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
5ifi PRX Acetyl-coenzyme A synthetase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5ifi PRXAcetyl-coenzyme A synthetase / 1.043
2p2b PRXAcetyl-coenzyme A synthetase / 0.855
2p20 PRXAcetyl-coenzyme A synthetase / 0.826
2p2m PRXAcetyl-coenzyme A synthetase / 0.819
1pg3 PRXAcetyl-coenzyme A synthetase / 0.816
2p2j PRXAcetyl-coenzyme A synthetase / 0.808
2p2q PRXAcetyl-coenzyme A synthetase / 0.768
4oxi GAPEnterobactin synthetase component F-related protein / 0.753
4r1l ADPPhenylacetate-coenzyme A ligase / 0.752
2d1t SLULuciferin 4-monooxygenase 1.13.12.7 0.744
3ies M24Luciferin 4-monooxygenase 1.13.12.7 0.730
2d1s SLULuciferin 4-monooxygenase 1.13.12.7 0.718
3lgx ATPD-alanine--poly(phosphoribitol) ligase subunit 1 / 0.718
4g36 SLULuciferin 4-monooxygenase 1.13.12.7 0.709
4rvo ADPPhenylacetate-coenzyme A ligase / 0.700
1v25 ANPLong-chain-fatty-acid--CoA ligase 6.2.1.3 0.684
4g37 SLULuciferin 4-monooxygenase 1.13.12.7 0.684
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.674
5c1p ADPD-alanine--D-alanine ligase / 0.672
2p0a ANPSynapsin-3 / 0.665
3gpc COAAcyl-coenzyme A synthetase ACSM2A, mitochondrial 6.2.1.2 0.664
3kxw 1ZZSaframycin Mx1 synthetase B / 0.664
2yw2 ATPPhosphoribosylamine--glycine ligase / 0.660
3k5h ATPPhosphoribosyl-aminoimidazole carboxylase / 0.659
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.658
1z0s ATPNAD kinase / 0.654
3fce ATPD-alanine--poly(phosphoribitol) ligase subunit 1 / 0.650