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Receptor
PDB id Resolution Class Description Source Keywords
6GBV 1.63 Å NON-ENZYME: SIGNAL_HORMONE A FAST RECOVERING FULL-LENGTH LOV PROTEIN (DSLOV) FROM THE M PHOTOTROPHIC BACTERIUM DINOROSEOBACTER SHIBAE (DARK STATE) M UTANT DINOROSEOBACTER SHIBAE (STRAIN DSM 164NCIMB 14021 / DFL 12) LIGHT-OXYGEN-VOLTAGE LOV PAS SIGNALING PROTEIN
Ref.: MECHANISTIC BASIS OF THE FAST DARK RECOVERY OF THE PROTEIN DSLOV FROM DINOROSEOBACTER SHIBAE. BIOCHEMISTRY V. 57 4833 2018
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
FMN A:500;
Valid;
none;
submit data
456.344 C17 H21 N4 O9 P Cc1cc...
PO4 A:501;
Invalid;
none;
submit data
94.971 O4 P [O-]P...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
6GBV 1.63 Å NON-ENZYME: SIGNAL_HORMONE A FAST RECOVERING FULL-LENGTH LOV PROTEIN (DSLOV) FROM THE M PHOTOTROPHIC BACTERIUM DINOROSEOBACTER SHIBAE (DARK STATE) M UTANT DINOROSEOBACTER SHIBAE (STRAIN DSM 164NCIMB 14021 / DFL 12) LIGHT-OXYGEN-VOLTAGE LOV PAS SIGNALING PROTEIN
Ref.: MECHANISTIC BASIS OF THE FAST DARK RECOVERY OF THE PROTEIN DSLOV FROM DINOROSEOBACTER SHIBAE. BIOCHEMISTRY V. 57 4833 2018
Members (4)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 286 families.
1 6GB3 - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
2 6GAY - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
3 6GBV - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
4 6GBA - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
70% Homology Family (4)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 209 families.
1 6GB3 - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
2 6GAY - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
3 6GBV - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
4 6GBA - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
50% Homology Family (20)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 174 families.
1 6GB3 - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
2 6GAY - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
3 6GBV - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
4 6GBA - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
5 2PR5 - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
6 1N9N - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
7 2Z6C - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
8 4EES - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
9 4EET - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
10 4NXE - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
11 4EER - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
12 4NXG - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
13 4NXF - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
14 4EEP - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
15 4EEU - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
16 2V1A - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
17 2V0U - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
18 5DKK - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
19 4R38 - RBF C17 H20 N4 O6 Cc1cc2c(cc....
20 2Z6D - FMN C17 H21 N4 O9 P Cc1cc2c(cc....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: FMN; Similar ligands found: 15
No: Ligand ECFP6 Tc MDL keys Tc
1 FMN 1 1
2 RBF 0.75641 0.876712
3 RS3 0.571429 0.831169
4 FAD 0.543307 0.876543
5 FAS 0.543307 0.876543
6 FAE 0.539062 0.865854
7 LFN 0.475 0.643836
8 C3F 0.473684 0.74359
9 CF4 0.463918 0.734177
10 FAY 0.446043 0.864198
11 FNR 0.444444 0.909091
12 RFL 0.442857 0.845238
13 4LS 0.411215 0.875
14 1VY 0.406593 0.769231
15 DLZ 0.404494 0.782051
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 6GBV; Ligand: FMN; Similar sites found with APoc: 380
This union binding pocket(no: 1) in the query (biounit: 6gbv.bio1) has 21 residues
No: Leader PDB Ligand Sequence Similarity
1 1MID LAP None
2 6FA4 D1W None
3 1TUK PGM None
4 5OCG 9R5 None
5 2X34 UQ8 None
6 3KP6 SAL None
7 5B09 4MX None
8 3SCH TB6 None
9 4WG0 CHD None
10 1L0I PSR None
11 4JNJ BTN None
12 5NLD LBT None
13 2BS5 BGC GAL FUC None
14 3A6T 8OG None
15 1UO5 PIH None
16 1SWG BTN None
17 1Y75 NAG None
18 1MDC PLM None
19 1LRI CLR None
20 4XV1 904 None
21 5HWV MBN None
22 4H07 IPH None
23 6F7X MFU None
24 3NV3 GAL NAG MAN None
25 1ZZ7 S0H None
26 4CQE CQE None
27 3O94 NCA None
28 3ZH4 FLC None
29 1BWO LPC None
30 4JGP PYR None
31 2W5P CL8 None
32 1X8D RNS None
33 1XJD STU None
34 1UO4 PIH None
35 2P7Q GG6 None
36 4EKV BTN None
37 4QMN DB8 None
38 4TW7 37K None
39 5W4W 9WG 0.906344
40 5D48 L96 1.36986
41 4NW6 2NS 1.36986
42 1ZHX HC3 1.36986
43 5ORG 6DB 1.36986
44 2Q4X HMH 1.36986
45 2F2G HMH 1.36986
46 4RDL FUC GAL NDG FUC 2.05479
47 5DRB 5FJ 2.05479
48 3E85 BSU 2.05479
49 6GNO XDI 2.22222
50 4Z3E GAL NGA GLA BGC GAL 2.73973
51 4N14 WR7 2.73973
52 5OSW DIU 2.73973
53 1OUK 084 2.73973
54 5DEY 59T 2.73973
55 1EWF PC1 2.73973
56 4CS4 AXZ 2.73973
57 2V57 PRL 2.73973
58 1YRO UDP 2.73973
59 2DXU BT5 2.73973
60 4CS4 ANP 2.73973
61 4WX0 HXD 2.73973
62 5N7O 69Y 2.73973
63 4JH6 FCN 2.89855
64 3EW2 BTN 2.96296
65 6HDT BTN 3.00752
66 4K55 H6P 3.22581
67 2B96 ANN 3.25203
68 5TPV TYD 3.42466
69 2JIG PD2 3.42466
70 1Z6K OAA 3.42466
71 2GC0 PAN 3.42466
72 5AZC PGT 3.42466
73 5MRH Q9Z 3.42466
74 1P72 THM 3.42466
75 1D6H COA 3.42466
76 5W1E PHB 3.42466
77 1M5W DXP 3.42466
78 5KAU RHQ 3.42466
79 4EWH T77 3.42466
80 2C9O ADP 3.42466
81 2FCU AKG 3.42466
82 1OKE BOG 3.42466
83 2GJ5 VD3 3.42466
84 4WN5 MVC 3.47826
85 6DIO CIT 3.4965
86 6BU0 IHP 3.81679
87 1SGJ OAA 3.87324
88 1WBI BTN 3.87597
89 2YLD CMO 3.93701
90 4BCS BTN 4
91 2G30 ALA ALA PHE 4.10959
92 3MG9 GHP 3MY 3FG GHP GHP OMY 3FG 4.10959
93 6CB2 OLC 4.10959
94 4AF5 CIT 4.10959
95 5H9Q TD2 4.10959
96 5YJS SAL 4.10959
97 3I27 SID 4.10959
98 5IXG OTP 4.10959
99 4L9Z OXL 4.10959
100 2UW1 GVM 4.10959
101 3SHZ 5CO 4.10959
102 1ZGS XMM 4.10959
103 5AX9 4KT 4.10959
104 1VRP ADP 4.10959
105 5HES 032 4.10959
106 2O1V ADP 4.10959
107 4MNS 2AX 4.10959
108 2RDG NDG FUC SIA GAL 4.10959
109 5N0L ILE 4.10959
110 2YIP YIO 4.34783
111 2ALG DAO 4.34783
112 3ZXE PGZ 4.51128
113 4A91 GLU 4.69799
114 3GFZ FMN 4.79452
115 6D61 4AA 4.79452
116 1F9V ADP 4.79452
117 3H5N ATP 4.79452
118 5TFZ 7BC 4.79452
119 1M15 ADP 4.79452
120 1M15 ARG 4.79452
121 4BVA T3 4.79452
122 4RD0 GDP 4.79452
123 1WUB OTP 4.79452
124 3D91 REM 4.79452
125 5XHA FRU 4.79452
126 4MRP GSH 4.79452
127 4KQP GLN 4.79452
128 5JGA 6KC 4.79452
129 5I0U DCY 4.79452
130 3LGG CFE 4.79452
131 5KJW 53C 4.79452
132 5EK3 5PK 4.79452
133 3UNG ADP 4.79452
134 3NHT U46 4.79452
135 3JQ3 ADP 4.79452
136 1G42 CP2 4.79452
137 6FS0 E4W 4.79452
138 5C3R AKG 4.79452
139 5C3R HMU 4.79452
140 1QKQ MAN 4.92958
141 1A78 TDG 5.22388
142 1OGX EQU 5.34351
143 4XCB AKG 5.47945
144 1XZ3 ICF 5.47945
145 3KDM TES 5.47945
146 1KC7 PPR 5.47945
147 1U6R ADP 5.47945
148 4ONA UW1 5.47945
149 2ET1 GLV 5.47945
150 2B3B BGC 5.47945
151 5TZO 7V7 5.47945
152 3WV6 GAL BGC 5.47945
153 2B3B GLC 5.47945
154 1R6N 434 5.47945
155 4LY9 1YY 5.47945
156 3E2M E2M 5.47945
157 3NNF AKG 5.47945
158 4UAL 3FV 5.47945
159 5EOB 5QQ 5.47945
160 1YKD CMP 5.47945
161 2HFK E4H 5.47945
162 4YSX E23 5.47945
163 3GD9 GLC BGC BGC BGC 5.47945
164 1JLX GAL A2G MBN 5.47945
165 3X01 AMP 5.47945
166 3TKI S25 5.47945
167 5TIV A3P 5.47945
168 3UU7 2OH 5.57769
169 2X32 OTP 5.58659
170 1X0P FAD 5.59441
171 5VLC HSO 5.8296
172 2AIB ERG 6.12245
173 3KV5 OGA 6.16438
174 3M3E GAL A2G NPO 6.16438
175 4RF7 ARG 6.16438
176 4LED XXR 6.16438
177 5HV0 AKG 6.16438
178 5GLT BGC GAL NAG GAL 6.16438
179 3SAO DBH 6.16438
180 5XVG 8FX 6.16438
181 6MPT C30 6.16438
182 5INJ 6C7 6.16438
183 4G31 0WH 6.16438
184 3SAO NKN 6.16438
185 1Y7P RIP 6.16438
186 5KD6 6C7 6.16438
187 2Z7I 742 6.16438
188 5EEH P9P 6.16438
189 5LNW RP5 6.16438
190 1TE2 PGA 6.16438
191 5NI5 8YB 6.16438
192 4WGF HX2 6.16438
193 5J3Z 6FQ 6.16438
194 5KEW 6SB 6.25
195 5AIG VPR 6.4
196 1KJ1 MAN 6.42202
197 2BYC FMN 6.56934
198 5VM6 9EG 6.56934
199 3PUR 2HG 6.84932
200 3N9O OGA 6.84932
201 3N9Q OGA 6.84932
202 3N9P OGA 6.84932
203 1GQG DCD 6.84932
204 4UMX VVS 6.84932
205 2WA4 069 6.84932
206 5O9W AKG 6.84932
207 5F1R 42O 6.84932
208 1VJY 460 6.84932
209 3T03 3T0 6.84932
210 3G9E RO7 6.84932
211 3W5N RAM 6.84932
212 5JNN 6LM 6.84932
213 4WOE ADP 6.84932
214 5HCY 60D 6.84932
215 4NPL AKG 6.84932
216 3W68 VIV 6.84932
217 4GYI ADP 6.84932
218 2YG2 FLC 6.84932
219 4LA7 A1O 6.84932
220 5T8O 76Z 6.84932
221 2YG2 S1P 6.84932
222 1KGI T4A 7.08661
223 5ACM MBT 7.20721
224 3WUD GLC GAL 7.35294
225 6EWZ APC 7.53425
226 4YUS FMN 7.53425
227 1ELI PYC 7.53425
228 3JU6 ANP 7.53425
229 4D1J DGJ 7.53425
230 3H9A PPY 7.53425
231 3B99 U51 7.53425
232 5A5W GUO 7.53425
233 4XAC AKG 7.53425
234 4J25 OGA 7.53425
235 3AI3 SOL 7.53425
236 3MPB FRU 7.53425
237 5OFI 9TQ 8.19672
238 3WG3 A2G GAL NAG FUC 8.21918
239 4QCK ASD 8.21918
240 4DQ2 BTX 8.21918
241 3O01 DXC 8.21918
242 2XMY CDK 8.21918
243 4YZC STU 8.21918
244 4Y24 TD2 8.21918
245 3DLS ADP 8.21918
246 5U97 PIT 8.21918
247 5V1B 8UY 8.21918
248 1YFS ALA 8.21918
249 5BYK OAQ 8.21918
250 5BYK A3P 8.21918
251 5GP0 GPP 8.21918
252 3A4V NAD 8.21918
253 3A4V PYR 8.21918
254 4JWK CTN 8.29016
255 2Z77 HE7 8.63309
256 1J3R 6PG 8.90411
257 1ULE GLA GAL NAG 8.90411
258 1ERB ETR 8.90411
259 1B7Y FYA 8.90411
260 6G5J EM8 8.90411
261 2EFJ 37T 8.90411
262 2AK3 AMP 8.90411
263 4FFG 0U8 8.90411
264 2CHG ANP 8.90411
265 3HQP OXL 8.90411
266 1W6P NDG GAL 8.95522
267 3OYW TDG 8.95522
268 4I94 ANP 9
269 4RJD TFP 9.09091
270 4Y8D 49J 9.28571
271 6CAY ERG 9.58904
272 2OVW CBI 9.58904
273 4L77 CNL 9.58904
274 4WVW SLT 9.72222
275 4XTX 590 10.274
276 1QY1 PRZ 10.274
277 2J5B TYE 10.274
278 3A51 VDY 10.274
279 3G5D 1N1 10.274
280 2J8R MSL 10.274
281 1I06 TZL 10.274
282 4H69 10Y 10.274
283 3M2W L8I 10.274
284 5OWC AYZ 10.6557
285 6E1Q CFA 10.9589
286 2GBB CIT 10.9589
287 5CX8 RP3 10.9589
288 3NB0 G6P 10.9589
289 1OS7 AKG 10.9589
290 3RV5 DXC 11.236
291 1YRX FMN 11.5702
292 5DYO FLU 11.6438
293 2ARC ARA 11.6438
294 4WHZ 3NL 11.6438
295 1UWK NAD 11.6438
296 1UWK URO 11.6438
297 3KDU NKS 11.6438
298 6FOF LAT 11.6438
299 1ZOY UQ1 11.6438
300 5H9P TD2 11.6438
301 3VRY B43 11.6438
302 5HCN DAO 11.6438
303 2VPY PCI 11.6438
304 4RYV ZEA 11.6438
305 2A4W BLM 12.3188
306 4REI 3MV 12.3288
307 2QZZ NAP 12.3288
308 5F6U 5VK 12.3288
309 2QZZ EMF 12.3288
310 5IF4 6AK 12.3288
311 1TZD ADP 12.3288
312 2JDR GLY ARG PRO ARG THR THR SER PHE ALA GLU 12.3288
313 2JDR L20 12.3288
314 3VV1 GAL FUC 12.3288
315 1W5T ADP 12.3288
316 1F5F DHT 12.3288
317 4MA6 28E 13.0137
318 4L4J NAG NAG BMA MAN NAG 13.0137
319 1BHX ASP PHE GLU GLU ILE 13.0137
320 3EXS 5RP 13.0137
321 4GJ3 0XP 13.0137
322 4QXB OGA 13.2353
323 4BG4 ADP 13.6986
324 3OID TCL 13.6986
325 2J3M ATP 13.6986
326 2J3M PRI 13.6986
327 1E2K TMC 13.6986
328 4OIT MAN 14.1593
329 2WBP ZZU 14.3836
330 2WBP SIN 14.3836
331 6BYM HC3 14.3836
332 2Y69 CHD 15.0685
333 5IM3 DTP 15.0685
334 4RQL SNE 15.0685
335 4NAO AKG 15.0685
336 5NVX 4YY 15.3846
337 6GMN F4E 15.3846
338 5WP4 PC 15.7534
339 3E8N VRA 16.4384
340 3E8N ATP 16.4384
341 5VNF VAL THR SER VAL VAL 16.4384
342 4F4P 0SB 16.4384
343 5TSH ANP 16.4384
344 3T4L ZEA 17.1233
345 6F6D AKG 17.1233
346 5OLK DTP 17.1233
347 6GR0 F8W 17.8082
348 5D9G GLU ASN LEU TYR PHE GLN 18.4932
349 1N8V BDD 18.75
350 4KYS VIB 19.1781
351 2R09 4IP 19.863
352 2R0D 4IP 19.863
353 5MBC FMN 20.5479
354 3B6R ADP 20.5479
355 5Z84 CHD 21.4286
356 5W97 CHD 21.4286
357 5ZCO CHD 21.4286
358 5TBM 79A 23.0769
359 1ECM TSA 23.8532
360 2IOR ADP 24.6575
361 2IYG FMN 25.8065
362 1OCU PIB 27.3973
363 5W75 SUC 28.7671
364 4IAW LIZ 28.7671
365 4RW3 PLM 31.5068
366 4RW3 IPD 31.5068
367 6F5U CQN 32.8767
368 2GJ3 FAD 35.8333
369 3EWK FAD 36.9863
370 4HIA FMN 38.3562
371 6GG9 FMN 41.7808
372 3IS2 FAD 41.7808
373 3D72 FAD 42.4658
374 4WUJ FMN 43.5374
375 5SVV FMN 43.7956
376 2WKQ FMN 45.8904
377 5DJT FMN 45.8904
378 5EFW FMN 45.8904
379 5DJU FMN 45.8904
380 3P7N FMN 48.6301
Pocket No.: 2; Query (leader) PDB : 6GBV; Ligand: FMN; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 2) in the query (biounit: 6gbv.bio1) has 21 residues
No: Leader PDB Ligand Sequence Similarity
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