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- PDB-2bat: THE STRUCTURE OF THE COMPLEX BETWEEN INFLUENZA VIRUS NEURAMINIDAS... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2bat | |||||||||
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Title | THE STRUCTURE OF THE COMPLEX BETWEEN INFLUENZA VIRUS NEURAMINIDASE AND SIALIC ACID, THE VIRAL RECEPTOR | |||||||||
![]() | NEURAMINIDASE N2 | |||||||||
![]() | HYDROLASE(O-GLYCOSYL) | |||||||||
Function / homology | ![]() exo-alpha-(2->3)-sialidase activity / exo-alpha-(2->6)-sialidase activity / exo-alpha-(2->8)-sialidase activity / exo-alpha-sialidase / viral budding from plasma membrane / carbohydrate metabolic process / host cell plasma membrane / virion membrane / membrane / metal ion binding Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() | |||||||||
![]() | Varghese, J.N. / Colman, P.M. | |||||||||
![]() | ![]() Title: The structure of the complex between influenza virus neuraminidase and sialic acid, the viral receptor. Authors: Varghese, J.N. / McKimm-Breschkin, J.L. / Caldwell, J.B. / Kortt, A.A. / Colman, P.M. #1: ![]() Title: Three-Dimensional Structure of the Neuraminidase of Influenza Virus A(Slash)Tokyo(Slash)3(Slash)67 at 2.2 Angstroms Resolution Authors: Varghese, J.N. / Colman, P.M. #2: ![]() Title: Amino Acid Sequence of the Pronase-Released Heads of Neuraminidase Subtype N2 from the Asian Strain A(Slash)Tokyo(Slash)3(Slash)67 of Influenza Virus Authors: Ward, C.W. / Elleman, T.C. / Azad, A.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 | ![]() | 95.5 KB | Display | ![]() |
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PDB format | ![]() | 75.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 654 KB | Display | ![]() |
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Full document | ![]() | 675.8 KB | Display | |
Data in XML | ![]() | 13.1 KB | Display | |
Data in CIF | ![]() | 19 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Atom site foot note | 1: RESIDUES PRO 285 AND PRO 326 ARE CIS PROLINES. 2: A NON-PROLINE CIS PEPTIDE BOND BETWEEN RESIDUES 430 AND 431 HAS BEEN POSITIVELY IDENTIFIED. PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION ARG 430 - LYS 431 0.445 |
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Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 43140.027 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: A/Tokyo/3/1967(H2N2) / References: UniProt: P06820, exo-alpha-sialidase |
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-Sugars , 4 types, 5 molecules ![](data/chem/img/NAG.gif)
![](data/chem/img/SIA.gif)
![](data/chem/img/SIA.gif)
#2: Polysaccharide | 2-acetamido-2-deoxy-4-O-sulfo-alpha-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D- ...2-acetamido-2-deoxy-4-O-sulfo-alpha-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose Source method: isolated from a genetically manipulated source | ||
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#3: Polysaccharide | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D- ...alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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 | #5: Sugar | ChemComp-SIA / | |
-Non-polymers , 2 types, 117 molecules ![](data/chem/img/CA.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/HOH.gif)
#6: Chemical | ChemComp-CA / |
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#7: Water | ChemComp-HOH / |
-Details
Sequence details | SEQUENCE ADVISORY NOTICE: DIFFERENCE BETWEEN SWISS-PROT AND PDB SEQUENCE. SWISS-PROT ENTRY NAME: ...SEQUENCE ADVISORY NOTICE: DIFFERENCE |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 5.39 Å3/Da / Density % sol: 77.19 % | |||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 6.6 / Method: vapor diffusionDetails: McKimm-Breschkin, J.L. (1991) J. Virol. Methods., 32, 121. | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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Processing
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Refinement | Resolution: 2→6 Å / Rfactor Rwork: 0.21 / Rfactor obs: 0.21 / σ(F): 2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→6 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2 Å / Lowest resolution: 6 Å / σ(F): 2 / Rfactor obs: 0.21 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 3.9 |