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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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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
1pg3 PRX Acetyl-coenzyme A synthetase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1pg3 PRXAcetyl-coenzyme A synthetase / 1.058
2p2b PRXAcetyl-coenzyme A synthetase / 0.993
2p2j PRXAcetyl-coenzyme A synthetase / 0.991
2p2m PRXAcetyl-coenzyme A synthetase / 0.955
2p2q PRXAcetyl-coenzyme A synthetase / 0.905
2p20 PRXAcetyl-coenzyme A synthetase / 0.897
5ifi PRXAcetyl-coenzyme A synthetase / 0.816
4g37 SLULuciferin 4-monooxygenase 1.13.12.7 0.740
4r1l ADPPhenylacetate-coenzyme A ligase / 0.736
3ies M24Luciferin 4-monooxygenase 1.13.12.7 0.734
4g36 SLULuciferin 4-monooxygenase 1.13.12.7 0.709
2d1t SLULuciferin 4-monooxygenase 1.13.12.7 0.698
1v25 ANPLong-chain-fatty-acid--CoA ligase 6.2.1.3 0.692
3lgx ATPD-alanine--poly(phosphoribitol) ligase subunit 1 / 0.691
2d1s SLULuciferin 4-monooxygenase 1.13.12.7 0.678
4oxi GAPEnterobactin synthetase component F-related protein / 0.663
5bpf ADPD-alanine--D-alanine ligase / 0.659
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.659
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.655
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.652
2p0a ANPSynapsin-3 / 0.651
1z0s ATPNAD kinase / 0.650