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

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

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(by identity cutoff) | 3D Structure

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% Identity50% Identity70% Identity90% Identity95% Identity100% 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

View Full Validation Report

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

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.