scPDB - Distribution of Cavity Similarity values of 1m8j entry / Site 1

Distribution of Cavity similarities measured by Shaper

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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
1m8j	NAD	Nicotinamide-nucleotide adenylyltransferase	2.7.7.1

Complex with similar cavities

PDB ID	HET	Uniprot Name	EC Number	Cavity Similarity
1m8j	NAD	Nicotinamide-nucleotide adenylyltransferase	2.7.7.1	1.000
1ej2	NAD	Nicotinamide-nucleotide adenylyltransferase	2.7.7.1	0.634
1m8g	NAD	Nicotinamide-nucleotide adenylyltransferase	2.7.7.1	0.522
3m1v	COM	Methyl-coenzyme M reductase I subunit alpha	2.8.4.1	0.482
3m1v	COM	Methyl-coenzyme M reductase I subunit beta	2.8.4.1	0.482
1r6u	TYM	Tryptophan--tRNA ligase, cytoplasmic	6.1.1.2	0.478
1i59	ANP	Chemotaxis protein CheA	2.7.13.3	0.471
1nuq	NXX	Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3	/	0.471
2quj	TYM	Tryptophan--tRNA ligase, cytoplasmic	6.1.1.2	0.463
5ein	NAP	[LysW]-L-2-aminoadipate 6-phosphate reductase	/	0.463
1xjq	ADP	Bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 1	2.7.1.25	0.458
3kt3	TYM	Tryptophan--tRNA ligase, cytoplasmic	6.1.1.2	0.457
3m2v	COM	Methyl-coenzyme M reductase I subunit alpha	2.8.4.1	0.457
2yxu	ATP	Pyridoxal kinase	2.7.1.35	0.454
2y1o	T26	UDP-N-acetylmuramoylalanine--D-glutamate ligase	6.3.2.9	0.453
3jyo	NAD	Quinate/shikimate dehydrogenase (NAD(+))	/	0.453
3p62	FMN	Pentaerythritol tetranitrate reductase	/	0.453
4egb	NAD	dTDP-glucose 4,6-dehydratase	/	0.453
3ivc	FG4	Pantothenate synthetase	6.3.2.1	0.452
3p8j	FMN	Pentaerythritol tetranitrate reductase	/	0.451
4wxf	PLG	Serine hydroxymethyltransferase	/	0.451
1rfv	ADP	Pyridoxal kinase	2.7.1.35	0.449
2gjl	FMN	Nitronate monooxygenase	1.13.12.16	0.449
3dhe	AND	Estradiol 17-beta-dehydrogenase 1	1.1.1.62	0.449
3dmt	NAD	Glyceraldehyde-3-phosphate dehydrogenase, glycosomal	1.2.1.12	0.449
3jun	AJD	Phenazine biosynthesis protein A/B	/	0.449
3rba	COD	Phosphopantetheine adenylyltransferase	/	0.449
4a2a	ATP	Cell division protein FtsA	/	0.449
3fun	798	Leukotriene A-4 hydrolase	3.3.2.6	0.448
4yek	THM	Thymidine phosphorylase	/	0.448
1rfu	ADP	Pyridoxal kinase	2.7.1.35	0.446
1xdd	AAY	Integrin alpha-L	/	0.446
3tr0	5GP	Guanylate kinase	/	0.446
1n1d	C2G	Glycerol-3-phosphate cytidylyltransferase	2.7.7.39	0.445
1u8v	FAD	4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase	/	0.445
2r2n	KYN	Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial	2.6.1.39	0.445
2y3r	TRK	TamL	/	0.445
4yao	2AM	NADPH--cytochrome P450 reductase	/	0.445
1n2h	PAJ	Pantothenate synthetase	6.3.2.1	0.444
1n4s	CYS_VAL_ILE_LEU_GER	Geranylgeranyl transferase type-1 subunit beta	2.5.1.59	0.444
2xiq	5AD	Methylmalonyl-CoA mutase, mitochondrial	/	0.444
3ful	52D	Leukotriene A-4 hydrolase	3.3.2.6	0.444
2vtd	LKM	UDP-N-acetylmuramoylalanine--D-glutamate ligase	6.3.2.9	0.443
1jed	ADP	Sulfate adenylyltransferase	/	0.442
3keu	ATP	Pyridoxal kinase	2.7.1.35	0.442
3kt8	LTN	Tryptophan--tRNA ligase, cytoplasmic	6.1.1.2	0.442
4req	5AD	Methylmalonyl-CoA mutase large subunit	5.4.99.2	0.442
1hdg	NAD	Glyceraldehyde-3-phosphate dehydrogenase	/	0.440
1i59	ADP	Chemotaxis protein CheA	2.7.13.3	0.440
2a57	CRM	6,7-dimethyl-8-ribityllumazine synthase	2.5.1.78	0.440
4m49	22Y	L-lactate dehydrogenase A chain	1.1.1.27	0.440