Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
2j41 5GP Guanylate kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2j41 5GPGuanylate kinase / 1.000
1lvg 5GPGuanylate kinase 2.7.4.8 0.884
3lnc 5GPGuanylate kinase / 0.852
1gky 5GPGuanylate kinase 2.7.4.8 0.841
2anb 5GPGuanylate kinase 2.7.4.8 0.839
1ex7 5GPGuanylate kinase 2.7.4.8 0.803
3tr0 5GPGuanylate kinase / 0.788
2f3r G5PGuanylate kinase 2.7.4.8 0.743
2an9 GDPGuanylate kinase 2.7.4.8 0.736
1odn APVIsopenicillin N synthase 1.21.3.1 0.692
4bqs K2QShikimate kinase 2.7.1.71 0.680
3zku HCVIsopenicillin N synthase 1.21.3.1 0.670
3onw GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.668
4g5q GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.668
1xmm M7Gm7GpppX diphosphatase 3.6.1.59 0.665
2bjs ACVIsopenicillin N synthase 1.21.3.1 0.664
2ahc VNLChorismate pyruvate-lyase / 0.658
2rds 1PL1-deoxypentalenic acid 11-beta-hydroxylase 1.14.11.35 0.654
3fvu IACKynurenine--oxoglutarate transaminase 1 2.6.1.7 0.654
1st0 GTGm7GpppX diphosphatase 3.6.1.59 0.651