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Receptor
PDB id Resolution Class Description Source Keywords
4XCP 2.14 Å NON-ENZYME: BINDING FATTY ACID AND RETINOL BINDING PROTEIN NA-FAR-1 FROM NECATOR AMERICANUS NECATOR AMERICANUS FATTY ACID RETINOL BINDING RETINOL-BINDING PROTEIN
Ref.: DIVERSITY IN THE STRUCTURES AND LIGAND-BINDING SITE NEMATODE FATTY ACID AND RETINOL-BINDING PROTEINS RE NA-FAR-1 FROM NECATOR AMERICANUS. BIOCHEM.J. V. 471 403 2015
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
PLM A:202;
A:201;
Valid;
Valid;
none;
none;
submit data
256.424 C16 H32 O2 CCCCC...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
4XCP 2.14 Å NON-ENZYME: BINDING FATTY ACID AND RETINOL BINDING PROTEIN NA-FAR-1 FROM NECATOR AMERICANUS NECATOR AMERICANUS FATTY ACID RETINOL BINDING RETINOL-BINDING PROTEIN
Ref.: DIVERSITY IN THE STRUCTURES AND LIGAND-BINDING SITE NEMATODE FATTY ACID AND RETINOL-BINDING PROTEINS RE NA-FAR-1 FROM NECATOR AMERICANUS. BIOCHEM.J. V. 471 403 2015
Members (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 510 families.
1 4XCP - PLM C16 H32 O2 CCCCCCCCCC....
70% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 391 families.
1 4XCP - PLM C16 H32 O2 CCCCCCCCCC....
50% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 298 families.
1 4XCP - PLM C16 H32 O2 CCCCCCCCCC....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: PLM; Similar ligands found: 62
No: Ligand ECFP6 Tc MDL keys Tc
1 MYR 1 1
2 EW8 1 1
3 TDA 1 1
4 F15 1 1
5 PLM 1 1
6 STE 1 1
7 X90 1 1
8 DAO 1 1
9 KNA 1 1
10 DCR 1 1
11 F23 1 1
12 11A 1 1
13 DKA 1 1
14 OCA 0.956522 1
15 SHV 0.833333 0.952381
16 KTC 0.793103 0.875
17 AZ1 0.73913 0.64
18 6NA 0.72 0.904762
19 ELA 0.71875 0.954545
20 OLA 0.71875 0.954545
21 NER 0.71875 0.954545
22 VCA 0.666667 0.954545
23 PAM 0.666667 0.954545
24 PML 0.625 0.6
25 3LA 0.606061 0.8
26 LEA 0.6 0.809524
27 MYZ 0.588235 0.909091
28 12H 0.586207 0.615385
29 ODD 0.567568 0.913043
30 BRC 0.566667 0.666667
31 14V 0.555556 0.740741
32 M12 0.545455 0.869565
33 14U 0.542857 0.703704
34 EIC 0.538462 0.913043
35 EOD 0.538462 0.7
36 D0G 0.5 0.954545
37 BMJ 0.5 0.954545
38 BNV 0.5 0.954545
39 BUA 0.48 0.666667
40 RCL 0.468085 0.84
41 FTT 0.459459 0.807692
42 HXD 0.459459 0.807692
43 56S 0.459459 0.653846
44 ODT 0.452381 0.782609
45 3X1 0.444444 0.818182
46 LNL 0.44186 0.826087
47 9J6 0.441176 0.666667
48 OOA 0.441176 0.76
49 CUY 0.435897 0.68
50 6UL 0.435897 0.68
51 CNS 0.435897 0.68
52 5UF 0.432432 0.807692
53 243 0.428571 0.807692
54 1QW 0.418605 0.606061
55 GYM 0.418605 0.606061
56 O8N 0.413793 0.75
57 1DO 0.413793 0.75
58 PL3 0.413793 0.75
59 OC9 0.413793 0.75
60 DE1 0.413793 0.75
61 F09 0.413793 0.75
62 T25 0.403846 0.677419
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 4XCP; Ligand: PLM; Similar sites found with APoc: 348
This union binding pocket(no: 1) in the query (biounit: 4xcp.bio1) has 10 residues
No: Leader PDB Ligand Sequence Similarity
1 6C28 WCA None
2 4ZVV GN0 None
3 4ZVV NAD None
4 5MT9 SRO None
5 5MT9 ARG None
6 2OFW ADX None
7 2PEZ GGZ None
8 2PEZ DAT None
9 5CSD ACD None
10 4QVB F42 None
11 4AVB ACO None
12 3GWL FAD None
13 4WUJ FMN None
14 1Y60 H4M None
15 4MNS 2AX None
16 5CYV WCA None
17 4EES FMN None
18 3WR7 COA None
19 4OIV XX9 None
20 5H86 BCO None
21 1OCU PIB None
22 3LEO GSH None
23 1GHE ACO 1.17647
24 5ZBL AMP 1.17647
25 4P6W MOF 1.17647
26 1Q2C COA 1.23457
27 3QT6 2P0 1.50602
28 4X7R 3YW 1.76471
29 4X7R UDP 1.76471
30 4X7R NTO 1.76471
31 3F5O UOC COA 1.76471
32 5B25 4QJ 1.76471
33 4LAE 1VM 1.79641
34 4LAE NAP 1.79641
35 3MBG FAD 2.15827
36 2XMY CDK 2.34899
37 6C7D EOJ 2.35294
38 4GYW UDP 2.35294
39 5BNW 12V 2.35294
40 4N3A UDP 2.35294
41 1V9A SAH 2.35294
42 4ZAL 4LR 2.35294
43 4ZAL FNR 2.35294
44 5N9T 8QQ 2.35294
45 4I9B NAD 2.35294
46 5BNS 4VM 2.35294
47 2E9L BGC 2.35294
48 2E9L PLM 2.35294
49 2E9L OLA 2.35294
50 2ZKJ ADP 2.35294
51 1EBL COA 2.35294
52 3NZK C90 2.35294
53 3UMV FAD 2.35294
54 4UTG ANP 2.35294
55 2CJF RP4 2.54777
56 3FAP ARD 2.80374
57 4R38 RBF 2.85714
58 2YC5 6BC 2.94118
59 2HHP FLC 2.94118
60 3P9T TCL 2.94118
61 5IWQ PLP 2.94118
62 2QTR NXX 2.94118
63 2IID PHE 2.94118
64 2IID FAD 2.94118
65 6B5Q PPI CZS 2KY MLY 1XY 2.94118
66 6CB2 OLC 2.94118
67 4BR5 ANP 2.94118
68 1XW6 GSH 2.94118
69 4QJK COA 2.94118
70 1XA4 COA 2.94118
71 3EE4 MYR 2.94118
72 2VZZ SCA 2.94118
73 4M52 M52 3.52941
74 1BZL GCG 3.52941
75 2C5A GDC 3.52941
76 2C5A NAD 3.52941
77 3VSS FRU 3.52941
78 5C2H 4XU 3.52941
79 3T58 FAD 3.52941
80 2V2V V12 3.52941
81 5XJ7 87O 3.52941
82 5C2H 4PX 3.52941
83 4RVG TYD 3.52941
84 4G86 BNT 3.52941
85 4QWT ACD 3.52941
86 2WDA L42 3.52941
87 4CFP NAG AMU NAG AMV 3.52941
88 4N02 FNR 3.52941
89 5TK8 7D5 3.52941
90 4HA6 FAD 3.52941
91 3GPO APR 3.57143
92 5W3X ACO 3.75
93 3SQP FAD 4.11765
94 2ZYJ PGU 4.11765
95 1P0H ACO 4.11765
96 1UUO BRF 4.11765
97 6BMS PLM 4.11765
98 1X6V ADP 4.11765
99 4X7G 3Y8 4.11765
100 5J60 FAD 4.11765
101 2QZS 250 4.11765
102 2QZS ADP 4.11765
103 2QZS GLC 4.11765
104 1NIU DCS 4.11765
105 2WPX ACO 4.11765
106 3O55 FAD 4.11765
107 4QJL COA 4.11765
108 3U5S FAD 4.11765
109 1COY FAD 4.11765
110 4RHE FMN 4.11765
111 4UA3 COA 4.11765
112 1SO2 666 4.11765
113 1QZR ANP 4.11765
114 4XJC TTP 4.11765
115 6CEP NAD 4.11765
116 1YMT DR9 4.11765
117 3WDM ADN 4.11765
118 4GFD 0YB 4.11765
119 2VL8 UDP 4.11765
120 2VL8 CTS 4.11765
121 4OR7 25U 4.24242
122 3IS2 FAD 4.54545
123 3D72 FAD 4.69799
124 6ARJ BW4 4.70588
125 6ARJ SAH 4.70588
126 1H9G COA MYR 4.70588
127 4CFS HQD 4.70588
128 5L2M 6ZY 4.70588
129 3RS8 APR 4.70588
130 6BA2 7KM 4.70588
131 3G08 FEE 4.70588
132 3OZ2 OZ2 4.70588
133 5OHJ 9VE 4.70588
134 4I6G FAD 4.70588
135 2VD9 EPC 4.70588
136 2VD9 IN5 4.70588
137 4GCZ FMN 4.70588
138 3WGT QSC 4.70588
139 3WGT FAD 4.70588
140 1ZXM ANP 4.70588
141 4HIA FMN 4.70588
142 4GU5 FAD 4.70588
143 6BR8 6OU 4.70588
144 6F6J CUW 4.70588
145 6F6J SIN 4.70588
146 6BR9 PGV 4.70588
147 3X1M COA 5.03145
148 5SVV FMN 5.10949
149 4IGH 1EA 5.29412
150 4IGH FMN 5.29412
151 4IGH ORO 5.29412
152 1KOL NAD 5.29412
153 3O0Q TTP 5.29412
154 3KMZ EQO 5.29412
155 3H86 AP5 5.29412
156 3QWB NDP 5.29412
157 1QM5 PLP 5.29412
158 1O9J NAD 5.29412
159 5E7V M7E 5.29412
160 3R5Y F42 5.44218
161 3T50 FMN 5.46875
162 3KV8 FAH 5.7554
163 2ASF CIT 5.83942
164 3MGB PAP 5.88235
165 2XEM SSV 5.88235
166 4UME KDO 5.88235
167 1DKF BMS 6.00858
168 4M8E 29V 6.06061
169 2PRG BRL 6.47059
170 2P4Y C03 6.47059
171 5TWO 7MV 6.47059
172 1RDT 570 6.47059
173 3FUR Z12 6.47059
174 3SCM LGN 6.47059
175 3G9E RO7 6.47059
176 1FM9 570 6.47059
177 4TWP AXI 6.47059
178 3GF4 FAD 6.47059
179 3GF4 UPG 6.47059
180 2CHG ANP 6.47059
181 6AD9 KK4 6.47059
182 1PS9 FAD 6.47059
183 5GZ9 ANP 6.47059
184 2B4B COA 6.47059
185 1EM6 NBG 6.47059
186 5NDF UDP 6.47059
187 2JBZ COA 6.99301
188 3L1N PLM 7.05882
189 5O42 BGC 7.05882
190 5O42 9JW 7.05882
191 5O42 NAD 7.05882
192 5IDM ANP 7.05882
193 4IHL 1F5 7.05882
194 6GG9 FMN 7.05882
195 3RHJ NAP 7.05882
196 2QE4 JJ3 7.05882
197 5G5G FAD 7.05882
198 2E2R 2OH 7.05882
199 2OCI TYC 7.05882
200 3RYC GTP 7.05882
201 1VFS DCS 7.05882
202 3W54 RNB 7.05882
203 4XH4 ANP 7.05882
204 4XH4 PPI 7.05882
205 2C9E PID 7.05882
206 4NSQ COA 7.05882
207 1B7H LYS NLE LYS 7.05882
208 1XVB 3BR 7.05882
209 4KM2 TOP 7.05882
210 4KM2 ATR 7.05882
211 3H4L ANP 7.05882
212 1U26 IHS 7.4184
213 2GJ3 FAD 7.5
214 1HG4 LPP 7.52688
215 5K52 OCD 7.54717
216 3KDU NKS 7.64706
217 6CS8 F9Y 7.64706
218 2NPA MMB 7.64706
219 1K7L 544 7.64706
220 3FEI CTM 7.64706
221 2P54 735 7.64706
222 3SP6 IL2 7.64706
223 3V4S ATP 7.64706
224 4EPL JAI 7.64706
225 3ET1 ET1 7.64706
226 2HJ3 FAD 8
227 5K0A FAD 8.23529
228 5UNJ RJW 8.23529
229 1YUC EPH 8.23529
230 2RJH DCS 8.23529
231 1YOK P6L 8.23529
232 2GMH UQ5 8.23529
233 2JJK R15 8.23529
234 5GM9 CBK 8.23529
235 3LN0 52B 8.82353
236 4Q6R 30J 8.82353
237 5F1R 42O 8.82353
238 4D7M TDC 8.82353
239 2PR5 FMN 9.09091
240 4A0M NAD 9.41177
241 3QUZ QUV 9.41177
242 5TIV A3P 9.41177
243 5ICE 2H4 10
244 5ICE SAH 10
245 4PXL NAD 10
246 5FAG PPI 10
247 6ER9 NAP 10
248 6ER9 FAD 10
249 5J7X FAD 10
250 5K53 STE 10
251 4RC8 STE 10
252 5C9J STE 10.101
253 5WL1 CUY 10.101
254 5WL1 D3D 10.101
255 1KOR ANP 10.5882
256 1KOR ARG 10.5882
257 4PFW MAN MAN BMA BMA BMA BMA 10.5882
258 4MGB XDH 10.5882
259 1KOR SIN 10.5882
260 1XON PIL 10.5882
261 2QZO KN1 10.5882
262 3UUA 0CZ 10.5882
263 5HCV 60R 10.5882
264 5L13 6ZE 10.5882
265 5DX3 EST 10.5882
266 2BJ4 OHT 10.5882
267 2JLB UDM 10.5882
268 5MWY YNU 10.5882
269 5DXG EST 10.5882
270 4UDB CV7 10.5882
271 5L7G 6QE 10.5882
272 5M67 ADE 10.5882
273 5M67 NAD 10.5882
274 2A3I C0R 10.5882
275 2Q8G AZX 10.5882
276 2ZWA SAH 10.5882
277 3TDC 0EU 11.1765
278 5LLT DND 11.1765
279 2I0G I0G 11.1765
280 3OLL EST 11.1765
281 4CDN FAD 11.1765
282 4CDN FO1 11.1765
283 4J24 EST 11.1765
284 4I8P NAD 11.1765
285 3IX9 MTX 11.1765
286 3L9R L9R 11.2245
287 1GUX ASP LEU TYR CYS TYR GLU GLN LEU ASN 11.7647
288 1MO9 FAD 11.7647
289 1MO9 KPC 11.7647
290 1RYI GOA 11.7647
291 5HGZ ACO 11.7647
292 1RYI FAD 11.7647
293 5IUW IAC 11.7647
294 5IUW NAD 11.7647
295 3ZLR X0B 12.0253
296 1YQZ FAD 12.3529
297 3HRD FAD 12.3529
298 2Z7I 742 12.3529
299 2JG1 ANP 12.3529
300 3CXH SMA 12.3529
301 2WPF WPF 12.9412
302 2WPF FAD 12.9412
303 2BJK NAD 12.9412
304 2X24 X24 12.9412
305 6B5G NAD 12.9412
306 6B5G CQY 12.9412
307 4OGQ SQD 13.5294
308 2JGV ADP 13.5294
309 4OGQ UMQ 13.5294
310 4IPE ANP 14.1176
311 4X6F 3XU 14.2857
312 4KWD JF2 14.7059
313 4IVG ANP 14.7059
314 3GWN FAD 14.9123
315 1SR7 MOF 15.2941
316 5JCM ISD 15.8824
317 5JCM NAD 15.8824
318 5JCM FAD 15.8824
319 3NC9 TR3 15.8824
320 5VLC HSO 15.8824
321 2VBQ BSJ 16.4706
322 5HGR 45D 16.4706
323 1M5B BN1 17.6471
324 4X9M FAD 17.6471
325 3QCJ NX4 17.6471
326 4FHT DHB 17.8344
327 2RKN LP3 18.1818
328 1JR8 FAD 18.8034
329 4XSU GLC 18.8235
330 4XSU UDP 18.8235
331 5ODQ FAD 19.4118
332 5ODQ 9SB 19.4118
333 4F97 VDO 19.4118
334 2VAR ANP 19.4118
335 4F97 GDP 19.4118
336 2A5F NAD 20
337 1OQC FAD 20.8
338 4LUT DCS 22.3529
339 1IUP ALQ 22.9412
340 5DJU FMN 22.9508
341 2DYS TGL 23.4043
342 5Z84 TGL 23.4043
343 2DYR TGL 23.4043
344 5ZCO TGL 23.4043
345 6C7R EO4 24.7059
346 6EJI UD2 25.2941
347 3R5W F42 25.8929
348 3D36 ADP 26.087
Pocket No.: 2; Query (leader) PDB : 4XCP; Ligand: PLM; Similar sites found with APoc: 150
This union binding pocket(no: 2) in the query (biounit: 4xcp.bio1) has 12 residues
No: Leader PDB Ligand Sequence Similarity
1 5IF4 6AK None
2 3GZ9 D32 None
3 6AYI C3G None
4 3CH6 NAP None
5 3CH6 311 None
6 2IYG FMN None
7 5WRE 7TL None
8 4JSR 1NQ None
9 5JF2 SF7 None
10 5UFS 1TA None
11 2FKW RG1 None
12 1N5S ADL None
13 1YRX FMN None
14 2VWA PTY None
15 1UO5 PIH None
16 5V03 658 None
17 4Y30 SAH 1.17647
18 5DY5 5GR 1.76471
19 1DTP APU 1.76471
20 5B0W 22B 2.35294
21 4XU6 TDA 2.38095
22 5LP1 71H 2.94118
23 3W68 VIV 2.94118
24 5G57 6M5 2.94118
25 3TGE TGE 2.94118
26 5OM2 DXT 2.94118
27 6BQC LOP 2.94118
28 4PNE SAH 2.94118
29 6ESN BWE 3.52941
30 1R5L VIV 3.52941
31 3WMX THR 3.52941
32 5B4B LP5 3.52941
33 5AZC PGT 3.66667
34 3KXC PLM 3.79747
35 3E8T UQ8 4.11765
36 6IIU A8X 4.11765
37 1LBT T80 4.11765
38 4U0I 0LI 4.11765
39 6AYH C3G 4.70588
40 5LD8 6U5 4.70588
41 5NTP 98E 4.70588
42 5NTW 98N 4.70588
43 5NI5 8YB 4.70588
44 5APK 76E 4.70588
45 4WPF 3SN 4.70588
46 1N4H REA 4.70588
47 2WYA HMG 4.70588
48 3SFI 3SF 4.70588
49 3PF7 MLA 4.70588
50 1G94 DAF GLC DAF GLC GLC 4.70588
51 5IXK 6EW 4.70588
52 1MHC FME TYR PHE ILE ASN ILE LEU THR LEU 4.70588
53 2IZ1 RES 4.70588
54 3NT6 COA 4.70588
55 3NTA COA 4.70588
56 3FWN 6PG 4.70588
57 5LNW HG3 4.74684
58 2O5L MNR 5.22876
59 1GNI OLA 5.29412
60 3WYJ H78 5.29412
61 4B7H NDP 5.29412
62 2EVL GAL SPH EIC 5.29412
63 3VZS CAA 5.29412
64 1RJD SAM 5.29412
65 5K13 6Q7 5.29412
66 5JFL NAD 5.29412
67 4KBS PX2 5.29412
68 1O5R FR9 5.29412
69 4PIV 2W4 5.29412
70 3WCA FPS 5.29412
71 4HBM 0Y7 5.83333
72 5EK3 5PK 5.88235
73 5X3R 7Y3 5.88235
74 2BTO GTP 5.88235
75 1NTV ASN PHE ASP ASN PRO VAL TYR ARG LYS THR 5.88235
76 4CRL C1I 5.88235
77 4POJ 2VP 6.06061
78 3EWC MCF 6.47059
79 4BXK 1IU 6.47059
80 5XPL 8C9 6.47059
81 2R40 EPH 6.47059
82 2O4J VD4 6.47059
83 1M13 HYF 6.47059
84 4BQH 9VU 6.47059
85 3ET3 ET1 6.47059
86 5Y02 HBX 6.54206
87 5M37 9SZ 7.05882
88 2V5E SCR 7.05882
89 2A06 SMA 7.05882
90 2R3A SAM 7.05882
91 1XVB BHL 7.05882
92 4X9X OLA 7.05882
93 3VVY ET 7.05882
94 5X1M THG 7.05882
95 5X1M DHB 7.05882
96 5ZFJ 9BF 7.05882
97 2OBD PCW 7.64706
98 3GFZ FMN 7.64706
99 4P42 PEE 7.64706
100 4GBD MCF 7.64706
101 4UCC ZKW 7.64706
102 2RHQ GAX 7.64706
103 1N20 3AG 7.64706
104 1BWO LPC 7.77778
105 2OFV 242 8.23529
106 2PX6 DH9 8.82353
107 4P3H 25G 8.82353
108 1WDK N8E 8.82353
109 5DUF G7A 9.41177
110 5UGW GSH 9.41177
111 6B2M COA 9.79021
112 5LX9 OLB 10
113 5JHD GLY ILE LEU GLY PHE VAL PHE THR LEU 10
114 1OGA GLY ILE LEU GLY PHE VAL PHE THR LEU 10
115 1ZT1 PHE GLU ALA ASN GLY ASN LEU ILE 10
116 3QDJ ALA ALA GLY ILE GLY ILE LEU THR VAL 10
117 5LWY OLA 10
118 6ADI 9UO 10.0239
119 3HUJ AGH 10.101
120 5XS3 VAL ARG SER ARG ARG CYS LEU ARG LEU 10.2041
121 4V24 GYR 10.5882
122 1YKI NFZ 10.5882
123 3QKD HI0 11.1765
124 4F7E 0SH 11.2245
125 3CX5 SMA 12.3529
126 3V78 ET 12.3529
127 5WP4 SAH 12.3529
128 5JFS 6K0 12.3529
129 3KO0 TFP 12.8713
130 3E2M E2M 12.9412
131 2C78 PUL 13.5294
132 4KRG SAH 13.5294
133 2FGE ALA ALA LEU THR ARG ALA 14.1176
134 1EZV SMA 14.8649
135 2IBZ SMA 14.8649
136 1O6U PLM 15.2941
137 2FP2 TSA 15.6627
138 4Y9J UCC 15.8824
139 3T6E UQ9 16.4706
140 1OLM VTQ 17.0588
141 4OMJ 2TX 17.0588
142 2QJY SMA 22.3529
143 2DYS PSC 23.4043
144 2DYR PSC 23.4043
145 5ZCO PSC 23.4043
146 5Z84 PSC 23.4043
147 2DYR PGV 23.4043
148 5Z84 PGV 23.4043
149 5IVX ARG GLY PRO GLY ARG ALA PHE VAL THR ILE 24.1176
150 5MWE TCE 24.2857
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