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- EMDB-32943: Cryo-EM structure of human BTR1 in the outward-facing state in th... -
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Open data
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Basic information
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Title | Cryo-EM structure of human BTR1 in the outward-facing state in the presence of NH4Cl. | |||||||||
![]() | Sharpened map of BTR1 with substrate NH3 | |||||||||
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![]() | SLC4A11 / BTR1 / SLC transporter / MEMBRANE PROTEIN | |||||||||
Function / homology | ![]() borate transport / active borate transmembrane transporter activity / regulation of mesenchymal stem cell differentiation / fluid transport / water transmembrane transporter activity / monoatomic ion homeostasis / intracellular monoatomic cation homeostasis / cellular hypotonic response / proton channel activity / solute:inorganic anion antiporter activity ...borate transport / active borate transmembrane transporter activity / regulation of mesenchymal stem cell differentiation / fluid transport / water transmembrane transporter activity / monoatomic ion homeostasis / intracellular monoatomic cation homeostasis / cellular hypotonic response / proton channel activity / solute:inorganic anion antiporter activity / symporter activity / bicarbonate transport / bicarbonate transmembrane transporter activity / monoatomic anion transport / vesicle membrane / sodium channel activity / sodium ion transport / proton transmembrane transporter activity / transmembrane transporter activity / proton transmembrane transport / regulation of mitochondrial membrane potential / transmembrane transport / cellular response to oxidative stress / basolateral plasma membrane / protein dimerization activity / apical plasma membrane / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.84 Å | |||||||||
![]() | Yin Y / Lu Y / Zuo P | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural insights into the conformational changes of BTR1/SLC4A11 in complex with PIP. Authors: Yishuo Lu / Peng Zuo / Hongyi Chen / Hui Shan / Weize Wang / Zonglin Dai / He Xu / Yayu Chen / Ling Liang / Dian Ding / Yan Jin / Yuxin Yin / ![]() Abstract: BTR1 (SLC4A11) is a NH stimulated H (OH) transporter belonging to the SLC4 family. Dysfunction of BTR1 leads to diseases such as congenital hereditary endothelial dystrophy (CHED) and Fuchs ...BTR1 (SLC4A11) is a NH stimulated H (OH) transporter belonging to the SLC4 family. Dysfunction of BTR1 leads to diseases such as congenital hereditary endothelial dystrophy (CHED) and Fuchs endothelial corneal dystrophy (FECD). However, the mechanistic basis of BTR1 activation by alkaline pH, transport activity regulation and pathogenic mutations remains elusive. Here, we present cryo-EM structures of human BTR1 in the outward-facing state in complex with its activating ligands PIP and the inward-facing state with the pathogenic R125H mutation. We reveal that PIP binds at the interface between the transmembrane domain and the N-terminal cytosolic domain of BTR1. Disruption of either the PIP binding site or protonation of PIP phosphate groups by acidic pH can transform BTR1 into an inward-facing conformation. Our results provide insights into the mechanisms of how the transport activity and conformation changes of BTR1 are regulated by PIP binding and interaction of TMD and NTD. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 230.3 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 15.4 KB 15.4 KB | Display Display | ![]() |
Images | ![]() | 54.8 KB | ||
Filedesc metadata | ![]() | 6.1 KB | ||
Others | ![]() ![]() | 226.4 MB 226.4 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1 MB | Display | ![]() |
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Full document | ![]() | 1 MB | Display | |
Data in XML | ![]() | 16 KB | Display | |
Data in CIF | ![]() | 18.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7x1jMC ![]() 7x1gC ![]() 7x1hC ![]() 7x1iC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | Sharpened map of BTR1 with substrate NH3 | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.821 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: Half-A map of BTR1 with substrate NH3
File | emd_32943_half_map_1.map | ||||||||||||
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Annotation | Half-A map of BTR1 with substrate NH3 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half-B map of BTR1 with substrate NH3
File | emd_32943_half_map_2.map | ||||||||||||
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Annotation | Half-B map of BTR1 with substrate NH3 | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Solute carrier family 4 member 11, isoform B
Entire | Name: Solute carrier family 4 member 11, isoform B |
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Components |
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-Supramolecule #1: Solute carrier family 4 member 11, isoform B
Supramolecule | Name: Solute carrier family 4 member 11, isoform B / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 199 KDa |
-Macromolecule #1: Isoform 1 of Solute carrier family 4 member 11
Macromolecule | Name: Isoform 1 of Solute carrier family 4 member 11 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 99.684438 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MSQVGGRGDR CTQEVQGLVH GAGDLSASLA ENSPTMSQNG YFEDSSYYKC DTDDTFEARE EILGDEAFDT ANSSIVSGES IRFFVNVNL EMQATNTENE ATSGGCVLLH TSRKYLKLKN FKEEIRAHRD LDGFLAQASI VLNETATSLD NVLRTMLRRF A RDPDNNEP ...String: MSQVGGRGDR CTQEVQGLVH GAGDLSASLA ENSPTMSQNG YFEDSSYYKC DTDDTFEARE EILGDEAFDT ANSSIVSGES IRFFVNVNL EMQATNTENE ATSGGCVLLH TSRKYLKLKN FKEEIRAHRD LDGFLAQASI VLNETATSLD NVLRTMLRRF A RDPDNNEP NCNLDLLMAM LFTDAGAPMR GKVHLLSDTI QGVTATVTGV RYQQSWLCII CTMKALQKRH VCISRLVRPQ NW GENSCEV RFVILVLAPP KMKSTKTAME VARTFATMFS DIAFRQKLLE TRTEEEFKEA LVHQRQLLTM VSHGPVAPRT KER STVSLP AHRHPEPPKC KDFVPFGKGI REDIARRFPL YPLDFTDGII GKNKAVGKYI TTTLFLYFAC LLPTIAFGSL NDEN TDGAI DVQKTIAGQS IGGLLYALFS GQPLVILLTT APLALYIQVI RVICDDYDLD FNSFYAWTGL WNSFFLALYA FFNLS LVMS LFKRSTEEII ALFISITFVL DAVKGTVKIF WKYYYGHYLD DYHTKRTSSL VSLSGLGASL NASLHTALNA SFLASP TEL PSATHSGQAT AVLSLLIMLG TLWLGYTLYQ FKKSPYLHPC VREILSDCAL PIAVLAFSLI SSHGFREIEM SKFRYNP SE SPFAMAQIQS LSLRAVSGAM GLGFLLSMLF FIEQNLVAAL VNAPENRLVK GTAYHWDLLL LAIINTGLSL FGLPWIHA A YPHSPLHVRA LALVEERVEN GHIYDTIVNV KETRLTSLGA SVLVGLSLLL LPVPLQWIPK PVLYGLFLYI ALTSLDGNQ LVQRVALLLK EQTAYPPTHY IRRVPQRKIH YFTGLQVLQL LLLCAFGMSS LPYMKMIFPL IMIAMIPIRY ILLPRIIEAK YLDVMDAEH RP UniProtKB: Solute carrier family 4 member 11 |
-Macromolecule #2: [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tr...
Macromolecule | Name: [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate type: ligand / ID: 2 / Number of copies: 2 / Formula: PT5 |
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Molecular weight | Theoretical: 1.047088 KDa |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.8 µm / Nominal defocus min: 1.5 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Startup model | Type of model: OTHER |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.84 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 3.1.0) / Number images used: 44429 |
Initial angle assignment | Type: OTHER |
Final angle assignment | Type: OTHER |