PDB-2w4v: Isometrically contracting insect asynchronous flight mu...

Entry
Summary
Database / ID	PORTEIN DATA BANK (PDB) / 2w4v
Title	Isometrically contracting insect asynchronous flight muscle quick frozen after a quick release step
Descriptor	MYOSIN HEAVY CHAIN STRIATED MUSCLE MYOSIN REGULATORY LIGHT CHAIN STRIATED ADDUCTOR MUSCLE MYOSIN ESSENTIAL LIGHT CHAIN STRIATED ADDUCTOR MUSCLE
Keywords	CONTRACTILE PROTEIN, TROPOMYOSIN, LIGHT CHAINS, ACTIN-BINDING, ISOMETRIC CONTRACTION, THIN FILAMENT, MOTOR PROTEIN, THICK FILAMENT, MUSCLE PROTEIN
Authors	Wu, S., Liu, J., Reedy, M.C., Tregear, R.T., Winkler, H., Franzini-Armstrong, C., Sasaki, H., Lucaveche, C., Goldman, Y.E., Reedy, M.K., Taylor, K.A.
Date	Deposition: 2008-12-02, Release: 2010-09-15
PDBj Mine pages	Summary, Structural Details, Experimental Details, Functional Details
Other databases	RCSB-PDB, PDBe, CATH, CE, FSSP, SCOP, VAST
Sequence details	92 IDENTITY TO P24733 100 IDENTITY TO P13543 100 IDENTITY TO P07291
Structure Visualization
Movies	Movie Page #1: Depositted structure unit, Made by Jmol #2: Superimposing with simplified surface model of EM map, EMDB-1585, Made by Jmol #3: With PDB-2w4u, Made by Jmol #4: Superimposing with EM 3D map: EMDB-1585 (with PDB-2w4u), Made by UCSF CHIMERA
Structure viewers	Yorodumi, jV4, Jmol, Biological unit (Images, jV)
Related Structure Data
Related Entries	EMDB-1585 CiteFit EMDB-1584 Cite PDB-2w4h Cite PDB-2w4u Cite PDB-2w4w Cite PDB-1b7t PDB-1dfk PDB-1dfl PDB-1kk7 PDB-1kk8 PDB-1kqm PDB-1kwo PDB-1l2o PDB-1qvi PDB-1s5g PDB-1scm PDB-1sr6 PDB-1wdc PDB-2w4t Cite: data citing same article Fit: target map of fitting

Article
Citation - primary
Article	PLoS ONE, Vol. 7, Issue 6, Page e39422, Year 2012
Title	Structural changes in isometrically contracting insect flight muscle trapped following a mechanical perturbation.
Authors	Shenping Wu, Jun Liu, Mary C Reedy, Robert J Perz-Edwards, Richard T Tregear, Hanspeter Winkler, Clara Franzini-Armstrong, Hiroyuki Sasaki, Carmen Lucaveche, Yale E Goldman, Michael K Reedy, Kenneth A Taylor Institute of Molecular Biophysics, Florida State University, Tallahassee, Florida, United States of America.
Keywords	Actins (metabolism), Animals, Flight, Animal (physiology), Heteroptera (physiology), Isometric Contraction (physiology), Models, Biological, Muscle, Skeletal (physiology), Troponin (metabolism)
Links	DOI: 10.1371/journal.pone.0039422, PubMed: 22761792, PMC: PMC3382574
Citation - 1
Article	J. Struct. Biol., Vol. 168, Issue 3, Page 485-502, Year 2009
Title	Methods for identifying and averaging variable molecular conformations in tomograms of actively contracting insect flight muscle.
Authors	Shenping Wu, Jun Liu, Mary C Reedy, Hanspeter Winkler, Michael K Reedy, Kenneth A Taylor Institute of Molecular Biophysics, Florida State University, Tallahassee, FL 32306-4380, USA.
Keywords	Animals, Electron Microscope Tomography (methods), Insects (ultrastructure), Muscle Contraction (physiology), Muscles (pathology)
Links	PII: S1047-8477(09)00234-2, DOI: 10.1016/j.jsb.2009.08.007, PubMed: 19698791, PMC: PMC2805068

Components
ID 1 : MYOSIN S1
Image
Description	MYOSIN HEAVY CHAIN, STRIATED MUSCLE
Type	polymer
Fragment	RESIDUES 5-835
Formula weight	94844.594 Da
Number of molecules	1
Details	MYOSIN S1 HEAVY CHAIN
Source	Method: Isolated from a natural source Common name: BAY SCALLOP NCBI taxonomy: ID:31199 Organism scientific: ARGOPECTEN IRRADIANS
Links	UniProt: P24733, Sequence view
ID 2 : MYOSIN S1, R-LC
Image
Description	MYOSIN REGULATORY LIGHT CHAIN, STRIATED ADDUCTOR MUSCLE
Type	polymer
Fragment	RESIDUES 16-151
Formula weight	15575.813 Da
Number of molecules	1
Details	MYOSIN REGULATORY LIGHT CHAIN, RLC, STRIATED ADDUCTOR MUSCLE
Source	Method: Isolated from a natural source Common name: BAY SCALLOP NCBI taxonomy: ID:31199 Organism scientific: ARGOPECTEN IRRADIANS
Links	UniProt: P13543, Sequence view
ID 3 : MYOSIN S1, E-LC
Image
Description	MYOSIN ESSENTIAL LIGHT CHAIN, STRIATED ADDUCTOR MUSCLE
Type	polymer
Fragment	RESIDUES 5-155
Formula weight	17052.043 Da
Number of molecules	1
Details	MYOSIN ESSENTIAL LIGHT CHAIN, ELC, STRIATED ADDUCTOR MUSCLE
Source	Method: Isolated from a natural source Common name: BAY SCALLOP NCBI taxonomy: ID:31199 Organism scientific: ARGOPECTEN IRRADIANS
Links	UniProt: P07291, Sequence view

Sample
Assembly
Aggregation state	TISSUE
Details	THIS SPECIMEN IS OBTAINED FROM A QUICK FROZEN, ISOMETRICALLY CONTRACTING ASYNCHRONOUS INSECT FLIGHT MUSCLE THAT HAS BEEN FREEZE SUBSTITUTED, PLASTIC EMBEDDED, AND THIN SECTIONED. THE FIBERS FOR THIS STUDY WERE SUBJECTED TO MECHANICAL TRANSIENTS. FOR THE QUICK RELEASE,THE FIBER WAS RELEASED 9 NM PER HALF-SARCOMERE IN 2 MS AND THE FREEZING IMPACT - OCC-6 MS LATER.
Name	INSECT FIBRILLAR FLIGHT MUSCLE
Buffer
Name	20 MM MOPS BUFFER, 5 MM NAN3, AND MGCL2, ATP, CACL2, AND EGTA IN VARYING MILLIMOLAR CONCENTRATIONS
Experiment
Reconstruction method	TOMOGRAPHY
Specimen type	FREEZE SUBSTITUTED INSECT FLIGHT MUSCLE
Sample support
Details	CARBON
Vitrification
Details	SMASH AGAINST A LIQUID HELIUM COOLED GOLD COATED COPPER MIRROR

Electron Microscopy
Imaging
Microscope	model: FEI/PHILIPS CM300FEG/T
Electron gun
Electron source	FIELD EMISSION GUN
Accelerating voltage	300 kV
Illumination mode	LOW DOSE-FLOOD BEAM
Lens
Mode	BRIGHT FIELD
Cs	nominal: 2.0 mm
Specimen holder
Tilt angle	min: -72 degrees, max: 72 degrees
Detector
Type	TIETZ TEM-CAM F224

Processing
3D reconstruction
Details	NOTE THAT OUR LOWEST RESOLUTION DATA IS AT INVERSE 1 MICRON. NUMBER OF FOURIER COEFFICIENTS IS ALMOST A HALF MILLION. THESE COORDINATES WERE FITTED TO AVERAGED SUBVOLUMES OBTAINED FROM A DUAL AXIS TOMOGRAM. THE FITTING WAS DONE MANUALLY USING THE CRYSTALLOGRAPHIC MODEL FITTING PROGRAM O. THERE ARE 27 MODELS.
Refine
Ls d res high	35.00 A
ID	1
Refine hist
D res high	35.00
Total atoms	8501
Protein atoms	8501

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mmCIF

2w4v.cif.gz

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2w4v-noatom.xml.gz

Ext-atom

2w4v-extatom.xml.gz

Movie files

movie #1

	.mp4 (H.264/MPEG-4 AVC format), 2.7 MB .webm (WebM/VP8 format), 3.6 MB

movie #2

	.mp4 (H.264/MPEG-4 AVC format), 3.2 MB .webm (WebM/VP8 format), 4.2 MB

movie #3

	.mp4 (H.264/MPEG-4 AVC format), 2.6 MB .webm (WebM/VP8 format), 3.5 MB

movie #4

	.mp4 (H.264/MPEG-4 AVC format), 3.5 MB .webm (WebM/VP8 format), 4.6 MB