Table 2.

Recognition of estradiol-binding sites by searching the database of whole proteins

Rank	PDB	Protein	Fold	Sequence similarity (%)	Match score	Ligand	Run time (seconds)
1	1lhu	Sex hormone-binding globulin	Concanavalin A-like lectins/glucanases	100	100	EST∗	7
2	1qkt	Estrogen receptor alpha	Nuclear receptor ligand-binding domain	16	45	EST∗	8.6
3	1e8x	Phoshoinositide 3-kinase (P13K) helical domain	Alpha–alpha superhelix	6	43	ATP	16.5
4	1gx9	β-Lactoglobulin	Lipocalins	17	43	REA	7.6
5	1ere	Estrogen receptor alpha	Nuclear receptor ligand-binding domain	16	42	EST∗	8
6	1l2i	Estrogen receptor alpha	Nuclear receptor ligand-binding domain	16	42	ETC∗	8.3
7	1a52	Estrogen receptor alpha	Nuclear receptor ligand-binding domain	18	42	EST∗	8
8	1fby	Retinoid-X receptor alpha (RXR-alpha)	Nuclear receptor ligand-binding domain	16	41	REA	8.2
9	1b4v	Cholesterol oxidase of GMC family	FAD/NAD(P)-binding domain	8	41	FAD	9.9
10	3ert	Estrogen receptor alpha	Nuclear receptor ligand-binding domain	16	40	OHT∗	8.3
11	1equ	Estrogen receptor alpha	Nuclear receptor ligand-binding domain	12	40	EQU∗	8.9
12	le6w	3-Hydroxyacyl-CoA dehydrogenase	NAD(P)-binding Rossmann-fold domains	4	40	EST∗	14.3
13	1atp	cAMP-dependent PK, catalytic subunit	Protein kinase-like	11	39	ATP	9.3
14	1err	Estrogen receptor alpha	Nuclear receptor ligand-binding domain	17	39	RAL∗	8.3
15	1ftp	Fatty acid-binding protein	Lipocalins	14	39	None	7

A list of proteins whose binding sites were recognized to be similar to that of a sex hormone-binding globulin (1lhu) is presented. The proteins are listed in the order of decreasing similarity to the query binding site. In all cases, the program has successfully located the bindings sites. The name of the ligand present in the located binding site is provided. Marked by ∗ are the entries that are known to bind estradiol.