Receptor
PDB id Resolution Class Description Source Keywords
2W83 1.93 Å NON-ENZYME: OTHER CRYSTAL STRUCTURE OF THE ARF6 GTPASE IN COMPLEX WITH A SPECIFIC EFFECTOR, JIP4 HOMO SAPIENS GOLGI APPARATUS PROTEIN TRANSPORT ER-GOLGI TRANSPORT ARF GTPASE EFFECTOR MYRISTATE CYTOPLASM NUCLEOTIDE-BINDING ALTERNATIVE SPLICING GTP-BINDING PHOSPHOPROTEIN HETEROTETRAMER TRANSPORT COILED-COIL LIPOPROTEIN COILED COIL
Ref.: THE STRUCTURAL BASIS OF ARF EFFECTOR SPECIFICITY: THE CRYSTAL STRUCTURE OF ARF6 IN A COMPLEX WITH JIP4. EMBO J. V. 28 2835 2009
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
DIO A:1175;
C:1453;
C:1454;
E:1175;
E:1176;
E:1177;
Invalid;
Invalid;
Invalid;
Invalid;
Invalid;
Invalid;
none;
none;
none;
none;
none;
none;
submit data
88.105 C4 H8 O2 C1COC...
GOL A:1176;
Invalid;
none;
submit data
92.094 C3 H8 O3 C(C(C...
GTP A:1173;
B:1173;
E:1173;
Valid;
Valid;
Valid;
none;
none;
none;
submit data
523.18 C10 H16 N5 O14 P3 c1nc2...
MG A:1174;
B:1174;
E:1174;
Part of Protein;
Part of Protein;
Part of Protein;
none;
none;
none;
submit data
24.305 Mg [Mg+2...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
2W83 1.93 Å NON-ENZYME: OTHER CRYSTAL STRUCTURE OF THE ARF6 GTPASE IN COMPLEX WITH A SPECIFIC EFFECTOR, JIP4 HOMO SAPIENS GOLGI APPARATUS PROTEIN TRANSPORT ER-GOLGI TRANSPORT ARF GTPASE EFFECTOR MYRISTATE CYTOPLASM NUCLEOTIDE-BINDING ALTERNATIVE SPLICING GTP-BINDING PHOSPHOPROTEIN HETEROTETRAMER TRANSPORT COILED-COIL LIPOPROTEIN COILED COIL
Ref.: THE STRUCTURAL BASIS OF ARF EFFECTOR SPECIFICITY: THE CRYSTAL STRUCTURE OF ARF6 IN A COMPLEX WITH JIP4. EMBO J. V. 28 2835 2009
Members (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 1443 families.
1 2W83 - GTP C10 H16 N5 O14 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 1205 families.
1 2W83 - GTP C10 H16 N5 O14 P3 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 2W83 - GTP C10 H16 N5 O14 P3 c1nc2c(n1[....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: GTP; Similar ligands found: 156
No: Ligand ECFP6 Tc MDL keys Tc
1 GTP 1 1
2 GP3 0.921053 0.973684
3 GDP 0.909091 1
4 GSP 0.853659 0.948718
5 GNH 0.82716 0.986667
6 G1R 0.819277 0.986667
7 GAV 0.811765 0.961039
8 9GM 0.809524 0.973684
9 GNP 0.809524 0.973684
10 GCP 0.797619 0.973684
11 5GP 0.797468 0.986486
12 G 0.797468 0.986486
13 GMV 0.764706 0.973684
14 G2R 0.764045 0.961039
15 G5P 0.755319 0.973684
16 GTG 0.752688 0.936709
17 G2P 0.747126 0.961039
18 G3A 0.744681 0.973684
19 GDD 0.741935 0.961039
20 GDC 0.741935 0.961039
21 GKE 0.741935 0.961039
22 0O2 0.736264 0.986486
23 GP2 0.729412 0.961039
24 6CK 0.726316 0.936709
25 Y9Z 0.723404 0.902439
26 GPG 0.717391 0.961039
27 GFB 0.715789 0.961039
28 GDR 0.715789 0.961039
29 GPD 0.704082 0.925
30 GKD 0.693878 0.961039
31 JB2 0.693878 0.961039
32 GDX 0.686869 0.973684
33 ALF 5GP 0.685393 0.888889
34 GH3 0.681319 0.973333
35 YGP 0.677083 0.901235
36 G3D 0.67033 0.986486
37 GDP AF3 0.659574 0.888889
38 ALF GDP 0.659574 0.888889
39 GDP ALF 0.659574 0.888889
40 DGT 0.659341 0.923077
41 GMP 0.658228 0.88
42 G4P 0.655914 0.986486
43 JB3 0.653846 0.948718
44 NGD 0.647619 0.961039
45 CAG 0.642202 0.880952
46 2MD 0.62963 0.891566
47 MGP 0.619565 0.961039
48 U2G 0.616822 0.936709
49 6G0 0.612903 0.961039
50 MGD 0.612613 0.891566
51 TPG 0.608696 0.840909
52 CG2 0.605505 0.936709
53 GDP 7MG 0.601942 0.911392
54 FEG 0.601852 0.879518
55 G G 0.598039 0.948052
56 ZGP 0.59633 0.869048
57 PGD 0.591304 0.925
58 MD1 0.591304 0.891566
59 3GP 0.590909 0.946667
60 GPX 0.581633 0.946667
61 DGI 0.580645 0.923077
62 IDP 0.576087 0.972973
63 DBG 0.567797 0.948718
64 2GP 0.555556 0.96
65 FE9 0.555556 0.776596
66 G4M 0.547619 0.880952
67 BGO 0.544643 0.924051
68 GCP G 0.543689 0.921053
69 ATP 0.537634 0.92
70 HEJ 0.537634 0.92
71 G1G 0.533898 0.925
72 AQP 0.531915 0.92
73 5FA 0.531915 0.92
74 A G 0.525862 0.935065
75 G A A A 0.525862 0.923077
76 U A G G 0.521368 0.935065
77 HFD 0.520833 0.873418
78 R5I 0.520408 0.946667
79 R7I 0.520408 0.946667
80 01G 0.518868 0.902439
81 P2G 0.510638 0.883117
82 ITT 0.510638 0.868421
83 AKW 0.504348 0.890244
84 GGM 0.504274 0.901235
85 G1R G1R 0.504065 0.924051
86 DGP 0.5 0.910256
87 PGD O 0.5 0.850575
88 MGO 0.5 0.864198
89 DG 0.5 0.910256
90 P1G 0.5 0.871795
91 GTA 0.495495 0.936709
92 PRT 0.490741 0.959459
93 B4P 0.489362 0.894737
94 AP5 0.489362 0.894737
95 IMP 0.489362 0.959459
96 G U 0.487179 0.9
97 7DT 0.484536 0.906667
98 GPC 0.479339 0.879518
99 G C 0.478992 0.9
100 BA3 0.478723 0.894737
101 ADP 0.473684 0.92
102 G2Q 0.471698 0.961039
103 6YZ 0.470588 0.896104
104 G7M 0.46875 0.948052
105 C1Z 0.462963 0.986486
106 25L 0.458716 0.907895
107 A2D 0.457447 0.894737
108 RGT 0.45045 0.909091
109 AGS 0.45 0.873418
110 SAP 0.45 0.873418
111 SGP 0.44898 0.82716
112 A4P 0.445378 0.869048
113 G G G RPC 0.442623 0.875
114 ANP 0.441176 0.896104
115 ACQ 0.441176 0.896104
116 8GT 0.441176 0.875
117 APC G U 0.44 0.886076
118 AT4 0.438776 0.884615
119 G U34 0.438017 0.888889
120 6AD 0.436893 0.841463
121 G G G C 0.433071 0.9125
122 UP5 0.432203 0.873418
123 PCG 0.431373 0.933333
124 C2E 0.431373 0.921053
125 35G 0.431373 0.933333
126 A G C C 0.429688 0.911392
127 T99 0.427184 0.884615
128 5GP 5GP 0.427184 0.883117
129 TAT 0.427184 0.884615
130 AR6 0.425743 0.894737
131 APR 0.425743 0.894737
132 7DD 0.424242 0.906667
133 AN2 0.424242 0.907895
134 DG DG 0.423423 0.865854
135 AD9 0.421569 0.896104
136 M33 0.42 0.883117
137 7D4 0.42 0.835443
138 UCG 0.419847 0.911392
139 HDV 0.419048 0.825
140 H6Y 0.419048 0.946667
141 G C C C 0.416667 0.924051
142 ACP 0.415842 0.896104
143 T5A 0.414634 0.802326
144 A1R 0.412844 0.839506
145 ADQ 0.412844 0.871795
146 MGQ 0.412844 0.935897
147 A3R 0.412844 0.839506
148 MGT 0.411215 0.823529
149 A G U 0.410072 0.888889
150 93A 0.41 0.833333
151 A22 0.407407 0.907895
152 CA0 0.405941 0.896104
153 ATF 0.40566 0.884615
154 AGO 0.404762 0.888889
155 MGV 0.401786 0.890244
156 CGP 0.4 0.86747
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 2W83; Ligand: GTP; Similar sites found with APoc: 105
This union binding pocket(no: 1) in the query (biounit: 2w83.bio1) has 23 residues
No: Leader PDB Ligand Sequence Similarity
1 2FFQ GSP 6.06061
2 1YRB GDP 6.66667
3 4NCN GTP 6.66667
4 1SKQ GDP 7.79221
5 4R98 GNH 8.48485
6 3W5J GDP 9.09091
7 2QN6 GDP 10.3896
8 4RD0 GDP 10.3896
9 2WIC GNP 10.3896
10 4LC1 GDP 11.6883
11 1YZQ GNP 11.6883
12 2HT6 GDP 12.1212
13 2CJW GDP 12.1212
14 5FG3 GDP 14.2857
15 6G14 G4P 15.7576
16 3EC1 GDP 16.8831
17 3Q85 GNP 16.9697
18 6D5E GNP 19.4805
19 6BVJ GNP 19.4805
20 2C5L GTP 19.4805
21 6D5H GNP 19.4805
22 6D5J GNP 19.4805
23 6BVK GNP 19.4805
24 6D5G GNP 19.4805
25 5WLB GNP 19.4805
26 2C77 GNP 20.6061
27 2C78 GNP 20.6061
28 1D8T GDP 22.0779
29 2BVN GNP 22.0779
30 6AU6 GDP 23.0303
31 2XTZ GSP 23.0303
32 1KMQ GNP 24.2424
33 4HAT GNP 24.8485
34 5UWP GNP 24.8485
35 5UWU GNP 24.8485
36 5UWQ GNP 24.8485
37 5UWT GNP 24.8485
38 5UWH GNP 24.8485
39 6CIT GNP 24.8485
40 5UWO GNP 24.8485
41 5DHF GNP 24.8485
42 5UWS GNP 24.8485
43 3CH5 GDP 24.8485
44 3GJ3 GDP 24.8485
45 5BXQ GDP 24.8485
46 3GJ0 GDP 24.8485
47 5UWW GNP 24.8485
48 5UWI GNP 24.8485
49 5UWR GNP 24.8485
50 5UWJ GNP 24.8485
51 5DIF GNP 24.8485
52 1IBR GNP 24.8485
53 3GJ5 GDP 25.4545
54 3GJ7 GDP 25.4545
55 3GJ4 GDP 25.4545
56 5TB5 GDP 25.9459
57 3Q72 GNP 26.0606
58 1NRJ GTP 26.6055
59 1TAD GDP 26.6667
60 1TAD ALF 26.6667
61 5YT0 GDP 27.2727
62 3T12 GDP ALF 27.2727
63 1FQJ ALF 28.4848
64 1FQK ALF 28.4848
65 1BH2 GSP 29.0909
66 4HDO GNP 29.0909
67 1GUA GNP 29.0909
68 4DCT GDP 29.697
69 1CS4 GSP 29.8701
70 3MD0 GDP 29.8701
71 1E96 GTP 30.303
72 2WJG GDP 31.5152
73 1VG1 GDP 31.5152
74 1VG9 GDP 31.5152
75 1VG8 GNP 31.5152
76 1CXZ GSP 32.1212
77 1S8F GDP 32.1212
78 2GCO GNP 32.1212
79 4D0N GDP 32.1212
80 3CX8 GSP 32.4675
81 2BME GNP 32.7273
82 1Z0K GTP 33.3333
83 2HV8 GTP 33.3333
84 1WA5 GTP 33.9394
85 5CK5 GDP 33.9394
86 1EK0 GNP 34.5455
87 3M1I GTP 35.0649
88 5UPK GNP 36.3636
89 1TU3 GNP 36.3636
90 1YVD GNP 36.9697
91 3BC1 GNP 36.9697
92 3MJH GTP 36.9697
93 5O74 GDP 37.5758
94 1Z0J GTP 37.5758
95 3RAB GNP 37.5758
96 1KK1 GNP 37.6623
97 3QBT GNP 38.1818
98 2FH5 GTP 38.7879
99 2G77 GDP 39.3939
100 1Z06 GNP 39.3939
101 5XC5 GTP 40.6061
102 1Z0A GDP 41.2121
103 2QTV GNP 46.6667
104 1M2O GNP 46.6667
105 1F6B GDP 48.4848
Pocket No.: 2; Query (leader) PDB : 2W83; Ligand: GTP; 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: 2w83.bio1) has 24 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 3; Query (leader) PDB : 2W83; Ligand: GTP; 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: 2w83.bio1) has 24 residues
No: Leader PDB Ligand Sequence Similarity
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