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- PDB-2vko: Structure of the soluble domain of the membrane protein TM1634 fr... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2vko | ||||||
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Title | Structure of the soluble domain of the membrane protein TM1634 from Thermotoga maritima | ||||||
![]() | TM1634 | ||||||
![]() | MEMBRANE PROTEIN / SAD / TPR MOTIF / THERMOTOGA MARITIMA / STRUCTURAL GENOMICS / JCSG / JOINT CENTER FOR STRUCTURAL GENOMICS | ||||||
Function / homology | Methane Monooxygenase Hydroxylase; Chain G, domain 1 - #2030 / TPR repeat profile. / Tetratricopeptide repeat / Methane Monooxygenase Hydroxylase; Chain G, domain 1 / Up-down Bundle / Mainly Alpha / membrane / Uncharacterized protein![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | McCleverty, C.J. / Columbus, L. / Kreusch, A. / Lesley, S.A. / Joint Center for Structural Genomics (JCSG) | ||||||
![]() | ![]() Title: Structure and Ligand Binding of the Soluble Domain of a Thermotoga Maritima Membrane Protein of Unknown Function Tm1634. Authors: Mccleverty, C.J. / Columbus, L. / Kreusch, A. / Lesley, S.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 100.1 KB | Display | ![]() |
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PDB format | ![]() | 78.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 667.6 KB | Display | ![]() |
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Full document | ![]() | 678 KB | Display | |
Data in XML | ![]() | 19.7 KB | Display | |
Data in CIF | ![]() | 27.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2vkjSC S: Starting model for refinement 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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 12303.146 Da / Num. of mol.: 4 / Fragment: SOLUBLE DOMAIN, RESIDUES 27-128 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-PG4 / | #3: Chemical | ChemComp-P6G / | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.8 Å3/Da / Density % sol: 54 % / Description: NONE |
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Crystal grow | pH: 5.5 / Details: 50% PEG200, 0.1 M NACITRATE PH 5.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Apr 7, 2006 |
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→50 Å / Num. obs: 51063 / % possible obs: 99.2 % / Observed criterion σ(I): -3 / Redundancy: 3.2 % / Rmerge(I) obs: 0.08 / Net I/σ(I): 17.9 |
Reflection shell | Resolution: 1.8→1.84 Å / Redundancy: 3.2 % / Rmerge(I) obs: 0.57 / % possible all: 99.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2VKJ Resolution: 1.79→66.96 Å / Cor.coef. Fo:Fc: 0.926 / Cor.coef. Fo:Fc free: 0.909 / SU B: 6.809 / SU ML: 0.11 / Cross valid method: THROUGHOUT / ESU R: 0.144 / ESU R Free: 0.139 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. CHAINS A AND C FORM THE BIOLOGICAL DIMER.
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 32.58 Å2
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Refinement step | Cycle: LAST / Resolution: 1.79→66.96 Å
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Refine LS restraints |
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