6HD1

human STEAP4 bound to NADPH, FAD and heme.

PDB DOI: https://doi.org/10.2210/pdb6HD1/pdb
EM Map EMD-0200: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No
Membrane Protein: Yes PDBTMMemProtMDmpstruc

Deposited: 2018-08-17 Released: 2018-10-24
Deposition Author(s): Oosterheert, W., van Bezouwen, L.S., Rodenburg, R.N.P., Forster, F., Mattevi, A., Gros, P.
Funding Organization(s): Netherlands Organisation for Scientific Research, European Union, Italian Association for Cancer Research

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.80 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Macromolecule Content

Total Structure Weight: 164.31 kDa
Atom Count: 11,007
Modelled Residue Count: 1,308
Deposited Residue Count: 1,377
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Metalloreductase STEAP4	A [auth C], B [auth A], C [auth B]	459	Homo sapiens	Mutation(s): 0 Gene Names: STEAP4, STAMP2, TNFAIP9 EC: 1.16.1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q687X5 (Homo sapiens) Explore Q687X5 Go to UniProtKB: Q687X5
PHAROS: Q687X5 GTEx: ENSG00000127954
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q687X5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FAD (Subject of Investigation/LOI) Query on FAD Download Ideal Coordinates CCD File SDF format, chain F [auth C] SDF format, chain K [auth A] SDF format, chain P [auth B] MOL2 format, chain F [auth C] MOL2 format, chain K [auth A] MOL2 format, chain P [auth B]	F [auth C], K [auth A], P [auth B]	FLAVIN-ADENINE DINUCLEOTIDE C₂₇ H₃₃ N₉ O₁₅ P₂ VWWQXMAJTJZDQX-UYBVJOGSSA-N		Interactions Focus chain F [auth C] Focus chain K [auth A] Focus chain P [auth B] Interactions & Density Focus chain F [auth C] Focus chain K [auth A] Focus chain P [auth B]
NAP (Subject of Investigation/LOI) Query on NAP Download Ideal Coordinates CCD File SDF format, chain D [auth C] SDF format, chain I [auth A] SDF format, chain N [auth B] MOL2 format, chain D [auth C] MOL2 format, chain I [auth A] MOL2 format, chain N [auth B]	D [auth C], I [auth A], N [auth B]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C₂₁ H₂₈ N₇ O₁₇ P₃ XJLXINKUBYWONI-NNYOXOHSSA-N		Interactions Focus chain D [auth C] Focus chain I [auth A] Focus chain N [auth B] Interactions & Density Focus chain D [auth C] Focus chain I [auth A] Focus chain N [auth B]
HEM (Subject of Investigation/LOI) Query on HEM Download Ideal Coordinates CCD File SDF format, chain E [auth C] SDF format, chain J [auth A] SDF format, chain O [auth B] MOL2 format, chain E [auth C] MOL2 format, chain J [auth A] MOL2 format, chain O [auth B]	E [auth C], J [auth A], O [auth B]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain E [auth C] Focus chain J [auth A] Focus chain O [auth B] Interactions & Density Focus chain E [auth C] Focus chain J [auth A] Focus chain O [auth B]
44E Query on 44E Download Ideal Coordinates CCD File SDF format, chain H [auth C] SDF format, chain M [auth A] SDF format, chain R [auth B] MOL2 format, chain H [auth C] MOL2 format, chain M [auth A] MOL2 format, chain R [auth B]	H [auth C], M [auth A], R [auth B]	(2R)-3-(phosphonooxy)propane-1,2-diyl dihexanoate C₁₅ H₂₉ O₈ P SFZZRGHNPILUOD-CYBMUJFWSA-N		Interactions Focus chain H [auth C] Focus chain M [auth A] Focus chain R [auth B] Interactions & Density Focus chain H [auth C] Focus chain M [auth A] Focus chain R [auth B]
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain G [auth C] SDF format, chain L [auth A] SDF format, chain Q [auth B] MOL2 format, chain G [auth C] MOL2 format, chain L [auth A] MOL2 format, chain Q [auth B]	G [auth C], L [auth A], Q [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain G [auth C] Focus chain L [auth A] Focus chain Q [auth B] Interactions & Density Focus chain G [auth C] Focus chain L [auth A] Focus chain Q [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.80 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	2.1b1

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2018-10-24

Deposition Author(s):

Funding Organization	Location	Grant Number
Netherlands Organisation for Scientific Research	Netherlands	731.015.201
European Union	Netherlands	653706
Italian Association for Cancer Research	Italy	IG19808

Revision History (Full details and data files)

Version 1.0: 2018-10-24
Type: Initial release
Version 1.1: 2018-10-31
Changes: Data collection, Database references
Version 1.2: 2019-11-06
Changes: Data collection, Refinement description
Version 1.3: 2019-12-11
Changes: Other
Version 1.4: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary

Prepare Data

Validate Data

Deposit Data

Help and Resources

6HD1

human STEAP4 bound to NADPH, FAD and heme.

Entity ID: 1

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

Expand

Experimental Data

Structure Validation

Deposition Data

Revision History (Full details and data files)