+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-38906 | |||||||||
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Title | Cell divisome sPG hydrolysis machinery FtsEX-EnvC | |||||||||
Map data | ||||||||||
Sample |
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Keywords | CELL DIVISION / MEMBRANE PROTEIN | |||||||||
Function / homology | Function and homology information division septum / divisome complex / peptidoglycan-based cell wall biogenesis / Gram-negative-bacterium-type cell wall / septum digestion after cytokinesis / peptidoglycan turnover / plasma membrane protein complex / FtsZ-dependent cytokinesis / division septum assembly / cell division site ...division septum / divisome complex / peptidoglycan-based cell wall biogenesis / Gram-negative-bacterium-type cell wall / septum digestion after cytokinesis / peptidoglycan turnover / plasma membrane protein complex / FtsZ-dependent cytokinesis / division septum assembly / cell division site / extrinsic component of membrane / ATPase complex / positive regulation of cell division / transmembrane transporter activity / response to radiation / transmembrane transport / metalloendopeptidase activity / outer membrane-bounded periplasmic space / periplasmic space / hydrolase activity / response to xenobiotic stimulus / cell cycle / cell division / response to antibiotic / ATP hydrolysis activity / ATP binding / plasma membrane / cytoplasm Similarity search - Function | |||||||||
Biological species | Escherichia coli (E. coli) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.11 Å | |||||||||
Authors | Zhang Z / Dong H / Chen Y | |||||||||
Funding support | China, 1 items
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Citation | Journal: To Be Published Title: Structural insight into the septal peptidoglycan hydrolysis machinery of bacterial cell division Authors: Zhang Z / Chen Y | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_38906.map.gz | 685 MB | EMDB map data format | |
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Header (meta data) | emd-38906-v30.xml emd-38906.xml | 15.6 KB 15.6 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_38906_fsc.xml | 19 KB | Display | FSC data file |
Images | emd_38906.png | 43.5 KB | ||
Masks | emd_38906_msk_1.map | 729 MB | Mask map | |
Filedesc metadata | emd-38906.cif.gz | 5.7 KB | ||
Others | emd_38906_half_map_1.map.gz emd_38906_half_map_2.map.gz | 677.2 MB 677.2 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-38906 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-38906 | HTTPS FTP |
-Related structure data
Related structure data | 8y3xMC 8hd0C M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_38906.map.gz / Format: CCP4 / Size: 729 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.84 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | emd_38906_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_38906_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_38906_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : FtsEX-EnvC
Entire | Name: FtsEX-EnvC |
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Components |
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-Supramolecule #1: FtsEX-EnvC
Supramolecule | Name: FtsEX-EnvC / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#3 |
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Source (natural) | Organism: Escherichia coli (E. coli) |
-Macromolecule #1: Cell division ATP-binding protein FtsE
Macromolecule | Name: Cell division ATP-binding protein FtsE / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Escherichia coli (E. coli) |
Molecular weight | Theoretical: 24.475295 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MIRFEHVSKA YLGGRQALQG VTFHMQPGEM AFLTGHSGAG KSTLLKLICG IERPSAGKIW FSGHDITRLK NREVPFLRRQ IGMIFQDHH LLMDRTVYDN VAIPLIIAGA SGDDIRRRVS AALDKVGLLD KAKNFPIQLS GGEQQRVGIA RAVVNKPAVL L ADQPTGNL ...String: MIRFEHVSKA YLGGRQALQG VTFHMQPGEM AFLTGHSGAG KSTLLKLICG IERPSAGKIW FSGHDITRLK NREVPFLRRQ IGMIFQDHH LLMDRTVYDN VAIPLIIAGA SGDDIRRRVS AALDKVGLLD KAKNFPIQLS GGEQQRVGIA RAVVNKPAVL L ADQPTGNL DDALSEGILR LFEEFNRVGV TVLMATHDIN LISRRSYRML TLSDGHLHGG VGHE UniProtKB: Cell division ATP-binding protein FtsE |
-Macromolecule #2: Cell division protein FtsX
Macromolecule | Name: Cell division protein FtsX / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Escherichia coli (E. coli) |
Molecular weight | Theoretical: 38.5835 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MNKRDAINHI RQFGGRLDRF RKSVGGSGDG GRNAPKRAKS SPKPVNRKTN VFNEQVRYAF HGALQDLKSK PFATFLTVMV IAISLTLPS VCYMVYKNVN QAATQYYPSP QITVYLQKTL DDDAAAGVVA QLQAEQGVEK VNYLSREDAL GEFRNWSGFG G ALDMLEEN ...String: MNKRDAINHI RQFGGRLDRF RKSVGGSGDG GRNAPKRAKS SPKPVNRKTN VFNEQVRYAF HGALQDLKSK PFATFLTVMV IAISLTLPS VCYMVYKNVN QAATQYYPSP QITVYLQKTL DDDAAAGVVA QLQAEQGVEK VNYLSREDAL GEFRNWSGFG G ALDMLEEN PLPAVAVVIP KLDFQGTESL NTLRDRITQI NGIDEVRMDD SWFARLAALT GLVGRVSAMI GVLMVAAVFL VI GNSVRLS IFARRDSINV QKLIGATDGF ILRPFLYGGA LLGFSGALLS LILSEILVLR LSSAVAEVAQ VFGTKFDING LSF DECLLL LLVCSMIGWV AAWLATVQHL RHFTPE UniProtKB: Cell division protein FtsX |
-Macromolecule #3: Murein hydrolase activator EnvC
Macromolecule | Name: Murein hydrolase activator EnvC / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Escherichia coli (E. coli) |
Molecular weight | Theoretical: 46.661617 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MTRAVKPRRF AIRPIIYASV LSAGVLLCAF SAHADERDQL KSIQADIAAK ERAVRQKQQQ RASLLAQLKK QEEAISEATR KLRETQNTL NQLNKQIDEM NASIAKLEQQ KAAQERSLAA QLDAAFRQGE HTGIQLILSG EESQRGQRLQ AYFGYLNQAR Q ETIAQLKQ ...String: MTRAVKPRRF AIRPIIYASV LSAGVLLCAF SAHADERDQL KSIQADIAAK ERAVRQKQQQ RASLLAQLKK QEEAISEATR KLRETQNTL NQLNKQIDEM NASIAKLEQQ KAAQERSLAA QLDAAFRQGE HTGIQLILSG EESQRGQRLQ AYFGYLNQAR Q ETIAQLKQ TREEVAMQRA ELEEKQSEQQ TLLYEQRAQQ AKLTQALNER KKTLAGLESS IQQGQQQLSE LRANESRLRN SI ARAEAAA KARAEREARE AQAVRDRQKE ATRKGTTYKP TESEKSLMSR TGGLGAPRGQ AFWPVRGPTL HRYGEQLQGE LRW KGMVIG ASEGTEVKAI ADGRVILADW LQGYGLVVVV EHGKGDMSLY GYNQSALVSV GSQVRAGQPI ALVGSSGGQG RPSL YFEIR RQGQAVNPQP WLGR UniProtKB: Murein hydrolase activator EnvC |
-Macromolecule #4: ADENOSINE-5'-TRIPHOSPHATE
Macromolecule | Name: ADENOSINE-5'-TRIPHOSPHATE / type: ligand / ID: 4 / Number of copies: 2 / Formula: ATP |
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Molecular weight | Theoretical: 507.181 Da |
Chemical component information | ChemComp-ATP: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 1 mg/mL |
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Buffer | pH: 8 |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: OTHER / Imaging mode: OTHER / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.0 µm |
Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 60.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |