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- EMDB-35867: Multidrug resistance-associated protein 3 -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-35867
TitleMultidrug resistance-associated protein 3
Map dataapp mrp2
Sample
  • Complex: multidrug resistance-associated protein 3 in apo state
    • Protein or peptide: ATP-binding cassette sub-family C member 3
KeywordsATP-binding cassette transporter / MEMBRANE PROTEIN
Function / homology
Function and homology information


glucuronoside transmembrane transporter activity / icosanoid transmembrane transporter activity / ABC-type bile acid transporter activity / leukotriene transport / ABC-type glutathione-S-conjugate transporter / ABC-type glutathione S-conjugate transporter activity / ATPase-coupled inorganic anion transmembrane transporter activity / xenobiotic transmembrane transport / ABC-type xenobiotic transporter / Paracetamol ADME ...glucuronoside transmembrane transporter activity / icosanoid transmembrane transporter activity / ABC-type bile acid transporter activity / leukotriene transport / ABC-type glutathione-S-conjugate transporter / ABC-type glutathione S-conjugate transporter activity / ATPase-coupled inorganic anion transmembrane transporter activity / xenobiotic transmembrane transport / ABC-type xenobiotic transporter / Paracetamol ADME / NFE2L2 regulating MDR associated enzymes / Translocases; Catalysing the translocation of other compounds; Linked to the hydrolysis of a nucleoside triphosphate / ABC-type xenobiotic transporter activity / bile acid and bile salt transport / xenobiotic transport / Aspirin ADME / xenobiotic transmembrane transporter activity / ATPase-coupled transmembrane transporter activity / transport across blood-brain barrier / ABC-type transporter activity / Recycling of bile acids and salts / xenobiotic metabolic process / basal plasma membrane / ABC-family proteins mediated transport / transmembrane transport / basolateral plasma membrane / ATP hydrolysis activity / ATP binding / membrane / plasma membrane
Similarity search - Function
Multi drug resistance-associated protein / : / ABC transporter transmembrane region / ABC transporter type 1, transmembrane domain / ABC transporter integral membrane type-1 fused domain profile. / ABC transporter type 1, transmembrane domain superfamily / ABC transporter-like, conserved site / ABC transporters family signature. / ABC transporter / ABC transporter-like, ATP-binding domain ...Multi drug resistance-associated protein / : / ABC transporter transmembrane region / ABC transporter type 1, transmembrane domain / ABC transporter integral membrane type-1 fused domain profile. / ABC transporter type 1, transmembrane domain superfamily / ABC transporter-like, conserved site / ABC transporters family signature. / ABC transporter / ABC transporter-like, ATP-binding domain / ATP-binding cassette, ABC transporter-type domain profile. / ATPases associated with a variety of cellular activities / AAA+ ATPase domain / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
ATP-binding cassette sub-family C member 3
Similarity search - Component
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.31 Å
AuthorsYun CH / Gao HM
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC) China
CitationJournal: To Be Published
Title: structure of multidrug resistance-associated protein 3 at 3.31 Angstroms
Authors: Yun CH / Gao HM
History
DepositionApr 7, 2023-
Header (metadata) releaseApr 10, 2024-
Map releaseApr 10, 2024-
UpdateApr 10, 2024-
Current statusApr 10, 2024Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_35867.png

Downloads & links

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Map

FileDownload / File: emd_35867.map.gz / Format: CCP4 / Size: 64 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationapp mrp2
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.07 Å/pix.
x 256 pix.
= 273.92 Å		1.07 Å/pix.
x 256 pix.
= 273.92 Å		1.07 Å/pix.
x 256 pix.
= 273.92 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.07 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.128
Minimum - Maximum-0.7088751 - 1.2689021
Average (Standard dev.)0.0005179114 (±0.026360327)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions256256256
Spacing256256256
CellA=B=C: 273.92 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: half map

Fileemd_35867_half_map_1.map
Annotationhalf map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half map

Fileemd_35867_half_map_2.map
Annotationhalf map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : multidrug resistance-associated protein 3 in apo state

EntireName: multidrug resistance-associated protein 3 in apo state
Components
  • Complex: multidrug resistance-associated protein 3 in apo state
    • Protein or peptide: ATP-binding cassette sub-family C member 3

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Supramolecule #1: multidrug resistance-associated protein 3 in apo state

SupramoleculeName: multidrug resistance-associated protein 3 in apo state
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: ATP-binding cassette sub-family C member 3

MacromoleculeName: ATP-binding cassette sub-family C member 3 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of other compounds; Linked to the hydrolysis of a nucleoside triphosphate
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 174.547766 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MDALCGSGEL GSKFWDSNLS VHTENPDLTP CFQNSLLAWV PCIYLWVALP CYLLYLRHHC RGYIILSHLS KLKMVLGVLL WCVSWADLF YSFHGLVHGR APAPVFFVTP LVVGVTMLLA TLLIQYERLQ GVQSSGVLII FWFLCVVCAI VPFRSKILLA K AEGEISDP ...String:
MDALCGSGEL GSKFWDSNLS VHTENPDLTP CFQNSLLAWV PCIYLWVALP CYLLYLRHHC RGYIILSHLS KLKMVLGVLL WCVSWADLF YSFHGLVHGR APAPVFFVTP LVVGVTMLLA TLLIQYERLQ GVQSSGVLII FWFLCVVCAI VPFRSKILLA K AEGEISDP FRFTTFYIHF ALVLSALILA CFREKPPFFS AKNVDPNPYP ETSAGFLSRL FFWWFTKMAI YGYRHPLEEK DL WSLKEED RSQMVVQQLL EAWRKQEKQT ARHKASAAPG KNASGEDEVL LGARPRPRKP SFLKALLATF GSSFLISACF KLI QDLLSF INPQLLSILI RFISNPMGPS WWGFLVAGLM FLCSMMQSLI LQHYYHYIFV TGVKFRTGIM GVIYRKALVI TNSV KRAST VGEIVNLMSV DAQRFMDLAP FLNLLWSAPL QIILAIYFLW QNLGPSVLAG VAFMVLLIPL NGAVAVKMRA FQVKQ MKLK DSRIKLMSEI LNGIKVLKLY AWEPSFLKQV EGIRQGELQL LRTAAYLHTT TTFTWMCSPF LVTLITLWVY VYVDPN NVL DAEKAFVSVS LFNILRLPLN MLPQLISNLT QASVSLKRIQ QFLSQEELDP QSVERKTISP GYAITIHSGT FTWAQDL PP TLHSLDIQVP KGALVAVVGP VGCGKSSLVS ALLGEMEKLE GKVHMKGSVA YVPQQAWIQN CTLQENVLFG KALNPKRY Q QTLEACALLA DLEMLPGGDQ TEIGEKGINL SGGQRQRVSL ARAVYSDADI FLLDDPLSAV DSHVAKHIFD HVIGPEGVL AGKTRVLVTH GISFLPQTDF IIVLADGQVS EMGPYPALLQ RNGSFANFLC NYAPDEDQGH LEDSWTALEG AEDKEALLIE DTLSNHTDL TDNDPVTYVV QKQFMRQLSA LSSDGEGQGR PVPRRHLGPS EKVQVTEAKA DGALTQEEKA AIGTVELSVF W DYAKAVGL CTTLAICLLY VGQSAAAIGA NVWLSAWTND AMADSRQNNT SLRLGVYAAL GILQGFLVML AAMAMAAGGI QA ARVLHQA LLHNKIRSPQ SFFDTTPSGR ILNCFSKDIY VVDEVLAPVI LMLLNSFFNA ISTLVVIMAS TPLFTVVILP LAV LYTLVQ RFYAATSRQL KRLESVSRSP IYSHFSETVT GASVIRAYNR SRDFEIISDT KVDANQRSCY PYIISNRWLS IGVE FVGNC VVLFAALFAV IGRSSLNPGL VGLSVSYSLQ VTFALNWMIR MMSDLESNIV AVERVKEYSK TETEAPWVVE GSRPP EGWP PRGEVEFRNY SVRYRPGLDL VLRDLSLHVH GGEKVGIVGR TGAGKSSMTL CLFRILEAAK GEIRIDGLNV ADIGLH DVR SQLTIIPQDP ILFSGTLRMN LDPFGSYSEE DIWWALELSH LHTFVSSQPA GLDFQCSEGG ENLSVGQRQL VCLARAL LR KSRILVLDEA TAAIDLETDN LIQATIRTQF DTCTVLTIAH RLNTIMDYTR VLVLDKGVVA EFDSPANLIA ARGIFYGM A RDAGLALEEN LYFQGSGGGG GGDYKDHDGD YKDHDIDYKD DDDKHHHHHH

UniProtKB: ATP-binding cassette sub-family C member 3

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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

Concentration2.00 mg/mL
BufferpH: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN 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: 2.3000000000000003 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 reconstructionResolution.type: BY AUTHOR / Resolution: 3.31 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 124494
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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