+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-36376 | |||||||||
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Title | membrane proteins | |||||||||
Map data | ||||||||||
Sample |
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Keywords | enzyme / acetylation / MEMBRANE PROTEIN | |||||||||
Function / homology | Function and homology information heparan-alpha-glucosaminide N-acetyltransferase / heparan-alpha-glucosaminide N-acetyltransferase activity / MPS IIIC - Sanfilippo syndrome C / heparan sulfate proteoglycan catabolic process / HS-GAG degradation / lysosomal transport / acyltransferase activity / tertiary granule membrane / specific granule membrane / lysosomal lumen ...heparan-alpha-glucosaminide N-acetyltransferase / heparan-alpha-glucosaminide N-acetyltransferase activity / MPS IIIC - Sanfilippo syndrome C / heparan sulfate proteoglycan catabolic process / HS-GAG degradation / lysosomal transport / acyltransferase activity / tertiary granule membrane / specific granule membrane / lysosomal lumen / protein complex oligomerization / lysosomal membrane / Neutrophil degranulation / plasma membrane Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.87 Å | |||||||||
Authors | Yu J / Ge JP / Ruisheng X | |||||||||
Funding support | China, 1 items
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Citation | Journal: To Be Published Title: membrane proteins Authors: Yu J / Ge JP / Ruisheng X | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_36376.map.gz | 229.9 MB | EMDB map data format | |
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Header (meta data) | emd-36376-v30.xml emd-36376.xml | 14.9 KB 14.9 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_36376_fsc.xml | 13.2 KB | Display | FSC data file |
Images | emd_36376.png | 92.7 KB | ||
Filedesc metadata | emd-36376.cif.gz | 5.7 KB | ||
Others | emd_36376_half_map_1.map.gz emd_36376_half_map_2.map.gz | 226.5 MB 226.5 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-36376 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-36376 | HTTPS FTP |
-Validation report
Summary document | emd_36376_validation.pdf.gz | 764.8 KB | Display | EMDB validaton report |
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Full document | emd_36376_full_validation.pdf.gz | 764.3 KB | Display | |
Data in XML | emd_36376_validation.xml.gz | 21.6 KB | Display | |
Data in CIF | emd_36376_validation.cif.gz | 27.4 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-36376 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-36376 | HTTPS FTP |
-Related structure data
Related structure data | 8jkvMC 8jl1C 8jl3C 8jl4C 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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-Map
File | Download / File: emd_36376.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.83 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_36376_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_36376_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : HG
Entire | Name: HG |
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Components |
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-Supramolecule #1: HG
Supramolecule | Name: HG / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Homo sapiens (human) |
-Macromolecule #1: Heparan-alpha-glucosaminide N-acetyltransferase
Macromolecule | Name: Heparan-alpha-glucosaminide N-acetyltransferase / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO / EC number: heparan-alpha-glucosaminide N-acetyltransferase |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 77.183992 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: MTGARASAAE QRRAGRSGQA RAAERAAGMS GAGRALAALL LAASVLSAAL LAPGGSSGRD AQAAPPRDLD KKRHAELKMD QALLLIHNE LLWTNLTVYW KSECCYHCLF QVLVNVPQSP KAGKPSAAAA SVSTQHGSIL QLNDTLEEKE VCRLEYRFGE F GNYSLLVK ...String: MTGARASAAE QRRAGRSGQA RAAERAAGMS GAGRALAALL LAASVLSAAL LAPGGSSGRD AQAAPPRDLD KKRHAELKMD QALLLIHNE LLWTNLTVYW KSECCYHCLF QVLVNVPQSP KAGKPSAAAA SVSTQHGSIL QLNDTLEEKE VCRLEYRFGE F GNYSLLVK NIHNGVSEIA CDLAVNEDPV DSNLPVSIAF LIGLAVIIVI SFLRLLLSLD DFNNWISKAI SSRETDRLIN SE LGSPSRT DPLDGDVQPA TWRLSALPPR LRSVDTFRGI ALILMVFVNY GGGKYWYFKH ASWNGLTVAD LVFPWFVFIM GSS IFLSMT SILQRGCSKF RLLGKIAWRS FLLICIGIII VNPNYCLGPL SWDKVRIPGV LQRLGVTYFV VAVLELLFAK PVPE HCASE RSCLSLRDIT SSWPQWLLIL VLEGLWLGLT FLLPVPGCPT GYLGPGGIGD FGKYPNCTGG AAGYIDRLLL GDDHL YQHP SSAVLYHTEV AYDPEGILGT INSIVMAFLG VQAGKILLYY KARTKDILIR FTAWCCILGL ISVALTKVSE NEGFIP VNK NLWSLSYVTT LSSFAFFILL VLYPVVDVKG LWTGTPFFYP GMNSILVYVG HEVFENYFPF QWKLKDNQSH KEHLTQN IV ATALWVLIAY ILYRKKIFWK IGSGGGGSGG GGSGGGWSHP QFEKGGGSGG GSGGSAWSHP QFEK UniProtKB: Heparan-alpha-glucosaminide N-acetyltransferase |
-Macromolecule #3: 2-acetamido-2-deoxy-beta-D-glucopyranose
Macromolecule | Name: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 3 / Number of copies: 2 / Formula: NAG |
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Molecular weight | Theoretical: 221.208 Da |
Chemical component information | ChemComp-NAG: |
-Macromolecule #4: DODECANE
Macromolecule | Name: DODECANE / type: ligand / ID: 4 / Number of copies: 6 / Formula: D12 |
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Molecular weight | Theoretical: 170.335 Da |
Chemical component information | ChemComp-D12: |
-Macromolecule #5: N-OCTANE
Macromolecule | Name: N-OCTANE / type: ligand / ID: 5 / Number of copies: 30 / Formula: OCT |
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Molecular weight | Theoretical: 114.229 Da |
Chemical component information | ChemComp-OCT: |
-Macromolecule #6: TETRADECANE
Macromolecule | Name: TETRADECANE / type: ligand / ID: 6 / Number of copies: 24 / Formula: C14 |
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Molecular weight | Theoretical: 198.388 Da |
Chemical component information | ChemComp-C14: |
-Macromolecule #7: CHOLESTEROL
Macromolecule | Name: CHOLESTEROL / type: ligand / ID: 7 / Number of copies: 2 / Formula: CLR |
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Molecular weight | Theoretical: 386.654 Da |
Chemical component information | ChemComp-CLR: |
-Macromolecule #8: DECANE
Macromolecule | Name: DECANE / type: ligand / ID: 8 / Number of copies: 2 / Formula: D10 |
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Molecular weight | Theoretical: 142.282 Da |
Chemical component information | ChemComp-D10: |
-Macromolecule #9: HEXADECANE
Macromolecule | Name: HEXADECANE / type: ligand / ID: 9 / Number of copies: 2 / Formula: R16 |
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Molecular weight | Theoretical: 226.441 Da |
Chemical component information | ChemComp-R16: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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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: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.8 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |