Receptor
PDB id Resolution Class Description Source Keywords
1G7S 2 Å NON-ENZYME: TRANSCRIPT_TRANSLATE X-RAY STRUCTURE OF TRANSLATION INITIATION FACTOR IF2/EIF5B COMPLEXED WITH GDP METHANOTHERMOBACTER THERMAUTOTROPHICUS TRANSLATIONAL GTPASE
Ref.: X-RAY STRUCTURES OF THE UNIVERSAL TRANSLATION INITIATION FACTOR IF2/EIF5B: CONFORMATIONAL CHANGES ON GDP AND GTP BINDING. CELL(CAMBRIDGE,MASS.) V. 103 781 2000
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
GDP A:601;
Valid;
none;
submit data
443.201 C10 H15 N5 O11 P2 c1nc2...
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90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
1G7S 2 Å NON-ENZYME: TRANSCRIPT_TRANSLATE X-RAY STRUCTURE OF TRANSLATION INITIATION FACTOR IF2/EIF5B COMPLEXED WITH GDP METHANOTHERMOBACTER THERMAUTOTROPHICUS TRANSLATIONAL GTPASE
Ref.: X-RAY STRUCTURES OF THE UNIVERSAL TRANSLATION INITIATION FACTOR IF2/EIF5B: CONFORMATIONAL CHANGES ON GDP AND GTP BINDING. CELL(CAMBRIDGE,MASS.) V. 103 781 2000
Members (2)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 291 families.
1 1G7T - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
2 1G7S - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
70% Homology Family (2)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 247 families.
1 1G7T - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
2 1G7S - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
50% Homology Family (3)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 209 families.
1 1G7T - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
2 1G7S - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
3 5FG3 - 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 : 1G7S; Ligand: GDP; Similar sites found with APoc: 60
This union binding pocket(no: 1) in the query (biounit: 1g7s.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
1 2RCN GDP 1.39665
2 3TK1 GDP 2.72727
3 5M04 GDP 3.05556
4 3MD0 GDP 3.09859
5 5GOE GDP 3.5545
6 1RE0 GDP 3.65854
7 1F6B GDP 4.0404
8 1OIV GDP 4.18848
9 3AQ4 GDP 4.34783
10 4DKX GDP 4.62963
11 1PUJ GNP 4.96454
12 5CK5 GDP 5.37975
13 1FZQ GDP 6.07735
14 1YZG GDP 6.14525
15 6G14 G4P 6.46258
16 2CJW GDP 6.77083
17 3EC1 GDP 6.77507
18 1YRB GDP 6.87023
19 4LC1 GDP 7.40741
20 2X77 GDP 7.40741
21 2HT6 GDP 7.47126
22 5O74 GDP 7.77778
23 1Z0F GDP 8.93855
24 3Q72 GNP 9.63855
25 3N5C GDP 9.87654
26 1ZJ6 G3D 10.1604
27 1S9D GDP 10.3448
28 2WJG GDP 11.7021
29 1MKY GDP 11.8451
30 1MR3 G3D 12.1547
31 3CNL GNP 12.2137
32 5H7J GCP 12.4579
33 3GJ0 GDP 12.6697
34 3CH5 GDP 12.963
35 2WJH GDP 13.253
36 4DCT GDP 13.3772
37 4J0Q GDP 14.0878
38 3Q85 GNP 14.2012
39 5W76 GDP 15.0649
40 3U6B GDP 15.4822
41 4P3Y GDP 15.4822
42 4G5G GDP 15.4822
43 5JBQ GDP 15.4822
44 3U6K GDP 15.4822
45 4PC3 GDP 15.4822
46 1D8T GDP 15.5216
47 2BVN GNP 15.5216
48 5W75 GDP 15.8163
49 1SVI GDP 15.8974
50 5W7Q GDP 16.0858
51 2A5J GDP 16.7539
52 5H7K GDP 18.6398
53 3WY9 GDP 19.1244
54 3WYA GDP 19.1244
55 1Z0A GDP 19.5402
56 1S8F GDP 21.4689
57 5BXQ GDP 22.8346
58 1VG1 GDP 28.6486
59 1VG9 GDP 28.6486
60 3T5G GDP 34.8066
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