+Open data
-Basic information
Entry | Database: PDB / ID: 4m6f | ||||||
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Title | Dimer of the G-Segment Invertase bound to a DNA substrate | ||||||
Components |
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Keywords | HYDROLASE/DNA / Helix-turn-helix / catalytic domain / DNA Binding Domain / recombinase / HYDROLASE-DNA complex | ||||||
Function / homology | Function and homology information viral tropism switching / Ligases; Forming phosphoric-ester bonds / Hydrolases; Acting on ester bonds; Endodeoxyribonucleases producing 3'-phosphomonoesters / DNA strand exchange activity / ligase activity / DNA integration / host cell cytoplasm / hydrolase activity / symbiont entry into host cell / DNA binding Similarity search - Function | ||||||
Biological species | Enterobacteria phage Mu (virus) synthetic construct (others) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 4.99 Å | ||||||
Authors | Ritacco, C.J. / Wang, J. / Steitz, T.A. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 2014 Title: Exploiting large non-isomorphous differences for phase determination of a G-segment invertase-DNA complex. Authors: Ritacco, C.J. / Steitz, T.A. / Wang, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4m6f.cif.gz | 65 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4m6f.ent.gz | 48.3 KB | Display | PDB format |
PDBx/mmJSON format | 4m6f.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/m6/4m6f ftp://data.pdbj.org/pub/pdb/validation_reports/m6/4m6f | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 21714.197 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Enterobacteria phage Mu (virus) / References: UniProt: P03015 |
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#2: DNA chain | Mass: 5246.429 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
#3: DNA chain | Mass: 5475.620 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 3 |
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-Sample preparation
Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 3-5% Ammonium Sulfate 20% ethylene glycol 100 mM MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K |
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-Data collection
Diffraction |
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Diffraction source |
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Detector |
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Radiation |
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Radiation wavelength |
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Reflection | Resolution: 4.99→30 Å / % possible obs: 94.5 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 12.5 % / Rmerge(I) obs: 0.111 / Rsym value: 12.05 | ||||||||||||||||||||||||
Reflection shell | Resolution: 4.97→5.25 Å / % possible all: 94.6 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 4.99→30 Å / σ(F): 1 / Stereochemistry target values: DEN
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Displacement parameters | Biso mean: 335 Å2
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Refinement step | Cycle: LAST / Resolution: 4.99→30 Å
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