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- EMDB-47294: Cryo-EM structure of human OATP1C1 in complex with thyroid hormone T4 -

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Basic information

Entry
Database: EMDB / ID: EMD-47294
TitleCryo-EM structure of human OATP1C1 in complex with thyroid hormone T4
Map data
Sample
  • Complex: human OATP1C1 in complex with thyroid hormone T4
    • Protein or peptide: Solute carrier organic anion transporter family member 1C1
  • Ligand: 3,5,3',5'-TETRAIODO-L-THYRONINE
  • Ligand: CHOLESTEROL HEMISUCCINATE
  • Ligand: water
KeywordsSLC transporter / thyroid hormone / TRANSPORT PROTEIN
Function / homology
Function and homology information


positive regulation of thyroid hormone generation / Transport of organic anions / sodium-independent organic anion transport / sodium-independent organic anion transmembrane transporter activity / thyroid hormone transmembrane transporter activity / thyroid hormone transport / organic anion transmembrane transporter activity / bile acid transmembrane transporter activity / bile acid and bile salt transport / transport across blood-brain barrier ...positive regulation of thyroid hormone generation / Transport of organic anions / sodium-independent organic anion transport / sodium-independent organic anion transmembrane transporter activity / thyroid hormone transmembrane transporter activity / thyroid hormone transport / organic anion transmembrane transporter activity / bile acid transmembrane transporter activity / bile acid and bile salt transport / transport across blood-brain barrier / monoatomic ion transport / transmembrane transport / basolateral plasma membrane / plasma membrane
Similarity search - Function
Organic anion transporter polypeptide / Organic Anion Transporter Polypeptide (OATP) family / Kazal-type serine protease inhibitor domain / Kazal domain superfamily / Kazal domain / Kazal domain profile. / Major facilitator superfamily domain / Major facilitator superfamily (MFS) profile. / MFS transporter superfamily
Similarity search - Domain/homology
Solute carrier organic anion transporter family member 1C1
Similarity search - Component
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.3 Å
AuthorsGe Y / Dou T / Jiang J / Huang P
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01GM150878 United States
CitationJournal: To Be Published
Title: Structural insights into brain thyroid hormone transport via MCT8 and OATP1C1
Authors: Ge Y / Dou T / Nguyen TU / Yadav GP / Wensel TG / Jiang J / Huang P
History
DepositionOct 11, 2024-
Header (metadata) releaseJul 16, 2025-
Map releaseJul 16, 2025-
UpdateJul 16, 2025-
Current statusJul 16, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_47294.png

Downloads & links

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Map

FileDownload / File: emd_47294.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: 0.0131
Minimum - Maximum-0.053741205 - 0.11384275
Average (Standard dev.)0.000016649052 (±0.0025484806)
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_47294_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: #2

Fileemd_47294_half_map_1.map
Projections & Slices
AxesZYX

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Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_47294_half_map_2.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 : human OATP1C1 in complex with thyroid hormone T4

EntireName: human OATP1C1 in complex with thyroid hormone T4
Components
  • Complex: human OATP1C1 in complex with thyroid hormone T4
    • Protein or peptide: Solute carrier organic anion transporter family member 1C1
  • Ligand: 3,5,3',5'-TETRAIODO-L-THYRONINE
  • Ligand: CHOLESTEROL HEMISUCCINATE
  • Ligand: water

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Supramolecule #1: human OATP1C1 in complex with thyroid hormone T4

SupramoleculeName: human OATP1C1 in complex with thyroid hormone T4 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: Solute carrier organic anion transporter family member 1C1

MacromoleculeName: Solute carrier organic anion transporter family member 1C1
type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 82.539328 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MDTSSKENIQ LFCKTSVQPV GRPSFKTEYP SSEEKQPCCG ELKVFLCALS FVYFAKALAE GYLKSTITQI ERRFDIPSSL VGVIDGSFE IGNLLVITFV SYFGAKLHRP KIIGAGCVIM GVGTLLIAMP QFFMEQYKYE RYSPSSNSTL SISPCLLESS S QLPVSVME ...String:
MDTSSKENIQ LFCKTSVQPV GRPSFKTEYP SSEEKQPCCG ELKVFLCALS FVYFAKALAE GYLKSTITQI ERRFDIPSSL VGVIDGSFE IGNLLVITFV SYFGAKLHRP KIIGAGCVIM GVGTLLIAMP QFFMEQYKYE RYSPSSNSTL SISPCLLESS S QLPVSVME KSKSKISNEC EVDTSSSMWI YVFLGNLLRG IGETPIQPLG IAYLDDFASE DNAAFYIGCV QTVAIIGPIF GF LLGSLCA KLYVDIGFVN LDHITITPKD PQWVGAWWLG YLIAGIISLL AAVPFWYLPK SLPRSQSRED SNSSSEKSKF IID DHTDYQ TPQGENAKIM EMARDFLPSL KNLFGNPVYF LYLCTSTVQF NSLFGMVTYK PKYIEQQYGQ SSSRANFVIG LINI PAVAL GIFSGGIVMK KFRISVCGAA KLYLGSSVFG YLLFLSLFAL GCENSDVAGL TVSYQGTKPV SYHERALFSD CNSRC KCSE TKWEPMCGEN GITYVSACLA GCQTSNRSGK NIIFYNCTCV GIAASKSGNS SGIVGRCQKD NGCPQMFLYF LVISVI TSY TLSLGGIPGY ILLLRCIKPQ LKSFALGIYT LAIRVLAGIP APVYFGVLID TSCLKWGFKR CGSRGSCRLY DSNVFRH IY LGLTVILGTV SILLSIAVLF ILKKNYVSKH RSFITKRERT MVSTRFQKEN YTTSDHLLQP NYWPGKETQL AAALEVLF Q GPGAAEDQVD PRLIDGKHHH HHHHH

UniProtKB: Solute carrier organic anion transporter family member 1C1

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Macromolecule #2: 3,5,3',5'-TETRAIODO-L-THYRONINE

MacromoleculeName: 3,5,3',5'-TETRAIODO-L-THYRONINE / type: ligand / ID: 2 / Number of copies: 1 / Formula: T44
Molecular weightTheoretical: 776.87 Da
Chemical component information

ChemComp-T44:
3,5,3',5'-TETRAIODO-L-THYRONINE / hormone*YM

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Macromolecule #3: CHOLESTEROL HEMISUCCINATE

MacromoleculeName: CHOLESTEROL HEMISUCCINATE / type: ligand / ID: 3 / Number of copies: 1 / Formula: Y01
Molecular weightTheoretical: 486.726 Da
Chemical component information

ChemComp-Y01:
CHOLESTEROL HEMISUCCINATE

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Macromolecule #4: water

MacromoleculeName: water / type: ligand / ID: 4 / Number of copies: 2 / Formula: HOH
Molecular weightTheoretical: 18.015 Da
Chemical component information

ChemComp-HOH:
WATER

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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: 7.5
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 60.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 0.5 µm
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: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.3 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 454807
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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