+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-23251 | |||||||||
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Title | Structure of a ferrichrome importer FhuCDB from E. coli | |||||||||
Map data | ferrichrome importer FhuCDB | |||||||||
Sample |
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Keywords | ABC importer / siderophore / cryo-EM / TRANSPORT PROTEIN | |||||||||
Function / homology | Function and homology information ABC-type ferric hydroxamate transporter / ABC-type ferric hydroxamate transporter activity / iron ion import across plasma membrane / siderophore-dependent iron import into cell / plasma membrane => GO:0005886 / transmembrane transporter activity / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing / ATP-binding cassette (ABC) transporter complex / outer membrane-bounded periplasmic space / ATP binding / plasma membrane Similarity search - Function | |||||||||
Biological species | Escherichia coli (E. coli) / Escherichia coli (strain K12) (bacteria) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.4 Å | |||||||||
Authors | Hu W / Zheng H | |||||||||
Funding support | United States, 2 items
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Citation | Journal: Commun Biol / Year: 2021 Title: Cryo-EM reveals unique structural features of the FhuCDB Escherichia coli ferrichrome importer. Authors: Wenxin Hu / Hongjin Zheng / Abstract: As one of the most elegant biological processes developed in bacteria, the siderophore-mediated iron uptake demands the action of specific ATP-binding cassette (ABC) importers. Although extensive ...As one of the most elegant biological processes developed in bacteria, the siderophore-mediated iron uptake demands the action of specific ATP-binding cassette (ABC) importers. Although extensive studies have been done on various ABC importers, the molecular basis of these iron-chelated-siderophore importers are still not fully understood. Here, we report the structure of a ferrichrome importer FhuCDB from Escherichia coli at 3.4 Å resolution determined by cryo electron microscopy. The structure revealed a monomeric membrane subunit of FhuB with a substrate translocation pathway in the middle. In the pathway, there were unique arrangements of residues, especially layers of methionines. Important residues found in the structure were interrogated by mutagenesis and functional studies. Surprisingly, the importer's ATPase activity was decreased upon FhuD binding, which deviated from the current understanding about bacterial ABC importers. In summary, to the best of our knowledge, these studies not only reveal a new structural twist in the type II ABC importer subfamily, but also provide biological insights in the transport of iron-chelated siderophores. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_23251.map.gz | 117.2 MB | EMDB map data format | |
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Header (meta data) | emd-23251-v30.xml emd-23251.xml | 12.2 KB 12.2 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_23251_fsc.xml | 11.4 KB | Display | FSC data file |
Images | emd_23251.png | 200.2 KB | ||
Filedesc metadata | emd-23251.cif.gz | 5.6 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-23251 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-23251 | HTTPS FTP |
-Validation report
Summary document | emd_23251_validation.pdf.gz | 581.9 KB | Display | EMDB validaton report |
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Full document | emd_23251_full_validation.pdf.gz | 581.5 KB | Display | |
Data in XML | emd_23251_validation.xml.gz | 12.2 KB | Display | |
Data in CIF | emd_23251_validation.cif.gz | 16.2 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-23251 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-23251 | HTTPS FTP |
-Related structure data
Related structure data | 7lb8MC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_23251.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | ferrichrome importer FhuCDB | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.799 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : holocomplex of ferrichrome importer FhuCDB
Entire | Name: holocomplex of ferrichrome importer FhuCDB |
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Components |
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-Supramolecule #1: holocomplex of ferrichrome importer FhuCDB
Supramolecule | Name: holocomplex of ferrichrome importer FhuCDB / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Escherichia coli (E. coli) / Strain: K-12 |
-Macromolecule #1: Iron(3+)-hydroxamate import system permease protein FhuB
Macromolecule | Name: Iron(3+)-hydroxamate import system permease protein FhuB type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Escherichia coli (strain K12) (bacteria) / Strain: K12 |
Molecular weight | Theoretical: 71.574867 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MSKRIALFPA LLLALLVIVA TALTWMNFSQ ALPRSQWAQA AWSPNINVIE QMIFHYSLLP RLAISLLVGA GLGLVGVLFQ QVLRNPLAE PTTLGVATGA QLGITVTTLW AIPGAMASQF AALAGACVVG LIVFGVAWGK RLSPVTLILA GLVVSLYCGA I NQLLVIFH ...String: MSKRIALFPA LLLALLVIVA TALTWMNFSQ ALPRSQWAQA AWSPNINVIE QMIFHYSLLP RLAISLLVGA GLGLVGVLFQ QVLRNPLAE PTTLGVATGA QLGITVTTLW AIPGAMASQF AALAGACVVG LIVFGVAWGK RLSPVTLILA GLVVSLYCGA I NQLLVIFH HDQLQSMFLW STGTLTQTDW GGVERLWPQL LGGVMLTLLL LRPLTLMGLD DGVARNLGLA LSLARLAALS LA IVISALL VNAVGIIGFI GLFAPLLAKM LGARRLLPRL MLASLIGALI LWLSDQIILW LTRVWMEVST GSVTALIGAP LLL WLLPRL RSISAPDMKV NDRVATERQH VLAFALAGGV LLLMAVVVAL SFGRDAHGWT WASGALLDDL MPWRWPRIMA ALFA GVMLA VAGCIIQRLT GNPMASPEVL GISSGAAFGV VLMLFLVPGN AFGWLLPAGS LGAAVTLLII MIAAGRGGFS PHRML LAGM ALSTAFTMLL MMLQASGDPR MAQVLTWISG STYNATDAQV WRTGIVMVIL LAITPLCRRW LTILPLGGDT ARAVGM ALT PTRIALLLLA ACLTATATMT IGPLSFVGLM APHIARMMGF RRTMPHIVIS ALVGGLLLVF ADWCGRMVLF PFQIPAG LL STFIGAPYFI YLLRKQSRHH HHHHHH UniProtKB: Iron(3+)-hydroxamate import system permease protein FhuB |
-Macromolecule #2: Iron(3+)-hydroxamate-binding protein FhuD
Macromolecule | Name: Iron(3+)-hydroxamate-binding protein FhuD / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Escherichia coli (strain K12) (bacteria) / Strain: K12 |
Molecular weight | Theoretical: 33.030258 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MSGLPLISRR RLLTAMALSP LLWQMNTAHA AAIDPNRIVA LEWLPVELLL ALGIVPYGVA DTINYRLWVS EPPLPDSVID VGLRTEPNL ELLTTMRPSF MVWSAGYGPS PEMLARIAPG RGFNFSDGKQ PLAMARKSLT EMADLLNLQS AAETHLAQYE D FIRSMKPR ...String: MSGLPLISRR RLLTAMALSP LLWQMNTAHA AAIDPNRIVA LEWLPVELLL ALGIVPYGVA DTINYRLWVS EPPLPDSVID VGLRTEPNL ELLTTMRPSF MVWSAGYGPS PEMLARIAPG RGFNFSDGKQ PLAMARKSLT EMADLLNLQS AAETHLAQYE D FIRSMKPR FVKRGARPLL LTTLIDPRHM LVFGPNSLFQ EILDEYGIPN AWQGETNFWG STAVSIDRLA AYKDVDVLCF DH DNSKDMD ALMATPLWQA MPFVRAGRFQ RVPAVWFYGA TLSAMHFVRV LDNAIGGKA UniProtKB: Iron(3+)-hydroxamate-binding protein FhuD |
-Macromolecule #3: Iron(3+)-hydroxamate import ATP-binding protein FhuC
Macromolecule | Name: Iron(3+)-hydroxamate import ATP-binding protein FhuC / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO / EC number: ABC-type ferric hydroxamate transporter |
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Source (natural) | Organism: Escherichia coli (strain K12) (bacteria) / Strain: K12 |
Molecular weight | Theoretical: 28.921424 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MQEYTNHSDT TFALRNISFR VPGRTLLHPL SLTFPAGKVT GLIGHNGSGK STLLKMLGRH QPPSEGEILL DAQPLESWSS KAFARKVAY LPQQLPPAEG MTVRELVAIG RYPWHGALGR FGAADREKVE EAISLVGLKP LAHRLVDSLS GGERQRAWIA M LVAQDSRC ...String: MQEYTNHSDT TFALRNISFR VPGRTLLHPL SLTFPAGKVT GLIGHNGSGK STLLKMLGRH QPPSEGEILL DAQPLESWSS KAFARKVAY LPQQLPPAEG MTVRELVAIG RYPWHGALGR FGAADREKVE EAISLVGLKP LAHRLVDSLS GGERQRAWIA M LVAQDSRC LLLDEPTSAL DIAHQVDVLS LVHRLSQERG LTVIAVLHDI NMAARYCDYL VALRGGEMIA QGTPAEIMRG ET LEMIYGI PMGILPHPAG AAPVSFVY UniProtKB: Iron(3+)-hydroxamate import ATP-binding protein FhuC |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 65.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |