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Receptor
PDB id Resolution Class Description Source Keywords
4JEJ 1.52 Å EC: 7.-.-.- GGGPS FROM FLAVOBACTERIUM JOHNSONIAE FLAVOBACTERIUM JOHNSONIAE PCRB-LIKE FSPP GGPP TRANSFERASE
Ref.: A COMPREHENSIVE ANALYSIS OF THE GERANYLGERANYLGLYCE PHOSPHATE SYNTHASE ENZYME FAMILY IDENTIFIES NOVEL M AND REVEALS MECHANISMS OF SUBSTRATE SPECIFICITY AND QUATERNARY STRUCTURE ORGANIZATION. MOL.MICROBIOL. V. 92 885 2014
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
MG A:305;
A:304;
Part of Protein;
Part of Protein;
none;
none;
submit data
24.305 Mg [Mg+2...
1GP A:301;
Valid;
none;
submit data
172.074 C3 H9 O6 P C([C@...
PGE A:302;
Invalid;
none;
submit data
150.173 C6 H14 O4 C(COC...
PO4 A:303;
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
4JEJ 1.52 Å EC: 7.-.-.- GGGPS FROM FLAVOBACTERIUM JOHNSONIAE FLAVOBACTERIUM JOHNSONIAE PCRB-LIKE FSPP GGPP TRANSFERASE
Ref.: A COMPREHENSIVE ANALYSIS OF THE GERANYLGERANYLGLYCE PHOSPHATE SYNTHASE ENZYME FAMILY IDENTIFIES NOVEL M AND REVEALS MECHANISMS OF SUBSTRATE SPECIFICITY AND QUATERNARY STRUCTURE ORGANIZATION. MOL.MICROBIOL. V. 92 885 2014
Members (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 293 families.
1 4JEJ - 1GP C3 H9 O6 P C([C@@H](C....
70% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 250 families.
1 4JEJ - 1GP C3 H9 O6 P C([C@@H](C....
50% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 204 families.
1 4JEJ - 1GP C3 H9 O6 P C([C@@H](C....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: 1GP; Similar ligands found: 27
No: Ligand ECFP6 Tc MDL keys Tc
1 G3P 1 1
2 1GP 1 1
3 GP9 0.551724 0.90625
4 GPE 0.514286 0.731707
5 M2P 0.5 0.882353
6 GOS 0.5 0.882353
7 LX1 0.484848 0.828571
8 A5P 0.484848 0.911765
9 DX5 0.484848 0.911765
10 LXP 0.484848 0.911765
11 HG3 0.482759 0.90625
12 S6P 0.470588 0.939394
13 DXP 0.457143 0.828571
14 G3H 0.4375 0.848485
15 3PG 0.4375 0.852941
16 D5X 0.432432 0.805556
17 CH5 0.425 0.6
18 EFS 0.423077 0.69697
19 M6R 0.421053 0.756098
20 AGP 0.421053 0.756098
21 GSE 0.414634 0.714286
22 E4P 0.411765 0.878788
23 R52 0.405405 0.828571
24 DG6 0.405405 0.885714
25 TX4 0.405405 0.630435
26 R5P 0.405405 0.828571
27 FQ8 0.4 0.885714
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 4JEJ; Ligand: 1GP; Similar sites found with APoc: 338
This union binding pocket(no: 1) in the query (biounit: 4jej.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
1 2VD9 EPC None
2 2VD9 IN5 None
3 6BKK 308 None
4 6GG9 FMN None
5 6BVE PGA 1.22951
6 2O66 FLC 1.48148
7 3NTY 5P3 1.63934
8 3NTY NAP 1.63934
9 1ZQ5 NAP 1.63934
10 1ZQ5 E04 1.63934
11 2C29 NAP 1.63934
12 1L5Y BEF 1.93548
13 1YXM ADE 2.04918
14 2OO0 PLP 2.04918
15 5GJO PLP 2.04918
16 3H7U NAP 2.04918
17 2RJH DCS 2.04918
18 2FFC U5P 2.04918
19 3CV6 NAP 2.04918
20 3CV6 HXS 2.04918
21 3ESS 18N 2.17391
22 3TAO PGH 2.45902
23 1RBL CAP 2.45902
24 4YMZ 13P 2.45902
25 1LQA NDP 2.45902
26 5WAN FMN 2.45902
27 4C3Y FAD 2.45902
28 5A1S FLC 2.45902
29 5U97 PIT 2.45902
30 1EKO NAP 2.45902
31 1EKO I84 2.45902
32 4C3Y ANB 2.45902
33 3FSY SCA 2.45902
34 2HK9 SKM 2.45902
35 1Q6O LG6 2.77778
36 1QDS PGA 2.86885
37 2BP1 NDP 2.86885
38 3GAY P6T 2.86885
39 1PZ1 NAP 2.86885
40 1TUF AZ1 2.86885
41 1OFU GDP 2.86885
42 5T9C G3P 2.86885
43 2BGS NDP 2.86885
44 1VP5 NAP 2.86885
45 2GOU FMN 2.86885
46 6G5Q EMZ 2.86885
47 3B9O FMN 2.86885
48 2OFW ADX 2.88462
49 5GVR LMR 2.99145
50 3GD8 GOL 3.13901
51 1XTT U5P 3.24074
52 4BI7 PGA 3.27869
53 3EAU NDP 3.27869
54 3EAU PDN 3.27869
55 1FDJ 13P 3.27869
56 5OCS FMN 3.27869
57 2VBF TPP 3.27869
58 1W8S FBP 3.27869
59 4LUT DCS 3.27869
60 3CV7 C2U 3.27869
61 3CV7 NAP 3.27869
62 1QPB TPP 3.27869
63 6CEP NAD 3.27869
64 1S7G NAD 3.27869
65 1ADO 13P 3.27869
66 4KXL 6C6 3.28947
67 4P5E N6P 3.28947
68 4P83 U5P 3.2967
69 1VBO MAN MAN MAN 3.3557
70 4I9A NCN 3.47222
71 4XDZ 40E 3.49854
72 1X1Z BMP 3.68852
73 1DQX BMP 3.68852
74 4QNW FMN 3.68852
75 2C91 NAP 3.68852
76 3KRB NAP 3.68852
77 1M9H NAD 3.68852
78 4GCZ FMN 3.68852
79 3H0L ADP 3.68852
80 1DBT U5P 3.76569
81 1LOR BMP 3.94737
82 1TRD PGH 4.09836
83 2Q3R FMN 4.09836
84 5TCI MLI 4.09836
85 2NVA PL2 4.09836
86 5KD6 6C7 4.09836
87 3H7R NAP 4.09836
88 3RIY NAD 4.09836
89 4JIQ FMN 4.09836
90 4JIQ 1L5 4.09836
91 3QPB URA 4.09836
92 1NV8 SAM 4.09836
93 1WD4 AHR 4.09836
94 4D9C PMP 4.09836
95 1AFS NAP 4.09836
96 1L3I SAH 4.16667
97 1LYX PGA 4.5082
98 5XFV FMN 4.5082
99 3MJY IJZ 4.5082
100 4CW5 FMN 4.5082
101 3MJY FMN 4.5082
102 2BTM PGA 4.5082
103 3C3N FMN 4.5082
104 5EYW PGA 4.5082
105 5C9P FUC 4.5082
106 1EIX BMQ 4.5082
107 2WPF FAD 4.5082
108 2WPF WPF 4.5082
109 3WQD PLP 999 4.5082
110 4RJK TPP 4.5082
111 5X40 ACP 4.5082
112 2E5A LAQ 4.5082
113 3O3R NAP 4.5082
114 1V35 NAI 4.5082
115 1T3Q FAD 4.7619
116 1ICP FMN 4.91803
117 5D6T NGA 4.91803
118 1GVE NAP 4.91803
119 4N02 FNR 4.91803
120 5VJE GOS 4.91803
121 2OEM 1AE 4.91803
122 1QF5 GDP 4.91803
123 1QF5 RPL 4.91803
124 1KTC NGA 4.91803
125 1FRB ZST 4.91803
126 1V97 MTE 4.91803
127 5G5G FAD 4.91803
128 2VVL FAD 4.91803
129 5DJT FMN 4.91803
130 5KJW 53C 4.91803
131 1BZY IMU 5.06912
132 2C3H GLC GLC 5.10204
133 3CTL S6P 5.19481
134 4USI AKG 5.19481
135 1QPR PPC 5.32787
136 1VYP FMN 5.32787
137 1VYP TNF 5.32787
138 5K0A FAD 5.32787
139 1V1A KDG 5.32787
140 5ZYN FAD 5.32787
141 6EK3 OUL 5.42986
142 2GAG FAD 5.71429
143 2GAG FOA 5.71429
144 1UJP CIT 5.7377
145 4WZH FMN 5.7377
146 2Q8Z NUP 5.7377
147 6BKA FMN 5.7377
148 4A22 TD4 5.7377
149 6F5W KG1 5.7377
150 4O12 2QG 5.7377
151 1NJJ ORX 5.7377
152 5YJS SAL 5.7377
153 2GVJ DGB 5.7377
154 5EXW 7DT 5.7377
155 6GNA FAD 5.7377
156 5LX6 78P 5.75916
157 1SW0 PGA 6.14754
158 1GVF PGH 6.14754
159 3KRU FMN 6.14754
160 1AL8 FMN 6.14754
161 1AL8 DHP 6.14754
162 3FC4 EDO 6.14754
163 2GNM MAN 6.14754
164 3Q9T FAY 6.14754
165 6B3V ANP 6.14754
166 1UKG MMA 6.14754
167 2PHX MAN MAN 6.14754
168 1Q8Q MAN MMA 6.14754
169 2ZFZ ARG 6.32911
170 1UUO BRF 6.55738
171 1UUO FMN 6.55738
172 1UUO ORO 6.55738
173 2C6Q NDP 6.55738
174 4IGH ORO 6.55738
175 4IGH 1EA 6.55738
176 4IGH FMN 6.55738
177 2C6Q IMP 6.55738
178 2Q4H AMP 6.55738
179 1TB3 FMN 6.55738
180 4U7W NDP 6.55738
181 3QKT ANP 6.55738
182 4B4Q A2G GAL NAG FUC GAL GLC 6.62252
183 2BLE 5GP 6.96721
184 1NZY BCA 6.96721
185 2QWO ADP 6.96721
186 3HQP OXL 6.96721
187 5WS9 OXL 6.96721
188 1JXZ BCA 6.96721
189 4ORM FMN 7.37705
190 4ORM ORO 7.37705
191 4ORM 2V6 7.37705
192 1TV5 FMN 7.37705
193 2GMH FAD 7.37705
194 3HRD FAD 7.37705
195 5EJ2 NAD 7.37705
196 5HSA FAS 7.37705
197 3H55 GLA 7.37705
198 1VKF CIT 7.44681
199 2TPS TPS 7.48899
200 5O3Q CMP 7.5
201 1PVN MZP 7.78689
202 1ME8 RVP 7.78689
203 4YRY FAD 7.78689
204 1BWV CAP 7.97101
205 3MI2 PFU 8.19672
206 4HKP TKW 8.19672
207 4HKP 16B 8.19672
208 2QCD U5P 8.19672
209 5T79 NDP 8.19672
210 4JTA NAP 8.19672
211 2RDT 2RD 8.19672
212 2RDT FMN 8.19672
213 1PS9 FMN 8.19672
214 3C56 PH4 8.19672
215 3N9R TD3 8.19672
216 4I4Z 2NE 8.19672
217 1J0D 5PA 8.19672
218 4JLS 3ZE 8.55263
219 4Z87 5GP 8.60656
220 3UWV 2PG 8.60656
221 2VK4 TPP 8.60656
222 4IDC NDP 8.60656
223 4IDC 1XX 8.60656
224 3TD3 GLY 8.94309
225 4YEF 4CQ 8.98876
226 6BFG FMN 9.01639
227 1P4C FMN 9.01639
228 6F7L FAD 9.01639
229 1JCM 137 9.01639
230 1D2N ANP 9.01639
231 3BLI PYR 9.01639
232 1ZPD DPX 9.01639
233 1NIU DCS 9.01639
234 3OIX FMN 9.01639
235 5OBU ANP 9.01639
236 2NU8 COA 9.02062
237 4JEM C5P 9.41177
238 5J5R 6G1 9.42623
239 5J5R IMP 9.42623
240 1LBF 137 9.42623
241 1OVD ORO 9.42623
242 1OVD FMN 9.42623
243 6DVH FMN 9.42623
244 1VFS DCS 9.42623
245 1OYB HBA 9.42623
246 1OYB FMN 9.42623
247 2Y88 2ER 9.83607
248 4AF0 IMP 9.83607
249 4Z0G 5GP 9.83607
250 2G50 ALA 9.83607
251 2G50 PYR 9.83607
252 3QH2 3NM 9.95475
253 5CSS G3P 10.177
254 2Q3O FMN 10.2459
255 2ZRU FMN 10.2459
256 2D1S SLU 10.2459
257 1CX9 NHP 10.4478
258 3BW2 FMN 10.6557
259 4IXH IMP 10.6557
260 2HSA FMN 10.6557
261 3GLC R5P 10.6557
262 4UTU LRY 10.917
263 4UTW RFW 10.917
264 4Q4K FMN 11.0656
265 5AHN IMP 11.0656
266 1RBO CAP 11.0656
267 3AXK NDP 11.0656
268 5AHM IMP 11.0656
269 1WDD CAP 11.0656
270 2PR5 FMN 11.3636
271 2GJN FMN 11.4754
272 2GJN NIS 11.4754
273 2VDH CAP 11.4754
274 2V67 CAP 11.4754
275 2V63 CAP 11.4754
276 2V6A CAP 11.4754
277 1UZD CAP 11.4754
278 2PLK P3D 11.4754
279 2V68 CAP 11.4754
280 1IR2 CAP 11.4754
281 1UZH CAP 11.4754
282 1GK8 CAP 11.4754
283 1OX5 1PR 11.8852
284 3HF3 FMN 11.8852
285 4XP7 FNR 11.8852
286 4QIJ 1HA 11.8852
287 4R74 F6P 11.8852
288 1IR1 CAP 12.1951
289 3EXS 5RP 12.2172
290 3KDN CAP 12.2951
291 1F76 FMN 12.2951
292 1M5W DXP 12.3457
293 2FKA BEF 12.4031
294 4ZLU 4PW 12.7049
295 4ZLU ADP 12.7049
296 2FJK 13P 12.7049
297 2FLI DX5 12.7273
298 5A5W GUO 13.1148
299 1GTE FMN 13.1148
300 1GTE IUR 13.1148
301 3OVR 5SP 13.1579
302 1EP2 ORO 13.5246
303 1EP2 FMN 13.5246
304 1FFU FAD 13.5246
305 5Y5Q DUT 13.7931
306 4EWN 0VR 13.9344
307 1ZFJ IMP 14.3443
308 5OYA CAP 14.3885
309 1KBI FMN 14.7541
310 1KBI PYR 14.7541
311 1KBJ FMN 14.7541
312 5N9Z CAP 15.1079
313 5GVH FMN 15.1639
314 1Z44 FMN 15.1639
315 1Z48 FMN 15.1639
316 1Z42 FMN 15.1639
317 2NLI FMN 15.1639
318 2NLI LAC 15.1639
319 1Z41 FMN 15.1639
320 5Y6Q FAD 16.0606
321 4GLL NAD 16.3934
322 2Z6I FMN 17.2131
323 1OZH HE3 17.2131
324 2Z6J FMN 18.0328
325 2YPI PGA 18.0328
326 4POW OP1 18.0328
327 4EES FMN 18.2609
328 1EXB NDP 19.4175
329 1JG3 ADN 21.2766
330 4D57 ARG AMP 22.9508
331 3QF7 ANP 24
332 4HSU FAD 29.8387
333 4GUT FAD 29.8387
334 3VKC FPQ 33.1967
335 1OFD FMN 34.0164
336 1OFD AKG 34.0164
337 4NAE 1GP 41.3333
338 2F6U CIT 42.3077
Pocket No.: 2; Query (leader) PDB : 4JEJ; Ligand: 1GP; 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: 4jej.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
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