+Open data
-Basic information
Entry | Database: PDB / ID: 4bm5 | ||||||
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Title | Chloroplast inner membrane protein TIC110 | ||||||
Components | SIMILAR TO CHLOROPLAST INNER MEMBRANE PROTEIN TIC110 | ||||||
Keywords | PROTEIN TRANSPORT | ||||||
Function / homology | Protein TIC110, chloroplastic / Chloroplast envelope transporter / TOC-TIC supercomplex I / protein import into chloroplast stroma / membrane / Similar to chloroplast inner membrane protein Tic110 Function and homology information | ||||||
Biological species | CYANIDIOSCHYZON MEROLAE (eukaryote) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / OTHER / Resolution: 4.2 Å | ||||||
Authors | Tsai, J.-Y. / Chu, C.-C. / Yeh, Y.-H. / Chen, L.-J. / Li, H.-m. / Hsiao, C.-D. | ||||||
Citation | Journal: Plant J. / Year: 2013 Title: Structural Characterizations of Chloroplast Translocon Protein Tic110. Authors: Tsai, J.-Y. / Chu, C.-C. / Yeh, Y.-H. / Chen, L.-J. / Li, H.-M. / Hsiao, C.-D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4bm5.cif.gz | 52.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4bm5.ent.gz | 33.8 KB | Display | PDB format |
PDBx/mmJSON format | 4bm5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4bm5_validation.pdf.gz | 419.9 KB | Display | wwPDB validaton report |
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Full document | 4bm5_full_validation.pdf.gz | 438.4 KB | Display | |
Data in XML | 4bm5_validation.xml.gz | 12.8 KB | Display | |
Data in CIF | 4bm5_validation.cif.gz | 16.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bm/4bm5 ftp://data.pdbj.org/pub/pdb/validation_reports/bm/4bm5 | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 39470.633 Da / Num. of mol.: 1 / Fragment: RESIDUES 871-1218 Source method: isolated from a genetically manipulated source Source: (gene. exp.) CYANIDIOSCHYZON MEROLAE (eukaryote) / Strain: 10D / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: M1V6H9 |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 6.5 Å3/Da / Density % sol: 81.08 % / Description: NONE |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSRRC / Beamline: BL13B1 / Wavelength: 0.9787 |
Detector | Type: ADSC CCD / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9787 Å / Relative weight: 1 |
Reflection | Resolution: 4.2→30 Å / Num. obs: 8171 / % possible obs: 99.7 % / Observed criterion σ(I): 2 / Redundancy: 12.5 % / Rmerge(I) obs: 0.1 / Net I/σ(I): 27.8 |
-Processing
Software |
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Refinement | Method to determine structure: OTHER Starting model: NONE Resolution: 4.2→27.37 Å / Rfactor Rfree error: 0.014 / Data cutoff high absF: 185959.3 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 2 / Details: BULK SOLVENT MODEL USED
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 1339.51 Å2 / ksol: 0.5 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 74.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 4.2→27.37 Å
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Refine LS restraints |
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Refine LS restraints NCS | NCS model details: NONE | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 4.2→4.46 Å / Rfactor Rfree error: 0.045 / Total num. of bins used: 6
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Xplor file | Serial no: 1 / Param file: PROTEIN_REP.PARAM / Topol file: PROTEIN.TOP |