SMTL ID : 6y9b.1

Cryo-EM structure of trimeric human STEAP1 bound to three Fab120.545 fragments

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-mer

Ligands

3 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 19 residues within 4Å: Chain A: K.118, P.121, S.124, H.177, A.178, S.181, Y.184, Y.221, G.225, I.226, G.228, L.229, G.267, H.270, A.271, F.274, T.292, F.293 Chain I: M.186 13 PLIP interactions: 13 interactions with chain A, Hydrophobic interactions: A:P.121, A:P.121, A:A.178, A:Y.221, A:I.226, A:L.229, A:A.271, A:F.274 Salt bridges: A:K.118, A:K.118 pi-Stacking: A:H.177 Metal complexes: A:H.177, A:H.270 HEM.3: 18 residues within 4Å: Chain H: K.118, P.121, S.124, H.177, A.178, S.181, Y.184, Y.221, G.225, I.226, G.228, L.229, G.267, H.270, A.271, F.274, T.292, F.293 13 PLIP interactions: 13 interactions with chain H, Hydrophobic interactions: H:P.121, H:P.121, H:A.178, H:Y.221, H:I.226, H:L.229, H:A.271, H:F.274 Salt bridges: H:K.118, H:K.118 pi-Stacking: H:H.177 Metal complexes: H:H.177, H:H.270 HEM.5: 19 residues within 4Å: Chain H: M.186 Chain I: K.118, P.121, S.124, H.177, A.178, S.181, Y.184, Y.221, G.225, I.226, G.228, L.229, G.267, H.270, A.271, F.274, T.292, F.293 12 PLIP interactions: 12 interactions with chain I, Hydrophobic interactions: I:P.121, I:P.121, I:A.178, I:Y.221, I:I.226, I:L.229, I:A.271, I:F.274 Salt bridges: I:K.118, I:K.118 Metal complexes: I:H.177, I:H.270

3 x XP4: 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHATE(Non-covalent)

XP4.2: 18 residues within 4Å: Chain A: F.70, Q.72, W.73, K.164, F.171, F.172, V.175, A.236, S.239, I.240, P.241 Chain H: A.233, L.234, V.237, V.243, S.246 Ligands: XP4.4, XP4.6 13 PLIP interactions: 5 interactions with chain H, 8 interactions with chain A Hydrophobic interactions: H:A.233, H:L.234, H:V.237, H:V.243, A:F.171, A:F.171, A:F.171, A:V.175, A:V.175, A:A.236, A:I.240 Hydrogen bonds: H:S.246 Salt bridges: A:K.164 XP4.4: 17 residues within 4Å: Chain H: F.70, Q.72, W.73, K.164, F.171, F.172, V.175, A.236, S.239, I.240, P.241 Chain I: A.233, L.234, V.237, V.243 Ligands: XP4.2, XP4.6 13 PLIP interactions: 8 interactions with chain H, 5 interactions with chain I Hydrophobic interactions: H:F.171, H:F.171, H:F.171, H:V.175, H:V.175, H:A.236, H:I.240, I:A.233, I:L.234, I:V.237, I:V.243 Salt bridges: H:K.164 Hydrogen bonds: I:S.246 XP4.6: 19 residues within 4Å: Chain A: A.233, L.234, V.237, V.243, S.246, L.247 Chain I: F.70, Q.72, W.73, K.164, F.171, F.172, V.175, A.236, S.239, I.240, P.241 Ligands: XP4.2, XP4.4 13 PLIP interactions: 8 interactions with chain I, 5 interactions with chain A Hydrophobic interactions: I:F.171, I:F.171, I:F.171, I:V.175, I:V.175, I:A.236, I:I.240, A:A.233, A:L.234, A:V.237, A:V.243 Salt bridges: I:K.164 Hydrogen bonds: A:S.246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oosterheert, W. et al., Cryo-electron microscopy structure and potential enzymatic function of human six-transmembrane epithelial antigen of the prostate 1 (STEAP1). J.Biol.Chem. (2020)

Release Date

2020-05-20

Peptides

Metalloreductase STEAP1: AHI
Fab120.545 light chain: BFG
Fab120.545 heavy chain: CDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

H
A

I
B

B
L

F
M

G
N

C
H

D
I

E
J

Membrane

We predict this structure to be a membrane protein.
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Metalloreductase STEAP1

Fab120.545 light chain

Fab120.545 heavy chain