Identities=12% Similarity=0.008 Sum_probs=34.9
Q ss_pred EEEEeCCcchHHHHHHHHHcCCc---EEEEcCCCCc-----c-ccccccccchhhhhcCcccccccc
Q 014872 269 MFLVSDDNDFKEMLRKARDANLG---TVVVGDSNRG-----L-GQHADLWVPWIEVENGELTERDLV 326 (417)
Q Consensus 269 LvLVSDDsdF~~~Lr~AR~~~v~---TVVVGd~~~~-----L-~R~ADl~fSW~eV~~Gk~~~~~~~ 326 (417)
.|+++.|.--.++++.++++|++ ..|||-.... + .......+.+...+.|+..-++|.
T Consensus 186 ai~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~~~~~~~~~~~~~~~ttv~~~~~~~g~~a~~~l~ 252 (272)
T cd06301 186 AVVANNDEMALGAIMALKAAGKSDKDVPVAGIDGTPDALAAVKKGDLDVTVFQDAKGQGAGALDAAL 252 (272)
T ss_pred EEEECCCchHHHHHHHHHHcCCCCCCcEEEeeCCCHHHHHHHHhCCceEEEecCHHHHHHHHHHHHH
Confidence 45566666667999999999985 3556643221 2 122345556666666765555554
No 472
>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=20.88 E-value=4e+02 Score=24.03 Aligned_cols=30 Identities=27% Similarity=0.327 Sum_probs=21.0
Q ss_pred cceEEEEeCCcchHHHHHHHHHcCCc--EEEEc
Q 014872 266 VDWMFLVSDDNDFKEMLRKARDANLG--TVVVG 296 (417)
Q Consensus 266 v~cLvLVSDDsdF~~~Lr~AR~~~v~--TVVVG 296 (417)
++.+ ++..|.-..++++.++++|++ .+|||
T Consensus 186 ~~ai-~~~~d~~a~g~~~al~~~g~~~~~~ivg 217 (274)
T cd06311 186 IDAV-WAHDDDMAVGVLAAIKQAGRTDIKFVVG 217 (274)
T ss_pred cCEE-EECCCcHHHHHHHHHHHcCCCCCceEEE
Confidence 5554 445555577899999999986 35665
No 473
>PRK10444 UMP phosphatase; Provisional
Probab=20.75 E-value=2.7e+02 Score=26.66 Aligned_cols=50 Identities=20% Similarity=0.221 Sum_probs=32.1
Q ss_pred CCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcCCcEEEEcCC
Q 014872 244 RDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDANLGTVVVGDS 298 (417)
Q Consensus 244 ~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~v~TVVVGd~ 298 (417)
..||.+. +-.+....++...+..+.|.|+- .+| +..|+..|++||.|..+
T Consensus 172 ~gKP~~~---~~~~~~~~~~~~~~~~v~IGD~~-~tD-i~~A~~~G~~~vlV~~G 221 (248)
T PRK10444 172 VGKPSPW---IIRAALNKMQAHSEETVIVGDNL-RTD-ILAGFQAGLETILVLSG 221 (248)
T ss_pred cCCCCHH---HHHHHHHHcCCCcccEEEECCCc-HHH-HHHHHHcCCCEEEECCC
Confidence 4788866 22232222344456667777763 222 67899999999999764
No 474
>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=20.68 E-value=3e+02 Score=24.33 Aligned_cols=43 Identities=7% Similarity=0.177 Sum_probs=28.3
Q ss_pred HHHHHHhhhCCc-ceEEEEeCCcchHHHHHHHHHcCCc----EEEEcC
Q 014872 255 KRQMQHSMSSGV-DWMFLVSDDNDFKEMLRKARDANLG----TVVVGD 297 (417)
Q Consensus 255 krhm~~~m~rgv-~cLvLVSDDsdF~~~Lr~AR~~~v~----TVVVGd 297 (417)
...+.+.+..+. ...|++++|.--.++++.++++|++ -.|||-
T Consensus 166 ~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~vp~di~v~g~ 213 (267)
T cd06283 166 DERLRQLLNKPKKKTAIFAANGLILLEVLKALKELGIRIPEDVGLIGF 213 (267)
T ss_pred HHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCccceEEEEe
Confidence 445555665442 3456666677777999999999984 245555
No 475
>PRK06194 hypothetical protein; Provisional
Probab=20.60 E-value=2.9e+02 Score=25.49 Aligned_cols=69 Identities=12% Similarity=0.081 Sum_probs=41.5
Q ss_pred CCCCchHHHHhcceEEEEeCCCchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHH---c--CCcEEEEcC
Q 014872 225 VGYGLGSELRRAGVFVKTVRDKPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARD---A--NLGTVVVGD 297 (417)
Q Consensus 225 vGYGLA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~---~--~v~TVVVGd 297 (417)
+|..|+.+|.+.|..|..+...+... .+....+...|..+.++..|=+|...+-+.+.. . ++..|+--.
T Consensus 18 IG~~la~~l~~~G~~V~~~~r~~~~~----~~~~~~~~~~~~~~~~~~~D~~d~~~~~~~~~~~~~~~g~id~vi~~A 91 (287)
T PRK06194 18 FGLAFARIGAALGMKLVLADVQQDAL----DRAVAELRAQGAEVLGVRTDVSDAAQVEALADAALERFGAVHLLFNNA 91 (287)
T ss_pred HHHHHHHHHHHCCCEEEEEeCChHHH----HHHHHHHHhcCCeEEEEECCCCCHHHHHHHHHHHHHHcCCCCEEEECC
Confidence 45779999999999998775444333 222233334467777777777666555444333 2 455555544
No 476
>PRK00103 rRNA large subunit methyltransferase; Provisional
Probab=20.49 E-value=4.2e+02 Score=24.38 Aligned_cols=38 Identities=21% Similarity=0.405 Sum_probs=28.8
Q ss_pred CCcchHHHHHHHHHcCCc--EEEEcCCCC---ccccccccccc
Q 014872 274 DDNDFKEMLRKARDANLG--TVVVGDSNR---GLGQHADLWVP 311 (417)
Q Consensus 274 DDsdF~~~Lr~AR~~~v~--TVVVGd~~~---~L~R~ADl~fS 311 (417)
++..|++.|...+..|.+ +.|||..+| .+...||..+|
T Consensus 81 sS~~fA~~l~~~~~~g~~~i~F~IGGa~G~~~~v~~~a~~~lS 123 (157)
T PRK00103 81 SSEEFAQELERWRDDGRSDVAFVIGGADGLSPAVKKRADQSLS 123 (157)
T ss_pred CHHHHHHHHHHHHhcCCccEEEEEcCccccCHHHHHhcCceEE
Confidence 567899999999888864 467898654 56667776665
No 477
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=20.46 E-value=33 Score=31.94 Aligned_cols=18 Identities=17% Similarity=0.161 Sum_probs=15.0
Q ss_pred CeecccCCCCCCChHHHH
Q 014872 156 PYICGVCGRKCKTNLDLK 173 (417)
Q Consensus 156 PY~C~VCGRkf~T~~kL~ 173 (417)
.=.|..||++|.|.++..
T Consensus 28 RReC~~C~~RFTTyErve 45 (147)
T TIGR00244 28 RRECLECHERFTTFERAE 45 (147)
T ss_pred cccCCccCCccceeeecc
Confidence 457999999999988764
No 478
>PRK13055 putative lipid kinase; Reviewed
Probab=20.45 E-value=2.1e+02 Score=28.45 Aligned_cols=102 Identities=12% Similarity=0.134 Sum_probs=55.5
Q ss_pred hcCCCCCCC--------chHHHHhcceEEEEe-CC-CchhHHHHHHHHHHHhhhCCcceEEEEeCCcchHHHHHHHHHcC
Q 014872 220 LLKPKVGYG--------LGSELRRAGVFVKTV-RD-KPQAADWALKRQMQHSMSSGVDWMFLVSDDNDFKEMLRKARDAN 289 (417)
Q Consensus 220 vL~PKvGYG--------LA~ELkRAGV~VrtV-~d-KPqAAD~ALkrhm~~~m~rgv~cLvLVSDDsdF~~~Lr~AR~~~ 289 (417)
++-|+-|-| +...|+.+|+.+... +. .+-.|-. +-++ ....+.++||.+..|=-..+++......+
T Consensus 8 I~NP~sG~~~~~~~~~~i~~~l~~~g~~~~i~~t~~~~~~a~~-~~~~---~~~~~~d~vvv~GGDGTl~evvngl~~~~ 83 (334)
T PRK13055 8 IYNPTSGQEIMKKNVADILDILEQAGYETSAFQTTPEPNSAKN-EAKR---AAEAGFDLIIAAGGDGTINEVVNGIAPLE 83 (334)
T ss_pred EECCCCCchhHHHHHHHHHHHHHHcCCeEEEEEeecCCccHHH-HHHH---HhhcCCCEEEEECCCCHHHHHHHHHhhcC
Confidence 344666643 345788899876643 22 2222211 2222 23467899999999998888887665433
Q ss_pred CcEEEEcCCC----Ccccccccccc-c----hhhhhcCcccccccc
Q 014872 290 LGTVVVGDSN----RGLGQHADLWV-P----WIEVENGELTERDLV 326 (417)
Q Consensus 290 v~TVVVGd~~----~~L~R~ADl~f-S----W~eV~~Gk~~~~~~~ 326 (417)
-+ +.+|..+ -.+.|.-.+-. . ++.+..|....-|+-
T Consensus 84 ~~-~~LgiiP~GTgNdfAr~Lgi~~~~~~~a~~~l~~g~~~~vD~g 128 (334)
T PRK13055 84 KR-PKMAIIPAGTTNDYARALKIPRDNPVEAAKVILKNQTIKMDIG 128 (334)
T ss_pred CC-CcEEEECCCchhHHHHHcCCCCcCHHHHHHHHHcCCcEEeeEE
Confidence 12 3344321 24555544443 3 344666766544443
No 479
>TIGR01973 NuoG NADH-quinone oxidoreductase, chain G. This model represents the G subunit (one of 14: A-N) of the NADH-quinone oxidoreductase complex I which generally couples NADH and ubiquinone oxidation/reduction in bacteria and mammalian mitochondria while translocating protons, but may act on NADPH and/or plastoquinone in cyanobacteria and plant chloroplasts. This model excludes related subunits from formate dehydrogenase complexes.
Probab=20.41 E-value=1.5e+02 Score=31.74 Aligned_cols=50 Identities=22% Similarity=0.226 Sum_probs=36.5
Q ss_pred CCcceEEEEeCCcc-----hHHHHHHHHHcC-CcEEEEcCCCCccccccccccchh
Q 014872 264 SGVDWMFLVSDDND-----FKEMLRKARDAN-LGTVVVGDSNRGLGQHADLWVPWI 313 (417)
Q Consensus 264 rgv~cLvLVSDDsd-----F~~~Lr~AR~~~-v~TVVVGd~~~~L~R~ADl~fSW~ 313 (417)
...+++|++..|.. +..-++.|+++| .+-|||+-....+...||.|++-.
T Consensus 361 ~~ad~il~~G~N~~~s~p~~~~~i~~a~~~ggaklividpr~s~ta~~Ad~~l~i~ 416 (603)
T TIGR01973 361 EEADLVLLVGADLRQEAPLLNLRLRKAVKKGGAKVALIGIEKWNLTYPANTNLVFH 416 (603)
T ss_pred HhCCEEEEEccCchhhhHHHHHHHHHHHhcCCcEEEEECCccccchhhhccceeec
Confidence 44889999976642 333456666666 888999987778899999988643
No 480
>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=20.35 E-value=4.4e+02 Score=26.58 Aligned_cols=70 Identities=20% Similarity=0.237 Sum_probs=42.5
Q ss_pred chHHHHhcceEEEEeCCCchhHHHHHHHHHHHhh-hCCcceEEE--EeCCcchH---HHHHHHHHcCCcEEE-EcCC
Q 014872 229 LGSELRRAGVFVKTVRDKPQAADWALKRQMQHSM-SSGVDWMFL--VSDDNDFK---EMLRKARDANLGTVV-VGDS 298 (417)
Q Consensus 229 LA~ELkRAGV~VrtV~dKPqAAD~ALkrhm~~~m-~rgv~cLvL--VSDDsdF~---~~Lr~AR~~~v~TVV-VGd~ 298 (417)
|..+|++.|=.|=.|.|+-.+....+..++...+ ..|+++.+. |.-++.+. .+.+.+|+.+...|| ||.+
T Consensus 17 l~~~~~~~g~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGG 93 (380)
T cd08185 17 LGEEALKPGKKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGG 93 (380)
T ss_pred HHHHHHhcCCeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 4556776665666777755422223445555555 367776554 44455555 566788888887777 7764
No 481
>PLN02625 uroporphyrin-III C-methyltransferase
Probab=20.35 E-value=1.5e+02 Score=28.47 Aligned_cols=61 Identities=16% Similarity=0.182 Sum_probs=43.1
Q ss_pred HHHHHHHhhhCCcceEEEEeCCcchHHH----HHHHHHcCCcEEEEcCCCCccccccccccchhh
Q 014872 254 LKRQMQHSMSSGVDWMFLVSDDNDFKEM----LRKARDANLGTVVVGDSNRGLGQHADLWVPWIE 314 (417)
Q Consensus 254 Lkrhm~~~m~rgv~cLvLVSDDsdF~~~----Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~e 314 (417)
+...+......|-..++|+|.|.-|.+. ++.+++.|+...||-.......=.|-+.+||..
T Consensus 81 ~~~~i~~~~~~g~~Vvvl~~GDP~~ys~~~~l~~~l~~~~~~veiiPGISS~~aaaA~lg~pl~~ 145 (263)
T PLN02625 81 IHELLLSFAEAGKTVVRLKGGDPLVFGRGGEEMDALRKNGIPVTVVPGITAAIGAPAELGIPLTH 145 (263)
T ss_pred HHHHHHHHHHCCCeEEEEcCCCchhhhhHHHHHHHHHHCCCCEEEECCccHHHHHHHHcCCCccc
Confidence 3344444445676788999999987654 458888898888887655455666778889964
No 482
>PRK05576 cobalt-precorrin-2 C(20)-methyltransferase; Validated
Probab=20.05 E-value=1.9e+02 Score=27.07 Aligned_cols=57 Identities=12% Similarity=0.150 Sum_probs=40.3
Q ss_pred HHHHhhhCCcceEEEEeCCcch----HHHHHHHHHcCCcEEEEcCCCCccccccccccchh
Q 014872 257 QMQHSMSSGVDWMFLVSDDNDF----KEMLRKARDANLGTVVVGDSNRGLGQHADLWVPWI 313 (417)
Q Consensus 257 hm~~~m~rgv~cLvLVSDDsdF----~~~Lr~AR~~~v~TVVVGd~~~~L~R~ADl~fSW~ 313 (417)
.+...+..|-...+|+|.|+-| ..+++.++++++.--||-.....-.=.|=+.+||.
T Consensus 82 ~i~~~~~~g~~V~~l~~GDP~~y~~~~~l~~~~~~~~~~v~viPGiSs~~~a~a~~g~~l~ 142 (229)
T PRK05576 82 EIAAEAEEGKNVAFITLGDPNLYSTFSHLLEYLKCHDIEVETVPGISSFTAIASRAGVPLA 142 (229)
T ss_pred HHHHHHHcCCcEEEEeCcCccccccHHHHHHHHHhCCCCEEEeCChhHHHHHHHHcCCCcc
Confidence 3444455777899999999988 67788888878877777654433344555678887
Done!