9IJX | pdb_00009ijx

Crystal structure of the mouse Spef1 coiled-coil domain

PDB DOI: https://doi.org/10.2210/pdb9IJX/pdb

Classification: CYTOSOLIC PROTEIN
Organism(s): Mus musculus
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2024-06-25 Released: 2025-07-16
Deposition Author(s): Ren, J., Li, D., Feng, W.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free:
0.234 (Depositor), 0.231 (DCC)
R-Value Work:
0.195 (Depositor), 0.191 (DCC)
R-Value Observed:
0.197 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Validation slider image for 9IJX

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

Literature

Coiled-coil of Sperm flagellar protein 1

Ren, J., Li, D., Feng, W.

To be published.

Macromolecule Content

Total Structure Weight: 48.06 kDa
Atom Count: 2,445
Modeled Residue Count: 298
Deposited Residue Count: 414
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sperm flagellar protein 1	A, B, C, D, E A, B, C, D, E, F	69	Mus musculus	Mutation(s): 0 Gene Names: Spef1, Clamp
UniProt & NIH Common Fund Data Resources
Find proteins for Q99JL1 (Mus musculus) Explore Q99JL1 Go to UniProtKB: Q99JL1
IMPC: MGI:3513546
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q99JL1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.234 (Depositor), 0.231 (DCC)
R-Value Work: 0.195 (Depositor), 0.191 (DCC)
R-Value Observed: 0.197 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.15	α = 90
b = 104.36	β = 90.04
c = 72.27	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-07-16

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31971160

Revision History (Full details and data files)

Version 1.0: 2025-07-16
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.