scPDB - Distribution of Binding site Similarity values of 4dja 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
4dja	DLZ	(6-4) photolyase

Complex with similar binding sites

PDB ID	HET	Uniprot Name	EC Number	Binding Site Similarity
4dja	DLZ	(6-4) photolyase	/	1.000
3zxs	DLZ	Deoxyribodipyrimidine photolyase-related protein	/	0.507
4jzr	4JR	Egl nine homolog 1	/	0.493
1cde	DZF	Phosphoribosylglycinamide formyltransferase	/	0.488
2acw	UPG	Glycosyltransferase	/	0.485
4a86	H35	Major pollen allergen Bet v 1-A	/	0.485
4la7	A1O	Abscisic acid receptor PYL2	/	0.478
3dhb	C6L	N-acyl homoserine lactonase AiiA	3.1.1.81	0.473
1fdu	EST	Estradiol 17-beta-dehydrogenase 1	1.1.1.62	0.471
1mc0	PCG	cGMP-dependent 3',5'-cyclic phosphodiesterase	/	0.470
4ej4	EJ4	Delta-type opioid receptor	/	0.469
7std	CRP	Scytalone dehydratase	4.2.1.94	0.467
4jlm	1NN	Deoxycytidine kinase	2.7.1.74	0.466
4xg1	LLP	Diaminopimelate decarboxylase	/	0.466
2ea2	F77	Methionine aminopeptidase 2	/	0.464
2v58	LZJ	Biotin carboxylase	6.3.4.14	0.464
3qbw	ADP	Anhydro-N-acetylmuramic acid kinase	/	0.464
4dxa	GSP	Ras-related protein Rap-1b	/	0.463
4j8t	DOG	Uncharacterized PhzA/B-like protein PA3332	/	0.463
4qtu	SAM	18S rRNA (guanine(1575)-N(7))-methyltransferase	/	0.462
2j5s	KTA	Alr4455 protein	/	0.461
3bxx	QUE	Dihydroflavonol 4-reductase	1.1.1.219	0.459
3l6j	Z90	Alr2278 protein	/	0.459
1db5	6IN	Phospholipase A2, membrane associated	/	0.458
1ejb	INJ	6,7-dimethyl-8-ribityllumazine synthase	2.5.1.78	0.458
2dvl	FAD	Acyl-CoA dehydrogenase	/	0.458
2qn7	HBZ	Glycogen phosphorylase, muscle form	2.4.1.1	0.458
4bb3	KKA	Isopenicillin N synthase	1.21.3.1	0.458
1e2n	RCA	Thymidine kinase	/	0.457
1mc1	PCX	Carboxyethyl-arginine beta-lactam-synthase	6.3.3.4	0.457
4jtr	IBP	Aldo-keto reductase family 1 member C2	/	0.457
1gtr	ATP	Glutamine--tRNA ligase	6.1.1.18	0.456
4z24	FAD	Putative GMC-type oxidoreductase R135	1	0.456
4mm9	FVX	Na(+):neurotransmitter symporter (Snf family)	/	0.455
1iol	EST	Estradiol 17-beta-dehydrogenase 1	1.1.1.62	0.454
1r58	AO5	Methionine aminopeptidase 2	/	0.454
2c1z	KMP	Anthocyanidin 3-O-glucosyltransferase 2	2.4.1.115	0.454
3be2	RAJ	Vascular endothelial growth factor receptor 2	2.7.10.1	0.454
3i64	DNA	2,7-dihydroxy-5-methyl-1-naphthoate 7-O-methyltransferase	/	0.453
4ivq	I43	Thymidine kinase	/	0.453
1c3x	8IG	Purine nucleoside phosphorylase	2.4.2.1	0.452
2ga2	A19	Methionine aminopeptidase 2	/	0.452
3pqb	VGP	Putative oxidoreductase	/	0.452
4iae	1DX	Alr2278 protein	/	0.452
4l5b	1UX	Deoxycytidine kinase	2.7.1.74	0.452
1zdg	UPG	Glycogenin-1	2.4.1.186	0.451
3ukr	CKH	Actin-related protein 3	/	0.451
3ukr	CKH	Actin-related protein 2	/	0.451
1pfy	MSP	Methionine--tRNA ligase	6.1.1.10	0.450
4ivr	N50	Thymidine kinase	/	0.450
4daj	0HK	Muscarinic acetylcholine receptor M3	/	0.450
1k4g	AIQ	Queuine tRNA-ribosyltransferase	2.4.2.29	0.449
1yw7	A41	Methionine aminopeptidase 2	/	0.449
3gmd	2M3	Corticosteroid 11-beta-dehydrogenase isozyme 1	1.1.1.146	0.449
4jkv	1KS	Smoothened homolog	/	0.449
2std	CRP	Scytalone dehydratase	4.2.1.94	0.448
3jpu	TY4	Transcriptional activator protein LasR	/	0.448
3t5i	SER_SER_CMT_FAR	Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta	/	0.448
1ovm	TPP	Indole-3-pyruvate decarboxylase	4.1.1.74	0.447
1yw8	A75	Methionine aminopeptidase 2	/	0.447
2wm3	NFL	NmrA-like family domain-containing protein 1	/	0.447
3coz	54H	Pantothenate synthetase	6.3.2.1	0.447
3dhc	CYK	N-acyl homoserine lactonase AiiA	3.1.1.81	0.447
3mte	SAM	16S rRNA (adenine(1408)-N(1))-methyltransferase	2.1.1.180	0.447
3rmw	UPG	Glycogenin-1	2.4.1.186	0.447
3uzc	T4E	Adenosine receptor A2a	/	0.447
3rfm	CFF	Adenosine receptor A2a	/	0.447
1k4h	APQ	Queuine tRNA-ribosyltransferase	2.4.2.29	0.446
1upw	444	Oxysterols receptor LXR-beta	/	0.446
3ha7	B32	Hydroxymycolate synthase MmaA4	2.1.1	0.446
3jqb	DX6	Pteridine reductase, putative	/	0.446
3vmm	P0D	Alanine--anticapsin ligase	/	0.446
3we0	FAD	Lysine 2-monooxygenase	/	0.446
4bbh	YBN	Glycylpeptide N-tetradecanoyltransferase	/	0.446
4ko0	JLJ	Gag-Pol polyprotein	2.7.7.49	0.446
4std	BFS	Scytalone dehydratase	4.2.1.94	0.446
5c1m	CLR	Mu-type opioid receptor	/	0.446
5fbh	TCR	Extracellular calcium-sensing receptor	/	0.446
6std	MS2	Scytalone dehydratase	4.2.1.94	0.446
1it7	GUN	tRNA-guanine(15) transglycosylase	2.4.2.48	0.445
2bfp	H4B	Pteridine reductase 1	1.5.1.33	0.445
3ag6	PAJ	Pantothenate synthetase	/	0.445
3d76	NBB	Pheromone-binding protein ASP1	/	0.445
2c9d	PHR	6,7-dimethyl-8-ribityllumazine synthase	2.5.1.78	0.444
2w3a	TOP	Dihydrofolate reductase	1.5.1.3	0.444
3ae4	FAD	Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial	/	0.444
3nxr	D2D	Dihydrofolate reductase	1.5.1.3	0.444
3p0f	BAU	Uridine phosphorylase 2	2.4.2.3	0.444
3rm8	RM8	Acidic mammalian chitinase	3.2.1.14	0.444
3sqw	ANP	ATP-dependent RNA helicase MSS116, mitochondrial	3.6.4.13	0.444
4bfv	ZVV	Pantothenate kinase	2.7.1.33	0.444
4l0q	NAD	Alcohol dehydrogenase class-3	/	0.444
4mub	OAQ	Sulfotransferase oxamniquine resistance protein	/	0.444
2a59	LMZ	6,7-dimethyl-8-ribityllumazine synthase	2.5.1.78	0.443
3koz	Z97	D-ornithine 4,5-aminomutase subunit beta	/	0.443
3zbs	OVE	2',3'-cyclic-nucleotide 3'-phosphodiesterase	3.1.4.37	0.443
4fgc	PQ0	NADPH-dependent 7-cyano-7-deazaguanine reductase	1.7.1.13	0.443
4i8v	BHF	Cytochrome P450 1A1	1.14.14.1	0.443
4imf	SI3	N-acetylneuraminate lyase	/	0.443
4twn	B96	Ephrin type-A receptor 3	2.7.10.1	0.443
2acl	L05	Oxysterols receptor LXR-alpha	/	0.442
2bf7	HBI	Pteridine reductase 1	1.5.1.33	0.442
2v5a	LZL	Biotin carboxylase	6.3.4.14	0.442
2w6p	OA4	Biotin carboxylase	6.3.4.14	0.442
3h4v	DVP	Pteridine reductase 1	1.5.1.33	0.442
3o76	GTB	Glutathione S-transferase P 1	2.5.1.18	0.442
4bqy	FNT	Egl nine homolog 1	/	0.442
4c36	ZO9	cAMP-dependent protein kinase catalytic subunit alpha	2.7.11.11	0.442
4jui	EGR	Tannase	/	0.442
3pbl	ETQ	D(3) dopamine receptor	/	0.442
1ftl	DNQ	Glutamate receptor 2	/	0.441
2rd2	QSI	Glutamine--tRNA ligase	6.1.1.18	0.441
3tda	PN0	Cytochrome P450 2D6	/	0.441
4eh8	IRG	Mitogen-activated protein kinase 14	/	0.441
1qy2	IPZ	Major urinary protein 1	/	0.440
3b7d	CNI	Glutamate receptor 2	/	0.440
3nx2	FER	Ferulic acid decarboxylase	/	0.440
4cby	KEE	Histone deacetylase 4	3.5.1.98	0.440
4fr1	0V2	Queuine tRNA-ribosyltransferase	2.4.2.29	0.440
4jq4	IMN	Aldo-keto reductase family 1 member C2	/	0.440