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Yorodumi- PDB-2knr: Solution structure of protein Atu0922 from A. tumefaciens. Northe... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2knr | ||||||
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Title | Solution structure of protein Atu0922 from A. tumefaciens. Northeast Structural Genomics Consortium target AtT13. Ontario Center for Structural Proteomics target ATC0905 | ||||||
Components | Uncharacterized protein ATC0905 | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / methods development / Protein NMR / NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) / Target AtT13 / PSI-2 / Protein Structure Initiative / non-uniform sampling / muldidimensional decomposition / ABACUS / fragment Monte-Carlo / Ontario Centre for Structural Proteomics / OCSP | ||||||
Function / homology | Protein of unknown function (DUF1491) / Protein of unknown function DUF1491 / Protein of unknown function (DUF1491) / hypothetical protein tt1805 / 3-Layer(aba) Sandwich / Alpha Beta / Uncharacterized protein Function and homology information | ||||||
Biological species | Agrobacterium tumefaciens str. C58 (bacteria) | ||||||
Method | SOLUTION NMR / molecular dynamics | ||||||
Model details | lowest energy, model 1 | ||||||
Authors | Gutmanas, A. / Yee, S. / Lemak, A. / Fares, A. / Semesi, A. / Montelione, G.T. / Arrowsmith, C.H. / Northeast Structural Genomics Consortium (NESG) / Ontario Centre for Structural Proteomics (OCSP) | ||||||
Citation | Journal: To be Published Title: Solution NMR structure of protein atc0905 from A. tumefaciens Authors: Gutmanas, A. / Lemak, S. / Yee, A. / Semesi, A. / Fares, E. / Montelione, G.T. / Arrowsmith, C.H. #1: Journal: J.Biomol.Nmr / Year: 2011 Title: A novel strategy for NMR resonance assignment and protein structure determination. Authors: Lemak, A. / Gutmanas, A. / Chitayat, S. / Karra, M. / Fares, C. / Sunnerhagen, M. / Arrowsmith, C.H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2knr.cif.gz | 724.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2knr.ent.gz | 607.1 KB | Display | PDB format |
PDBx/mmJSON format | 2knr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kn/2knr ftp://data.pdbj.org/pub/pdb/validation_reports/kn/2knr | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 13598.314 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Agrobacterium tumefaciens str. C58 (bacteria) Strain: C58 / Gene: AGR_C_1681, Atu0922 / Production host: Escherichia coli (E. coli) / Strain (production host): RIL / References: UniProt: Q7D0C7 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR / Details: Protein of unknown function. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: All 3D spectra were collected with non-uniform sampling and processed with MDDNMR. |
-Sample preparation
Details | Contents: 1 mM [U-100% 13C; U-100% 15N] ATC0905, 10 mM [U-100% 2H] TRIS, 300 mM sodium chloride, 10 mM DTT, 1 uM benzamidine, 1 x Roche inhibitor cocktail, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||||||||||
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Sample |
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Sample conditions | pH: 7.0 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: molecular dynamics / Software ordinal: 1 / Details: restrained molecular dynamics | ||||||||||||||||||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |