9N7Z | pdb_00009n7z

Crystal structure of CT-SLiM-deleted human Drp1 GTPase domain-BSE fusion protein in the apo state

PDB DOI: https://doi.org/10.2210/pdb9N7Z/pdb

Classification: MOTOR PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-02-07 Released: 2025-06-25
Deposition Author(s): Ramachandran, R., Vahedi-Faridi, A., Kowatz, T., Lodowski, D.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.51 Å
R-Value Free:
0.290 (Depositor), 0.292 (DCC)
R-Value Work:
0.243 (Depositor), 0.250 (DCC)
R-Value Observed:
0.246 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of CT-SLiM-deleted human Drp1 GTPase domain-BSE fusion protein in the apo state

Ramachandran, R.

To be published.

Macromolecule Content

Total Structure Weight: 171.73 kDa
Atom Count: 11,057
Modeled Residue Count: 1,384
Deposited Residue Count: 1,552
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynamin-1-like protein	A, B, C, D	388	Homo sapiens	Mutation(s): 0 Gene Names: DNM1L, DLP1, DRP1 EC: 3.6.5.5
UniProt & NIH Common Fund Data Resources
Find proteins for O00429 (Homo sapiens) Explore O00429 Go to UniProtKB: O00429
PHAROS: O00429 GTEx: ENSG00000087470
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O00429
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.51 Å
R-Value Free: 0.290 (Depositor), 0.292 (DCC)
R-Value Work: 0.243 (Depositor), 0.250 (DCC)
R-Value Observed: 0.246 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.743	α = 90
b = 150.611	β = 99.37
c = 87.607	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
DIALS	data scaling
DIALS	data reduction
PHASER	phasing

Structure Validation

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Entry History & Funding Information

Deposition Data

Released Date: 2025-06-25

Deposition Author(s):

Ramachandran, R.

Vahedi-Faridi, A.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM121583

Revision History (Full details and data files)

Version 1.0: 2025-06-25
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.