5J5C

Crystal structure of ARL1-GTP and DCB domain of BIG1 complex

PDB DOI: https://doi.org/10.2210/pdb5J5C/pdb

Classification: SIGNALING PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2016-04-02 Released: 2016-09-28
Deposition Author(s): Wang, R., Wang, Z., Zhang, T., Ding, J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.40 Å
R-Value Free: 0.258
R-Value Work: 0.225
R-Value Observed: 0.227

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Structural basis for targeting BIG1 to Golgi apparatus through interaction of its DCB domain with Arl1

Wang, R., Wang, Z., Wang, K., Zhang, T., Ding, J.

(2016) J Mol Cell Biol

PubMed: 27436755 Search on PubMed
DOI: https://doi.org/10.1093/jmcb/mjw033
Primary Citation of Related Structures:
5J5C

Organizational Affiliation

National Center for Protein Science Shanghai, State Key Laboratory of Molecular Biology, Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 320 Yueyang Road, Shanghai200031, China.

Macromolecule Content

Total Structure Weight: 44.77 kDa
Atom Count: 2,717
Modelled Residue Count: 359
Deposited Residue Count: 392
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ADP-ribosylation factor-like protein 1	A	168	Homo sapiens	Mutation(s): 1 Gene Names: ARL1
UniProt & NIH Common Fund Data Resources
Find proteins for P40616 (Homo sapiens) Explore P40616 Go to UniProtKB: P40616
PHAROS: P40616 GTEx: ENSG00000120805
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P40616
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Brefeldin A-inhibited guanine nucleotide-exchange protein 1	B	224	Homo sapiens	Mutation(s): 0 Gene Names: ARFGEF1, ARFGEP1, BIG1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y6D6 (Homo sapiens) Explore Q9Y6D6 Go to UniProtKB: Q9Y6D6
PHAROS: Q9Y6D6 GTEx: ENSG00000066777
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9Y6D6
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GTP Query on GTP Download Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A] mmCIF format, chain F [auth A]	F [auth A]	GUANOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₄ P₃ XKMLYUALXHKNFT-UUOKFMHZSA-N		Interactions Focus chain F [auth A]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] mmCIF format, chain D [auth A] mmCIF format, chain E [auth A]	D [auth A], E [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth A] Focus chain E [auth A]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain C [auth A]