6Y9B | pdb_00006y9b

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

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B [auth L]	d6y9bl_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F [auth M]	d6y9bm_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
G [auth N]	d6y9bn_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth H]	d6y9bh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth I]	d6y9bi_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E [auth J]	d6y9bj_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth C]	UNK_F_TYPE	e6y9bC1	A: alpha arrays	X: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	H: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	T: 6-phosphogluconate dehydrogenase C-terminal domain-like	F: UNK_F_TYPE	ECOD (1.6)
H [auth A]	UNK_F_TYPE	e6y9bA1	A: alpha arrays	X: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	H: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	T: 6-phosphogluconate dehydrogenase C-terminal domain-like	F: UNK_F_TYPE	ECOD (1.6)
I [auth B]	UNK_F_TYPE	e6y9bB1	A: alpha arrays	X: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	H: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	T: 6-phosphogluconate dehydrogenase C-terminal domain-like	F: UNK_F_TYPE	ECOD (1.6)
B [auth L]	V-set	e6y9bL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
F [auth M]	V-set	e6y9bM1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
G [auth N]	V-set	e6y9bN1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
C [auth H]	V-set_12	e6y9bH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
D [auth I]	V-set_12	e6y9bI1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
E [auth J]	V-set_12	e6y9bJ1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
B [auth L], F [auth M], G [auth N]	Fab120.545, anti-steap1	L-KAPPA	Homo sapiens (human)	IGKV8-3001, IGKJ101, IGKJ201, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202537-0)
C [auth H], D [auth I], E [auth J]	Fab120.545, anti-steap1	VH-CH1	Homo sapiens (human)	IGHV3-202, IGHJ201, IGHG103, IGHG108, IGHG1*06	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202537-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth L], F [auth M], G [auth N]	Light Chain	IGKV8	Kappa	metalloreductase steap1	SAbDab (2025-09-26)
C [auth H], D [auth I], E [auth J]	Heavy Chain	IGHV3	-	metalloreductase steap1	SAbDab (2025-09-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C], H [auth A], I [auth B]	PF01794	Ferric reductase like transmembrane component (Ferric_reduct)	Ferric reductase like transmembrane component	This family includes a common region in the transmembrane proteins mammalian cytochrome B-245 heavy chain (gp91-phox), ferric reductase transmembrane component in yeast and respiratory burst oxidase from mouse-ear cress. This may be a family of flavo ...	This family includes a common region in the transmembrane proteins mammalian cytochrome B-245 heavy chain (gp91-phox), ferric reductase transmembrane component in yeast and respiratory burst oxidase from mouse-ear cress. This may be a family of flavocytochromes capable of moving electrons across the plasma membrane [1]. The Frp1 protein Swiss:Q04800 from S. pombe is a ferric reductase component and is required for cell surface ferric reductase activity, mutants in frp1 are deficient in ferric iron uptake [1]. Cytochrome B-245 heavy chain Swiss:P04839 is a FAD-dependent dehydrogenase it is also has electron transferase activity which reduces molecular oxygen to superoxide anion, a precursor in the production of microbicidal oxidants [2]. Mutations in the sequence of cytochrome B-245 heavy chain (gp91-phox) lead to the X-linked chronic granulomatous disease. The bacteriocidal ability of phagocytic cells is reduced and is characterised by the absence of a functional plasma membrane associated NADPH oxidase [3]. The chronic granulomatous disease gene codes for the beta chain of cytochrome B-245 and cytochrome B-245 is missing from patients with the disease [4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C], H [auth A], I [auth B]	Metalloreductase STEAP1	binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding small molecule binding	-	endosome membrane membrane-bounded organelle intracellular anatomical structure membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle endosome membrane membrane-bounded organelle intracellular anatomical structure membrane endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane cell periphery plasma membrane cell-cell junction anchoring junction cell junction
B [auth L], F [auth M], G [auth N]	Fab120.545 light chain	-	-	-
C [auth H], D [auth I], E [auth J]	Fab120.545 heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C], H [auth A], I [auth B]	IPR013130	Ferric reductase transmembrane component-like domain	Domain
A [auth C], H [auth A], I [auth B]	IPR051267	STEAP family metalloreductases	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth C], H [auth A], I [auth B]	Pharos: Q9UHE8	astrocytic tumor cystic fibrosis gastric carcinoma malignant ependymoma malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia atopic eczema ductal breast carcinoma in situ glioblastoma malignant glioma non-small cell lung carcinoma ovarian cancer atypical teratoid rhabdoid tumor esophageal adenocarcinoma astrocytic tumor cystic fibrosis gastric carcinoma malignant ependymoma malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia atopic eczema ductal breast carcinoma in situ glioblastoma malignant glioma non-small cell lung carcinoma ovarian cancer atypical teratoid rhabdoid tumor esophageal adenocarcinoma lung adenocarcinoma malignant mesothelioma oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth C], H [auth A], I [auth B]	OPM	Transmembrane	Alpha-helical polytopic	Electron transport chain complex II superfamily	Transmembrane ferric reductase

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth C], H [auth A], I [auth B]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth C], H [auth A], I [auth B]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth C], H [auth A], I [auth B]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Oxidoreductases	STEAP1 (Six-Transmembrane Epithelial Antigen of the Prostate1) bound to three Fab120.545 fragments

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.