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- PDB-1vsg: 2.9 ANGSTROMS RESOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF A ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1vsg | |||||||||
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Title | 2.9 ANGSTROMS RESOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF A VARIANT SURFACE GLYCOPROTEIN FROM TRYPANOSOMA BRUCEI | |||||||||
![]() | VARIANT SURFACE GLYCOPROTEIN MITAT 1.2 | |||||||||
![]() | GLYCOPROTEIN | |||||||||
Function / homology | ![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() | |||||||||
![]() | Freymann, D. / Down, J. / Wiley, D.C. | |||||||||
![]() | ![]() Title: 2.9 A resolution structure of the N-terminal domain of a variant surface glycoprotein from Trypanosoma brucei. Authors: Freymann, D. / Down, J. / Carrington, M. / Roditi, I. / Turner, M. / Wiley, D. #1: ![]() Title: Two Variant Surface Gylcoproteins of Trypanosoma Brucei of Different Sequence Classes Have Similar 6 Angstroms Resolution X-Ray Structures Authors: Metcalf, P. / Blum, M. / Freymann, D. / Turner, M. / Wiley, D.C. #2: ![]() Title: 6 Angstroms-Resolution X-Ray Structure of a Variable Surface Glycoprotein from Trypanosoma Brucei Authors: Freymann, D.M. / Metcalf, P. / Turner, M. / Wiley, D.C. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 140.5 KB | Display | ![]() |
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PDB format | ![]() | 114.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 533.4 KB | Display | ![]() |
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Full document | ![]() | 551.7 KB | Display | |
Data in XML | ![]() | 17.3 KB | Display | |
Data in CIF | ![]() | 25.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Atom site foot note | 1: RESIDUES ASN 183 - ASP 184, THR 265 - ALA 266, LYS 285 -GLU 289, AND ASP 328 - ASN 329 IN BOTH THE A CHAIN AND B CHAIN ARE POORLY DEFINED IN THE ELECTRON DENSITY MAP. | ||||||||
Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.06906, 0.19176, 0.97901), Vector: Details | THE TRANSFORMATION PRESENTED ON THE *MTRIX* RECORDS BELOW WILL YIELD APPROXIMATE COORDINATES FOR CHAIN *B* WHEN APPLIED TO CHAIN *A*. | |
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Components
#1: Protein | Mass: 38844.660 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() #2: Polysaccharide | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta- ...beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | Source method: isolated from a genetically manipulated source #3: Polysaccharide | alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta- ...alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | Source method: isolated from a genetically manipulated source #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.71 Å3/Da / Density % sol: 66.81 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 7 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Reflection | *PLUS Highest resolution: 2.9 Å / Num. obs: 24767 / Num. measured all: 56659 / Rmerge(I) obs: 0.087 |
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Processing
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Refinement | Rfactor Rwork: 0.22 / Highest resolution: 2.9 Å Details: RESIDUES ASN 183 - ASP 184, THR 265 - ALA 266, LYS 285 -GLU 289, AND ASP 328 - ASN 329 IN BOTH THE A CHAIN AND B CHAIN ARE POORLY DEFINED IN THE ELECTRON DENSITY MAP | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 2.9 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.9 Å / Rfactor obs: 0.22 / Lowest resolution: 7 Å / Num. reflection obs: 5510 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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