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- PDB-5lam: Refined 3D NMR structure of the cytoplasmic rhodanese domain of t... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5lam | ||||||||||||
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Title | Refined 3D NMR structure of the cytoplasmic rhodanese domain of the inner membrane protein YgaP from Escherichia coli | ||||||||||||
![]() | Inner membrane protein YgaP | ||||||||||||
![]() | MEMBRANE PROTEIN / Rhodanese domain of YgaP / PROTEIN | ||||||||||||
Function / homology | ![]() | ||||||||||||
Biological species | ![]() ![]() | ||||||||||||
Method | SOLUTION NMR / Energy refinement | ||||||||||||
![]() | Eichmann, C. / Tzitzilonis, C. / Nakamura, T. / Maslennikov, I. / Kwiatkowski, W. / Choe, S. / Lipton, S.A. / Guntert, P. / Riek, R. | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: S-Nitrosylation Induces Structural and Dynamical Changes in a Rhodanese Family Protein. Authors: Eichmann, C. / Tzitzilonis, C. / Nakamura, T. / Kwiatkowski, W. / Maslennikov, I. / Choe, S. / Lipton, S.A. / Riek, R. | ||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 645.4 KB | Display | ![]() |
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PDB format | ![]() | 537 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 481.1 KB | Display | ![]() |
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Full document | ![]() | 652.7 KB | Display | |
Data in XML | ![]() | 40.8 KB | Display | |
Data in CIF | ![]() | 64.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5hblC ![]() 5hboC ![]() 5hbpC ![]() 5hbqC ![]() 5laoC 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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NMR ensembles |
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Components
#1: Protein | Mass: 11716.311 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: K12 / Gene: ygaP, b2668, JW2643 / Production host: ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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Sample preparation
Details | Type: solution Contents: 1 mM [U-99% 13C; U-99% 15N] Rhodanese domain, 95% H2O/5% D2O Label: Rhodanese / Solvent system: 95% H2O/5% D2O |
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Sample | Conc.: 1 mM / Component: Rhodanese domain / Isotopic labeling: [U-99% 13C; U-99% 15N] |
Sample conditions | Ionic strength: 0 mM / Label: Rhodanese / pH: 7 / Pressure: AMBIENT Pa / Temperature: 303.15 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE III / Manufacturer: Bruker / Model: AVANCE III / Field strength: 700 MHz |
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Processing
NMR software |
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Refinement | Method: Energy refinement / Software ordinal: 1 | ||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 100 / Conformers submitted total number: 20 |