+Open data
-Basic information
Entry | Database: PDB / ID: 1qqp | ||||||||||||
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Title | FOOT-AND-MOUTH DISEASE VIRUS/ OLIGOSACCHARIDE RECEPTOR COMPLEX. | ||||||||||||
Components | (PROTEIN (GENOME ...) x 4 | ||||||||||||
Keywords | VIRUS / HEPARAN SULPHATE / VIRUS-RECEPTOR INTERACTIONS/PROTEIN-CARBOHYDRATE INTERACTIONS / VIRUS/VIRAL PROTEIN / Icosahedral virus | ||||||||||||
Function / homology | Function and homology information L-peptidase / suppression by virus of host type I interferon production / modulation by virus of host chromatin organization / ribonucleoside triphosphate phosphatase activity / picornain 3C / T=pseudo3 icosahedral viral capsid / host cell cytoplasmic vesicle membrane / : / nucleoside-triphosphate phosphatase / regulation of translation ...L-peptidase / suppression by virus of host type I interferon production / modulation by virus of host chromatin organization / ribonucleoside triphosphate phosphatase activity / picornain 3C / T=pseudo3 icosahedral viral capsid / host cell cytoplasmic vesicle membrane / : / nucleoside-triphosphate phosphatase / regulation of translation / protein complex oligomerization / monoatomic ion channel activity / clathrin-dependent endocytosis of virus by host cell / RNA helicase activity / host cell endoplasmic reticulum membrane / molecular adaptor activity / viral protein processing / induction by virus of host autophagy / RNA-directed RNA polymerase / viral RNA genome replication / cysteine-type endopeptidase activity / RNA-dependent RNA polymerase activity / DNA-templated transcription / host cell nucleus / structural molecule activity / virion attachment to host cell / proteolysis / RNA binding / ATP binding / membrane Similarity search - Function | ||||||||||||
Biological species | Foot-and-mouth disease virus | ||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / OTHER / Resolution: 1.9 Å | ||||||||||||
Authors | Fry, E.E. / Lea, S.M. / Jackson, T. / Newman, J.W.I. / Ellard, F.M. / Blakemore, W.E. / Abu-Ghazaleh, R. / Samuel, A. / King, A.M.Q. / Stuart, D.I. | ||||||||||||
Citation | Journal: EMBO J. / Year: 1999 Title: The structure and function of a foot-and-mouth disease virus-oligosaccharide receptor complex. Authors: Fry, E.E. / Lea, S.M. / Jackson, T. / Newman, J.W. / Ellard, F.M. / Blakemore, W.E. / Abu-Ghazaleh, R. / Samuel, A. / King, A.M. / Stuart, D.I. #1: Journal: Nature / Year: 1993 Title: Structure of a Major Immunogenic Site on Foot-and-Mouth Disease Virus Authors: Logan, D. / Abu-Ghazaleh, R. / Blakemore, W. / Curry, S. / Jackson, T. / King, A. / Lea, S. / Lewis, R. / Stuart, D. / Fry, E. #2: Journal: Nature / Year: 1989 Title: The Three-Dimensional Structure of Foot-and-Mouth Disease Virus at 2.9 Angstroms Resolution Authors: Acharya, R. / Fry, E. / Stuart, D. / Fox, G. / Rowlands, D. / Brown, F. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1qqp.cif.gz | 165.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1qqp.ent.gz | 128.7 KB | Display | PDB format |
PDBx/mmJSON format | 1qqp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qq/1qqp ftp://data.pdbj.org/pub/pdb/validation_reports/qq/1qqp | HTTPS FTP |
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-Related structure data
Related structure data | 1bttS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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4 |
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5 |
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6 |
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Unit cell |
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Symmetry | Point symmetry: (Hermann–Mauguin notation: 532 / Schoenflies symbol: I (icosahedral)) | ||||||||||||||||||
Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
-PROTEIN (GENOME ... , 4 types, 4 molecules 1234
#1: Protein | Mass: 23828.184 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: GROWN IN BHK CELLS / Source: (natural) Foot-and-mouth disease virus / Genus: Aphthovirus / References: UniProt: P03305 |
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#2: Protein | Mass: 24373.455 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: GROWN IN BHK CELLS / Source: (natural) Foot-and-mouth disease virus / Genus: Aphthovirus / References: UniProt: P03305 |
#3: Protein | Mass: 23860.830 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: GROWN IN BHK CELLS / Source: (natural) Foot-and-mouth disease virus / Genus: Aphthovirus / References: UniProt: P03305 |
#4: Protein | Mass: 8778.129 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: GROWN IN BHK CELLS / Source: (natural) Foot-and-mouth disease virus / Genus: Aphthovirus / References: UniProt: P03305 |
-Sugars / Non-polymers , 2 types, 632 molecules
#5: Polysaccharide | 2-O-sulfo-alpha-L-gulopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose- ...2-O-sulfo-alpha-L-gulopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-gulopyranuronic acid Source method: isolated from a genetically manipulated source |
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#6: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal grow | pH: 7.5 / Details: pH 7.50 | |||||||||||||||
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Crystal grow | *PLUS pH: 7.6 / Method: microdialysis | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 290 K |
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Diffraction source | Source: SYNCHROTRON / Site: SRS / Beamline: PX9.6 / Wavelength: 0.87 |
Detector | Type: MAR scanner 300 mm plate / Detector: IMAGE PLATE |
Radiation | Monochromator: SI / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.87 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→12 Å / Num. obs: 2070213 / % possible obs: 91 % / Redundancy: 4.3 % / Rmerge(I) obs: 0.143 |
Reflection shell | *PLUS % possible obs: 77.4 % |
-Processing
Software |
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Refinement | Method to determine structure: OTHER Starting model: PDB ENTRY 1BTT Resolution: 1.9→12 Å / Data cutoff high absF: 0 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / σ(F): 0 Details: THE DENSITY WAS TOO WEAK TO MODEL THE SIDE CHAINS ACCURATELY FOR CHAIN 1 RESIDUES ARG 157 AND THR 158.
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Refinement step | Cycle: LAST / Resolution: 1.9→12 Å
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Refine LS restraints |
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