scPDB - Distribution of Binding site Similarity values of 3ed1 entry / Site 6

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
3ed1	GA3	Gibberellin receptor GID1

Complex with similar binding sites

PDB ID	HET	Uniprot Name	EC Number	Binding Site Similarity
3ed1	GA3	Gibberellin receptor GID1	/	1.000
3ebl	GA4	Gibberellin receptor GID1	/	0.668
2zsh	GA3	Gibberellin receptor GID1A	3	0.635
2zsi	GA4	Gibberellin receptor GID1A	3	0.596
4en4	ATP	Pyridoxal kinase	2.7.1.35	0.483
3hk1	B64	Fatty acid-binding protein, adipocyte	/	0.475
2ql6	ADP	Nicotinamide riboside kinase 1	/	0.473
3d8v	UD1	Bifunctional protein GlmU	/	0.473
5iqf	GDP	Bifunctional AAC/APH	2.3.1	0.472
1i59	ANP	Chemotaxis protein CheA	2.7.13.3	0.467
2ejv	NAD	L-threonine 3-dehydrogenase	/	0.467
3spt	UD1	Bifunctional protein GlmU	/	0.465
3t4e	NAD	Quinate/shikimate dehydrogenase	/	0.465
1fmj	RTL	Retinol dehydratase	/	0.462
2vut	NAD	Nitrogen metabolite repression protein nmrA	/	0.461
2nnq	T4B	Fatty acid-binding protein, adipocyte	/	0.460
1kvt	UPG	UDP-glucose 4-epimerase	5.1.3.2	0.458
3zhr	TPP	Multifunctional 2-oxoglutarate metabolism enzyme	1.2.4.2	0.458
2gev	COK	Pantothenate kinase	2.7.1.33	0.457
3jun	AJD	Phenazine biosynthesis protein A/B	/	0.457
4m2b	UPG	UDP-glucose pyrophosphorylase	/	0.457
2v5a	LZL	Biotin carboxylase	6.3.4.14	0.456
1b2l	NDC	Alcohol dehydrogenase	1.1.1.1	0.455
3oqf	S51	Renin	3.4.23.15	0.454
2xfs	J01	Uncharacterized protein	/	0.453
3gfb	NAD	L-threonine 3-dehydrogenase	/	0.453
3p62	FMN	Pentaerythritol tetranitrate reductase	/	0.453
3to3	ATP	Petrobactin biosynthesis protein AsbB	/	0.453
2x0r	NAD	Malate dehydrogenase	/	0.452
3oqk	S52	Renin	3.4.23.15	0.452
3otw	COA	Phosphopantetheine adenylyltransferase	/	0.452
3lqf	NAD	Galactitol dehydrogenase	/	0.451
3nx4	NAP	Putative oxidoreductase	/	0.451
4yqf	GDP	Septin-9	/	0.451
1bxk	NAD	dTDP-glucose 4,6-dehydratase 2	/	0.450
1kvs	UPG	UDP-glucose 4-epimerase	5.1.3.2	0.450
2a0w	DIH	Purine nucleoside phosphorylase	2.4.2.1	0.450
2v58	LZJ	Biotin carboxylase	6.3.4.14	0.450
3elb	C5P	Ethanolamine-phosphate cytidylyltransferase	2.7.7.14	0.450
3zu2	NAI	Enoyl-[acyl-carrier-protein] reductase [NADH]	/	0.450
4bb3	KKA	Isopenicillin N synthase	1.21.3.1	0.450
1bws	NDP	GDP-L-fucose synthase	/	0.449
1hfq	MOT	Dihydrofolate reductase	1.5.1.3	0.449
1vyr	FMN	Pentaerythritol tetranitrate reductase	/	0.449
2qo9	ANP	Ephrin type-A receptor 3	2.7.10.1	0.449
2yxu	ATP	Pyridoxal kinase	2.7.1.35	0.449
3fp0	FP0	15-O-acetyltransferase	/	0.449
3jun	AKD	Phenazine biosynthesis protein A/B	/	0.449
3qfc	NAP	NADPH--cytochrome P450 reductase	/	0.449
3swq	EPU	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	/	0.449
2abb	FMN	Pentaerythritol tetranitrate reductase	/	0.448
2hun	NAD	336aa long hypothetical dTDP-glucose 4,6-dehydratase	/	0.448
2uxo	TAC	HTH-type transcriptional regulator TtgR	/	0.447
4fm8	0UQ	Beta-secretase 1	3.4.23.46	0.447
5b1y	NDP	3-oxoacyl-[acyl-carrier-protein] reductase	/	0.447
1h50	FMN	Pentaerythritol tetranitrate reductase	/	0.446
2g1n	1IG	Renin	3.4.23.15	0.446
2rdn	1PL	1-deoxypentalenic acid 11-beta-hydroxylase	1.14.11.35	0.446
2vuu	NAP	Nitrogen metabolite repression protein nmrA	/	0.446
3jyq	NAD	Quinate/shikimate dehydrogenase (NAD(+))	/	0.446
3vcy	UD1	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	/	0.446
4bfs	ZVS	Pantothenate kinase	2.7.1.33	0.446
4xsv	C5P	Ethanolamine-phosphate cytidylyltransferase	2.7.7.14	0.446
2ddo	ATP	Pyridoxine/pyridoxal/pyridoxamine kinase	/	0.445
4f4d	CHD	Ferrochelatase, mitochondrial	4.99.1.1	0.445
4fxf	ATP	Pyruvate kinase PKM	2.7.1.40	0.445
1dhr	NAD	Dihydropteridine reductase	1.5.1.34	0.444
1f20	NAP	Nitric oxide synthase, brain	1.14.13.39	0.444
1j39	UPG	DNA beta-glucosyltransferase	/	0.444
3f03	FMN	Pentaerythritol tetranitrate reductase	/	0.444
4b3a	TAC	Tetracycline repressor protein class D	/	0.444
4i6g	FAD	Cryptochrome-2	/	0.444
4itm	ATP	Tetraacyldisaccharide 4'-kinase	/	0.444
1foa	UD1	Alpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase	2.4.1.101	0.443
1ty9	FMN	Phenazine biosynthesis protein PhzG	1.4	0.443
1omo	NAD	Alanine dehydrogenase	/	0.442
2lba	CHO	Fatty acid binding protein 6	/	0.442
3zxs	FAD	Deoxyribodipyrimidine photolyase-related protein	/	0.442
4isk	1JY	Thymidylate synthase	/	0.442
4jbi	NDP	Alcohol dehydrogenase (Zinc)	/	0.442
4kgm	ATP	Uncharacterized protein	/	0.442
4m9a	FDA	Acyl-CoA dehydrogenase	/	0.442
1iol	EST	Estradiol 17-beta-dehydrogenase 1	1.1.1.62	0.441
1nup	NMN	Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3	/	0.441
1tow	CRZ	Fatty acid-binding protein, adipocyte	/	0.441
2cf6	NAP	Cinnamyl alcohol dehydrogenase 5	1.1.1.195	0.441
3ibq	ATP	Pyridoxal kinase	/	0.441
4h6p	FMN	Chromate reductase	/	0.441
1a9y	UPG	UDP-glucose 4-epimerase	5.1.3.2	0.440
1gtr	ATP	Glutamine--tRNA ligase	6.1.1.18	0.440
1ryw	EPU	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	/	0.440
2uzf	CAA	1,4-dihydroxy-2-naphthoyl-CoA synthase	/	0.440
2ztv	NAD	D(-)-3-hydroxybutyrate dehydrogenase	/	0.440
3cis	ATP	Universal stress protein Rv2623	/	0.440
3h3s	H15	Collagen type IV alpha-3-binding protein	/	0.440