Receptor
PDB id Resolution Class Description Source Keywords
2B56 1.97 Å NON-ENZYME: TRANSCRIPT_TRANSLATE STRUCTURAL BASIS FOR UTP SPECIFICITY OF RNA EDITING TUTASES TRYPANOSOMA BRUCEI TRYPANOSOMA BRUCEI TBRET2 TUTASE RNA EDITING TRANSFERASE TRYPANOSOMA BRUCEITRANSFERASE-RNA BINDING PROTEIN COMPLEX
Ref.: STRUCTURAL BASIS FOR UTP SPECIFICITY OF RNA EDITING FROM TRYPANOSOMA BRUCEI. EMBO J. V. 24 4007 2005
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
MG A:488;
Part of Protein;
none;
submit data
24.305 Mg [Mg+2...
U5P A:601;
A:602;
Valid;
Valid;
none;
none;
submit data
324.181 C9 H13 N2 O9 P C1=CN...
UTP A:501;
Valid;
none;
submit data
484.141 C9 H15 N2 O15 P3 C1=CN...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
2B56 1.97 Å NON-ENZYME: TRANSCRIPT_TRANSLATE STRUCTURAL BASIS FOR UTP SPECIFICITY OF RNA EDITING TUTASES TRYPANOSOMA BRUCEI TRYPANOSOMA BRUCEI TBRET2 TUTASE RNA EDITING TRANSFERASE TRYPANOSOMA BRUCEITRANSFERASE-RNA BINDING PROTEIN COMPLEX
Ref.: STRUCTURAL BASIS FOR UTP SPECIFICITY OF RNA EDITING FROM TRYPANOSOMA BRUCEI. EMBO J. V. 24 4007 2005
Members (2)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 291 families.
1 2B56 - U5P C9 H13 N2 O9 P C1=CN(C(=O....
2 2B51 - UTP C9 H15 N2 O15 P3 C1=CN(C(=O....
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 2B56 - U5P C9 H13 N2 O9 P C1=CN(C(=O....
2 2B51 - UTP C9 H15 N2 O15 P3 C1=CN(C(=O....
50% Homology Family (2)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 209 families.
1 2B56 - U5P C9 H13 N2 O9 P C1=CN(C(=O....
2 2B51 - UTP C9 H15 N2 O15 P3 C1=CN(C(=O....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: U5P; Similar ligands found: 121
No: Ligand ECFP6 Tc MDL keys Tc
1 U 1 1
2 U5P 1 1
3 44P 0.790323 0.941176
4 UDP 0.78125 0.984615
5 UTP 0.746269 0.984615
6 2KH 0.735294 0.955224
7 UDP UDP 0.727273 0.953846
8 UPU 0.694444 0.954545
9 UNP 0.690141 0.955224
10 660 0.662338 0.913043
11 URM 0.662338 0.913043
12 URI 0.661017 0.848485
13 GUD 0.641026 0.926471
14 UFM 0.641026 0.926471
15 UPG 0.641026 0.926471
16 GDU 0.641026 0.926471
17 UPF 0.6375 0.875
18 U2F 0.6375 0.875
19 Y6W 0.632911 0.875
20 UDH 0.628205 0.851351
21 UPP 0.628205 0.926471
22 UFG 0.617284 0.875
23 CJB 0.603175 0.80597
24 UDX 0.597561 0.926471
25 UAD 0.597561 0.926471
26 3UC 0.588235 0.875
27 U U 0.585366 0.969697
28 UGB 0.583333 0.940298
29 USQ 0.583333 0.807692
30 UGA 0.583333 0.940298
31 5FU 0.57971 0.927536
32 G3N 0.576471 0.9
33 UA3 0.573529 0.953846
34 U3P 0.573529 0.953846
35 CAR 0.571429 0.941176
36 C 0.571429 0.941176
37 C5P 0.571429 0.941176
38 UDM 0.568182 0.9
39 5BU 0.56338 0.927536
40 U4S 0.557143 0.763889
41 UD1 0.555556 0.913043
42 UD2 0.555556 0.913043
43 CSQ 0.550562 0.863014
44 CSV 0.550562 0.863014
45 U2S 0.541667 0.777778
46 U3S 0.541667 0.763889
47 CNU 0.540541 0.941176
48 S5P 0.535211 0.901408
49 16B 0.534247 0.901408
50 U2P 0.528571 0.939394
51 DU 0.527778 0.911765
52 UMP 0.527778 0.911765
53 HP7 0.526882 0.926471
54 UD7 0.526882 0.913043
55 MJZ 0.521277 0.9
56 UP6 0.521127 0.884058
57 12V 0.515789 0.887324
58 F5G 0.515789 0.913043
59 UD4 0.515789 0.9
60 HWU 0.515789 0.887324
61 F5P 0.515789 0.9
62 BMP 0.513889 0.955224
63 UP5 0.510204 0.84
64 DKX 0.507246 0.732394
65 NUP 0.506849 0.927536
66 U6M 0.506849 0.969697
67 IUG 0.505155 0.797468
68 EPZ 0.5 0.9
69 U1S 0.5 0.76
70 4TC 0.5 0.818182
71 JW5 0.5 0.955224
72 EEB 0.49505 0.887324
73 A U 0.49505 0.815789
74 EPU 0.49505 0.887324
75 UDZ 0.494949 0.84
76 H2U 0.486111 0.911765
77 OMP 0.480519 0.969697
78 6AU 0.480519 0.969697
79 6CN 0.480519 0.941176
80 TKW 0.48 0.927536
81 UMF 0.479452 0.869565
82 UUA 0.477612 0.757576
83 U U U U 0.476744 0.954545
84 BMQ 0.472222 0.939394
85 PUP 0.47191 0.926471
86 G U 0.471154 0.797468
87 5HM 0.467532 0.888889
88 O7E 0.463415 0.941176
89 ICR 0.460526 0.830986
90 UMA 0.458716 0.9
91 O7M 0.45679 0.941176
92 UC5 0.455696 0.885714
93 UTP U U U 0.454545 0.909091
94 CDP 0.45 0.927536
95 2TU 0.449275 0.760563
96 FNU 0.441558 0.876712
97 2QR 0.439655 0.810127
98 DUD 0.4375 0.898551
99 N3E 0.4375 0.743243
100 2OM 0.435897 0.925373
101 U21 0.434783 0.797468
102 U20 0.434783 0.797468
103 U22 0.434783 0.777778
104 DUT 0.433735 0.898551
105 HF4 0.433735 0.927536
106 CTP 0.433735 0.927536
107 8OP 0.428571 0.849315
108 8GM 0.421687 0.853333
109 5GW 0.420455 0.927536
110 U A A U 0.418803 0.853333
111 4RA 0.414634 0.842105
112 DUP 0.411765 0.873239
113 DUN 0.409639 0.873239
114 UD0 0.408 0.831169
115 UVC 0.407895 0.842857
116 UM3 0.407895 0.897059
117 C5G 0.404255 0.875
118 UPA 0.401869 0.828947
119 A U C C 0.401639 0.794872
120 UAG 0.4 0.851351
121 A G U 0.4 0.7875
Ligand no: 2; Ligand: UTP; Similar ligands found: 118
No: Ligand ECFP6 Tc MDL keys Tc
1 UTP 1 1
2 UDP 0.892308 1
3 UNP 0.767123 0.970149
4 U 0.746269 0.984615
5 U5P 0.746269 0.984615
6 GUD 0.7125 0.941176
7 GDU 0.7125 0.941176
8 UPG 0.7125 0.941176
9 UFM 0.7125 0.941176
10 UPU 0.701299 0.940298
11 UPP 0.7 0.941176
12 UDH 0.7 0.864865
13 2KH 0.693333 0.970149
14 URM 0.691358 0.927536
15 660 0.691358 0.927536
16 44P 0.690141 0.955882
17 UFG 0.686747 0.888889
18 U2F 0.686747 0.888889
19 UPF 0.686747 0.888889
20 UAD 0.666667 0.941176
21 UDX 0.666667 0.941176
22 UDP UDP 0.662162 0.939394
23 3UC 0.655172 0.888889
24 UGA 0.651163 0.955224
25 UGB 0.651163 0.955224
26 USQ 0.651163 0.820513
27 G3N 0.643678 0.914286
28 CTP 0.620253 0.942029
29 HF4 0.620253 0.942029
30 UD1 0.619565 0.927536
31 UD2 0.619565 0.927536
32 UDM 0.615385 0.914286
33 UP5 0.602041 0.853333
34 DUT 0.6 0.913043
35 URI 0.597015 0.863636
36 HP7 0.589474 0.941176
37 UD7 0.589474 0.927536
38 Y6W 0.586207 0.888889
39 MJZ 0.583333 0.914286
40 F5P 0.57732 0.914286
41 F5G 0.57732 0.927536
42 HWU 0.57732 0.901408
43 UD4 0.57732 0.914286
44 12V 0.57732 0.901408
45 IUG 0.565657 0.810127
46 EPZ 0.558824 0.914286
47 UDZ 0.554455 0.853333
48 EPU 0.553398 0.901408
49 EEB 0.553398 0.901408
50 CJB 0.549296 0.820895
51 CDP 0.54321 0.942029
52 4TC 0.528846 0.831169
53 U U 0.527473 0.955224
54 UA3 0.526316 0.939394
55 U3P 0.526316 0.939394
56 CSV 0.515464 0.851351
57 CSQ 0.515464 0.851351
58 UMA 0.513514 0.914286
59 U4S 0.512821 0.753425
60 DUD 0.512195 0.913043
61 5GW 0.505618 0.942029
62 U3S 0.5 0.753425
63 U2S 0.5 0.767123
64 H6Y 0.48913 0.851351
65 U20 0.487179 0.810127
66 U2P 0.487179 0.954545
67 U22 0.487179 0.790123
68 U21 0.487179 0.810127
69 4GW 0.484211 0.915493
70 8GT 0.483516 0.855263
71 U1S 0.483146 0.75
72 2QR 0.478992 0.822785
73 PUP 0.473684 0.913043
74 C5G 0.46875 0.888889
75 DKX 0.467532 0.746479
76 5FU 0.45679 0.914286
77 A U 0.454545 0.805195
78 4RA 0.452381 0.855263
79 C2G 0.451613 0.901408
80 7XL 0.450549 0.888889
81 UAG 0.448819 0.864865
82 MGT 0.447917 0.780488
83 G U 0.446429 0.7875
84 UD0 0.445312 0.844156
85 UMF 0.444444 0.857143
86 2TU 0.434211 0.774648
87 C 0.433735 0.927536
88 DU 0.433735 0.898551
89 C5P 0.433735 0.927536
90 UMP 0.433735 0.898551
91 CAR 0.433735 0.927536
92 2GW 0.432692 0.901408
93 U U U U 0.431579 0.940298
94 G8D 0.430108 0.855263
95 5BU 0.428571 0.914286
96 CDM 0.428571 0.842105
97 TTP 0.428571 0.875
98 UTP U U U 0.427083 0.895522
99 8OD 0.425532 0.851351
100 N3E 0.425287 0.733333
101 UC5 0.425287 0.9
102 91P 0.424779 0.802469
103 UUA 0.421053 0.772727
104 CXY 0.42 0.888889
105 PRT 0.419048 0.813333
106 CDC 0.418367 0.777778
107 1GW 0.418182 0.864865
108 DUP 0.417582 0.887324
109 CNU 0.413793 0.927536
110 DCP 0.413043 0.849315
111 UML 0.410072 0.810127
112 UPA 0.40708 0.842105
113 16B 0.406977 0.888889
114 D3T 0.406593 0.875
115 S5P 0.404762 0.915493
116 BMP 0.404762 0.970149
117 GTF 0.404255 0.849315
118 U2G 0.4 0.822785
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 2B56; Ligand: UTP; 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: 2b56.bio1) has 27 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 2; Query (leader) PDB : 2B56; Ligand: U5P; 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: 2b56.bio1) has 27 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 3; Query (leader) PDB : 2B56; Ligand: U5P; 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: 2b56.bio1) has 8 residues
No: Leader PDB Ligand Sequence Similarity
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