scPDB - Distribution of Cavity Similarity values of 4cby entry / Site 3

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
4cby	KEE	Histone deacetylase 4	3.5.1.98

Complex with similar cavities

PDB ID	HET	Uniprot Name	EC Number	Cavity Similarity
4cby	KEE	Histone deacetylase 4	3.5.1.98	1.000
3znr	NU9	Histone deacetylase 7	3.5.1.98	0.533
3zns	NU7	Histone deacetylase 7	3.5.1.98	0.508
3c10	TSN	Histone deacetylase 7	3.5.1.98	0.473
3vt8	YI3	Vitamin D3 receptor	/	0.467
4m11	MXM	Prostaglandin G/H synthase 2	1.14.99.1	0.466
3vt7	VDX	Vitamin D3 receptor	/	0.465
3r7m	SUZ	Aldo-keto reductase family 1 member C3	/	0.462
2y0j	AXC	cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A	3.1.4.17	0.461
4mv1	ADP	Biotin carboxylase	6.3.4.14	0.461
3aos	JH2	Hemolymph juvenile hormone binding protein	/	0.460
1fmj	RTL	Retinol dehydratase	/	0.459
3djf	BC3	Purine nucleoside phosphorylase	/	0.459
1upw	444	Oxysterols receptor LXR-beta	/	0.458
2xk3	XK3	Serine/threonine-protein kinase Nek2	2.7.11.1	0.458
3b9l	AZZ	Serum albumin	/	0.458
3gie	ACP	Sensor histidine kinase DesK	2.7.13.3	0.457
4b11	7I1	Glycylpeptide N-tetradecanoyltransferase	/	0.456
1uml	FR4	Adenosine deaminase	3.5.4.4	0.455
2bxq	IMN	Serum albumin	/	0.455
1dr4	HBI	Dihydrofolate reductase	1.5.1.3	0.454
4pnm	NU1	Tankyrase-2	2.4.2.30	0.454
5jtb	ZMA	Adenosine receptor A2a	/	0.454
2in6	839	Wee1-like protein kinase	2.7.10.2	0.453
4k9y	K9Y	Focal adhesion kinase 1	2.7.10.2	0.453
3vt9	YI4	Vitamin D3 receptor	/	0.452
1gzu	NMN	Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 1	2.7.7.1	0.451
2ati	IHU	Glycogen phosphorylase, liver form	2.4.1.1	0.451
1o5r	FR9	Adenosine deaminase	3.5.4.4	0.450
3jyp	NAD	Quinate/shikimate dehydrogenase (NAD(+))	/	0.450
3zsh	469	Mitogen-activated protein kinase 14	/	0.450
4a2a	ATP	Cell division protein FtsA	/	0.450
4ajm	3A6	cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A	3.1.4.17	0.450
4dhy	S41	Glucokinase	2.7.1.2	0.450
4kfj	1R0	Dihydrofolate reductase	1.5.1.3	0.450
7cat	NDP	Catalase	1.11.1.6	0.450
1fds	EST	Estradiol 17-beta-dehydrogenase 1	1.1.1.62	0.449
4c3y	ANB	3-ketosteroid dehydrogenase	/	0.449
3nwl	NDP	Catalase	1.11.1.6	0.448
4guk	P2G	Neuronal calcium sensor 1	/	0.448
5uvi	ZMA	Adenosine receptor A2a	/	0.448
3uic	NAD	Enoyl-[acyl-carrier-protein] reductase [NADH]	/	0.446
4c1i	EH9	cGMP-dependent 3',5'-cyclic phosphodiesterase	3.1.4.17	0.446
1fml	RTL	Retinol dehydratase	/	0.445
1nbm	ADP	ATP synthase subunit beta, mitochondrial	3.6.3.14	0.444
2pui	ADP	Methylthioribose kinase	2.7.1.100	0.444
4jq4	IMN	Aldo-keto reductase family 1 member C2	/	0.444
1syn	F89	Thymidylate synthase	/	0.443
3dha	C6L	N-acyl homoserine lactonase AiiA	3.1.1.81	0.443
3gwf	FAD	Cyclohexanone monooxygenase	/	0.443
4dqu	NAI	Enoyl-[acyl-carrier-protein] reductase [NADH]	1.3.1.9	0.443
3new	3NE	Mitogen-activated protein kinase 14	/	0.442
1rkh	VD2	Vitamin D3 receptor	/	0.441
3i8a	N22	Dihydrofolate reductase	1.5.1.3	0.441
3qiy	QI1	Botulinum neurotoxin type A	3.4.24.69	0.441
4bfu	ZVU	Pantothenate kinase	2.7.1.33	0.441
5k2c	ZMA	Adenosine receptor A2a	/	0.441
1lhw	ESM	Sex hormone-binding globulin	/	0.440
1xon	PIL	cAMP-specific 3',5'-cyclic phosphodiesterase 4D	3.1.4.53	0.440
4c72	TLG	3-oxoacyl-ACP synthase	/	0.440