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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
4o7lADPPhosphoribosylaminoimidazole-succinocarboxamide synthase6.3.2.6

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
4o7lADPPhosphoribosylaminoimidazole-succinocarboxamide synthase6.3.2.61.000
2ywvADPPhosphoribosylaminoimidazole-succinocarboxamide synthase/0.551
2z02ATPPhosphoribosylaminoimidazole-succinocarboxamide synthase6.3.2.60.503
4o7nADPPhosphoribosylaminoimidazole-succinocarboxamide synthase6.3.2.60.498
4nyeADPPhosphoribosylaminoimidazole-succinocarboxamide synthase6.3.2.60.496
4c1iEH9cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.483
4f1sF1SPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.477
3oquA8SAbscisic acid receptor PYL9/0.476
4wq5ATPtRNA N6-adenosine threonylcarbamoyltransferase/0.473
3njoPYVAbscisic acid receptor PYR1/0.471
4jk4DIUSerum albumin/0.470
4hvb19PPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.469
5cpbNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.469
3qk0QK0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.467
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.466
4wq4ATPtRNA N6-adenosine threonylcarbamoyltransferase/0.465
5dr9SKEAurora kinase A2.7.11.10.465
2btsU32Cyclin-dependent kinase 22.7.11.220.464
3vs7KS1Tyrosine-protein kinase HCK2.7.10.20.464
1pmn984Mitogen-activated protein kinase 102.7.11.240.463
3rukAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.463
3gc9B45Mitogen-activated protein kinase 112.7.11.240.462
3w9rA8SAbscisic acid receptor PYL9/0.459
2ftoCB3Thymidylate synthase/0.458
2g2hP16Tyrosine-protein kinase ABL12.7.10.20.458
3njoP2MAbscisic acid receptor PYR1/0.458
1f4gTP4Thymidylate synthase/0.457
4htx19FcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.457
2bbqPFGThymidylate synthase/0.456
1tduDURThymidylate synthase/0.455
4enhFVXCholesterol 24-hydroxylase/0.455
4gyiADPUncharacterized protein/0.454
4o4eATPKinase/0.454
2e20B4PPropionate kinase/0.453
4i0r1B4Tyrosine-protein kinase SYK2.7.10.20.453
4rkdKETAminotransferase/0.453
1kl2FONSerine hydroxymethyltransferase/0.452
2ay84TBAromatic-amino-acid aminotransferase2.6.1.570.452
3vs0VS0Tyrosine-protein kinase HCK2.7.10.20.452
3qaqQAQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
3vs3VSETyrosine-protein kinase HCK2.7.10.20.451
4gyzD5MTyrosyl-DNA phosphodiesterase 23.1.40.451
1zdwFLVPrenyltransferase/0.450
3cgbCOACoenzyme A disulfide reductase/0.450
3vs2VSBTyrosine-protein kinase HCK2.7.10.20.450
1kzjCB3Thymidylate synthase/0.449
2h8hH8HProto-oncogene tyrosine-protein kinase Src2.7.10.20.449
3e5aVX6Aurora kinase A2.7.11.10.449
4xey1N1Tyrosine-protein kinase ABL12.7.10.20.449
2etm7PYFocal adhesion kinase 12.7.10.20.448
2j0lANPFocal adhesion kinase 12.7.10.20.448
3nj0PYVAbscisic acid receptor PYL2/0.448
3vrzVRZTyrosine-protein kinase HCK2.7.10.20.448
4bchT7ZCyclin-dependent kinase 92.7.11.220.448
1x2hLPALipoate-protein ligase A6.3.1.200.447
3mtfA3FActivin receptor type-12.7.11.300.447
4i0t1B6Tyrosine-protein kinase SYK2.7.10.20.447
5dpvSKEAurora kinase A2.7.11.10.447
3lkiATPFructokinase/0.446
3r6pA8SAbscisic acid receptor PYL10/0.446
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
4c58824Cyclin-G-associated kinase2.7.11.10.446
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
4ux9ANPMitogen-activated protein kinase 82.7.11.240.446
1nmdATPMajor actin/0.445
2ptfFMNUncharacterized protein MTH_863/0.444
3oom507Activin receptor type-12.7.11.300.444
4o4fATPKinase/0.444
4yduADPtRNA N6-adenosine threonylcarbamoyltransferase/0.444
1u2gAPRNAD(P) transhydrogenase subunit alpha part 11.6.1.20.443
3ml9ML9Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
3tm5SFGUncharacterized protein/0.443
1o02NADAldehyde dehydrogenase, mitochondrial1.2.1.30.442
2j0m4STFocal adhesion kinase 12.7.10.20.442
3acy702Dehydrosqualene synthase/0.442
3cinNADMyo-inositol-1-phosphate synthase-related protein/0.442
4fjyFJYPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
2ay95PVAromatic-amino-acid aminotransferase2.6.1.570.441
2ftoTMPThymidylate synthase/0.441
2y1oT26UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.441
3vrwYS5Vitamin D3 receptor/0.441
3zecANPAdenosine monophosphate-protein transferase SoFic2.7.7.n10.441
4ea13RXDehydrosqualene synthase/0.441
4fad0TBPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4z64ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.441
1jm6ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial2.7.11.20.440
1qcfPP1Tyrosine-protein kinase HCK2.7.10.20.440
1s9dAFBCytohesin-2/0.440
1s9dAFBADP-ribosylation factor 1/0.440
2ay3MPPAromatic-amino-acid aminotransferase2.6.1.570.440
3qw4U5POrotidine-5-phosphate decarboxylase/orotate phosphoribosyltransferase, putative/0.440
3zw3ZW3Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.440
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
4ds8A8SAbscisic acid receptor PYL3/0.440
4ia7BIVVitamin D3 receptor A/0.440
5eccNAPDehydrofolate reductase type I/0.440