Receptor
PDB id Resolution Class Description Source Keywords
5H7K 1.6 Å NON-ENZYME: OTHER CRYSTAL STRUCTURE OF ELONGATION FACTOR 2 GDP-FORM 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
GDP A:501;
Valid;
none;
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443.201 C10 H15 N5 O11 P2 c1nc2...
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90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
5H7K 1.6 Å NON-ENZYME: OTHER CRYSTAL STRUCTURE OF ELONGATION FACTOR 2 GDP-FORM 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 1443 families.
1 5H7K - GDP C10 H15 N5 O11 P2 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 1205 families.
1 5H7K - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
50% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 1039 families.
1 5H7K - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: GDP; Similar ligands found: 161
No: Ligand ECFP6 Tc MDL keys Tc
1 GDP 1 1
2 GTP 0.909091 1
3 GP3 0.881579 0.973684
4 GNH 0.858974 0.986667
5 9GM 0.839506 0.973684
6 GNP 0.839506 0.973684
7 G 0.828947 0.986486
8 5GP 0.828947 0.986486
9 G1R 0.82716 0.986667
10 GCP 0.82716 0.973684
11 GSP 0.817073 0.948718
12 GAV 0.797619 0.961039
13 GMV 0.792683 0.973684
14 G2P 0.77381 0.961039
15 G2R 0.770115 0.961039
16 GP2 0.756098 0.961039
17 GDC 0.747253 0.961039
18 GKE 0.747253 0.961039
19 GDD 0.747253 0.961039
20 GPG 0.741573 0.961039
21 G3D 0.732558 0.986486
22 ALF 5GP 0.729412 0.888889
23 Y9Z 0.728261 0.902439
24 G5P 0.723404 0.973684
25 GFB 0.72043 0.961039
26 GTG 0.72043 0.936709
27 GDR 0.72043 0.961039
28 G4P 0.715909 0.986486
29 G3A 0.712766 0.973684
30 6CK 0.712766 0.936709
31 GDP AF3 0.7 0.888889
32 ALF GDP 0.7 0.888889
33 GDP ALF 0.7 0.888889
34 YGP 0.698925 0.901235
35 GKD 0.697917 0.961039
36 JB2 0.697917 0.961039
37 GDX 0.690722 0.973684
38 GPD 0.690722 0.925
39 GMP 0.684211 0.88
40 0O2 0.666667 0.986486
41 JB3 0.656863 0.948718
42 NGD 0.650485 0.961039
43 DGI 0.636364 0.923077
44 GDP 7MG 0.636364 0.911392
45 U2G 0.634615 0.936709
46 GPX 0.634409 0.946667
47 G G 0.632653 0.948052
48 IDP 0.632184 0.972973
49 2MD 0.632075 0.891566
50 CAG 0.62963 0.880952
51 CG2 0.622642 0.936709
52 FEG 0.619048 0.879518
53 MGD 0.614679 0.891566
54 ZGP 0.613208 0.869048
55 GH3 0.612903 0.973333
56 3GP 0.611765 0.946667
57 MD1 0.607143 0.891566
58 PGD 0.59292 0.925
59 DGT 0.591398 0.923077
60 BGO 0.588785 0.924051
61 TPG 0.582609 0.840909
62 DBG 0.582609 0.948718
63 2GP 0.574713 0.96
64 FE9 0.570175 0.776596
65 GCP G 0.56 0.921053
66 A G 0.553571 0.935065
67 G A A A 0.553571 0.923077
68 MGP 0.553191 0.961039
69 U A G G 0.548673 0.935065
70 G4M 0.548387 0.880952
71 6G0 0.547368 0.961039
72 G1R G1R 0.542373 0.924051
73 P2G 0.527473 0.883117
74 PGD O 0.525 0.850575
75 ADP 0.522222 0.92
76 R5I 0.520833 0.946667
77 R7I 0.520833 0.946667
78 GGM 0.517544 0.901235
79 DGP 0.516484 0.910256
80 DG 0.516484 0.910256
81 P1G 0.516129 0.871795
82 G U 0.513274 0.9
83 G1G 0.508475 0.925
84 IMP 0.505495 0.959459
85 AKW 0.504425 0.890244
86 G C 0.504348 0.9
87 GPC 0.491525 0.879518
88 G7M 0.483871 0.948052
89 6AD 0.479592 0.841463
90 ATP 0.473684 0.92
91 HEJ 0.473684 0.92
92 G2Q 0.471154 0.961039
93 5FA 0.46875 0.92
94 AQP 0.46875 0.92
95 GTA 0.468468 0.936709
96 7DD 0.468085 0.906667
97 G G G RPC 0.466102 0.875
98 SGP 0.463158 0.82716
99 01G 0.462963 0.902439
100 HFD 0.459184 0.873418
101 B4P 0.457447 0.894737
102 AP5 0.457447 0.894737
103 A2D 0.456522 0.894737
104 6YZ 0.455446 0.896104
105 G G G C 0.455285 0.9125
106 5GP 5GP 0.454545 0.883117
107 ANP 0.454545 0.896104
108 ACQ 0.454545 0.896104
109 AT4 0.452632 0.884615
110 A G C C 0.451613 0.911392
111 APC G U 0.45082 0.886076
112 PRT 0.449541 0.959459
113 G U34 0.449153 0.888889
114 DG DG 0.448598 0.865854
115 ITT 0.447917 0.868421
116 BA3 0.446809 0.894737
117 C2E 0.444444 0.921053
118 PCG 0.444444 0.933333
119 35G 0.444444 0.933333
120 MGO 0.441176 0.864198
121 AN2 0.4375 0.907895
122 G C C C 0.4375 0.924051
123 M33 0.43299 0.883117
124 UCG 0.429688 0.911392
125 A G U 0.42963 0.888889
126 ACP 0.428571 0.896104
127 MGQ 0.424528 0.935897
128 AR6 0.424242 0.894737
129 7DT 0.424242 0.906667
130 APR 0.424242 0.894737
131 93A 0.42268 0.833333
132 A4P 0.420168 0.869048
133 G8D 0.42 0.875
134 AD9 0.42 0.896104
135 SAP 0.42 0.873418
136 AGS 0.42 0.873418
137 CA0 0.418367 0.896104
138 ATF 0.417476 0.884615
139 AGO 0.414634 0.888889
140 A G U U 0.414286 0.888889
141 NIA 0.413043 0.82716
142 MGV 0.412844 0.890244
143 TAT 0.411765 0.884615
144 T99 0.411765 0.884615
145 ADQ 0.411215 0.871795
146 A1R 0.411215 0.839506
147 RGT 0.410714 0.909091
148 CGP 0.409836 0.86747
149 C1Z 0.409091 0.986486
150 A 0.408602 0.893333
151 AMP 0.408602 0.893333
152 UP5 0.40678 0.873418
153 AMZ 0.406593 0.918919
154 C2R 0.406593 0.906667
155 JBT 0.405882 0.778947
156 A22 0.40566 0.907895
157 25L 0.405405 0.907895
158 ADX 0.40404 0.809524
159 8OD 0.401961 0.946667
160 50T 0.4 0.883117
161 4TC 0.4 0.851852
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 5H7K; Ligand: GDP; Similar sites found with APoc: 71
This union binding pocket(no: 1) in the query (biounit: 5h7k.bio1) has 18 residues
No: Leader PDB Ligand Sequence Similarity
1 1YZQ GNP 2.35294
2 2FFQ GSP 2.92398
3 1VG8 GNP 3.38164
4 1SVK ALF GDP 3.39943
5 1Y3A GDP 3.64742
6 1TAD ALF 3.7037
7 1TAD GDP 3.7037
8 1VG1 GDP 3.78378
9 1BH2 GSP 3.80952
10 1O3Y GTP 4.21687
11 1CS4 GSP 4.24528
12 1ZD9 GDP 4.25532
13 1RE0 GDP 4.26829
14 1ZJ6 G3D 4.27807
15 2A5F GTP 4.66321
16 3AB3 GDP 4.87805
17 6AU6 GDP 5.03979
18 1M2O GNP 5.28967
19 2XTZ GSP 5.36723
20 1GOT GDP 5.47945
21 3CX8 GSP 6.40394
22 5KDO GDP 6.75676
23 1S9D GDP 7.38916
24 3Q85 GNP 7.69231
25 3MD0 GDP 7.88732
26 1Z06 GNP 7.93651
27 5M04 GDP 8.06045
28 3T1O GDP 8.08081
29 4DCT GDP 8.56423
30 1Z0A GDP 8.62069
31 2GJ8 ALF GDP 8.72093
32 1FZQ GDP 8.83978
33 5BXQ GDP 10.1852
34 6G14 G4P 10.2041
35 1KSH GDP 10.2151
36 2ODE ALF GDP 10.2857
37 1PUJ GNP 10.6383
38 3RWO GDP 10.8108
39 3T12 GDP ALF 12.5
40 2G77 GDP 12.6263
41 6CRK GDP 12.6761
42 1GP2 GDP 12.6761
43 1YZG GDP 13.4078
44 4V0K GDP 13.6095
45 1R4A GNP 13.7255
46 1MKY GDP 13.8539
47 2OM2 GDP 13.8889
48 5FG3 GDP 15.1133
49 1F6B GDP 15.1515
50 1FQK GDP 15.6463
51 4M9Q GNP 16.7401
52 1D2E GDP 18.3879
53 4NCN GTP 18.3879
54 2WJG GDP 18.617
55 1G7S GDP 18.6398
56 4RD0 GDP 18.6398
57 1KK1 GNP 18.6398
58 2QN6 GDP 18.8917
59 3WXM GTP 19.6809
60 2BVN GNP 20.8651
61 1D8T GDP 20.8651
62 1WF3 GNP 21.2625
63 1SKQ GDP 22.1662
64 2WJH GDP 22.8916
65 1CLU DBG 27.7108
66 2HT6 GDP 31.6092
67 2C77 GNP 34.7607
68 2C78 GNP 35.0126
69 2HCJ GDP 35.1351
70 4B47 GDP 37.4656
71 5YT0 GDP 38.0952
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