+Open data
-Basic information
Entry | Database: PDB / ID: 1g5g | |||||||||
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Title | FRAGMENT OF FUSION PROTEIN FROM NEWCASTLE DISEASE VIRUS | |||||||||
Components | Fusion glycoprotein F0 | |||||||||
Keywords | VIRAL PROTEIN / fusion protein / NDV / Newcastle disease virus / paramyxovirus | |||||||||
Function / homology | Function and homology information membrane => GO:0016020 / fusion of virus membrane with host plasma membrane / viral envelope / host cell plasma membrane / virion membrane / plasma membrane Similarity search - Function | |||||||||
Biological species | Avian orthoavulavirus 1 | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SIR, phase extension / Resolution: 3.3 Å | |||||||||
Authors | Lawrence, M.C. / Smith, B.J. | |||||||||
Citation | Journal: Structure / Year: 2001 Title: The structure of the fusion glycoprotein of Newcastle disease virus suggests a novel paradigm for the molecular mechanism of membrane fusion. Authors: Chen, L. / Gorman, J.J. / McKimm-Breschkin, J. / Lawrence, L.J. / Tulloch, P.A. / Smith, B.J. / Colman, P.M. / Lawrence, M.C. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1g5g.cif.gz | 408.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1g5g.ent.gz | 336.8 KB | Display | PDB format |
PDBx/mmJSON format | 1g5g.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/g5/1g5g ftp://data.pdbj.org/pub/pdb/validation_reports/g5/1g5g | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 51086.871 Da / Num. of mol.: 6 Fragment: FULL-LENGTH ECTODOMAIN (RESIDUES L32-R501) FOLLOWED BY C-MYC PURIFICATION TAG Source method: isolated from a genetically manipulated source Source: (gene. exp.) Avian orthoavulavirus 1 / Genus: Avulavirus Strain: Newcastle disease virus strain Queensland/66, V4 ISOLATE References: UniProt: A9LSB1, UniProt: P35936*PLUS #2: Polysaccharide | 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 | 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 #4: Sugar | ChemComp-NAG / |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 15 |
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-Sample preparation
Crystal |
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Crystal grow |
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Crystal grow | *PLUS Method: unknown / Details: unpublished data |
-Data collection
Diffraction |
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Diffraction source |
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Detector |
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Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||
Radiation wavelength |
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Reflection | Resolution: 3.3→25 Å / Num. all: 76017 / Num. obs: 73130 / % possible obs: 96.2 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 6.1 % / Rmerge(I) obs: 0.22 / Net I/σ(I): 7.04 | |||||||||||||||||||||||||||||||||||
Reflection shell | Resolution: 3.3→3.42 Å / Redundancy: 2.3 % / Rmerge(I) obs: 0.812 / Num. unique all: 7502 / % possible all: 87.2 | |||||||||||||||||||||||||||||||||||
Reflection | *PLUS Num. measured all: 438164 | |||||||||||||||||||||||||||||||||||
Reflection shell | *PLUS % possible obs: 87.2 % / Rmerge(I) obs: 0.88 / Mean I/σ(I) obs: 1.2 |
-Processing
Software |
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Refinement | Method to determine structure: SIR, phase extension / Resolution: 3.3→8 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 3.3→8 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.851 / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS σ(F): 0 / Rfactor obs: 0.224 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_deg / Dev ideal: 1.5 |