[English] 日本語
Yorodumi- PDB-1sgw: Putative ABC transporter (ATP-binding protein) from Pyrococcus fu... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1sgw | ||||||
---|---|---|---|---|---|---|---|
Title | Putative ABC transporter (ATP-binding protein) from Pyrococcus furiosus Pfu-867808-001 | ||||||
Components | putative ABC transporterATP-binding cassette transporter | ||||||
Keywords | TRANSPORT PROTEIN / Structural genomics / pyrococcus furiosus / ABC transporter / PSI / Protein Structure Initiative / Southeast Collaboratory for Structural Genomics / SECSG | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Pyrococcus furiosus (archaea) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SIRAS / Resolution: 1.7 Å | ||||||
Authors | Liu, Z.J. / Tempel, W. / Shah, A. / Chen, L. / Lee, D. / Kelley, L.-L.C. / Dillard, B.D. / Rose, J.P. / Eneh, J.C. / Hopkins, R.C. ...Liu, Z.J. / Tempel, W. / Shah, A. / Chen, L. / Lee, D. / Kelley, L.-L.C. / Dillard, B.D. / Rose, J.P. / Eneh, J.C. / Hopkins, R.C. / Jenney Jr., F.E. / Lee, H.S. / Poole II, F.L. / Shah, C. / Sugar, F.J. / Adams, M.W.W. / Richardson, D.C. / Richardson, J.S. / Wang, B.C. / Southeast Collaboratory for Structural Genomics (SECSG) | ||||||
Citation | Journal: To be Published Title: Putative ABC transporter (ATP-binding protein) from Pyrococcus furiosus Pfu-867808-001 Authors: Liu, Z.J. / Tempel, W. / Shah, A. / Chen, L. / Lee, D. / Kelley, L.-L.C. / Dillard, B.D. / Rose, J.P. / Eneh, J.C. / Hopkins, R.C. / Jenney Jr., F.E. / Lee, H.S. / Poole II, F.L. / Shah, C. ...Authors: Liu, Z.J. / Tempel, W. / Shah, A. / Chen, L. / Lee, D. / Kelley, L.-L.C. / Dillard, B.D. / Rose, J.P. / Eneh, J.C. / Hopkins, R.C. / Jenney Jr., F.E. / Lee, H.S. / Poole II, F.L. / Shah, C. / Sugar, F.J. / Adams, M.W.W. / Richardson, D.C. / Richardson, J.S. / Wang, B.C. / Southeast Collaboratory for Structural Genomics | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1sgw.cif.gz | 54.7 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1sgw.ent.gz | 38.1 KB | Display | PDB format |
PDBx/mmJSON format | 1sgw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sg/1sgw ftp://data.pdbj.org/pub/pdb/validation_reports/sg/1sgw | HTTPS FTP |
---|
-Related structure data
Similar structure data | |
---|---|
Other databases |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 24100.098 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: THE PROTEIN WAS CLONED, EXPRESSED AND PURIFIED BY THE SECSG PYROCOCCUS PROTEIN PRODUCTION GROUP (M.W.W.ADAMS, P.S.BRERETON, M.IZUMI, F.E.JENNEY JR., H.-S.LEE, F.L.POOLE II, C.SHAH, F.SUGAR) ...Details: THE PROTEIN WAS CLONED, EXPRESSED AND PURIFIED BY THE SECSG PYROCOCCUS PROTEIN PRODUCTION GROUP (M.W.W.ADAMS, P.S.BRERETON, M.IZUMI, F.E.JENNEY JR., H.-S.LEE, F.L.POOLE II, C.SHAH, F.SUGAR) UNDER THE DIRECTION OF M.W.W.ADAMS. Source: (gene. exp.) Pyrococcus furiosus (archaea) / Strain: DSM 3638 / Production host: Escherichia coli (E. coli) / References: UniProt: Q8U2E3 | ||||
---|---|---|---|---|---|
#2: Chemical | #3: Chemical | ChemComp-NA / | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.29 Å3/Da / Density % sol: 46.38 % |
---|---|
Crystal grow | Temperature: 291 K / Method: modified microbatch / pH: 7.9 Details: 15% PEG-4000, 10% isopropanol, 10% glycerol, 100mM TRIS, pH 7.9, modified microbatch, temperature 291K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 22-ID / Wavelength: 1.066 Å |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Oct 25, 2003 |
Radiation | Monochromator: SI CHANNEL 220 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.066 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→30 Å / Num. all: 123736 / Num. obs: 23651 / % possible obs: 99.4 % / Observed criterion σ(I): -3 / Rsym value: 0.041 |
Reflection shell | Resolution: 1.7→1.76 Å / Rmerge(I) obs: 0.123 / % possible all: 98.5 |
-Phasing
Phasing | Method: SIRAS | |||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Phasing MIR | Resolution: 2.2→20 Å / FOM: 0.38 / Reflection: 11580 | |||||||||||||||||||||||||||
Phasing MIR shell |
|
-Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 1.7→30 Å / Cor.coef. Fo:Fc: 0.946 / Cor.coef. Fo:Fc free: 0.937 / SU B: 1.675 / SU ML: 0.058 / Cross valid method: THROUGHOUT / ESU R: 0.105 / ESU R Free: 0.102 / Stereochemistry target values: MAXIMUM LIKELIHOOD
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 19.326 Å2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.7→30 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 1.7→1.744 Å / Total num. of bins used: 20 /
|