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Open data
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Basic information
Entry | Database: PDB / ID: 1k2v | ||||||
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Title | E. COLI PERIPLASMIC PROTEIN FHUD COMPLEXED WITH DESFERAL | ||||||
![]() | Ferrichrome-binding periplasmic protein | ||||||
![]() | METAL TRANSPORT / two domains / alpha helix linker | ||||||
Function / homology | ![]() iron ion import across plasma membrane / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing / outer membrane-bounded periplasmic space Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Clarke, T.E. / Braun, V. / Winkelmann, G. / Tari, L.W. / Vogel, H.J. | ||||||
![]() | ![]() Title: X-ray crystallographic structures of the Escherichia coli periplasmic protein FhuD bound to hydroxamate-type siderophores and the antibiotic albomycin. Authors: Clarke, T.E. / Braun, V. / Winkelmann, G. / Tari, L.W. / Vogel, H.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 67.1 KB | Display | ![]() |
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PDB format | ![]() | 47.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 470.2 KB | Display | ![]() |
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Full document | ![]() | 476.2 KB | Display | |
Data in XML | ![]() | 8 KB | Display | |
Data in CIF | ![]() | 11.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1eszC ![]() 1k7sC ![]() 1efdS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 29694.203 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-DEF / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.26 Å3/Da / Density % sol: 62.25 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 4.6 Details: Na/K phosphate, HEPES, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.5 | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Dec 6, 2000 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 1.97→30 Å / Num. all: 25748 / Num. obs: 22886 / % possible obs: 88.9 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 2 / Redundancy: 99.1 % / Rmerge(I) obs: 0.049 / Net I/σ(I): 21.8 |
Reflection shell | Resolution: 1.97→2.04 Å / Redundancy: 97.8 % / Rmerge(I) obs: 0.205 / % possible all: 88.9 |
Reflection | *PLUS Highest resolution: 2 Å / Lowest resolution: 30 Å / % possible obs: 99.1 % / Rmerge(I) obs: 0.049 |
Reflection shell | *PLUS % possible obs: 97.8 % / Rmerge(I) obs: 0.205 / Mean I/σ(I) obs: 3.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1EFD Resolution: 1.97→30 Å / Cross valid method: THROUGHOUT / σ(F): 1 / σ(I): 2 / Stereochemistry target values: MAXIMUM LIKELYHOOD FUNCTION
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Refinement step | Cycle: LAST / Resolution: 1.97→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.97→2.04 Å / Rfactor Rfree error: 0.021
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Refinement | *PLUS Highest resolution: 2 Å / Lowest resolution: 30 Å / Rfactor obs: 0.22 / Rfactor Rfree: 0.242 / Rfactor Rwork: 0.22 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||
LS refinement shell | *PLUS Rfactor Rfree: 0.241 / Rfactor Rwork: 0.22 |