Receptor
PDB id Resolution Class Description Source Keywords
7CID 2.49 Å EC: 3.5.1.- CRYSTAL STRUCTURE OF P.AERUGINOSA LPXC IN COMPLEX WITH INHIB PSEUDOMONAS AERUGINOSA PAO1 UDP-3-O-ACYL-N-ACETYLGLUCOSAMINE DEACETYLASE ENVA LPXC PSAERUGINOSA HYDROLASE
Ref.: FRAGMENT-BASED DISCOVERY OF NOVEL NON-HYDROXAMATE L INHIBITORS WITH ANTIBACTERIAL ACTIVITY. J.MED.CHEM. V. 63 14805 2020
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
ZN A:303;
 Part of Protein;
 none;
 submit data
65.409 Zn [Zn+2...
FZ3 A:301;
 Valid;
 none;
 ic50 = 125 uM
220.698 C12 H13 Cl N2 c1cc(...
DMS A:302;
 Invalid;
 none;
 submit data
78.133 C2 H6 O S CS(=O...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
6MAE 1.8 Å EC: 3.5.1.- CHAIN A. UDP-3-O-[3-HYDROXYMYRISTOYL] N-ACETYLGLUCOSAMINE DE PA-LPXC COMPLEXED WITH (R)-3-((S)-3-(4-(CYCLOPROPYLETHYNYL)O XOOXAZOLIDIN-5-YL)-N-HYDROXY-2-METHYL-2-(METHYLSULFONYL)PR PSEUDOMONAS AERUGINOSA (STRAIN ATCC 1522644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 /ORGANISM_TAXID: 208964 LPXC HYDROLASE
Ref.: APPLICATION OF VIRTUAL SCREENING TO THE IDENTIFICAT NEW LPXC INHIBITOR CHEMOTYPES, OXAZOLIDINONE AND ISOXAZOLINE. J. MED. CHEM. V. 61 9360 2018
Members (28)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 35 families.
1 3UHM ic50 = 3.6 nM RFN C17 H20 N2 O5 S C[C@@](CCN....
2 7CI4 ic50 = 8.97 uM FXU C12 H15 F3 N2 O4 S CS(=O)(=O)....
3 4LCH - 1WN C27 H23 N3 O5 C[C@](c1cc....
4 5U3B ic50 = 1.5 nM 7TD C16 H21 N3 O4 CC#CCOc1cc....
5 7CI9 ic50 = 20 nM FYL C21 H24 N4 O5 C[C@@H](c1....
6 7CI5 ic50 = 5.69 uM FXX C11 H11 F3 N2 O4 c1cc(cc(c1....
7 6MO5 ic50 = 0.3 nM JWP C22 H26 N2 O7 S CC(C)([C@@....
8 4J3D ic50 = 5.3 nM 1JS C23 H25 N3 O5 c1ccc(cc1)....
9 2VES - GVR C23 H20 N2 O4 S c1ccc2cc(c....
10 5DRR - 5EN C22 H19 F2 N3 O4 C[C@]([C@@....
11 4LCG - 1WM C26 H21 N3 O5 c1cc(ccc1C....
12 7CIC ic50 = 54.9 uM FZ0 C9 H9 F3 N2 O2 c1cc(cc(c1....
13 3P3E - 3P3 C21 H18 N2 O4 C[C@H]([C@....
14 6MO4 ic50 = 4.6 nM JWM C19 H22 N2 O6 S CC(C)([C@@....
15 5N8C - 8Q8 C27 H31 N5 O3 CC(C)([C@@....
16 7K99 - W4M C23 H27 N5 O3 S CS[C@@H](C....
17 5DRQ - 5EM C22 H22 N4 O3 CC(C)([C@@....
18 5U39 - C90 C24 H27 N3 O5 C[C@H]([C@....
19 3U1Y ic50 < 2.13 nM 03I C25 H34 N2 O6 S C[C@@](CCc....
20 7CIB - FYR C13 H10 O3 c1ccc(cc1)....
21 6MOO ic50 = 19 nM A5F C20 H23 N3 O4 CC(C)([C@@....
22 7CIE ic50 = 12.8 uM FZ6 C10 H11 F3 N2 O3 c1cc(cc(c1....
23 4LCF - 1WL C23 H19 N5 O3 c1cc(ccc1C....
24 7CID ic50 = 125 uM FZ3 C12 H13 Cl N2 c1cc(ccc1C....
25 7CI7 ic50 = 0.00603 uM FY9 C26 H32 N2 O5 S CS(=O)(=O)....
26 6MAE Kd = 0.065 nM JBA C19 H22 N2 O6 S C[C@@](C[C....
27 7K9A - W8P C23 H22 N6 O3 S CS[C@H](Cn....
28 6MOD ic50 = 0.71 nM JWV C19 H20 N2 O7 S COC1(CS(=O....
70% Homology Family (36)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 31 families.
1 3UHM ic50 = 3.6 nM RFN C17 H20 N2 O5 S C[C@@](CCN....
2 7CI4 ic50 = 8.97 uM FXU C12 H15 F3 N2 O4 S CS(=O)(=O)....
3 4LCH - 1WN C27 H23 N3 O5 C[C@](c1cc....
4 5U3B ic50 = 1.5 nM 7TD C16 H21 N3 O4 CC#CCOc1cc....
5 7CI9 ic50 = 20 nM FYL C21 H24 N4 O5 C[C@@H](c1....
6 7CI5 ic50 = 5.69 uM FXX C11 H11 F3 N2 O4 c1cc(cc(c1....
7 6MO5 ic50 = 0.3 nM JWP C22 H26 N2 O7 S CC(C)([C@@....
8 4J3D ic50 = 5.3 nM 1JS C23 H25 N3 O5 c1ccc(cc1)....
9 2VES - GVR C23 H20 N2 O4 S c1ccc2cc(c....
10 5DRR - 5EN C22 H19 F2 N3 O4 C[C@]([C@@....
11 4LCG - 1WM C26 H21 N3 O5 c1cc(ccc1C....
12 7CIC ic50 = 54.9 uM FZ0 C9 H9 F3 N2 O2 c1cc(cc(c1....
13 3P3E - 3P3 C21 H18 N2 O4 C[C@H]([C@....
14 6MO4 ic50 = 4.6 nM JWM C19 H22 N2 O6 S CC(C)([C@@....
15 5N8C - 8Q8 C27 H31 N5 O3 CC(C)([C@@....
16 7K99 - W4M C23 H27 N5 O3 S CS[C@@H](C....
17 5DRQ - 5EM C22 H22 N4 O3 CC(C)([C@@....
18 5U39 - C90 C24 H27 N3 O5 C[C@H]([C@....
19 3U1Y ic50 < 2.13 nM 03I C25 H34 N2 O6 S C[C@@](CCc....
20 7CIB - FYR C13 H10 O3 c1ccc(cc1)....
21 6MOO ic50 = 19 nM A5F C20 H23 N3 O4 CC(C)([C@@....
22 7CIE ic50 = 12.8 uM FZ6 C10 H11 F3 N2 O3 c1cc(cc(c1....
23 4LCF - 1WL C23 H19 N5 O3 c1cc(ccc1C....
24 7CID ic50 = 125 uM FZ3 C12 H13 Cl N2 c1cc(ccc1C....
25 7CI7 ic50 = 0.00603 uM FY9 C26 H32 N2 O5 S CS(=O)(=O)....
26 6MAE Kd = 0.065 nM JBA C19 H22 N2 O6 S C[C@@](C[C....
27 7K9A - W8P C23 H22 N6 O3 S CS[C@H](Cn....
28 6MOD ic50 = 0.71 nM JWV C19 H20 N2 O7 S COC1(CS(=O....
29 3NZK Ki = 0.54 nM C90 C24 H27 N3 O5 C[C@H]([C@....
30 4MQY - UKW C13 H12 N2 O4 C[C@H]([C@....
31 4IS9 - LTF C15 H20 N2 O5 CCCc1cc(cc....
32 3PS1 - UKW C13 H12 N2 O4 C[C@H]([C@....
33 4ISA - GVR C23 H20 N2 O4 S c1ccc2cc(c....
34 3P3G Ki = 0.18 nM 3P3 C21 H18 N2 O4 C[C@H]([C@....
35 3PS2 - UKW C13 H12 N2 O4 C[C@H]([C@....
36 3PS3 - L53 C21 H17 N3 O4 C[C@@H]([C....
50% Homology Family (46)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 20 families.
1 3UHM ic50 = 3.6 nM RFN C17 H20 N2 O5 S C[C@@](CCN....
2 7CI4 ic50 = 8.97 uM FXU C12 H15 F3 N2 O4 S CS(=O)(=O)....
3 4LCH - 1WN C27 H23 N3 O5 C[C@](c1cc....
4 5U3B ic50 = 1.5 nM 7TD C16 H21 N3 O4 CC#CCOc1cc....
5 7CI9 ic50 = 20 nM FYL C21 H24 N4 O5 C[C@@H](c1....
6 7CI5 ic50 = 5.69 uM FXX C11 H11 F3 N2 O4 c1cc(cc(c1....
7 6MO5 ic50 = 0.3 nM JWP C22 H26 N2 O7 S CC(C)([C@@....
8 4J3D ic50 = 5.3 nM 1JS C23 H25 N3 O5 c1ccc(cc1)....
9 2VES - GVR C23 H20 N2 O4 S c1ccc2cc(c....
10 5DRR - 5EN C22 H19 F2 N3 O4 C[C@]([C@@....
11 4LCG - 1WM C26 H21 N3 O5 c1cc(ccc1C....
12 7CIC ic50 = 54.9 uM FZ0 C9 H9 F3 N2 O2 c1cc(cc(c1....
13 3P3E - 3P3 C21 H18 N2 O4 C[C@H]([C@....
14 6MO4 ic50 = 4.6 nM JWM C19 H22 N2 O6 S CC(C)([C@@....
15 5N8C - 8Q8 C27 H31 N5 O3 CC(C)([C@@....
16 7K99 - W4M C23 H27 N5 O3 S CS[C@@H](C....
17 5DRQ - 5EM C22 H22 N4 O3 CC(C)([C@@....
18 5U39 - C90 C24 H27 N3 O5 C[C@H]([C@....
19 3U1Y ic50 < 2.13 nM 03I C25 H34 N2 O6 S C[C@@](CCc....
20 7CIB - FYR C13 H10 O3 c1ccc(cc1)....
21 6MOO ic50 = 19 nM A5F C20 H23 N3 O4 CC(C)([C@@....
22 7CIE ic50 = 12.8 uM FZ6 C10 H11 F3 N2 O3 c1cc(cc(c1....
23 4LCF - 1WL C23 H19 N5 O3 c1cc(ccc1C....
24 7CID ic50 = 125 uM FZ3 C12 H13 Cl N2 c1cc(ccc1C....
25 7CI7 ic50 = 0.00603 uM FY9 C26 H32 N2 O5 S CS(=O)(=O)....
26 6MAE Kd = 0.065 nM JBA C19 H22 N2 O6 S C[C@@](C[C....
27 7K9A - W8P C23 H22 N6 O3 S CS[C@H](Cn....
28 6MOD ic50 = 0.71 nM JWV C19 H20 N2 O7 S COC1(CS(=O....
29 5DRP - 5EP C23 H23 N3 O3 CC[C@H](C)....
30 4U3D - 3BX C26 H30 N2 O5 c1cc(ccc1C....
31 5U86 - 81V C25 H27 F2 N3 O5 C[C@]([C@@....
32 4U3B - 3BW C19 H20 Cl N O4 S c1cc(ccc1O....
33 5DRO - ZH2 C21 H19 N3 O4 C[C@H]([C@....
34 2J65 - MYR C14 H28 O2 CCCCCCCCCC....
35 3P3C - 3P3 C21 H18 N2 O4 C[C@H]([C@....
36 1P42 - MYR C14 H28 O2 CCCCCCCCCC....
37 3P76 - P76 C24 H27 N3 O4 C[C@H]([C@....
38 2O3Z Kd = 2 uM AI7 C14 H20 O3 CCCCCCCOc1....
39 3NZK Ki = 0.54 nM C90 C24 H27 N3 O5 C[C@H]([C@....
40 4MQY - UKW C13 H12 N2 O4 C[C@H]([C@....
41 4IS9 - LTF C15 H20 N2 O5 CCCc1cc(cc....
42 3PS1 - UKW C13 H12 N2 O4 C[C@H]([C@....
43 4ISA - GVR C23 H20 N2 O4 S c1ccc2cc(c....
44 3P3G Ki = 0.18 nM 3P3 C21 H18 N2 O4 C[C@H]([C@....
45 3PS2 - UKW C13 H12 N2 O4 C[C@H]([C@....
46 3PS3 - L53 C21 H17 N3 O4 C[C@@H]([C....
Polypharmacology
Similar Ligands (2D)
Ligand no: 1; Ligand: FZ3; Similar ligands found: 2
No: Ligand ECFP6 Tc MDL keys Tc
1 FZ3 1 1
2 9KE 0.430556 0.627451
Similar Ligands (3D)
Ligand no: 1; Ligand: FZ3; Similar ligands found: 112
No: Ligand Similarity coefficient
1 IPJ 0.9360
2 A8K 0.9302
3 SVG 0.9299
4 5TO 0.9193
5 S0B 0.9174
6 MFY 0.9171
7 SAZ 0.9168
8 JGY 0.9156
9 0H9 0.9154
10 JF5 0.9147
11 4YZ 0.9139
12 OJD 0.9139
13 A9E 0.9125
14 S8P 0.9116
15 P93 0.9115
16 BSU 0.9097
17 HCC 0.9094
18 LVP 0.9082
19 11X 0.9079
20 IJ4 0.9078
21 KPV 0.9077
22 7HV 0.9063
23 9RK 0.9058
24 4P9 0.9053
25 JON 0.9024
26 BGK 0.9010
27 DBE 0.8996
28 PZX 0.8994
29 TPM 0.8986
30 RB7 0.8985
31 GHQ 0.8981
32 3CX 0.8977
33 HAR 0.8977
34 0XR 0.8974
35 SB7 0.8972
36 BZM 0.8969
37 5PV 0.8959
38 NRG 0.8958
39 HPK 0.8942
40 OGY 0.8937
41 L02 0.8933
42 9JH 0.8930
43 MKN 0.8929
44 27K 0.8927
45 SCE 0.8923
46 F91 0.8916
47 HPX 0.8909
48 8YH 0.8890
49 A9B 0.8886
50 DTB 0.8883
51 XI7 0.8881
52 6C4 0.8880
53 3GZ 0.8876
54 D53 0.8868
55 F5N 0.8863
56 9J6 0.8863
57 4KJ 0.8860
58 3KJ 0.8851
59 DA2 0.8843
60 RDV 0.8840
61 1Q2 0.8831
62 ZE7 0.8826
63 SB9 0.8824
64 0V7 0.8823
65 0OM 0.8813
66 22F 0.8812
67 Q86 0.8809
68 TBJ 0.8807
69 6C5 0.8802
70 5V0 0.8802
71 IJ1 0.8798
72 REG 0.8792
73 00G 0.8791
74 NFZ 0.8785
75 4FP 0.8776
76 S0F 0.8775
77 JKK 0.8760
78 1PS 0.8754
79 94X 0.8751
80 G50 0.8751
81 JCQ 0.8743
82 ALY 0.8732
83 6FR 0.8732
84 ARG 0.8724
85 OUL 0.8720
86 G8V 0.8717
87 0V8 0.8712
88 PHQ ALA 0.8699
89 4EU 0.8695
90 M5P 0.8694
91 U73 0.8674
92 IPL 0.8657
93 N9M 0.8650
94 HMZ 0.8647
95 G27 0.8645
96 4VC 0.8634
97 CWP 0.8631
98 LPA 0.8630
99 X8W 0.8630
100 0QA 0.8628
101 EXY 0.8619
102 DI9 0.8598
103 EGV 0.8597
104 RE4 0.8585
105 D1Y 0.8578
106 A6E 0.8577
107 3IP 0.8574
108 D1G 0.8574
109 PQV 0.8572
110 4Z0 0.8552
111 ND5 0.8542
112 5VU 0.8528
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 6MAE; Ligand: JBA; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 1) in the query (biounit: 6mae.bio1) has 33 residues
No: Leader PDB Ligand Sequence Similarity
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