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- PDB-2zrr: Crystal structure of an immunity protein that contributes to the ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2zrr | ||||||
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Title | Crystal structure of an immunity protein that contributes to the self-protection of bacteriocin-producing Enterococcus mundtii 15-1A | ||||||
![]() | Mundticin KS immunity protein | ||||||
![]() | ANTIMICROBIAL PROTEIN / antiparallel four-helix bundle | ||||||
Function / homology | de novo design (two linked rop proteins) - #140 / Lactococcin-A immunity protein-like / Enterocin A Immunity / de novo design (two linked rop proteins) / Up-down Bundle / Mainly Alpha / Mundticin KS immunity protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Jeon, H.J. / Noda, M. / Matoba, Y. / Kumagai, T. / Sugiyama, M. | ||||||
![]() | ![]() Title: Crystal structure and mutagenic analysis of a bacteriocin immunity protein, Mun-im Authors: Jeon, H.J. / Noda, M. / Matoba, Y. / Kumagai, T. / Sugiyama, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 30.9 KB | Display | ![]() |
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PDB format | ![]() | 19.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 421.1 KB | Display | ![]() |
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Full document | ![]() | 425.8 KB | Display | |
Data in XML | ![]() | 6.9 KB | Display | |
Data in CIF | ![]() | 8.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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 on special symmetry positions |
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Components
#1: Protein | Mass: 13290.209 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
Sequence details | THE SEQUNECE DATABSE OF THIS PROTEIN HAS BEEN DEPOSITED TO DDBJ. ACCESSION CODE AB454504. IT WILL ...THE SEQUNECE DATABSE OF THIS PROTEIN HAS BEEN DEPOSITED TO DDBJ. ACCESSION CODE AB454504. IT WILL BE OPENED WHEN THIS FILE IS PUBLISHED. |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.89 Å3/Da / Density % sol: 34.85 % |
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Crystal grow | Temperature: 297 K / Method: vapor diffusion, sitting drop / pH: 3.5 Details: 3.1M sodium formate, 0.1M sodium citrate, pH 3.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jun 9, 2007 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→100 Å / Num. all: 9138 / Num. obs: 9138 / % possible obs: 94.5 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 5.2 % / Biso Wilson estimate: 29.6 Å2 / Rmerge(I) obs: 0.045 / Rsym value: 0.045 / Net I/σ(I): 39.7 |
Reflection shell | Resolution: 1.8→1.86 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.368 / Mean I/σ(I) obs: 1.8 / Num. unique all: 644 / Rsym value: 0.368 / % possible all: 69.4 |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso mean: 49.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.8→10 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.8→1.88 Å / Rfactor Rfree error: 0.076 / Total num. of bins used: 10
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Xplor file |
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