SMTL ID : 9ebl.1

Crystal structure of the hERbeta LBD complexed with androstenediol and SRC 2-2 peptide (crystal form 1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-8-8-mer

Ligands

8 x B81: (3alpha,8alpha,17beta)-androst-5-ene-3,17-diol(Non-covalent)

B81.1: 31 residues within 4Å: Chain A: M.34, L.37, L.40, E.44, M.75, L.78, M.79, L.82, R.85, F.95, I.112, I.115, L.119, H.214, L.215 Chain I: M.34, L.37, L.40, E.44, M.75, L.78, M.79, L.82, R.85, F.95, I.112, I.115, L.119, H.214, L.215 Ligands: B81.5 22 PLIP interactions: 19 interactions with chain A, 3 interactions with chain I Hydrophobic interactions: A:L.37, A:L.40, A:L.78, A:L.78, A:M.79, A:L.82, A:F.95, A:I.112, A:I.115, A:L.119, A:H.214, A:L.215 Hydrogen bonds: A:E.44, A:E.44, A:R.85, A:H.214, A:L.215, I:E.44, I:R.85, I:H.214 Water bridges: A:V.77, A:V.77 B81.2: 33 residues within 4Å: Chain B: M.34, L.37, L.40, A.41, E.44, M.75, L.78, L.82, R.85, F.95, I.112, I.115, L.119, G.211, H.214, L.215 Chain J: M.34, L.37, L.40, A.41, E.44, M.75, L.78, L.82, R.85, F.95, I.112, I.115, L.119, G.211, H.214, L.215 Ligands: B81.6 21 PLIP interactions: 16 interactions with chain B, 5 interactions with chain J Hydrophobic interactions: B:L.37, B:L.40, B:A.41, B:L.78, B:L.82, B:L.82, B:F.95, B:I.112, B:I.115, B:L.119, B:H.214, B:L.215, J:M.75 Hydrogen bonds: B:E.44, B:E.44, B:L.78, B:R.85, J:R.85, J:L.215 Water bridges: J:R.85, J:R.85 B81.3: 29 residues within 4Å: Chain E: L.37, L.40, E.44, L.78, M.79, L.82, R.85, F.95, I.112, I.115, L.119, G.211, H.214, L.215 Chain M: L.37, L.40, E.44, L.78, M.79, L.82, R.85, F.95, I.112, I.115, L.119, G.211, H.214, L.215 Ligands: B81.7 21 PLIP interactions: 17 interactions with chain E, 4 interactions with chain M Hydrophobic interactions: E:L.40, E:M.79, E:L.82, E:L.82, E:F.95, E:I.112, E:I.115, E:I.115, E:L.119, E:H.214, E:L.215, M:L.78 Hydrogen bonds: E:E.44, E:E.44, E:E.44, E:L.78, E:R.85, E:H.214, M:E.44 Water bridges: M:R.85, M:R.85 B81.4: 31 residues within 4Å: Chain F: L.37, L.40, A.41, E.44, M.75, L.78, M.79, L.82, R.85, F.95, I.112, I.115, G.211, H.214, L.215 Chain N: L.37, L.40, A.41, E.44, M.75, L.78, M.79, L.82, R.85, F.95, I.112, I.115, G.211, H.214, L.215 Ligands: B81.8 17 PLIP interactions: 14 interactions with chain F, 3 interactions with chain N Hydrophobic interactions: F:L.40, F:A.41, F:L.78, F:L.78, F:L.82, F:F.95, F:I.112, F:I.115, F:I.115, F:H.214, F:L.215, N:M.75 Hydrogen bonds: F:E.44, F:R.85, F:L.215, N:R.85, N:L.215 B81.5: 31 residues within 4Å: Chain A: M.34, L.37, L.40, E.44, M.75, L.78, M.79, L.82, R.85, F.95, I.112, I.115, L.119, H.214, L.215 Chain I: M.34, L.37, L.40, E.44, M.75, L.78, M.79, L.82, R.85, F.95, I.112, I.115, L.119, H.214, L.215 Ligands: B81.1 22 PLIP interactions: 19 interactions with chain A, 3 interactions with chain I Hydrophobic interactions: A:L.37, A:L.40, A:L.78, A:L.78, A:M.79, A:L.82, A:F.95, A:I.112, A:I.115, A:L.119, A:H.214, A:L.215 Hydrogen bonds: A:E.44, A:E.44, A:R.85, A:H.214, A:L.215, I:E.44, I:R.85, I:H.214 Water bridges: A:V.77, A:V.77 B81.6: 33 residues within 4Å: Chain B: M.34, L.37, L.40, A.41, E.44, M.75, L.78, L.82, R.85, F.95, I.112, I.115, L.119, G.211, H.214, L.215 Chain J: M.34, L.37, L.40, A.41, E.44, M.75, L.78, L.82, R.85, F.95, I.112, I.115, L.119, G.211, H.214, L.215 Ligands: B81.2 21 PLIP interactions: 16 interactions with chain B, 5 interactions with chain J Hydrophobic interactions: B:L.37, B:L.40, B:A.41, B:L.78, B:L.82, B:L.82, B:F.95, B:I.112, B:I.115, B:L.119, B:H.214, B:L.215, J:M.75 Hydrogen bonds: B:E.44, B:E.44, B:L.78, B:R.85, J:R.85, J:L.215 Water bridges: J:R.85, J:R.85 B81.7: 29 residues within 4Å: Chain E: L.37, L.40, E.44, L.78, M.79, L.82, R.85, F.95, I.112, I.115, L.119, G.211, H.214, L.215 Chain M: L.37, L.40, E.44, L.78, M.79, L.82, R.85, F.95, I.112, I.115, L.119, G.211, H.214, L.215 Ligands: B81.3 21 PLIP interactions: 17 interactions with chain E, 4 interactions with chain M Hydrophobic interactions: E:L.40, E:M.79, E:L.82, E:L.82, E:F.95, E:I.112, E:I.115, E:I.115, E:L.119, E:H.214, E:L.215, M:L.78 Hydrogen bonds: E:E.44, E:E.44, E:E.44, E:L.78, E:R.85, E:H.214, M:E.44 Water bridges: M:R.85, M:R.85 B81.8: 31 residues within 4Å: Chain F: L.37, L.40, A.41, E.44, M.75, L.78, M.79, L.82, R.85, F.95, I.112, I.115, G.211, H.214, L.215 Chain N: L.37, L.40, A.41, E.44, M.75, L.78, M.79, L.82, R.85, F.95, I.112, I.115, G.211, H.214, L.215 Ligands: B81.4 17 PLIP interactions: 14 interactions with chain F, 3 interactions with chain N Hydrophobic interactions: F:L.40, F:A.41, F:L.78, F:L.78, F:L.82, F:F.95, F:I.112, F:I.115, F:I.115, F:H.214, F:L.215, N:M.75 Hydrogen bonds: F:E.44, F:R.85, F:L.215, N:R.85, N:L.215

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pederick, J.L. et al., Crystal structure of the hERalpha LBD complexed with androstenediol and SRC 2-2 peptide. To Be Published

Release Date

2025-11-19

Peptides

Estrogen receptor beta: ABEFIJMN
Nuclear receptor coactivator 2: CDGHKLOP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

E
E

F
F

I
A

J
B

M
E

N
F

C
C

D
D

G
G

H
H

K
C

L
D

O
G

P
H

Estrogen receptor beta

Nuclear receptor coactivator 2

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