Receptor
PDB id Resolution Class Description Source Keywords
5h7j 2.3 Å NON-ENZYME: OTHER CRYSTAL STRUCTURE OF ELONGATION FACTOR 2 PYROCOCCUS HORIKOSHII OT3 ELONGATION FACTOR PROTEIN BIOSYNTHESIS GTP-BINDING TRANSL
Ref.: THE C-TERMINAL HELIX OF RIBOSOMAL P STALK RECOGNIZE HYDROPHOBIC GROOVE OF ELONGATION FACTOR 2 IN A NOVE NUCLEIC ACIDS RES. V. 46 3232 2018
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
GCP B:801;
 Valid;
 none;
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521.208 C11 H18 N5 O13 P3 c1nc2...
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90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
5H7J 2.3 Å NON-ENZYME: OTHER CRYSTAL STRUCTURE OF ELONGATION FACTOR 2 PYROCOCCUS HORIKOSHII OT3 ELONGATION FACTOR PROTEIN BIOSYNTHESIS GTP-BINDING TRANSL
Ref.: THE C-TERMINAL HELIX OF RIBOSOMAL P STALK RECOGNIZE HYDROPHOBIC GROOVE OF ELONGATION FACTOR 2 IN A NOVE NUCLEIC ACIDS RES. V. 46 3232 2018
Members (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 1610 families.
1 5H7J - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
70% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 1331 families.
1 5H7J - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
50% Homology Family (5)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 220 families.
1 1DAR Kd = 11 uM GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
2 2BM0 Ki = 440 uM GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
3 2BV3 - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
4 1WDT - GTP C10 H16 N5 O14 P3 c1nc2c(n1[....
5 5H7J - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
Polypharmacology
Similar Ligands (2D)
Ligand no: 1; Ligand: GCP; Similar ligands found: 140
No: Ligand ECFP6 Tc MDL keys Tc
1 GCP 1 1
2 GP3 0.8375 0.948718
3 GDP 0.82716 0.973684
4 GNH 0.817073 0.961039
5 GP2 0.804878 0.987013
6 GTP 0.797619 0.973684
7 G1R 0.788235 0.961039
8 9GM 0.77907 0.948718
9 GNP 0.77907 0.948718
10 GSP 0.77907 0.925
11 5GP 0.765432 0.960526
12 G 0.765432 0.960526
13 G2P 0.758621 0.987013
14 GMV 0.755814 0.948718
15 G2R 0.736264 0.961538
16 Y9Z 0.715789 0.903614
17 GAV 0.703297 0.936709
18 G3A 0.701031 0.948718
19 GKE 0.697917 0.936709
20 GDC 0.697917 0.936709
21 GDD 0.697917 0.936709
22 ALF 5GP 0.696629 0.86747
23 G5P 0.693878 0.948718
24 GPG 0.691489 0.936709
25 GFB 0.690722 0.936709
26 GTG 0.690722 0.91358
27 GDR 0.690722 0.936709
28 GDP BEF 0.688889 0.911392
29 GDP AF3 0.688172 0.86747
30 YGP 0.6875 0.879518
31 6CK 0.683673 0.91358
32 GTP MG 0.681319 0.935065
33 JB2 0.67 0.936709
34 GKD 0.67 0.936709
35 GPD 0.663366 0.925926
36 GDX 0.663366 0.948718
37 GDP ALF 0.652632 0.86747
38 JB3 0.632075 0.925
39 GMP 0.62963 0.857143
40 NGD 0.626168 0.936709
41 G3D 0.610526 0.960526
42 2MD 0.609091 0.870588
43 KB7 0.602151 0.807229
44 G4P 0.597938 0.960526
45 U2G 0.59633 0.91358
46 FEG 0.59633 0.880952
47 GDP 7MG 0.596154 0.888889
48 MGD 0.59292 0.870588
49 CAG 0.59292 0.860465
50 ZGP 0.590909 0.870588
51 0O2 0.59 0.960526
52 CG2 0.585586 0.91358
53 KBD 0.574257 0.807229
54 PGD 0.57265 0.902439
55 MD1 0.57265 0.892857
56 3GP 0.566667 0.922078
57 DBG 0.563025 0.925
58 TPG 0.563025 0.842697
59 FE9 0.550847 0.760417
60 ACP 0.548387 0.922078
61 GH3 0.54 0.973684
62 KBJ 0.537736 0.8
63 2GP 0.532609 0.935065
64 G4M 0.53125 0.860465
65 GPX 0.529412 0.922078
66 DGI 0.525773 0.924051
67 IDP 0.520833 0.947368
68 DGT 0.52 0.924051
69 AKW 0.513043 0.869048
70 I2C FE2 CMO CMO 0.512397 0.791209
71 P1G 0.510417 0.873418
72 QBQ 0.50505 0.960526
73 G1G 0.504132 0.902439
74 R7I 0.5 0.922078
75 BGO 0.5 0.901235
76 G1R G1R 0.5 0.901235
77 R5I 0.5 0.922078
78 PGD O 0.496 0.831461
79 ACQ 0.494949 0.922078
80 P2G 0.489583 0.860759
81 GGM 0.487395 0.879518
82 MGP 0.485149 0.936709
83 6G0 0.480392 0.936709
84 6YZ 0.480392 0.922078
85 DG 0.479167 0.911392
86 DGP 0.479167 0.911392
87 GPC 0.47541 0.858824
88 G C 0.475 0.878049
89 4TC 0.470085 0.876543
90 IMP 0.46875 0.934211
91 GTA 0.464912 0.91358
92 NYZ 0.455446 0.961538
93 G2Q 0.453704 0.961538
94 A2D 0.452632 0.871795
95 CZF 0.45098 0.909091
96 G7M 0.44898 0.924051
97 AT4 0.44898 0.8625
98 APC G U 0.448819 0.8875
99 SGP 0.444444 0.807229
100 BA3 0.443299 0.871795
101 ADP 0.438776 0.896104
102 B4P 0.438776 0.871795
103 AP5 0.438776 0.871795
104 ANP 0.436893 0.873418
105 AN2 0.434343 0.884615
106 M33 0.43 0.860759
107 A12 0.428571 0.910256
108 AP2 0.428571 0.910256
109 C2E 0.427184 0.897436
110 35G 0.427184 0.909091
111 PCG 0.427184 0.909091
112 ATP 0.425743 0.896104
113 HEJ 0.425743 0.896104
114 5GP 5GP 0.423077 0.860759
115 AR6 0.421569 0.871795
116 APR 0.421569 0.871795
117 5FA 0.421569 0.896104
118 AQP 0.421569 0.896104
119 AGS 0.417476 0.851852
120 AD9 0.417476 0.873418
121 UP5 0.416667 0.851852
122 CA0 0.415842 0.873418
123 ATF 0.415094 0.8625
124 HFD 0.413462 0.851852
125 O02 0.413462 0.9
126 JSQ 0.413462 0.851852
127 KG4 0.411765 0.873418
128 M7G A2M G 0.411765 0.811111
129 A1R 0.409091 0.841463
130 PRT 0.408696 0.934211
131 01G 0.408696 0.880952
132 APC 0.407767 0.910256
133 A4P 0.406504 0.848837
134 UCG 0.406015 0.888889
135 7DD 0.405941 0.883117
136 93A 0.405941 0.813953
137 6AD 0.40566 0.821429
138 ADX 0.401961 0.790698
139 GZ0 0.401639 0.949367
140 AGO 0.401575 0.86747
Similar Ligands (3D)
Ligand no: 1; Ligand: GCP; Similar ligands found: 24
No: Ligand Similarity coefficient
1 BEF GDP 0.9930
2 ALF GDP 0.9782
3 BEF ADP 0.9638
4 DTP 0.9553
5 ADP AF3 0.9434
6 ADP ALF 0.9433
7 GDP MG 0.9412
8 ADP BEF 0.9366
9 ADP MG 0.9130
10 VO4 ADP 0.9105
11 UTP 0.9022
12 CTP 0.9014
13 8DG 0.8919
14 DSZ 0.8833
15 AMO 0.8830
16 MGT 0.8785
17 3AT 0.8730
18 A5A 0.8717
19 5AL 0.8677
20 DAT 0.8646
21 SSA 0.8643
22 G5A 0.8612
23 KAA 0.8610
24 SAM 0.8586
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 5H7J; Ligand: GCP; Similar sites found with APoc: 150
This union binding pocket(no: 1) in the query (biounit: 5h7j.bio2) has 15 residues
No: Leader PDB Ligand Sequence Similarity
1 6AU6 GDP 2.91777
2 5M04 GDP 3.05556
3 6MHE GDP 3.42857
4 1Y3A GDP 3.64742
5 1Y3A GDP 3.64742
6 1Y3A GDP 3.64742
7 1Y3A GDP 3.64742
8 1TAD GDP 3.7037
9 1TAD ALF 3.7037
10 1BH2 GSP 3.80952
11 1FZQ GDP 3.8674
12 3CX8 GSP 4.14201
13 1O3Y GTP 4.21687
14 1O3Y GTP 4.21687
15 1CS4 GSP 4.24528
16 1ZD9 GDP 4.25532
17 1ZJ6 G3D 4.27807
18 1ZJ6 G3D 4.27807
19 1ZJ6 G3D 4.27807
20 2RCN GDP 4.46927
21 2RCN GDP 4.46927
22 2A5F GTP 4.66321
23 1OIV GDP 4.71204
24 1RE0 GDP 4.97738
25 1M2O GNP 5.26316
26 1M2O GNP 5.26316
27 1M2O GNP 5.26316
28 2XTZ GSP 5.36723
29 2XTZ GSP 5.36723
30 2XTZ GSP 5.36723
31 5KDO GDP 5.40541
32 1Z2A GDP 5.95238
33 2G77 GDP 6.06061
34 3MD0 GDP 6.19718
35 3RWO GDP 6.48649
36 3RWO GDP 6.48649
37 2FFQ GSP 7.01754
38 3AB3 GDP 7.31707
39 3AB3 GDP 7.31707
40 1S9D GDP 7.38916
41 3Q85 GNP 7.69231
42 3Q85 GNP 7.69231
43 6IZW GSP 7.88177
44 3T1O GDP 8.08081
45 3T1O GDP 8.08081
46 6CRK GDP 8.4507
47 1GP2 GDP 8.4507
48 5Z2M GTP 8.52273
49 5Z2M GTP 8.52273
50 1Z0A GDP 8.62069
51 1Z0A GDP 8.62069
52 1Z0A GDP 8.62069
53 1Z0A GDP 8.62069
54 1Z0A GDP 8.62069
55 2GJ8 ALF GDP 8.72093
56 2GJ8 ALF GDP 8.72093
57 1MR3 G3D 8.83978
58 1VG0 GDP 9.17874
59 1VG8 GNP 9.17874
60 1VG8 GNP 9.17874
61 1VG8 GNP 9.17874
62 6KX2 GDP 9.39227
63 5FG3 GDP 9.79133
64 3GJ8 GDP 9.95475
65 3GJ8 GDP 9.95475
66 3GJ5 GDP 9.95475
67 3GJ7 GDP 9.95475
68 3CH5 GDP 10.1852
69 3CH5 GDP 10.1852
70 6G14 G4P 10.2041
71 6G14 G4P 10.2041
72 1KSH GDP 10.2151
73 1VG9 GDP 10.2703
74 1VG9 GDP 10.2703
75 1VG9 GDP 10.2703
76 1VG9 GDP 10.2703
77 2ODE ALF GDP 10.2857
78 3EC1 GDP 10.2981
79 5GOE GDP 10.4265
80 1PUJ GNP 10.6383
81 2WIC GNP 11.236
82 2WIC GNP 11.236
83 6A8D GDP 11.4583
84 1UPT GTP 11.6667
85 1UPT GTP 11.6667
86 1UPT GTP 11.6667
87 1UPT GTP 11.6667
88 1MKY GDP 12.0729
89 1S8F GDP 12.4294
90 1S8F GDP 12.4294
91 1G7S GDP 12.4579
92 3T12 GDP ALF 12.5
93 1YZG GDP 13.4078
94 4V0K GDP 13.6095
95 4V0K GDP 13.6095
96 1R4A GNP 13.7255
97 1R4A GNP 13.7255
98 1R4A GNP 13.7255
99 1R4A GNP 13.7255
100 2OM2 GDP 13.8889
101 2OM2 GDP 13.8889
102 1F6B GDP 15.1515
103 1F6B GDP 15.1515
104 5O74 GDP 15.2284
105 5O74 GDP 15.2284
106 5O74 GDP 15.2284
107 5O74 GDP 15.2284
108 1FQK GDP 15.6463
109 1FQK GDP 15.6463
110 4NCN GTP 15.9737
111 1FQJ GDP 16.6667
112 4M9Q GNP 16.7401
113 4M9Q GNP 16.7401
114 4M9Q GNP 16.7401
115 1G7C 5GP 17.4672
116 4RD0 GDP 17.8313
117 1KK1 GNP 18.0488
118 2QN6 GDP 18.1159
119 1D2E GDP 18.3879
120 1D2E GDP 18.3879
121 1D2E GDP 18.3879
122 1D2E GDP 18.3879
123 2WJG GDP 18.617
124 2WJG GDP 18.617
125 3WXM GTP 19.6809
126 3WXM GTP 19.6809
127 3WXM GTP 19.6809
128 3WXM GTP 19.6809
129 1SKQ GDP 20.2299
130 1SKQ GDP 20.2299
131 1D8T GDP 20.8651
132 1D8T GDP 20.8651
133 2BVN GNP 20.8651
134 4BAS GNP 21.1055
135 4BAS GNP 21.1055
136 1WF3 GNP 21.2625
137 1GOT GDP 21.9178
138 2WJH GDP 22.8916
139 2FH5 GTP 24.2991
140 2FH5 GTP 24.2991
141 6MHF GDP 25.8065
142 1J2J GTP 26.6667
143 2CJW GDP 28.6458
144 2HT6 GDP 31.6092
145 2HT6 GDP 31.6092
146 2C77 GNP 34.0741
147 2C78 GNP 34.321
148 2HCJ GDP 35.1351
149 5YT0 GDP 38.0952
150 4B47 GDP 40.4959
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