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- PDB-2w4v: Isometrically contracting insect asynchronous flight muscle quick... -

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Entry
Database: PDB / ID: 2w4v
TitleIsometrically contracting insect asynchronous flight muscle quick frozen after a quick release step
DescriptorMYOSIN HEAVY CHAIN
STRIATED MUSCLE
MYOSIN REGULATORY LIGHT CHAIN
MYOSIN ESSENTIAL LIGHT CHAIN
(STRIATED ADDUCTOR ...) x 2
KeywordsCONTRACTILE PROTEIN / TROPOMYOSIN / LIGHT CHAINS / ACTIN-BINDING / ISOMETRIC CONTRACTION / THIN FILAMENT / MOTOR PROTEIN / THICK FILAMENT / MUSCLE PROTEIN
Specimen sourceArgopecten irradians / invertebrata / BAY SCALLOP
MethodElectron microscopy (35 Å resolution / Tissue / Tomography)
AuthorsWu, 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.
CitationPLoS ONE, 2012, 7, e39422-e39422

primary. PLoS ONE, 2012, 7, e39422-e39422 Yorodumi Papers
Structural changes in isometrically contracting insect flight muscle trapped following a mechanical perturbation.
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

#1. J. Struct. Biol., 2009, 168, 485-502 Yorodumi Papers
Methods for identifying and averaging variable molecular conformations in tomograms of actively contracting insect flight muscle.
Wu, S. / Liu, J. / Reedy, M.C. / Winkler, H. / Reedy, M.K. / Taylor, K.A.

Validation Report
SummaryFull reportAbout validation report
DateDeposition: Dec 2, 2008 / Release: Sep 15, 2010
RevisionDateData content typeGroupProviderType
1.0Sep 15, 2010Structure modelrepositoryInitial release
1.1Jul 18, 2012Structure modelDatabase references / Version format compliance
1.2Jan 25, 2017Structure modelDatabase references
1.3Apr 19, 2017Structure modelOther

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Assembly

Deposited unit
C: MYOSIN HEAVY CHAIN, STRIATED MUSCLE
Y: MYOSIN REGULATORY LIGHT CHAIN, STRIATED ADDUCTOR MUSCLE
Z: MYOSIN ESSENTIAL LIGHT CHAIN, STRIATED ADDUCTOR MUSCLE


Theoretical massNumber of molelcules
Total (without water)127,4713
Polyers127,4713
Non-polymers00
Water0
#1


TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
MethodPISA
Conformers27 models

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Components

#1: Polypeptide(L)MYOSIN HEAVY CHAIN, STRIATED MUSCLE / MYOSIN S1


Mass: 94843.883 Da / Num. of mol.: 1 / Details: MYOSIN S1 HEAVY CHAIN / Fragment: RESIDUES 5-835 / Source: (natural) Argopecten irradians / invertebrata / References: UniProt: P24733

Cellular component

Molecular function

#2: Polypeptide(L)MYOSIN REGULATORY LIGHT CHAIN, STRIATED ADDUCTOR MUSCLE / MYOSIN S1 / R-LC


Mass: 15575.700 Da / Num. of mol.: 1
Details: MYOSIN REGULATORY LIGHT CHAIN, RLC, STRIATED ADDUCTOR MUSCLE
Fragment: RESIDUES 16-151 / Source: (natural) Argopecten irradians / invertebrata / References: UniProt: P13543

Cellular component

Molecular function

#3: Polypeptide(L)MYOSIN ESSENTIAL LIGHT CHAIN, STRIATED ADDUCTOR MUSCLE / MYOSIN S1 / E-LC


Mass: 17051.912 Da / Num. of mol.: 1
Details: MYOSIN ESSENTIAL LIGHT CHAIN, ELC, STRIATED ADDUCTOR MUSCLE
Fragment: RESIDUES 5-155 / Source: (natural) Argopecten irradians / invertebrata / References: UniProt: P07291

Cellular component

Molecular function

Sequence details92 IDENTITY TO P24733 100 IDENTITY TO P13543 100 IDENTITY TO P07291

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: TISSUE / Reconstruction method: TOMOGRAPHY

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Sample preparation

ComponentName: INSECT FIBRILLAR FLIGHT MUSCLE / Type: 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.
Buffer solutionName: 20 MM MOPS BUFFER, 5 MM NAN3, AND MGCL2, ATP, CACL2, AND EGTA IN VARYING MILLIMOLAR CONCENTRATIONS
Details: 20 MM MOPS BUFFER, 5 MM NAN3, AND MGCL2, ATP, CACL2, AND EGTA IN VARYING MILLIMOLAR CONCENTRATIONS
SpecimenEmbedding applied: YES / Shadowing applied: NO / Staining applied: NO / Vitrification applied: NO
Specimen supportDetails: CARBON
VitrificationInstrument: HOMEMADE PLUNGER / Cryogen name: HELIUM
Details: SMASH AGAINST A LIQUID HELIUM COOLED GOLD COATED COPPER MIRROR

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Electron microscopy imaging

MicroscopyMicroscope model: FEI/PHILIPS CM300FEG/T
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Cs: 2 mm
Specimen holderTilt angle max: 72 deg. / Tilt angle min: -72 deg.
Image recordingFilm or detector model: TVIPS TEMCAM-F224 (2k x 2k)
Radiation wavelengthRelative weight: 1

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Processing

SymmetryPoint symmetry: C1
3D reconstructionResolution method: FSC 0.5 CUT-OFF
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.
Symmetry type: POINT
Least-squares processHighest resolution: 35 Å
Refine hist #LASTHighest resolution: 35 Å
Number of atoms included #LASTProtein: 8501 / Nucleic acid: 0 / Ligand: 0 / Solvent: 0 / Total: 8501

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