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- PDB-1pc2: Solution structure of human mitochondria fission protein Fis1 -

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Basic information

Entry
Database: PDB / ID: 1pc2
TitleSolution structure of human mitochondria fission protein Fis1
Componentsmitochondria fission protein
KeywordsUNKNOWN FUNCTION / Mitochondria / Fission
Function / homology
Function and homology information


response to flavonoid / negative regulation of fatty acid transport / negative regulation of ATP metabolic process / response to hypobaric hypoxia / response to fluoride / Class I peroxisomal membrane protein import / peroxisome fission / mitochondrial fragmentation involved in apoptotic process / cellular response to peptide / cellular response to toxic substance ...response to flavonoid / negative regulation of fatty acid transport / negative regulation of ATP metabolic process / response to hypobaric hypoxia / response to fluoride / Class I peroxisomal membrane protein import / peroxisome fission / mitochondrial fragmentation involved in apoptotic process / cellular response to peptide / cellular response to toxic substance / mitochondrial fission / cellular response to lipid / peroxisomal membrane / protein targeting to mitochondrion / positive regulation of mitochondrial fission / response to muscle activity / positive regulation of intrinsic apoptotic signaling pathway / response to endoplasmic reticulum stress / response to nutrient levels / mitochondrion organization / cellular response to glucose stimulus / positive regulation of neuron apoptotic process / peroxisome / molecular adaptor activity / mitochondrial outer membrane / lipid binding / protein-containing complex / mitochondrion / identical protein binding / membrane / cytosol
Similarity search - Function
Mitochondria fission 1 protein / Fis1, N-terminal tetratricopeptide repeat / Fis1, C-terminal tetratricopeptide repeat / Mitochondria fission protein Fis1, cytosolic domain / Fis1 N-terminal tetratricopeptide repeat / Fis1 C-terminal tetratricopeptide repeat / Tetratricopeptide repeat domain / Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat / Alpha Horseshoe / Tetratricopeptide-like helical domain superfamily / Mainly Alpha
Similarity search - Domain/homology
Mitochondrial fission 1 protein
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR / Distance geometry, Simulated annealing, Molecular dynamics
AuthorsSuzuki, M. / Youle, R.J. / Tjandra, N.
CitationJournal: J.Mol.Biol. / Year: 2003
Title: The Solution Structure of Human Mitochondria Fission Protein Fis1 Reveals a Novel TPR-like Helix Bundle
Authors: Suzuki, M. / Jeong, S.Y. / Karbowski, M. / Youle, R.J. / Tjandra, N.
History
DepositionMay 15, 2003Deposition site: RCSB / Processing site: PDBJ
Revision 1.0Dec 9, 2003Provider: repository / Type: Initial release
Revision 1.1Apr 29, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 23, 2022Group: Data collection / Database references / Derived calculations
Category: database_2 / pdbx_nmr_software ...database_2 / pdbx_nmr_software / pdbx_struct_assembly / pdbx_struct_oper_list / struct_ref_seq_dif
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_nmr_software.name / _struct_ref_seq_dif.details
Revision 1.4May 29, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: mitochondria fission protein


Theoretical massNumber of molelcules
Total (without water)17,2301
Polymers17,2301
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)20 / 200structures with the lowest energy
RepresentativeModel #1lowest energy

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Components

#1: Protein mitochondria fission protein / Fis1 / Similar to CGI-135 protein


Mass: 17229.887 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Gene: Fis1 / Plasmid: pET21 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q9Y3D6

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1113D 15N-separated NOESY
1224D 13C/15N-separated NOESY
1334D 13C-separated NOESY

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Sample preparation

Details
Solution-IDContentsSolvent system
11mM Protein U-15N90% H2O/10% D2O
21mM Protein U-15N,13C90% H2O/10% D2O
31mM Protein U-15N,13C100% D2O
Sample conditionsIonic strength: 10mM Tris Acetate / pH: 5.5 / Pressure: AMBIENT / Temperature: 305 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelengthRelative weight: 1
NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Bruker DRXBrukerDRX6001
Bruker DRXBrukerDRX8002

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Processing

NMR software
NameVersionDeveloperClassification
XwinNMR2.5collection
NMRPipe2.1processing
PIPP4.2.8data analysis
XPLOR-NIH2.0.6C.D.Schwieters,J.J.Kuszewski,N.Tjandra,G.M.Clorerefinement
XPLOR-NIH2.0.6structure solution
RefinementMethod: Distance geometry, Simulated annealing, Molecular dynamics
Software ordinal: 1
NMR representativeSelection criteria: lowest energy
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 200 / Conformers submitted total number: 20

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