8QSL

Cryo-EM structure of human SLC15A4 dimer in outward open state in LMNG

PDB DOI: https://doi.org/10.2210/pdb8QSL/pdb
EM Map EMD-18635: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Expression System: Spodoptera frugiperda
Mutation(s): Yes
Membrane Protein: Yes PDBTM

Deposited: 2023-10-10 Released: 2023-10-25
Deposition Author(s): Rehan, S., Matsuoka, R., Jazayeri, A., Duerr, K.L.
Funding Organization(s): Other private

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.81 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Cryo-EM structure of human SLC15A4 dimer in outward open state in LMNG

Rehan, S., Matsuoka, R., Jazayeri, A., Duerr, K.L.

To be published.

Macromolecule Content

Total Structure Weight: 131.79 kDa
Atom Count: 8,506
Modelled Residue Count: 1,046
Deposited Residue Count: 1,154
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Solute carrier family 15 member 4	A, B [auth C]	577	Homo sapiens	Mutation(s): 2 Gene Names: SLC15A4 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q8N697 (Homo sapiens) Explore Q8N697 Go to UniProtKB: Q8N697
PHAROS: Q8N697 GTEx: ENSG00000139370
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8N697
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain B [auth C]	Go to GlyGen: Q8N697-1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PGT Query on PGT Download Ideal Coordinates CCD File SDF format, chain J [auth A] SDF format, chain R [auth C] MOL2 format, chain J [auth A] MOL2 format, chain R [auth C]	J [auth A], R [auth C]	(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE C₄₀ H₇₉ O₁₀ P KBPVYRBBONZJHF-AMAPPZPBSA-N		Interactions Focus chain J [auth A] Focus chain R [auth C] Interactions & Density Focus chain J [auth A] Focus chain R [auth C]
Y01 Query on Y01 Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain K [auth C] SDF format, chain L [auth C] SDF format, chain M [auth C] SDF format, chain O [auth C] SDF format, chain P [auth C] SDF format, chain Q [auth C] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain K [auth C] MOL2 format, chain L [auth C] MOL2 format, chain M [auth C] MOL2 format, chain O [auth C] MOL2 format, chain P [auth C] MOL2 format, chain Q [auth C]	C [auth A] D [auth A] E [auth A] G [auth A] H [auth A] C [auth A], D [auth A], E [auth A], G [auth A], H [auth A], I [auth A], K [auth C], L [auth C], M [auth C], O [auth C], P [auth C], Q [auth C]	CHOLESTEROL HEMISUCCINATE C₃₁ H₅₀ O₄ WLNARFZDISHUGS-MIXBDBMTSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain K [auth C] Focus chain L [auth C] Focus chain M [auth C] Focus chain O [auth C] Focus chain P [auth C] Focus chain Q [auth C] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain K [auth C] Focus chain L [auth C] Focus chain M [auth C] Focus chain O [auth C] Focus chain P [auth C] Focus chain Q [auth C]
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain N [auth C] MOL2 format, chain F [auth A] MOL2 format, chain N [auth C]	F [auth A], N [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain F [auth A] Focus chain N [auth C] Interactions & Density Focus chain F [auth A] Focus chain N [auth C]