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- EMDB-37500: AtGORK Full length 2 -

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Basic information

Entry
Database: EMDB / ID: EMD-37500
TitleAtGORK Full length 2
Map data
Sample
  • Organelle or cellular component: AtGORK full length 2
    • Protein or peptide: Potassium channel GORK
KeywordsComplex / Protein / TRANSPORT PROTEIN
Function / homology
Function and homology information


monoatomic ion transmembrane transporter activity / response to jasmonic acid / response to abscisic acid / response to water deprivation / outward rectifier potassium channel activity / monoatomic ion channel complex / monoatomic ion transport / response to cold / response to calcium ion / nucleus
Similarity search - Function
Potassium channel KAT/AKT / KHA domain / KHA, dimerisation domain of potassium ion channel / KHA domain profile. / Potassium channel, voltage-dependent, EAG/ELK/ERG / Cyclic nucleotide-monophosphate binding domain / Cyclic nucleotide-binding domain / cAMP/cGMP binding motif profile. / Cyclic nucleotide-binding domain / Cyclic nucleotide-binding domain superfamily ...Potassium channel KAT/AKT / KHA domain / KHA, dimerisation domain of potassium ion channel / KHA domain profile. / Potassium channel, voltage-dependent, EAG/ELK/ERG / Cyclic nucleotide-monophosphate binding domain / Cyclic nucleotide-binding domain / cAMP/cGMP binding motif profile. / Cyclic nucleotide-binding domain / Cyclic nucleotide-binding domain superfamily / RmlC-like jelly roll fold / Ankyrin repeats (3 copies) / Ankyrin repeat profile. / Ankyrin repeat region circular profile. / ankyrin repeats / Ankyrin repeat / Ankyrin repeat-containing domain superfamily / Ion transport domain / Ion transport protein
Similarity search - Domain/homology
Potassium channel GORK
Similarity search - Component
Biological speciesArabidopsis thaliana (thale cress)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.3 Å
AuthorsChen YH / Li QY / Qin L / Tang LH / zhang CR
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC) China
CitationJournal: To Be Published
Title: Structure of AtGORK full length 2 at 4.27 Angstroms resolution
Authors: Chen YH / Li QY
History
DepositionSep 20, 2023-
Header (metadata) releaseDec 4, 2024-
Map releaseDec 4, 2024-
UpdateDec 4, 2024-
Current statusDec 4, 2024Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_37500.png

Downloads & links

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Map

FileDownload / File: emd_37500.map.gz / Format: CCP4 / Size: 91.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.06 Å/pix.
x 288 pix.
= 305.28 Å		1.06 Å/pix.
x 288 pix.
= 305.28 Å		1.06 Å/pix.
x 288 pix.
= 305.28 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.06 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.085
Minimum - Maximum-0.17280328 - 0.3634314
Average (Standard dev.)0.00015678337 (±0.01776696)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions288288288
Spacing288288288
CellA=B=C: 305.27997 Å
α=β=γ: 90.0 °

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Supplemental data

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Additional map: sharp map

Fileemd_37500_additional_1.map
Annotationsharp map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_37500_half_map_1.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_37500_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
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Histogram

Histogram (log scale)

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Sample components

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Entire : AtGORK full length 2

EntireName: AtGORK full length 2
Components
  • Organelle or cellular component: AtGORK full length 2
    • Protein or peptide: Potassium channel GORK

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Supramolecule #1: AtGORK full length 2

SupramoleculeName: AtGORK full length 2 / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Arabidopsis thaliana (thale cress)

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Macromolecule #1: Potassium channel GORK

MacromoleculeName: Potassium channel GORK / type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 94.583477 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MGRLRRRQEI IDHEEEESND DVSSRRGKLS LAETFRWLDS SEHRRIETDG HNDYKYIIHP KNRWYKAWEM FILVWAIYSS LFTPMEFGF FRGLPERLFV LDIVGQIAFL VDIVLQFFVA YRDTQTYRTV YKPTRIAFRY LKSHFLMDFI GCFPWDLIYK A SGKHELVR ...String:
MGRLRRRQEI IDHEEEESND DVSSRRGKLS LAETFRWLDS SEHRRIETDG HNDYKYIIHP KNRWYKAWEM FILVWAIYSS LFTPMEFGF FRGLPERLFV LDIVGQIAFL VDIVLQFFVA YRDTQTYRTV YKPTRIAFRY LKSHFLMDFI GCFPWDLIYK A SGKHELVR YLLWIRLFRV RKVVEFFQRL EKDTRINYLF TRILKLLFVE VYCTHTAACI FYYLATTLPP ENEGYTWIGS LK LGDYSYE NFREIDLWKR YTTALYFAIV TMATVGYGDI HAVNLREMIF VMIYVSFDMV LGAYLIGNIT ALIVKGSNTE RFR DKMNDL ISFMNRKKLG RDLRSQITGH VRLQYDSHYT DTVMLQDIPA SIRAKIAQLL YLPYIKKVPL FKGCSTEFIN QIVI RLHEE YFLPGEVITE QGNVVDHLYF VCEGLLEALV TKTDGSEESV TLLGPHTSFG DISIICNISQ PFTVRVCELC HLLRL DKQS FSNILEIYFH DGRTILNNIM EEKESNDRIK KLESDIVIHI GKQEAELALK VNSAAFQGDF YQLKSLIRSG ADPNKT DYD GRSPLHLAAC RGYEDITLFL IQEGVDVNLK DKFGHTPLFE AVKAGQEGVI GLLVKEGASF NLEDSGNFLC TTVAKGD SD FLKRLLSSGM NPNSEDYDHR TPLHVAASEG LFLMAKMLVE AGASVISKDR WGNSPLDEAR LCGNKKLIKL LEDVKNAQ S SIYPSSLREL QEERIERRKC TVFPFHPQEA KEERSRKHGV VVWIPSNLEK LIVTAAKELG LSDGASFVLL SEDQGRITD IDMISDGHKL YMISDTTDQT

UniProtKB: Potassium channel GORK

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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

BufferpH: 8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 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: INSILICO MODEL
Final reconstructionResolution.type: BY AUTHOR / Resolution: 4.3 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 39551
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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