9SOC | pdb_00009soc

Murine RanBP10-Twa1 complex

PDB DOI: https://doi.org/10.2210/pdb9SOC/pdb

Classification: LIGASE
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-09-12 Released: 2026-02-18
Deposition Author(s): van gen Hassend, P.M., Schindelin, H.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.18 Å
R-Value Free:
0.312 (Depositor), 0.316 (DCC)
R-Value Work:
0.299 (Depositor), 0.304 (DCC)
R-Value Observed:
0.300 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Engineering CTLH-CRA domains with swapped binding specificity

van gen Hassend, P.M., Schindelin, H.

To be published.

Macromolecule Content

Total Structure Weight: 184.1 kDa
Atom Count: 10,581
Modeled Residue Count: 1,330
Deposited Residue Count: 1,646
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ran-binding protein 10	A, C	595	Mus musculus	Mutation(s): 0 Gene Names: Ranbp10, Kiaa1464
UniProt & NIH Common Fund Data Resources
Find proteins for Q6VN19 (Mus musculus) Explore Q6VN19 Go to UniProtKB: Q6VN19
IMPC: MGI:1921584
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6VN19
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Glucose-induced degradation protein 8 homolog	B, D	228	Mus musculus	Mutation(s): 0 Gene Names: Gid8
UniProt & NIH Common Fund Data Resources
Find proteins for Q9D7M1 (Mus musculus) Explore Q9D7M1 Go to UniProtKB: Q9D7M1
IMPC: MGI:1923675
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9D7M1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain E [auth C] MOL2 format, chain E [auth C] mmCIF format, chain E [auth C]	E [auth C]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain E [auth C] Interactions & Density Focus chain E [auth C]
CO Query on CO Download:Ideal Coordinates CCD File SDF format, chain F [auth D] MOL2 format, chain F [auth D] mmCIF format, chain F [auth D]	F [auth D]	COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N		Interactions Focus chain F [auth D] Interactions & Density Focus chain F [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.18 Å
R-Value Free: 0.312 (Depositor), 0.316 (DCC)
R-Value Work: 0.299 (Depositor), 0.304 (DCC)
R-Value Observed: 0.300 (Depositor)

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 124.92	α = 90
b = 124.92	β = 90
c = 479.645	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
STARANISO	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-02-18

Deposition Author(s):

van gen Hassend, P.M.

Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	GRK2243

Revision History (Full details and data files)

Version 1.0: 2026-02-18
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.