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- EMDB-61270: Bovine ABCC1 conformation 1 -

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ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-61270
TitleBovine ABCC1 conformation 1
Map data
Sample
  • Complex: Bovine ABCC1 conformation 1
    • Protein or peptide: Multidrug resistance-associated protein 1
  • Ligand: 2-acetamido-2-deoxy-beta-D-glucopyranose
KeywordsMultidrug resistance-associated protein 1 / ATP-binding cassette sub-family C member 1 / TRANSPORT PROTEIN
Function / homology
Function and homology information


Sphingolipid de novo biosynthesis / Heme degradation / Synthesis of Leukotrienes (LT) and Eoxins (EX) / Transport of RCbl within the body / cyclic nucleotide transport / Paracetamol ADME / ABC-family proteins mediated transport / glutathione transmembrane transport / leukotriene transport / ABC-type glutathione S-conjugate transporter activity ...Sphingolipid de novo biosynthesis / Heme degradation / Synthesis of Leukotrienes (LT) and Eoxins (EX) / Transport of RCbl within the body / cyclic nucleotide transport / Paracetamol ADME / ABC-family proteins mediated transport / glutathione transmembrane transport / leukotriene transport / ABC-type glutathione S-conjugate transporter activity / glutathione transmembrane transporter activity / Cytoprotection by HMOX1 / ABC-type glutathione-S-conjugate transporter / ABC-type xenobiotic transporter / ABC-type xenobiotic transporter activity / xenobiotic transport / lipid transport / xenobiotic transmembrane transporter activity / ABC-type transporter activity / positive regulation of inflammatory response / basolateral plasma membrane / response to xenobiotic stimulus / ATP hydrolysis activity / ATP binding
Similarity search - Function
Multi drug resistance-associated protein / : / ABC transporter TMD0 domain / : / 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. ...Multi drug resistance-associated protein / : / ABC transporter TMD0 domain / : / 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
Multidrug resistance-associated protein 1
Similarity search - Component
Biological speciesBos taurus (domestic cattle)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.13 Å
AuthorsZhong C / Wang F / Liu Z / Yu G
Funding support China, 1 items
OrganizationGrant numberCountry
Other governmentC10120180025 China
CitationJournal: To Be Published
Title: Bovine ABCC1 conformation 1
Authors: Zhong C / Wang F / Liu Z / Yu G
History
DepositionAug 22, 2024-
Header (metadata) releaseSep 3, 2025-
Map releaseSep 3, 2025-
UpdateSep 3, 2025-
Current statusSep 3, 2025Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_61270.png

Downloads & links

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Map

FileDownload / File: emd_61270.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.83 Å/pix.
x 320 pix.
= 265.6 Å		0.83 Å/pix.
x 320 pix.
= 265.6 Å		0.83 Å/pix.
x 320 pix.
= 265.6 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.83 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.25
Minimum - Maximum-0.024372721 - 1.7732666
Average (Standard dev.)0.0013431483 (±0.023998063)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 265.6 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_61270_msk_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_61270_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: #2

Fileemd_61270_half_map_2.map
Projections & Slices
AxesZYX

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Slices (1/2)
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Histogram

Histogram (log scale)

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Sample components

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Entire : Bovine ABCC1 conformation 1

EntireName: Bovine ABCC1 conformation 1
Components
  • Complex: Bovine ABCC1 conformation 1
    • Protein or peptide: Multidrug resistance-associated protein 1
  • Ligand: 2-acetamido-2-deoxy-beta-D-glucopyranose

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Supramolecule #1: Bovine ABCC1 conformation 1

SupramoleculeName: Bovine ABCC1 conformation 1 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1
Source (natural)Organism: Bos taurus (domestic cattle)

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Macromolecule #1: Multidrug resistance-associated protein 1

MacromoleculeName: Multidrug resistance-associated protein 1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO / EC number: ABC-type xenobiotic transporter
Source (natural)Organism: Bos taurus (domestic cattle)
Molecular weightTheoretical: 171.844453 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MALRDFCSVD GSDLFWEWNV TWNTSNPDFT KCFQNTVLVW VPCSYLWVCF PFYFLYLSHH DRGYIQMTHL NKAKTALGFL LWIVCWADL FYSFWERSMG KLLAPVFLVS PTLLGITMLL ATFLIQIERR RGVQSSGIML TFWLIALLCA LAILRSKIMT A LKEDARVD ...String:
MALRDFCSVD GSDLFWEWNV TWNTSNPDFT KCFQNTVLVW VPCSYLWVCF PFYFLYLSHH DRGYIQMTHL NKAKTALGFL LWIVCWADL FYSFWERSMG KLLAPVFLVS PTLLGITMLL ATFLIQIERR RGVQSSGIML TFWLIALLCA LAILRSKIMT A LKEDARVD VFRDVTFYIY FSLVLIQLVL SCFSDRSPLF SETINDPNPC PESSASFLSR ITFWWITGMM VQGYRQPLES TD LWSLNKE DTSEQVVPVL VKNWKKECAK SRKQPVKIVY SSKDPAKPKG SSKVDVNEEA EALIVKCPQK ERDPSLFKVL YKT FGPYFL MSFLFKAVHD LMMFAGPEIL KLLINFVNDK KAPEWQGYFY TALLFISACL QTLVLHQYFH ICFVSGMRIK TAVI GAVYR KALVITNAAR KSSTVGEIVN LMSVDAQRFM DLATYINMIW SAPLQVILAL YLLWLNLGPS VLAGVAVMVL MVPLN AVMA MKTKTYQVAH MKSKDNRIKL MNEILNGIKV LKLYAWELAF KDKVLAIRQE ELKVLKKSAY LAAVGTFTWV CTPFLV ALS TFAVYVTVDE NNILDAQKAF VSLALFNILR FPLNILPMVI SSIVQASVSL KRLRVFLSHE DLDPDSIQRR PIKDAGA TN SITVKNATFT WARNDPPTLH GITFSVPEGS LVAVVGQVGC GKSSLLSALL AEMDKVEGHV TVKGSVAYVP QQAWIQNI S LRENILFGRQ LQERYYKAVV EACALLPDLE ILPSGDRTEI GEKGVNLSGG QKQRVSLARA VYCDSDVYLL DDPLSAVDA HVGKHIFENV IGPKGLLKNK TRLLVTHAIS YLPQMDVIIV MSGGKISEMG SYQELLARDG AFAEFLRTYA SAEQEQGQPE DGLAGVGGP GKEVKQMENG MLVTDTAGKQ MQRQLSSSSS YSRDVSQHHT STAELRKPGP TEETWKLVEA DKAQTGQVKL S VYWDYMKA IGLFISFLSI FLFLCNHVAS LVSNYWLSLW TDDPIVNGTQ EHTQVRLSVY GALGISQGIT VFGYSMAVSI GG IFASRRL HLDLLHNVLR SPISFFERTP SGNLVNRFSK ELDTVDSMIP QVIKMFMGSL FNVIGACIII LLATPMAAVI IPP LGLIYF FVQRFYVASS RQLKRLESVS RSPVYSHFNE TLLGVSVIRA FEEQERFIRQ SDLKVDENQK AYYPSIVANR WLAV RLECV GNCIVLFASL FAVISRHSLS AGLVGLSVSY SLQVTTYLNW LVRMSSEMET NIVAVERLKE YSETEKEAPW QIQDM APPK DWPQVGRVEF RDYGLRYRED LDLVLKHINV TIDGGEKVGI VGRTGAGKSS LTLGLFRIKE SAEGEIIIDD INIAKI GLH DLRFKITIIP QDPVLFSGSL RMNLDPFSQY SDEEVWTSLE LAHLKGFVSA LPDKLNHECA EGGENLSVGQ RQLVCLA RA LLRKTKILVL DEATAAVDLE TDDLIQSTIR TQFDDCTVLT IAHRLNTIMD YTRVIVLDKG EIQEWGSPSD LLQQRGLF Y SMAKDSGLV

UniProtKB: Multidrug resistance-associated protein 1

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Macromolecule #2: 2-acetamido-2-deoxy-beta-D-glucopyranose

MacromoleculeName: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 2 / Number of copies: 1 / Formula: NAG
Molecular weightTheoretical: 221.208 Da
Chemical component information

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose

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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: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 80.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.8 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 105000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.13 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 149514
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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