Receptor
PDB id Resolution Class Description Source Keywords
3CH5 2.1 Å NON-ENZYME: SIGNAL_HORMONE THE CRYSTAL STRUCTURE OF THE RANGDP-NUP153ZNF2 COMPLEX HOMO SAPIENS RANBP2 TYPE C2-C2 ZINC FINGER TRANSPORT PROTEIN
Ref.: THE CRYSTAL STRUCTURE OF THE RAN-NUP153ZNF2 COMPLEX GENERAL RAN DOCKING SITE AT THE NUCLEAR PORE COMPLE STRUCTURE V. 16 1116 2008
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
GDP A:220;
Valid;
none;
submit data
443.201 C10 H15 N5 O11 P2 c1nc2...
MG A:221;
Part of Protein;
none;
submit data
24.305 Mg [Mg+2...
SO4 A:222;
Invalid;
none;
submit data
96.063 O4 S [O-]S...
ZN B:800;
Part of Protein;
none;
submit data
65.409 Zn [Zn+2...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
3CH5 2.1 Å NON-ENZYME: SIGNAL_HORMONE THE CRYSTAL STRUCTURE OF THE RANGDP-NUP153ZNF2 COMPLEX HOMO SAPIENS RANBP2 TYPE C2-C2 ZINC FINGER TRANSPORT PROTEIN
Ref.: THE CRYSTAL STRUCTURE OF THE RAN-NUP153ZNF2 COMPLEX GENERAL RAN DOCKING SITE AT THE NUCLEAR PORE COMPLE STRUCTURE V. 16 1116 2008
Members (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 286 families.
1 3CH5 - 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 209 families.
1 3CH5 - 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 174 families.
1 3CH5 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
2 3GJ3 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
3 3GJ4 - 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 : 3CH5; Ligand: GDP; Similar sites found with APoc: 134
This union binding pocket(no: 1) in the query (biounit: 3ch5.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
1 3TK1 GDP 2.77778
2 4ZKD GDP 5.76923
3 1WF3 GNP 6.01852
4 2XTZ GSP 6.48148
5 3WY9 GDP 6.94444
6 3WYA GDP 6.94444
7 1TAD ALF 6.94444
8 1TAD GDP 6.94444
9 2ODE ALF GDP 7.40741
10 1YRB GDP 7.69231
11 6G14 G4P 8.7963
12 4NON GDP 9.25926
13 2RCN GDP 9.61539
14 6AU6 GDP 9.61539
15 5W75 GDP 9.61539
16 5H7J GCP 10.1852
17 4J0Q GDP 11.5385
18 3VMF GTP 11.5385
19 3WXM GTP 11.5385
20 1SKQ GDP 11.5385
21 3CX8 GSP 11.5385
22 5HCN GCP 12.963
23 1G7S GDP 12.963
24 5FG3 GDP 13.4259
25 4B47 GDP 14.3519
26 5M04 GDP 14.8148
27 4DCT GDP 15.2778
28 3EC1 GDP 15.3846
29 1KK1 GNP 17.3077
30 4RD0 GDP 19.2308
31 1TQ4 GDP 19.2308
32 2QN6 GDP 19.2308
33 2X77 GDP 19.5767
34 1CS4 GSP 20.7547
35 3DOE GTP 20.8333
36 1UPT GTP 21.0526
37 4LC1 GDP 21.1538
38 3MD0 GDP 21.1538
39 3AQ4 GDP 21.1957
40 1KSH GDP 21.5054
41 1F6B GDP 21.7172
42 1D2E GDP 21.7593
43 1MKY GDP 22.2222
44 1O3Y GTP 22.2892
45 1J2J GTP 22.2892
46 4YLG GDP 22.5434
47 2C78 GNP 23.0769
48 2C77 GNP 23.0769
49 1RE0 GDP 23.1707
50 1S9D GDP 23.1707
51 3PCR GTP 24.0741
52 3N5C GDP 24.6914
53 2W83 GTP 24.8485
54 5W76 GDP 25
55 2QTV GNP 28.7425
56 3U6B GDP 28.8462
57 1D8T GDP 28.8462
58 2HCJ GDP 28.8462
59 4P3Y GDP 28.8462
60 5JBQ GDP 28.8462
61 4G5G GDP 28.8462
62 3U6K GDP 28.8462
63 2BVN GNP 28.8462
64 3T12 GDP ALF 29.2929
65 1YZG GDP 29.6089
66 2J0V GDP 29.717
67 1ZJ6 G3D 30.4813
68 1RYH GNP 32.5123
69 5W7Q GDP 32.6923
70 4V0K GDP 33.7278
71 5XC5 GTP 34.0909
72 4D0N GDP 35.1351
73 3LXR GDP 35.6757
74 2FJU GSP 36.5169
75 3T5G GDP 37.0166
76 5EE5 GTP 37.4269
77 5YT0 GDP 38.0952
78 1R4A GNP 38.7879
79 1ZD9 GDP 39.3617
80 2G77 GDP 40.404
81 4DKX GDP 41.6667
82 2F9L GDP 42.2111
83 2BCG GDP 42.233
84 2ZEJ GDP 42.3913
85 1OIX GDP 42.4084
86 1OIV GDP 42.9319
87 2CJW GDP 43.75
88 5TAR GDP 43.7838
89 5TB5 GDP 43.7838
90 3CPJ GDP 43.9815
91 2A9K GDP 44.9198
92 3TKL GTP 45.4082
93 1Z06 GNP 45.5026
94 3Q85 GNP 45.5621
95 3BC1 GNP 45.641
96 2EW1 GNP 46.2687
97 1VG0 GDP 46.3768
98 5JCZ GDP 46.9274
99 3Q72 GNP 46.988
100 3RWO GDP 47.027
101 2HV8 GTP 47.093
102 2A5J GDP 47.1204
103 2C5L GTP 47.3988
104 4C4P GNP 47.3988
105 5LEF GTP 47.644
106 5SZH GNP 47.7833
107 5O2T GSP 47.929
108 1UAD GNP 48
109 5WLB GNP 48.1928
110 3SFV GDP 48.6188
111 1CLU DBG 48.7952
112 5E95 GDP 48.8095
113 2HT6 GDP 48.8506
114 6BVJ GNP 49.1018
115 6BVL GNP 49.1018
116 6D59 GNP 49.1018
117 6D5J GNP 49.1018
118 6BVI GNP 49.1018
119 6D5E GNP 49.1018
120 6D5H GNP 49.1018
121 6BVK GNP 49.1018
122 6D56 GNP 49.1018
123 6D5V GNP 49.1018
124 6D55 GNP 49.1018
125 6D5G GNP 49.1018
126 1LFD GNP 49.1018
127 5OEC GDP 49.1803
128 3KUD GDP 49.3976
129 1WQ1 GDP 49.3976
130 1Z0J GTP 49.4118
131 5O74 GDP 49.4444
132 1KY3 GDP 49.4506
133 1YVD GNP 49.7041
134 5WDR GNP 49.7076
Pocket No.: 2; Query (leader) PDB : 3CH5; Ligand: GDP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 2) in the query (biounit: 3ch5.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 3; Query (leader) PDB : 3CH5; Ligand: GDP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 3) in the query (biounit: 3ch5.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 4; Query (leader) PDB : 3CH5; Ligand: GDP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 4) in the query (biounit: 3ch5.bio1) has 17 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 5; Query (leader) PDB : 3CH5; Ligand: GDP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 5) in the query (biounit: 3ch5.bio2) has 17 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 6; Query (leader) PDB : 3CH5; Ligand: GDP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 6) in the query (biounit: 3ch5.bio2) has 17 residues
No: Leader PDB Ligand Sequence Similarity
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