+Open data
-Basic information
Entry | Database: PDB / ID: 1rvz | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | 1934 H1 Hemagglutinin in complex with LSTC | |||||||||
Components | (hemagglutinin) x 2 | |||||||||
Keywords | VIRAL PROTEIN / Hemagglutinin / Influenza A Virus | |||||||||
Function / homology | Function and homology information Transport of HA trimer, NA tetramer and M2 tetramer from the endoplasmic reticulum to the Golgi Apparatus / Assembly of Viral Components at the Budding Site / Influenza Infection / Fusion of the Influenza Virion to the Host Cell Endosome / Release / Budding / Packaging of Eight RNA Segments / Uncoating of the Influenza Virion / Entry of Influenza Virion into Host Cell via Endocytosis / Viral mRNA Translation ...Transport of HA trimer, NA tetramer and M2 tetramer from the endoplasmic reticulum to the Golgi Apparatus / Assembly of Viral Components at the Budding Site / Influenza Infection / Fusion of the Influenza Virion to the Host Cell Endosome / Release / Budding / Packaging of Eight RNA Segments / Uncoating of the Influenza Virion / Entry of Influenza Virion into Host Cell via Endocytosis / Viral mRNA Translation / viral budding from plasma membrane / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / clathrin-dependent endocytosis of virus by host cell / host cell surface receptor binding / apical plasma membrane / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane / viral envelope / virion attachment to host cell / host cell plasma membrane / virion membrane / extracellular region / plasma membrane Similarity search - Function | |||||||||
Biological species | Influenza A virus | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.25 Å | |||||||||
Authors | Gamblin, S.J. / Haire, L.F. / Russell, R.J. / Stevens, D.J. / Xiao, B. / Ha, Y. / Vasisht, N. / Steinhauer, D.A. / Daniels, R.S. / Elliot, A. ...Gamblin, S.J. / Haire, L.F. / Russell, R.J. / Stevens, D.J. / Xiao, B. / Ha, Y. / Vasisht, N. / Steinhauer, D.A. / Daniels, R.S. / Elliot, A. / Wiley, D.C. / Skehel, J.J. | |||||||||
Citation | Journal: Science / Year: 2004 Title: The structure and receptor binding properties of the 1918 influenza hemagglutinin. Authors: Gamblin, S.J. / Haire, L.F. / Russell, R.J. / Stevens, D.J. / Xiao, B. / Ha, Y. / Vasisht, N. / Steinhauer, D.A. / Daniels, R.S. / Elliot, A. / Wiley, D.C. / Skehel, J.J. | |||||||||
History |
| |||||||||
Remark 999 | SEQUENCE Author states that the sequence of this protein is correct and there is no matched ...SEQUENCE Author states that the sequence of this protein is correct and there is no matched sequence database available. Residue (E ASN 42 ) and residue (E GLY 44 ) are not linked, distance of C-N bond is 2.61. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1rvz.cif.gz | 622.7 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1rvz.ent.gz | 510.8 KB | Display | PDB format |
PDBx/mmJSON format | 1rvz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1rvz_validation.pdf.gz | 863.3 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 1rvz_full_validation.pdf.gz | 958.2 KB | Display | |
Data in XML | 1rvz_validation.xml.gz | 66.4 KB | Display | |
Data in CIF | 1rvz_validation.cif.gz | 109.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/rv/1rvz ftp://data.pdbj.org/pub/pdb/validation_reports/rv/1rvz | HTTPS FTP |
-Related structure data
Related structure data | 1ru7SC 1ruyC 1ruzC 1rv0C 1rvtC 1rvxC S: Starting model for refinement C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 36733.402 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Details: Bromelain digestion Source: (natural) Influenza A virus (A/Puerto Rico/8/34(H1N1)) Genus: Influenzavirus A / Species: Influenza A virus / Strain: A-PUERTO RICO-8-34 / References: UniProt: Q82766, UniProt: P03452*PLUS #2: Protein | Mass: 18242.221 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Details: Bromelain digestion Source: (natural) Influenza A virus (A/Puerto Rico/8/34(H1N1)) Genus: Influenzavirus A / Species: Influenza A virus / Strain: A-PUERTO RICO-8-34 / References: UniProt: Q82766, UniProt: P03452*PLUS #3: Polysaccharide | N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose / 6'-sialyl-N-acetyllactosamine #4: Sugar | #5: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 3.73 Å3/Da / Density % sol: 67.01 % |
---|---|
Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: PEG3350, TrisHCl, KSCN, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-1 / Wavelength: 0.933 |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Sep 20, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.933 Å / Relative weight: 1 |
Reflection | Resolution: 2.25→20 Å / Num. all: 229143 / Num. obs: 206016 / % possible obs: 89.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 11.6 % / Rmerge(I) obs: 0.082 / Net I/σ(I): 14.6 |
Reflection shell | Resolution: 2.25→2.33 Å / Rmerge(I) obs: 0.401 / Mean I/σ(I) obs: 2.9 / % possible all: 52.2 |
-Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB entry 1RU7 Resolution: 2.25→20 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.25→20 Å
|