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Open data
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Basic information
Entry | Database: PDB / ID: 7kyp | ||||||||||||||||||||||||
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Title | PsaBC from Streptococcus pneumoniae in complex with Fab | ||||||||||||||||||||||||
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![]() | TRANSPORT PROTEIN / ABC transporter manganese | ||||||||||||||||||||||||
Function / homology | ![]() plasma membrane => GO:0005886 / transmembrane transporter activity / ATP-binding cassette (ABC) transporter complex / transmembrane transport / ATP binding Similarity search - Function | ||||||||||||||||||||||||
Biological species | Streptococcus pneumoniae serotype 2 | ||||||||||||||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||||||||||||||
![]() | Maher, M.J. / Sjohamn, J. | ||||||||||||||||||||||||
Funding support | ![]() ![]()
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![]() | ![]() Title: The structural basis of bacterial manganese import. Authors: Neville, S.L. / Sjohamn, J. / Watts, J.A. / MacDermott-Opeskin, H. / Fairweather, S.J. / Ganio, K. / Carey Hulyer, A. / McGrath, A.P. / Hayes, A.J. / Malcolm, T.R. / Davies, M.R. / Nomura, N. ...Authors: Neville, S.L. / Sjohamn, J. / Watts, J.A. / MacDermott-Opeskin, H. / Fairweather, S.J. / Ganio, K. / Carey Hulyer, A. / McGrath, A.P. / Hayes, A.J. / Malcolm, T.R. / Davies, M.R. / Nomura, N. / Iwata, S. / O'Mara, M.L. / Maher, M.J. / McDevitt, C.A. | ||||||||||||||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 735.5 KB | Display | ![]() |
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PDB format | ![]() | 607 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.4 MB | Display | ![]() |
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Full document | ![]() | 1.5 MB | Display | |
Data in XML | ![]() | 122.6 KB | Display | |
Data in CIF | ![]() | 169.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7kyoSC 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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1 | ![]()
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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 26879.217 Da / Num. of mol.: 8 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: D39 / NCTC 7466 / Gene: psaB, SPD_1461 / Production host: ![]() ![]() #2: Protein | Mass: 31084.178 Da / Num. of mol.: 8 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: D39 / NCTC 7466 / Gene: psaC, SPD_1462 / Production host: ![]() ![]() #3: Chemical | ChemComp-PO4 / #4: Chemical | ChemComp-MA4 / #5: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.37 Å3/Da / Density % sol: 71.87 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop Details: 0.1 M MES, pH 6.5, 0.2 M calcium chloride dihydrate, 33% v/v PEG400 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jul 3, 2017 |
Radiation | Monochromator: double crystal Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 2.9→50 Å / Num. obs: 156113 / % possible obs: 91.7 % / Redundancy: 4.2 % / Rpim(I) all: 0.08 / Net I/σ(I): 9.4 |
Reflection shell | Resolution: 2.9→3 Å / Num. unique obs: 15332 / Rpim(I) all: 0.697 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 7KYO Resolution: 2.9→49.63 Å / Cor.coef. Fo:Fc: 0.866 / Cor.coef. Fo:Fc free: 0.858 / SU B: 29.142 / SU ML: 0.26 / Cross valid method: THROUGHOUT / ESU R: 0.194 / ESU R Free: 0.083 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Displacement parameters | Biso mean: 39.333 Å2
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Refinement step | Cycle: 1 / Resolution: 2.9→49.63 Å
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Refine LS restraints |
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