9E2P | pdb_00009e2p

Complex of Human MIRO1 and TRAK1 Binding Site-2 (L570-R613)

PDB DOI: https://doi.org/10.2210/pdb9E2P/pdb
EM Map EMD-47460: EMDB EMDataResource

Classification: CYTOSOLIC PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-10-22 Released: 2025-07-09
Deposition Author(s): Ravitch, E.E., Baltrusaitis, E.E., Barrie, K.R., Dominguez, R.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.57 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

Complex of Human MIRO1 and TRAK1 Binding Site-2 (L570-R613)

Ravitch, E.E., Baltrusaitis, E.E., Perez, T.P., Barrie, K.R., Fenton, A.R., Holbaur, E.L.F., Dominguez, R.

To be published.

Macromolecule Content

Total Structure Weight: 157.59 kDa
Atom Count: 10,282
Modeled Residue Count: 1,262
Deposited Residue Count: 1,354
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial Rho GTPase 1	A, C	618	Homo sapiens	Mutation(s): 0 Gene Names: RHOT1, ARHT1 EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IXI2 (Homo sapiens) Explore Q8IXI2 Go to UniProtKB: Q8IXI2
PHAROS: Q8IXI2 GTEx: ENSG00000126858
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8IXI2
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Trafficking kinesin protein 1	B, D	59	Homo sapiens	Mutation(s): 0 Gene Names: TRAK1
UniProt
Find proteins for A0A8C9AJS8 (Prolemur simus) Explore A0A8C9AJS8 Go to UniProtKB: A0A8C9AJS8
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A8C9AJS8
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 L [auth C] SDF format, chain J [auth C] SDF format, chain G [auth A] SDF format, chain E [auth A] MOL2 format, chain L [auth C] MOL2 format, chain J [auth C] MOL2 format, chain G [auth A] MOL2 format, chain E [auth A] mmCIF format, chain L [auth C] mmCIF format, chain J [auth C] mmCIF format, chain G [auth A] mmCIF format, chain E [auth A]	E [auth A], G [auth A], J [auth C], L [auth C]	GUANOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₄ P₃ XKMLYUALXHKNFT-UUOKFMHZSA-N		Interactions Focus chain E [auth A] Focus chain G [auth A] Focus chain J [auth C] Focus chain L [auth C] Interactions & Density Focus chain E [auth A] Focus chain G [auth A] Focus chain J [auth C] Focus chain L [auth C]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain N [auth C] SDF format, chain M [auth C] SDF format, chain I [auth A] SDF format, chain H [auth A] MOL2 format, chain N [auth C] MOL2 format, chain M [auth C] MOL2 format, chain I [auth A] MOL2 format, chain H [auth A] mmCIF format, chain N [auth C] mmCIF format, chain M [auth C] mmCIF format, chain I [auth A] mmCIF format, chain H [auth A]	H [auth A], I [auth A], M [auth C], N [auth C]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain I [auth A] Focus chain M [auth C] Focus chain N [auth C] Interactions & Density Focus chain H [auth A] Focus chain I [auth A] Focus chain M [auth C] Focus chain N [auth C]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain K [auth C] SDF format, chain F [auth A] MOL2 format, chain K [auth C] MOL2 format, chain F [auth A] mmCIF format, chain K [auth C] mmCIF format, chain F [auth A]	F [auth A], K [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain K [auth C] Interactions & Density Focus chain F [auth A] Focus chain K [auth C]