scPDB - Distribution of Binding site Similarity values of 3pt9 entry / Site 1

Distribution of Binding site similarity measured by Shaper

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Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :

PDB ID	HET	Uniprot Name	EC Number
3pt9	SAH	DNA (cytosine-5)-methyltransferase 1	2.1.1.37

Complex with similar binding sites

PDB ID	HET	Uniprot Name	EC Number	Binding Site Similarity
3pt9	SAH	DNA (cytosine-5)-methyltransferase 1	2.1.1.37	1.000
3pt6	SAH	DNA (cytosine-5)-methyltransferase 1	2.1.1.37	0.623
4wxx	SAH	DNA (cytosine-5)-methyltransferase 1	2.1.1.37	0.606
2hmy	SAM	Modification methylase HhaI	2.1.1.37	0.572
4da4	SAH	DNA (cytosine-5)-methyltransferase 1	2.1.1.37	0.552
1skm	SAH	Modification methylase HhaI	2.1.1.37	0.546
4h0n	SAH	Dnmt2	/	0.546
7mht	SAH	Modification methylase HhaI	2.1.1.37	0.531
3swr	SFG	DNA (cytosine-5)-methyltransferase 1	2.1.1.37	0.523
4rtl	SFG	DNA adenine methylase	2.1.1.72	0.514
5mht	SAH	Modification methylase HhaI	2.1.1.37	0.512
2zcj	SAH	Modification methylase HhaI	2.1.1.37	0.510
3qv2	SAH	5-cytosine DNA methyltransferase	/	0.507
2uyh	SAH	Modification methylase HhaI	2.1.1.37	0.506
4rtr	SAM	DNA adenine methylase	2.1.1.72	0.504
9mht	SAH	Modification methylase HhaI	2.1.1.37	0.496
1boo	SAH	Modification methylase PvuII	2.1.1.113	0.494
2zwv	SAH	Probable ribosomal RNA small subunit methyltransferase	/	0.490
3tm5	SFG	Uncharacterized protein	/	0.490
4onj	SFG	DNA methyltransferase	/	0.488
1fjx	SAH	Modification methylase HhaI	2.1.1.37	0.486
2z6u	SAH	Modification methylase HhaI	2.1.1.37	0.483
8mht	SAH	Modification methylase HhaI	2.1.1.37	0.483
2dpm	SAM	Modification methylase DpnIIA	2.1.1.72	0.482
2i9k	SAH	Modification methylase HhaI	2.1.1.37	0.482
4u7t	SAH	DNA (cytosine-5)-methyltransferase 3A	2.1.1.37	0.481
4anx	534	Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform	2.7.1.153	0.477
3tlj	SAH	Uncharacterized protein	/	0.476
2eg5	SAH	7-methylxanthosine synthase 1	/	0.472
4a6b	QG8	Gag-Pol polyprotein	3.4.23.16	0.472
1g38	NEA	Modification methylase TaqI	2.1.1.72	0.470
4gbe	SAH	DNA adenine methylase	2.1.1.72	0.470
5e72	SAM	N2, N2-dimethylguanosine tRNA methyltransferase	/	0.470
4ft4	SAH	DNA (cytosine-5)-methyltransferase 1	2.1.1.37	0.466
1mht	SAH	Modification methylase HhaI	2.1.1.37	0.465
1nw5	SAM	Modification methylase RsrI	2.1.1.72	0.465
4rtm	SAM	DNA adenine methylase	2.1.1.72	0.463
3mht	SAH	Modification methylase HhaI	2.1.1.37	0.462
4rto	SFG	DNA adenine methylase	2.1.1.72	0.462
4dkj	SAH	Cytosine-specific methyltransferase	/	0.461
2c7q	SAH	Modification methylase HhaI	2.1.1.37	0.459
3tm4	SAM	Uncharacterized protein	/	0.459
4ekg	0QJ	Histone-lysine N-methyltransferase, H3 lysine-79 specific	2.1.1.43	0.457
2g1p	SAH	DNA adenine methylase	2.1.1.72	0.455
4y93	746	Tyrosine-protein kinase	/	0.454
4rtq	SAH	DNA adenine methylase	2.1.1.72	0.451
2ih2	NEA	Modification methylase TaqI	2.1.1.72	0.450
3dmh	SAM	Probable ribosomal RNA small subunit methyltransferase	/	0.450
3egv	SAH	Ribosomal protein L11 methyltransferase	2.1.1	0.450
3cyw	017	Gag-Pol polyprotein	3.4.23.16	0.449
3ldf	SAH	Uncharacterized protein	/	0.448
4rtj	SFG	DNA adenine methylase	2.1.1.72	0.448
4rtk	SAH	DNA adenine methylase	2.1.1.72	0.446
10mh	SAH	Modification methylase HhaI	2.1.1.37	0.445
3a26	MTA	tRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase	/	0.445
4rtp	SAM	DNA adenine methylase	2.1.1.72	0.445
4rts	SAM	DNA adenine methylase	2.1.1.72	0.445
2nru	T12	Interleukin-1 receptor-associated kinase 4	2.7.11.1	0.444
2zul	SAM	Probable ribosomal RNA small subunit methyltransferase	/	0.444
4a6c	QG9	Gag-Pol polyprotein	3.4.23.16	0.444
1hdc	CBO	3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase	1.1.1.53	0.443
1rfu	ADP	Pyridoxal kinase	2.7.1.35	0.443
3v97	SAH	Ribosomal RNA large subunit methyltransferase K/L	2.1.1.173	0.443
4c04	SFG	Protein arginine N-methyltransferase 6	/	0.443
3flk	NAI	Tartrate dehydrogenase/decarboxylase	1.1.1.93	0.442
3sr4	TT8	Histone-lysine N-methyltransferase, H3 lysine-79 specific	2.1.1.43	0.442
4obw	SAM	2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial	/	0.442
2hv9	SFG	mRNA cap guanine-N7 methyltransferase	2.1.1.56	0.441
3a9w	NAD	NDP-sugar epimerase	/	0.441
3vfa	031	Gag-Pol polyprotein	3.4.23.16	0.441
4fr0	SAM	Arsenic methyltransferase	/	0.441
1eg2	MTA	Modification methylase RsrI	2.1.1.72	0.440
1h2b	NAJ	NAD-dependent alcohol dehydrogenase	/	0.440
1jqd	SAH	Histamine N-methyltransferase	2.1.1.8	0.440
2ore	SAH	DNA adenine methylase	2.1.1.72	0.440