6JBJ

Cryo-EM structure of human lysosomal cobalamin exporter ABCD4

PDB DOI: https://doi.org/10.2210/pdb6JBJ/pdb
EM Map EMD-9791: EMDB EMDataResource

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

Deposited: 2019-01-25 Released: 2019-09-11
Deposition Author(s): Xu, D., Feng, Z., Hou, W.T., Jiang, Y.L., Wang, L., Sun, L.F., Zhou, C.Z., Chen, Y.
Funding Organization(s): Ministry of Science and Technology (China), Chinese Academy of Sciences, National Natural Science Foundation of China

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.60 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Cryo-EM structure of human lysosomal cobalamin exporter ABCD4.

Xu, D., Feng, Z., Hou, W.T., Jiang, Y.L., Wang, L., Sun, L., Zhou, C.Z., Chen, Y.

(2019) Cell Res 29: 1039-1041

PubMed: 31467407 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1038/s41422-019-0222-z
Primary Citation of Related Structures:
6JBJ

Organizational Affiliation

Hefei National Laboratory for Physical Sciences at the Microscale and School of Life Sciences, University of Science and Technology of China, 230027, Hefei, Anhui, China.

Macromolecule Content

Total Structure Weight: 147.26 kDa
Atom Count: 9,166
Modelled Residue Count: 1,130
Deposited Residue Count: 1,296
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-binding cassette sub-family D member 4	A, B	648	Homo sapiens	Mutation(s): 1 Gene Names: ABCD4, PXMP1L EC: 7.6.2.8 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for O14678 (Homo sapiens) Explore O14678 Go to UniProtKB: O14678
PHAROS: O14678 GTEx: ENSG00000119688
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O14678
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ATP Query on ATP Download Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	ADENOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₃ P₃ ZKHQWZAMYRWXGA-KQYNXXCUSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.60 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2019-09-11

Deposition Author(s):

Funding Organization	Location	Grant Number
Ministry of Science and Technology (China)	China	2015CB910103
Chinese Academy of Sciences	China	XDB08020304
National Natural Science Foundation of China	China	31621002