8K1B

SID1 transmembrane family member 1

PDB DOI: https://doi.org/10.2210/pdb8K1B/pdb
EM Map EMD-36791: EMDB EMDataResource

Classification: TRANSPORT PROTEIN
Organism(s): Homo sapiens
Expression System: Spodoptera frugiperda
Mutation(s): No

Deposited: 2023-07-10 Released: 2024-07-10
Deposition Author(s): Guo, H., Qi, C., Lu, Y., Yang, H., Zhu, Y., Sun, F., Ji, X.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.47 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 structures of human SID-1 transmembrane family proteins and implications for their low-pH-dependent RNA transport activity.

Zheng, L., Yang, T., Guo, H., Qi, C., Lu, Y., Xiao, H., Gao, Y., Liu, Y., Yang, Y., Zhou, M., Nguyen, H.C., Zhu, Y., Sun, F., Zhang, C.Y., Ji, X.

(2024) Cell Res 34: 80-83

PubMed: 37932445 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1038/s41422-023-00893-1
Primary Citation of Related Structures:
8K10, 8K11, 8K12, 8K13, 8K1B, 8K1D

Organizational Affiliation

National Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Chemistry and Biomedicine Innovation Center (ChemBIC), Institute of Artificial Intelligence Biomedicine, Nanjing University, Nanjing, Jiangsu, China.

Macromolecule Content

Total Structure Weight: 59.51 kDa
Atom Count: 4,176
Modelled Residue Count: 508
Deposited Residue Count: 508
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SID1 transmembrane family member 1	A, B	254	Homo sapiens	Mutation(s): 0 Gene Names: SIDT1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NXL6 (Homo sapiens) Explore Q9NXL6 Go to UniProtKB: Q9NXL6
GTEx: ENSG00000072858
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9NXL6
Glycosylation
Glycosylation Sites: 3	Glycosylation Focus chain A Focus chain B	Go to GlyGen: Q9NXL6-1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG (Subject of Investigation/LOI) Query on NAG 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 F [auth B] SDF format, chain H [auth B] SDF format, chain G [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth B] MOL2 format, chain H [auth B] MOL2 format, chain G [auth B]	C [auth A] D [auth A] E [auth A] F [auth B] G [auth B] C [auth A], D [auth A], E [auth A], F [auth B], G [auth B], H [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth B] Focus chain H [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth B] Focus chain H [auth B]