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Receptor
PDB id Resolution Class Description Source Keywords
1OGD 1.95 Å NON-ENZYME: TRANSPORT THE STRUCTURE OF BACILLUS SUBTILIS RBSD COMPLEXED WITH D-RIBOSE BACILLUS SUBTILIS RIBOSE TRANSPORT SUGAR TRANSPORT
Ref.: CRYSTAL STRUCTURES OF RBSD LEADING TO THE IDENTIFICATION OF CYTOPLASMIC SUGAR-BINDING PROTEINS WITH A NOVEL FOLDING ARCHITECTURE J.BIOL.CHEM. V. 278 28173 2003
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
CL A:1132;
D:1133;
Invalid;
Invalid;
none;
none;
submit data
35.453 Cl [Cl-]
RIP A:1134;
B:1132;
C:1132;
D:1132;
E:1132;
Valid;
Valid;
Valid;
Valid;
Valid;
none;
none;
none;
none;
none;
Kd = 0.93 mM
150.13 C5 H10 O5 C1[C@...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
1OGD 1.95 Å NON-ENZYME: TRANSPORT THE STRUCTURE OF BACILLUS SUBTILIS RBSD COMPLEXED WITH D-RIBOSE BACILLUS SUBTILIS RIBOSE TRANSPORT SUGAR TRANSPORT
Ref.: CRYSTAL STRUCTURES OF RBSD LEADING TO THE IDENTIFICATION OF CYTOPLASMIC SUGAR-BINDING PROTEINS WITH A NOVEL FOLDING ARCHITECTURE J.BIOL.CHEM. V. 278 28173 2003
Members (2)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 209 families.
1 1OGE - RP5 C5 H11 O8 P C([C@@H]1[....
2 1OGD Kd = 0.93 mM RIP C5 H10 O5 C1[C@H]([C....
70% Homology Family (2)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 175 families.
1 1OGE - RP5 C5 H11 O8 P C([C@@H]1[....
2 1OGD Kd = 0.93 mM RIP C5 H10 O5 C1[C@H]([C....
50% Homology Family (3)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 149 families.
1 3P13 - RIP C5 H10 O5 C1[C@H]([C....
2 1OGE - RP5 C5 H11 O8 P C([C@@H]1[....
3 1OGD Kd = 0.93 mM RIP C5 H10 O5 C1[C@H]([C....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: RIP; Similar ligands found: 12
No: Ligand ECFP6 Tc MDL keys Tc
1 RIP 1 1
2 XYS 1 1
3 ARB 1 1
4 HSY 1 1
5 ARA 1 1
6 XYP 1 1
7 LXC 1 1
8 0MK 1 1
9 XYP XYS 0.414634 0.84375
10 BXP 0.414634 0.84375
11 XYS XYP 0.414634 0.84375
12 FU4 0.4 0.896552
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 1OGD; Ligand: RIP; Similar sites found with APoc: 62
This union binding pocket(no: 1) in the query (biounit: 1ogd.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 1PVS 7HP None
2 3BIB PSF None
3 5TIV A3P None
4 5LW0 AR6 None
5 2VVL FAD None
6 3EWR APR None
7 2VVM FAD None
8 2JFQ DGL None
9 1QL9 ZEN None
10 5CB3 APR 1.52672
11 1GEE NAD 2.29008
12 4U9W COA 2.29008
13 1XRO LEU 3.05344
14 1D01 ACE MET LEU SER VAL GLU GLU GLU GLY 3.05344
15 4IQY AR6 3.05344
16 4WEI GLC GAL 3.05344
17 4KFU ACP 3.05344
18 5IXB LGA 3.7037
19 4DHL 0K7 3.81679
20 3EWP APR 3.81679
21 4YAG NAI 4.58015
22 4G86 BNT 4.58015
23 5XFV FMN 4.58015
24 3QV1 NAD 4.58015
25 5BYK OAQ 5.34351
26 5BYK A3P 5.34351
27 4BMO FMN 5.34351
28 1H5Q NAP 5.34351
29 5N26 CPT 6.10687
30 2GJ8 ALF GDP 6.10687
31 4N9I PCG 6.87023
32 2GRU NAD 6.87023
33 5LD5 NAD 6.87023
34 2ZO9 MLI 6.87023
35 3GPO APR 7.63359
36 1OFL ASG GCD 7.63359
37 1OS7 TAU 7.63359
38 2Q2V NAD 7.63359
39 3KP6 SAL 8.39695
40 6CI9 NAP 8.39695
41 6B0K G4S 9RN G4S 9RN G4S 8.39695
42 4X8O AP5 9.16031
43 1QX4 FAD 9.92366
44 2ZRU FMN 9.92366
45 3TN7 NJP 9.92366
46 2ZIF SAM 9.92366
47 2A2C NG1 11.4504
48 2A2C ADP 11.4504
49 1X1R GDP 11.7978
50 5LEF GTP 12.1212
51 4RSL FAD 14.5038
52 3OG9 MLT 14.5038
53 5Z54 0HZ 16.0305
54 5OVL NAP 16.0305
55 1HDG NAD 17.5573
56 1OPK MYR 20.6107
57 1CER NAD 21.374
58 1UP7 NAD 24.4275
59 5JM8 ATP 25.1908
60 1XG5 NAP 27.4809
61 2WCU FUC 48.0916
62 2WCV FUC 48.855
Pocket No.: 2; Query (leader) PDB : 1OGD; Ligand: RIP; 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: 1ogd.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 3; Query (leader) PDB : 1OGD; Ligand: RIP; Similar sites found with APoc: 41
This union binding pocket(no: 3) in the query (biounit: 1ogd.bio1) has 13 residues
No: Leader PDB Ligand Sequence Similarity
1 1WVG APR 2.29008
2 4TMC FMN 2.29008
3 1Z4O GL1 3.05344
4 2R5C C6P 3.05344
5 2VYN NAD 3.81679
6 3CIP ATP 3.81679
7 2FLI DX5 3.81679
8 4M7T SAM 3.81679
9 1GAD NAD 3.81679
10 4NBT NAD 3.81679
11 5EXW 7DT 3.81679
12 5YSS NAD 4.58015
13 3C3N FMN 4.58015
14 2Q9U FMN 4.58015
15 2ZBA ZBA 4.58015
16 5Y9D FAD 5.34351
17 1UKZ ADP 5.34351
18 1KJ1 MAN 5.50459
19 4PU5 ANP 6.10687
20 3A4V NAD 6.87023
21 3A4V PYR 6.87023
22 2GQT FAD 7.63359
23 5FJJ MAN 7.63359
24 3B1J NAD 8.39695
25 9LDT NAD 8.39695
26 2D2I NAP 8.39695
27 3B20 NAD 8.39695
28 2BO4 FLC 9.92366
29 6F9Q NAD 10.687
30 1N62 MCN 12.9771
31 5UR0 NAD 12.9771
32 1GZ4 ATP 12.9771
33 1S16 ANP 13.7405
34 1KRR ACO 13.7405
35 4WKB TDI 15.2672
36 5B48 TDN 16.0305
37 3L4S 3PG 16.0305
38 3L4S NAD 16.0305
39 1OVD ORO 19.8473
40 1OVD FMN 19.8473
41 5JY6 NAD 29.771
Pocket No.: 4; Query (leader) PDB : 1OGD; Ligand: RIP; 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: 1ogd.bio1) has 13 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 5; Query (leader) PDB : 1OGD; Ligand: RIP; Similar sites found with APoc: 12
This union binding pocket(no: 5) in the query (biounit: 1ogd.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 5N1P 8GK None
2 2BFR ADP 3.81679
3 3PNL ADP 3.81679
4 1WUU ANP 4.58015
5 1F76 FMN 4.58015
6 2RGX AP5 5.34351
7 5DUS APR 5.34351
8 5L3S G 6.87023
9 4H1V GNP 9.16031
10 2C3H GLC GLC 10.2041
11 4Z87 5GP 12.9771
12 1P3D UMA 12.9771
Pocket No.: 6; Query (leader) PDB : 1OGD; Ligand: RIP; 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: 1ogd.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 7; Query (leader) PDB : 1OGD; Ligand: RIP; Similar sites found with APoc: 8
This union binding pocket(no: 7) in the query (biounit: 1ogd.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 2FFQ GSP None
2 4GOX A3P None
3 5M3E APR None
4 2QG6 NMN 2.29008
5 4MKG AP5 6.10687
6 4MKF AP5 6.10687
7 2IMG MLT 9.92366
8 1T36 ADP 13.7405
Pocket No.: 8; Query (leader) PDB : 1OGD; Ligand: RIP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 8) in the query (biounit: 1ogd.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
Pocket No.: 9; Query (leader) PDB : 1OGD; Ligand: RIP; Similar sites found with APoc: 1
This union binding pocket(no: 9) in the query (biounit: 1ogd.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
1 3U3U EAH 2.29008
Pocket No.: 10; Query (leader) PDB : 1OGD; Ligand: RIP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 10) in the query (biounit: 1ogd.bio1) has 14 residues
No: Leader PDB Ligand Sequence Similarity
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