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- EMDB-41307: KS-AT core of 6-deoxyerythronolide B synthase (DEBS) Module 3 cro... -
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Open data
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Basic information
Entry | ![]() | |||||||||||||||
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Title | KS-AT core of 6-deoxyerythronolide B synthase (DEBS) Module 3 crosslinked with its elongation ACP partner | |||||||||||||||
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![]() | polyketide synthase / antibody / BIOSYNTHETIC PROTEIN | |||||||||||||||
Function / homology | ![]() macrolide biosynthetic process / DIM/DIP cell wall layer assembly / fatty acid synthase activity / phosphopantetheine binding / 3-oxoacyl-[acyl-carrier-protein] synthase activity / fatty acid biosynthetic process / oxidoreductase activity / plasma membrane / cytoplasm Similarity search - Function | |||||||||||||||
Biological species | ![]() | |||||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.71 Å | |||||||||||||||
![]() | Cogan DP / Soohoo AM / Chen M / Brodsky KL / Liu Y / Khosla C | |||||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural Basis for Intermodular Communication in Assembly-Line Polyketide Biosynthesis Authors: Cogan DP / Soohoo AM / Chen M / Liu Y / Brodsky KL / Khosla C | |||||||||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 171.2 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 18.3 KB 18.3 KB | Display Display | ![]() |
Images | ![]() | 27.7 KB | ||
Filedesc metadata | ![]() | 6.5 KB | ||
Others | ![]() ![]() | 318.2 MB 318.2 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 959.3 KB | Display | ![]() |
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Full document | ![]() | 958.9 KB | Display | |
Data in XML | ![]() | 17.4 KB | Display | |
Data in CIF | ![]() | 20.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8tjpMC ![]() 8tjnC ![]() 8tjoC C: citing same article ( M: atomic model generated by this map |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.946 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_41307_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_41307_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : KS-AT core of DEBS Module 3 crosslinked with its elongation ACP p...
Entire | Name: KS-AT core of DEBS Module 3 crosslinked with its elongation ACP partner |
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Components |
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-Supramolecule #1: KS-AT core of DEBS Module 3 crosslinked with its elongation ACP p...
Supramolecule | Name: KS-AT core of DEBS Module 3 crosslinked with its elongation ACP partner type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 210 KDa |
-Macromolecule #1: EryAII
Macromolecule | Name: EryAII / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 99.76575 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MVTDSEKVAE YLRRATLDLR AARQRIRELE SDPIAIVSMA CRLPGGVNTP QRLWELLREG GETLSGFPTD RGWDLARLHH PDPDNPGTS YVDKGGFLDD AAGFDAEFFG VSPREAAAMD PQQRLLLETS WELVENAGID PHSLRGTATG VFLGVAKFGY G EDTAAAED ...String: MVTDSEKVAE YLRRATLDLR AARQRIRELE SDPIAIVSMA CRLPGGVNTP QRLWELLREG GETLSGFPTD RGWDLARLHH PDPDNPGTS YVDKGGFLDD AAGFDAEFFG VSPREAAAMD PQQRLLLETS WELVENAGID PHSLRGTATG VFLGVAKFGY G EDTAAAED VEGYSVTGVA PAVASGRISY TMGLEGPSIS VDTACSSSLV ALHLAVESLR KGESSMAVVG GAAVMATPGV FV DFSRQRA LAADGRSKAF GAGADGFGFS EGVTLVLLER LSEARRNGHE VLAVVRGSAL NQDGASNGLS APSGPAQRRV IRQ ALESCG LEPGDVDAVE AHGTGTALGD PIEANALLDT YGRDRDADRP LWLGSVKSNI GHTQAAAGVT GLLKVVLALR NGEL PATLH VEEPTPHVDW SSGGVALLAG NQPWRRGERT RRAAVSAFGI SGTNAHVIVE EAPEREHRET TAHDGRPVPL VVSAR STAA LRAQAAQIAE LLERPDADLA GVGLGLATTR ARHEHRAAVV ASTREEAVRG LREIAAGAAT ADAVVEGVTE VDGRNV VFL FPGQGSQWAG MGAELLSSSP VFAGKIRACD ESMAPMQDWK VSDVLRQAPG APGLDRVDVV QPVLFAVMVS LAELWRS YG VEPAAVVGHS QGEIAAAHVA GALTLEDAAK LVVGRSRLMR SLSGEGGMAA VALGEAAVRE RLRPWQDRLS VAAVNGPR S VVVSGEPGAL RAFSEDCAAE GIRVRDIDVD YASHSPQIER VREELLETTG DIAPRPARVT FHSTVESRSM DGTELDARY WYRNLRETVR FADAVTRLAE SGYDAFIEVS PHPVVVQAVE EAVEEADGAE DAVVVGSLHR DGGDLSAFLR SMATAHVSGV DIRWDVALP GAAPFALPTY PFQRKRYWLQ PAAPAAASDE LAYRSSSVDK LAAALEHHHH HH UniProtKB: EryAII |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 8 mg/mL | ||||||||||||
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Buffer | pH: 7.2 Component:
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Grid | Model: Quantifoil R2/1 / Material: COPPER / Mesh: 300 / Support film - Material: CARBON / Support film - topology: HOLEY / Support film - Film thickness: 11 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec. / Details: 30 s glow, 10 s hold, 15 mA | ||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Number grids imaged: 1 / Number real images: 4601 / Average exposure time: 6.45 sec. / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 150.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 130000 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |