Receptor
PDB id Resolution Class Description Source Keywords
2CNW 2.39 Å NON-ENZYME: SIGNAL_HORMONE GDPALF4 COMPLEX OF THE SRP GTPASES FFH AND FTSY THERMUS AQUATICUS INNER MEMBRANE MEMBRANE TARGETING NUCLEOTIDE-BINDING GDP- ALUMINUM FLUORIDE SIGNAL RECOGNITION PARTICLE RNA-BINDING GTP-BINDING CELL DIVISION SIGNAL SEQUENCE RECOGNITION SRP FFH FTSY GTPASE MEMBRANE CELL CYCLE CELL DIVISION/COMPLEX SIGNAL RECOGNITION
Ref.: STRUCTURE OF A GDP:ALF(4) COMPLEX OF THE SRP GTPASES FFH AND FTSY, AND IDENTIFICATION OF A PERIPHERAL NUCLEOTIDE INTERACTION SITE. J.MOL.BIOL. V. 360 631 2006
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
5GP D:3001;
E:3001;
F:3001;
Valid;
Valid;
Valid;
none;
none;
none;
submit data
363.221 C10 H14 N5 O8 P c1nc2...
GDP ALF A:1001;
B:1001;
C:1001;
D:1001;
E:1001;
F:1001;
Valid;
Valid;
Valid;
Valid;
Valid;
Valid;
none;
none;
none;
none;
none;
none;
submit data
543.152 n/a P(=O)...
MG A:1002;
B:1002;
C:1002;
D:1002;
E:1002;
F:1002;
Part of Protein;
Part of Protein;
Part of Protein;
Part of Protein;
Part of Protein;
Part of Protein;
none;
none;
none;
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
1RJ9 1.9 Å NON-ENZYME: SIGNAL_HORMONE STRUCTURE OF THE HETERODIMER OF THE CONSERVED GTPASE DOMAINS SIGNAL RECOGNITION PARTICLE (FFH) AND ITS RECEPTOR (FTSY) THERMUS AQUATICUS SRP-GTPASE DOMAIN HETERODIMER NUCLEOTIDE TWINNING PROTEINCOMPLEX PROTEIN TRANSPORT
Ref.: SUBSTRATE TWINNING ACTIVATES THE SIGNAL RECOGNITION PARTICLE AND ITS RECEPTOR NATURE V. 427 215 2004
Members (4)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 286 families.
1 1OKK - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
2 2J7P - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
3 2CNW - GDP ALF n/a n/a
4 1RJ9 - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
70% Homology Family (4)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 209 families.
1 1OKK - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
2 2J7P - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
3 2CNW - GDP ALF n/a n/a
4 1RJ9 - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
50% Homology Family (4)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 174 families.
1 1OKK - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
2 2J7P - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
3 2CNW - GDP ALF n/a n/a
4 1RJ9 - GCP C11 H18 N5 O13 P3 c1nc2c(n1[....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: 5GP; Similar ligands found: 159
No: Ligand ECFP6 Tc MDL keys Tc
1 G 1 1
2 5GP 1 1
3 GDP 0.828947 0.986486
4 GP3 0.815789 0.960526
5 GP2 0.805195 0.948052
6 GTP 0.797468 0.986486
7 GNH 0.794872 0.973333
8 G2P 0.777778 0.948052
9 GMV 0.775 0.960526
10 G1R 0.765432 0.973333
11 GCP 0.765432 0.960526
12 GAV 0.759036 0.948052
13 GSP 0.756098 0.935897
14 GNP 0.756098 0.960526
15 9GM 0.756098 0.960526
16 ALF 5GP 0.753086 0.9
17 GMP 0.732394 0.866667
18 GPG 0.724138 0.948052
19 G2R 0.712644 0.948052
20 ALF GDP 0.701149 0.9
21 GDP ALF 0.701149 0.9
22 GDP AF3 0.701149 0.9
23 GKE 0.692308 0.948052
24 Y9Z 0.692308 0.890244
25 GDC 0.692308 0.948052
26 GDD 0.692308 0.948052
27 YGP 0.681319 0.9125
28 G3A 0.677419 0.960526
29 G5P 0.670213 0.960526
30 GFB 0.666667 0.948052
31 GDR 0.666667 0.948052
32 GTG 0.666667 0.924051
33 6CK 0.659574 0.924051
34 3GP 0.65 0.959459
35 G G 0.648936 0.960526
36 GKD 0.645833 0.948052
37 JB2 0.645833 0.948052
38 GDX 0.639175 0.960526
39 GPD 0.639175 0.9125
40 GDP 7MG 0.635417 0.923077
41 G3D 0.617977 0.972973
42 U2G 0.617647 0.924051
43 2GP 0.609756 0.946667
44 IMP 0.609756 0.972603
45 JB3 0.607843 0.935897
46 CG2 0.605769 0.924051
47 G4P 0.604396 0.972973
48 DGP 0.60241 0.922078
49 DG 0.60241 0.922078
50 FEG 0.601942 0.890244
51 NGD 0.601942 0.948052
52 ZGP 0.596154 0.879518
53 0O2 0.595745 0.972973
54 2MD 0.584906 0.879518
55 G7M 0.583333 0.960526
56 CAG 0.583333 0.869048
57 G A A A 0.579439 0.935065
58 A G 0.579439 0.947368
59 U A G G 0.574074 0.947368
60 MGD 0.568807 0.879518
61 DBG 0.566372 0.935897
62 PGD 0.5625 0.9125
63 MD1 0.5625 0.879518
64 P2G 0.55814 0.894737
65 GCP G 0.556701 0.933333
66 FE9 0.553571 0.784946
67 P1G 0.545455 0.883117
68 GH3 0.542553 0.96
69 TPG 0.53913 0.829545
70 GPX 0.53125 0.933333
71 DGI 0.527473 0.910256
72 G1R G1R 0.525862 0.911392
73 G U 0.522936 0.911392
74 PGD O 0.521368 0.83908
75 DGT 0.521277 0.910256
76 G4M 0.520325 0.869048
77 AKW 0.513761 0.878049
78 G C 0.513514 0.911392
79 93A 0.511364 0.821429
80 IDP 0.505495 0.959459
81 MGQ 0.505155 0.948052
82 C2R 0.5 0.893333
83 A 0.5 0.905405
84 AMZ 0.5 0.905405
85 BGO 0.5 0.911392
86 AMP 0.5 0.905405
87 AIR 0.493671 0.890411
88 MGV 0.49 0.901235
89 SGP 0.488889 0.8375
90 NIA 0.488095 0.8375
91 GPC 0.474138 0.890244
92 G G G RPC 0.473684 0.886076
93 GGM 0.473684 0.888889
94 71V 0.47191 0.85
95 APC G U 0.470085 0.897436
96 R5I 0.46875 0.933333
97 R7I 0.46875 0.933333
98 MGP 0.46875 0.948052
99 35G 0.468085 0.945946
100 PCG 0.468085 0.945946
101 C2E 0.468085 0.933333
102 G1G 0.466102 0.9125
103 AAM 0.465909 0.905405
104 RMB 0.465909 0.813333
105 FAI 0.465909 0.905405
106 7RA 0.465909 0.918919
107 1RB 0.465116 0.824324
108 6G0 0.463918 0.948052
109 5GP 5GP 0.463158 0.894737
110 G G G C 0.462185 0.924051
111 RBZ 0.45977 0.815789
112 UCG 0.459016 0.923077
113 A G C C 0.458333 0.923077
114 DG DG 0.456311 0.876543
115 G U34 0.45614 0.9
116 IMO 0.449438 0.866667
117 A G U 0.446154 0.9
118 G C C C 0.443548 0.935897
119 IRN 0.443038 0.808219
120 PMO 0.43956 0.792208
121 7RP 0.438202 0.864865
122 GTA 0.436364 0.924051
123 JLN 0.433333 0.88
124 P2P 0.433333 0.842105
125 A G U U 0.42963 0.9
126 XMP 0.428571 0.907895
127 PGS 0.425532 0.804878
128 RVP 0.423529 0.84
129 G2Q 0.423077 0.948052
130 ADP 0.419355 0.906667
131 ABM 0.417582 0.857143
132 A2D 0.417582 0.881579
133 PRT 0.416667 0.945946
134 GUO 0.415842 0.932432
135 AT4 0.414894 0.871795
136 CA0 0.410526 0.883117
137 2SA 0.41 0.871795
138 1YD 0.409091 0.933333
139 4BW 0.409091 0.933333
140 A12 0.408602 0.871795
141 AP2 0.408602 0.871795
142 BA3 0.408602 0.881579
143 6C6 0.408163 0.825
144 25A 0.407767 0.906667
145 NOS 0.406977 0.813333
146 HEJ 0.40625 0.906667
147 ATP 0.40625 0.906667
148 AP5 0.404255 0.881579
149 B4P 0.404255 0.881579
150 ACQ 0.40404 0.883117
151 6IA 0.40404 0.785714
152 ANP 0.40404 0.883117
153 CGP 0.403361 0.878049
154 APC 0.402062 0.871795
155 3ZE 0.402062 0.871795
156 5FA 0.402062 0.906667
157 AQP 0.402062 0.906667
158 N6P 0.4 0.853333
159 AN2 0.4 0.894737
Ligand no: 2; Ligand: GDP ALF; Similar ligands found: 105
No: Ligand ECFP6 Tc MDL keys Tc
1 ALF GDP 1 1
2 GDP ALF 1 1
3 ALF 5GP 0.857143 1
4 GDP AF3 0.8 1
5 GDP 7MG 0.71 0.879518
6 G 0.701149 0.9
7 5GP 0.701149 0.9
8 GDP 0.7 0.888889
9 GP3 0.688889 0.86747
10 GNH 0.673913 0.878049
11 GP2 0.663043 0.857143
12 GTP 0.659574 0.888889
13 G1R 0.652632 0.878049
14 GCP 0.652632 0.86747
15 9GM 0.645833 0.86747
16 GNP 0.645833 0.86747
17 G2P 0.645833 0.857143
18 GSP 0.645833 0.847059
19 GMV 0.642105 0.890244
20 G G 0.640777 0.890244
21 GAV 0.632653 0.857143
22 G2R 0.613861 0.857143
23 GMP 0.593023 0.802469
24 GPG 0.592233 0.857143
25 G1R G1R 0.591667 0.869048
26 6CK 0.588785 0.903614
27 PGD O 0.586777 0.784946
28 GCP G 0.586538 0.8875
29 Y9Z 0.584906 0.808989
30 GKE 0.584906 0.857143
31 GDD 0.584906 0.857143
32 GDC 0.584906 0.857143
33 GTG 0.579439 0.858824
34 GDR 0.579439 0.857143
35 GFB 0.579439 0.857143
36 YGP 0.575472 0.827586
37 G3A 0.574074 0.86747
38 G5P 0.568807 0.86747
39 ALF ADP 0.565657 0.9125
40 ADP ALF 0.565657 0.9125
41 A G 0.564103 0.901235
42 GKD 0.563636 0.857143
43 JB2 0.563636 0.857143
44 U A G G 0.559322 0.901235
45 GDX 0.558559 0.86747
46 GPD 0.558559 0.827586
47 G A A A 0.550847 0.890244
48 G3D 0.54902 0.876543
49 FEG 0.543103 0.808989
50 G4P 0.538462 0.876543
51 ZGP 0.538462 0.8
52 3GP 0.536842 0.864198
53 JB3 0.534483 0.847059
54 NGD 0.529915 0.879518
55 0O2 0.518519 0.876543
56 U2G 0.516949 0.837209
57 2MD 0.516667 0.8
58 CAG 0.516393 0.811111
59 G U 0.512605 0.869048
60 CG2 0.508333 0.837209
61 G C 0.504132 0.869048
62 MGD 0.504065 0.8
63 MD1 0.5 0.8
64 DBG 0.492188 0.847059
65 2GP 0.489796 0.853659
66 PGD 0.488189 0.827586
67 TPG 0.48062 0.757895
68 FE9 0.480315 0.755102
69 GPX 0.477064 0.841463
70 DGI 0.471154 0.823529
71 G G G C 0.46875 0.858824
72 G G G RPC 0.467742 0.845238
73 A G C C 0.465116 0.879518
74 GH3 0.458716 0.865854
75 G4M 0.456522 0.791209
76 DG 0.455446 0.833333
77 DGP 0.455446 0.833333
78 BGO 0.455285 0.825581
79 DGT 0.453704 0.823529
80 APC G U 0.453125 0.855422
81 DG DG 0.451327 0.837209
82 G C C C 0.451128 0.869048
83 P2G 0.45098 0.807229
84 AKW 0.443548 0.818182
85 P1G 0.442308 0.797619
86 IDP 0.438095 0.864198
87 ADP PO3 0.438095 0.8375
88 GGM 0.433071 0.806818
89 A G U 0.432624 0.858824
90 IMP 0.431373 0.875
91 AF3 ADP 3PG 0.430894 0.902439
92 G1G 0.427481 0.848837
93 VO4 ADP 0.418182 0.829268
94 ADP VO4 0.418182 0.829268
95 A G U U 0.417808 0.858824
96 G U34 0.417323 0.858824
97 5GP 5GP 0.416667 0.851852
98 G7M 0.413462 0.890244
99 GPC 0.412214 0.872093
100 SGP 0.409524 0.758621
101 R7I 0.409091 0.841463
102 R5I 0.409091 0.841463
103 PCG 0.407407 0.851852
104 C2E 0.407407 0.841463
105 35G 0.407407 0.851852
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 1RJ9; Ligand: GCP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 1) in the query (biounit: 1rj9.bio1) has 55 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 2; Query (leader) PDB : 1RJ9; Ligand: GCP; 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: 1rj9.bio1) has 69 residues
No: Leader PDB Ligand Sequence Similarity
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