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Yorodumi- PDB-2nd4: A distinct sortase SrtB anchors and processes a streptococcal adh... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2nd4 | ||||||
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Title | A distinct sortase SrtB anchors and processes a streptococcal adhesin AbpA with a novel structural property | ||||||
Components | Amylase-binding protein AbpA | ||||||
Keywords | HYDROLASE RECEPTOR / Novel Fold | ||||||
Function / homology | : / Amylase-binding protein AbpA / Amylase-binding protein AbpA Function and homology information | ||||||
Biological species | Streptococcus parasanguinis FW213 (bacteria) | ||||||
Method | SOLUTION NMR / distance geometry, simulated annealing | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Liu, B. / Zhu, F. / Wu, H. / Matthews, S. | ||||||
Citation | Journal: Sci Rep / Year: 2016 Title: A distinct sortase SrtB anchors and processes a streptococcal adhesin AbpA with a novel structural property. Authors: Liang, X. / Liu, B. / Zhu, F. / Scannapieco, F.A. / Haase, E.M. / Matthews, S. / Wu, H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2nd4.cif.gz | 68.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2nd4.ent.gz | 52.2 KB | Display | PDB format |
PDBx/mmJSON format | 2nd4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2nd4_validation.pdf.gz | 393.2 KB | Display | wwPDB validaton report |
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Full document | 2nd4_full_validation.pdf.gz | 396.3 KB | Display | |
Data in XML | 2nd4_validation.xml.gz | 7 KB | Display | |
Data in CIF | 2nd4_validation.cif.gz | 8.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nd/2nd4 ftp://data.pdbj.org/pub/pdb/validation_reports/nd/2nd4 | HTTPS FTP |
-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: 19123.781 Da / Num. of mol.: 1 / Fragment: residues 25-197 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Streptococcus parasanguinis FW213 (bacteria) Gene: abpA, Spaf_0022, UA01_01996 / Production host: Escherichia coli (E. coli) / References: UniProt: I1ZJ30 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 50 mM sodium chloride, 100 mM potassium phosphate, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | |||||||||
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Sample |
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Sample conditions | pH: 5 / Pressure: ambient / Temperature: 310 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry, simulated annealing / Software ordinal: 1 | ||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 10 / Conformers submitted total number: 1 |