+Open data
-Basic information
Entry | Database: PDB / ID: 8i8e | ||||||
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Title | Acyl-ACP synthetase structure bound to C18:1-ACP | ||||||
Components |
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Keywords | TRANSPORT PROTEIN/CYTOSOLIC PROTEIN / Acyl-ACP synthetase / Tool enzyme / CYTOSOLIC PROTEIN / Ligase / TRANSPORT PROTEIN-CYTOSOLIC PROTEIN complex | ||||||
Function / homology | Function and homology information Kdo2-lipid A biosynthetic process / lipid A biosynthetic process / ligase activity / acyl binding / acyl carrier activity / cytosol Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) Vibrio harveyi (bacteria) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.63 Å | ||||||
Authors | Huang, H. / Wang, C. / Chang, S. / Cui, T. / Xu, Y. / Zhang, H. / Zhou, C. / Zhang, X. / Feng, Y. | ||||||
Funding support | China, 1items
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Citation | Journal: To Be Published Title: Acyl-ACP synthetase structure bound to C18:1-ACP Authors: Huang, H. / Wang, C. / Chang, S. / Cui, T. / Xu, Y. / Zhang, H. / Zhou, C. / Zhang, X. / Feng, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8i8e.cif.gz | 694.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8i8e.ent.gz | 575.7 KB | Display | PDB format |
PDBx/mmJSON format | 8i8e.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8i8e_validation.pdf.gz | 1.9 MB | Display | wwPDB validaton report |
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Full document | 8i8e_full_validation.pdf.gz | 1.8 MB | Display | |
Data in XML | 8i8e_validation.xml.gz | 101.8 KB | Display | |
Data in CIF | 8i8e_validation.cif.gz | 151.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/i8/8i8e ftp://data.pdbj.org/pub/pdb/validation_reports/i8/8i8e | HTTPS FTP |
-Related structure data
Related structure data | 35249MC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
#1: Protein | Mass: 8645.460 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: acpP / Production host: Escherichia coli (E. coli) / References: UniProt: F4SVY1 #2: Protein | Mass: 60496.258 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Vibrio harveyi (bacteria) / Gene: aasS, AL538_21690 / Production host: Escherichia coli (E. coli) / References: UniProt: Q00IB3 #3: Chemical | ChemComp-PNS / #4: Chemical | ChemComp-AMP / #5: Chemical | ChemComp-OLA / Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: Acyl-ACP Synthetase bound to C18:1-ACP / Type: COMPLEX / Entity ID: #1-#2 / Source: MULTIPLE SOURCES |
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Source (natural) | Organism: Vibrio harveyi (bacteria) |
Source (recombinant) | Organism: Escherichia coli (E. coli) |
Buffer solution | pH: 8 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy imaging
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 2500 nm / Nominal defocus min: 1500 nm |
Image recording | Electron dose: 50 e/Å2 / Film or detector model: GATAN K2 SUMMIT (4k x 4k) |
-Processing
Software | Name: PHENIX / Version: 1.20.1_4487: / Classification: refinement | ||||||||||||||||||||||||
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CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||
3D reconstruction | Resolution: 2.63 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 299233 / Symmetry type: POINT | ||||||||||||||||||||||||
Refine LS restraints |
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