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- EMDB-24668: CLC-ec1 at pH 4.5 100 mM NaGluconate Turn -

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Basic information

Entry
Database: EMDB / ID: EMD-24668
TitleCLC-ec1 at pH 4.5 100 mM NaGluconate Turn
Map dataCLC-ec1 100 mM NaGluconate pH 4.5 Turn
Sample
  • Complex: Structure of ecCLC at pH 4.5 in 100mM NaGluconate Turn
    • Protein or peptide: H(+)/Cl(-) exchange transporter ClcA
KeywordsCLC / chloride transporter / MEMBRANE PROTEIN
Function / homologyChloride channel, ClcA / Chloride channel, voltage gated / Chloride channel, core / Voltage gated chloride channel / voltage-gated chloride channel activity / antiporter activity / plasma membrane / H(+)/Cl(-) exchange transporter ClcA
Function and homology information
Biological speciesEscherichia coli (E. coli)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.68 Å
AuthorsFortea E / Boudker O
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) United States
CitationJournal: To Be Published
Title: Structural basis of common gate activation in CLC transporters
Authors: Fortea E / Lee S / Argyros Y / Chadda R / Ciftci D / Huysmans G / Robertson JL / Boudker O / Accardi A
History
DepositionAug 11, 2021-
Header (metadata) releaseNov 16, 2022-
Map releaseNov 16, 2022-
UpdateJun 5, 2024-
Current statusJun 5, 2024Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_24668.png

Downloads & links

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Map

FileDownload / File: emd_24668.map.gz / Format: CCP4 / Size: 28.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationCLC-ec1 100 mM NaGluconate pH 4.5 Turn
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.05 Å/pix.
x 196 pix.
= 205.408 Å		1.05 Å/pix.
x 196 pix.
= 205.408 Å		1.05 Å/pix.
x 196 pix.
= 205.408 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.048 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.179
Minimum - Maximum-0.9217928 - 1.2960459
Average (Standard dev.)0.0031520645 (±0.033216733)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions196196196
Spacing196196196
CellA=B=C: 205.40799 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Structure of ecCLC at pH 4.5 in 100mM NaGluconate Turn

EntireName: Structure of ecCLC at pH 4.5 in 100mM NaGluconate Turn
Components
  • Complex: Structure of ecCLC at pH 4.5 in 100mM NaGluconate Turn
    • Protein or peptide: H(+)/Cl(-) exchange transporter ClcA

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Supramolecule #1: Structure of ecCLC at pH 4.5 in 100mM NaGluconate Turn

SupramoleculeName: Structure of ecCLC at pH 4.5 in 100mM NaGluconate Turn
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 100 kDa/nm

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Macromolecule #1: H(+)/Cl(-) exchange transporter ClcA

MacromoleculeName: H(+)/Cl(-) exchange transporter ClcA / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 50.390402 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MKTDTPSLET PQAARLRRRQ LIRQLLERDK TPLAILFMAA VVGTLVGLAA VAFDKGVAWL QNQRMGALVH TADNYPLLLT VAFLCSAVL AMFGYFLVRK YAPEAGGSGI PEIEGALEDQ RPVRWWRVLP VKFFGGLGTL GGGMVLGREG PTVQIGGNIG R MVLDIFRL ...String:
MKTDTPSLET PQAARLRRRQ LIRQLLERDK TPLAILFMAA VVGTLVGLAA VAFDKGVAWL QNQRMGALVH TADNYPLLLT VAFLCSAVL AMFGYFLVRK YAPEAGGSGI PEIEGALEDQ RPVRWWRVLP VKFFGGLGTL GGGMVLGREG PTVQIGGNIG R MVLDIFRL KGDEARHTLL ATGAAAGLAA AFNAPLAGIL FIIEEMRPQF RYTLISIKAV FIGVIMSTIM YRIFNHEVAL ID VGKLSDA PLNTLWLYLI LGIIFGIFGP IFNKWVLGMQ DLLHRVHGGN ITKWVLMGGA IGGLCGLLGF VAPATSGGGF NLI PIATAG NFSMGMLVFI FVARVITTLL CFSSGAPGGI FAPMLALGTV LGTAFGMVAV ELFPQYHLEA GTFAIAGMGA LLAA SIRAP LTGIILVLEM TDNYQLILPM IITGLGATLL AQFTGGKPLY SAILARTLAK QEAEQLARSK AASASENT

UniProtKB: H(+)/Cl(-) exchange transporter ClcA

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

Concentration1.7 mg/mL
BufferpH: 4.5
GridModel: UltrAuFoil R1.2/1.3
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 294.15 K

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 65.64 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.2 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 3.68 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 116129
Initial angle assignmentType: OTHER
Final angle assignmentType: OTHER

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