+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-37318 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | DegQ-b-casein complex | |||||||||
Map data | ||||||||||
Sample |
| |||||||||
Keywords | Complex / HYDROLASE | |||||||||
Function / homology | Function and homology information | |||||||||
Biological species | Escherichia coli (E. coli) / Bos taurus (cattle) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.6 Å | |||||||||
Authors | Lee I-G / Jeon H | |||||||||
Funding support | 1 items
| |||||||||
Citation | Journal: To Be Published Title: Structure of E. coli Deg-b-casein complex Authors: Lee I-G / Jeon H | |||||||||
History |
|
-Structure visualization
Supplemental images |
---|
-Downloads & links
-EMDB archive
Map data | emd_37318.map.gz | 1.3 GB | EMDB map data format | |
---|---|---|---|---|
Header (meta data) | emd-37318-v30.xml emd-37318.xml | 14.4 KB 14.4 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_37318_fsc.xml | 25.4 KB | Display | FSC data file |
Images | emd_37318.png | 39.9 KB | ||
Filedesc metadata | emd-37318.cif.gz | 5.4 KB | ||
Others | emd_37318_half_map_1.map.gz emd_37318_half_map_2.map.gz | 1.3 GB 1.3 GB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-37318 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-37318 | HTTPS FTP |
-Validation report
Summary document | emd_37318_validation.pdf.gz | 1.2 MB | Display | EMDB validaton report |
---|---|---|---|---|
Full document | emd_37318_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | emd_37318_validation.xml.gz | 33.9 KB | Display | |
Data in CIF | emd_37318_validation.cif.gz | 44.9 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-37318 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-37318 | HTTPS FTP |
-Related structure data
Related structure data | 8w69MC C: citing same article (ref.) M: atomic model generated by this map |
---|---|
Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
---|
-Map
File | Download / File: emd_37318.map.gz / Format: CCP4 / Size: 1.4 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.43675 Å | ||||||||||||||||||||||||||||||||||||
Density |
| ||||||||||||||||||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
|
-Supplemental data
-Half map: #2
File | emd_37318_half_map_1.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Projections & Slices |
| ||||||||||||
Density Histograms |
-Half map: #1
File | emd_37318_half_map_2.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Projections & Slices |
| ||||||||||||
Density Histograms |
-Sample components
-Entire : DegQ-beta casein complex
Entire | Name: DegQ-beta casein complex |
---|---|
Components |
|
-Supramolecule #1: DegQ-beta casein complex
Supramolecule | Name: DegQ-beta casein complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
---|---|
Source (natural) | Organism: Escherichia coli (E. coli) |
-Macromolecule #1: peptidase Do
Macromolecule | Name: peptidase Do / type: protein_or_peptide / ID: 1 / Number of copies: 6 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Escherichia coli (E. coli) |
Molecular weight | Theoretical: 48.361047 KDa |
Recombinant expression | Organism: Escherichia coli BL21(DE3) (bacteria) |
Sequence | String: MKKQTQLLSA LALSVGLTLS ASFQAVASIP GQVADQAPLP SLAPMLEKVL PAVVSVRVEG TASQGQKIPE EFKKFFGDDL PDQPAQPFE GLGSGVIINA SKGYVLTNNH VINQAQKISI QLNDGREFDA KLIGSDDQSD IALLQIQNPS KLTQIAIADS D KLRVGDFA ...String: MKKQTQLLSA LALSVGLTLS ASFQAVASIP GQVADQAPLP SLAPMLEKVL PAVVSVRVEG TASQGQKIPE EFKKFFGDDL PDQPAQPFE GLGSGVIINA SKGYVLTNNH VINQAQKISI QLNDGREFDA KLIGSDDQSD IALLQIQNPS KLTQIAIADS D KLRVGDFA VAVGNPFGLG QTATSGIVSA LGRSGLNLEG LENFIQTDAS INRGNAGGAL LNLNGELIGI NTAILAPGGG SV GIGFAIP SNMARTLAQQ LIDFGEIKRG LLGIKGTEMS ADIAKAFNLD VQRGAFVSEV LPGSGSAKAG VKAGDIITSL NGK PLNSFA ELRSRIATTE PGTKVKLGLL RNGKPLEVEV TLDTSTSSSA SAEMITPALE GATLSDGQLK DGGKGIKIDE VVKG SPAAQ AGLQKDDVII GVNRDRVNSI AEMRKVLAAK PAIIALQIVR GNESIYLLMR LWHHHHHH UniProtKB: peptidase Do |
-Macromolecule #2: Casein fragment
Macromolecule | Name: Casein fragment / type: protein_or_peptide / ID: 2 Details: We would like to assign these residues as unknown (UNK). Number of copies: 1 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Bos taurus (cattle) |
Molecular weight | Theoretical: 783.958 Da |
Sequence | String: (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) |
-Macromolecule #3: Casein fragment
Macromolecule | Name: Casein fragment / type: protein_or_peptide / ID: 3 Details: We would like to assign these residues as unknown (UNK) Number of copies: 2 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Bos taurus (cattle) |
Molecular weight | Theoretical: 613.749 Da |
Sequence | String: (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
Processing | single particle reconstruction |
Aggregation state | cell |
-Sample preparation
Buffer | pH: 7.5 |
---|---|
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | TFS GLACIOS |
---|---|
Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.9 µm |