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C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM
by electron microscopy, at 4.7 A resolution
#1: Depositted structure unit, Made by Jmol
#2: Superimposing with EM 3D map: EMDB-5002, Made by UCSF CHIMERA
#3: Superimposing with EM 3D map: EMDB-5002, Made by UCSF CHIMERA
 Entry | |
| Summary | |
| Database / ID | PORTEIN DATA BANK (PDB) / 3c9v |
|---|---|
| Title | C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM |
| Descriptor | 60 kDa chaperonin |
| Keywords |  CHAPERONE, GroEL, ATP-binding, Cell cycle, Cell division, Chaperone, Nucleotide-binding, Phosphoprotein |
| PDBj Mine pages |  Summary, Structural Details, Experimental Details, Functional Details |
| Other databases | RCSB-PDB, PDBe, CATH, CE, FSSP, SCOP, VAST |
| Structure Visualization | |
| Movies |  Movie Page#1: Depositted structure unit, Made by Jmol #2: Superimposing with EM 3D map: EMDB-5002, Made by UCSF CHIMERA #3: Superimposing with EM 3D map: EMDB-5002, Made by UCSF CHIMERA |
| Structure viewers |  Yorodumi, jV4, Jmol,  Biological unit (Images, jV) |
| Related Structure Data | |
| Related Entries |
Fit: target map of fitting |
| Similar strucutres (beta) |
 List of similar structure data  about Omokage system |
 Article | |
| Citation - primary | |
| Article | Structure, Vol. 16, Page: 441 - 448, Year: 2008, |
|---|---|
| Title | De Novo Backbone Trace of GroEL from Single Particle Electron Cryomicroscopy. |
| Authors | Ludtke, S.J., Baker, M.L., Chen, D.H., Song, J.L., Chuang, D.T., Chiu, W. |
| Links | DOI: 10.1016/j.str.2008.02.007 |
 Components | |
| ID 1 : Protein Cpn60, groEL protein | |
| Image |   |
|---|---|
| Description | 60 kDa chaperonin |
| Type | polypeptide(L) |
| Fragment | residues 2-527 |
| Formula weight | 55463.934 Da |
| Number of molecules | 14 |
| ID | 1 |
| Source | Method: Isolated from a genetically manipulated source Gene: groL, groEL, mopA, Escherichia coli Host: Escherichia coli
Plasmid name: pGroESL |
| Links | UniProt: P0A6F5, Sequence view |
 Sample | |
| Assembly | |
| Aggregation state | PARTICLE |
|---|---|
| Name | GroEL |
| Entity assembly | |
| Assembly-ID | 1 |
| Details | 14-mer. Two back to back homo-heptameric rings. |
| GO-ID | GO:0006457 |
| InterPro-ID | IPR:012723 |
| Name | GroEL |
| Buffer | |
| Name | 20 mM Tris.HCl, pH 7.5, 50 mM MgCl2 |
| Sample preparation | |
| pH | 7.5 |
| Vitrification | |
| Details | ETHANE. Vitrobot, blot for 2 sec. |
| Experiment | |
| Method | ELECTRON MICROSCOPY |
 Electron Microscopy | |
| Imaging | |
| Microscope | Model: JEOL 3200SFF |
|---|---|
| Date | 2005 |
| Electron gun | |
| Electron source | Field Emission Gun |
| Accelerating voltage | 300 kV |
| Electron dose | 36 e/A**2 |
| Illumination mode | Flood Beam |
| Lens | |
| Mode | Bright Field |
| Magnification | Nominal: 60000 X |
| Cs | Nominal: 1.6 mm |
| Nominal defocus | Max: 2300 nm, Min: 900 nm |
| Specimen holder | |
| Tilt angle | Min: 0 degrees, Max: 0 degrees |
| Temperature | 4 Kelvin |
| Detector | |
| Type | Kodak SO163 film |
 Processing | |
| 3D reconstruction | |
| CTF correction method | per micrograph |
|---|---|
| Details | C7 symmetry, This entry contains CA atom only |
| Method | EMAN, single particle |
| Nominal pixel size | 1.06 A/pix |
| Resolution | 4.7 A |
| Refine hist | |
| Cycle id | LAST |
| Refine id | ELECTRON MICROSCOPY |
| Total atoms | 7364 |
| Protein atoms | 7364 |
 Download | |||
| PDB format | |||
| All | pdb3c9v.ent.gzpdb3c9v.ent (uncompressed file) | ||
|---|---|---|---|
| Header only | pdb3c9v.ent.gz | ||
| mmCIF format | |||
| mmCIF | 3c9v.cif.gz | ||
| XML format | |||
| All | 3c9v.xml.gz | ||
| No-atom | 3c9v-noatom.xml.gz | ||
| Ext-atom | 3c9v-extatom.xml.gz | ||
| Movie files | |||
| movie #1 |
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| movie #2 |
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| movie #3 |
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