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Yorodumi- PDB-1gqy: MURC - CRYSTAL STRUCTURE OF THE ENZYME FROM HAEMOPHILUS INFLUENZA... -
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-Basic information
Entry | Database: PDB / ID: 1gqy | ||||||
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Title | MURC - CRYSTAL STRUCTURE OF THE ENZYME FROM HAEMOPHILUS INFLUENZAE COMPLEXED WITH AMPPCP | ||||||
Components | UDP-N-ACETYLMURAMATE-L-ALANINE LIGASEUDP-N-acetylmuramate—L-alanine ligase | ||||||
Keywords | CELL WALL BIOSYNTHESIS / PEPTIDOGLYCAN / MUREIN / LIGASE / ATP BINDING | ||||||
Function / homology | Function and homology information UDP-N-acetylmuramate-L-alanine ligase / UDP-N-acetylmuramate-L-alanine ligase activity / peptidoglycan biosynthetic process / cell wall organization / regulation of cell shape / cell cycle / cell division / ATP binding / cytoplasm Similarity search - Function | ||||||
Biological species | HAEMOPHILUS INFLUENZAE (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.8 Å | ||||||
Authors | Skarzynski, T. / Cleasby, A. / Domenici, E. / Gevi, M. / Shaw, J. | ||||||
Citation | Journal: To be Published Title: Crystal Structures of Udp-N-Acetylmuramate-L-Alanine Ligase (Murc) from Haemophilus Influenzae Authors: Skarzynski, T. / Cleasby, A. / Domenici, E. / Gevi, M. / Shaw, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1gqy.cif.gz | 209.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1gqy.ent.gz | 167.2 KB | Display | PDB format |
PDBx/mmJSON format | 1gqy.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gq/1gqy ftp://data.pdbj.org/pub/pdb/validation_reports/gq/1gqy | HTTPS FTP |
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-Related structure data
Related structure data | 1gqqSC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 52057.172 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HAEMOPHILUS INFLUENZAE (bacteria) / Production host: Escherichia coli BL21 (bacteria) References: UniProt: P45066, UDP-N-acetylmuramate-L-alanine ligase #2: Chemical | #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.73 Å3/Da / Density % sol: 54.89 % |
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Crystal grow | pH: 6.8 Details: THE AMPPCP COMPLEX WAS FORMED BY ADDING 10MM AMPPCP AND 10MM MGCL2 TO THE CONCENTRATED PROTEIN SOLUTION AT 12MG/ML. CRYSTALS WERE GROWN USING WELL SOLUTION MADE OF 20%PEG 3350 AND 200MM SODIUM FORMATE, PH 6.8. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SRS / Beamline: PX9.6 / Wavelength: 0.87 |
Detector | Type: ADSC CCD / Detector: CCD / Date: Oct 7, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.87 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→30 Å / Num. obs: 93715 / % possible obs: 89.5 % / Redundancy: 2 % / Rmerge(I) obs: 0.069 |
Reflection shell | Resolution: 1.8→1.86 Å / Rmerge(I) obs: 0.453 / % possible all: 47.7 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: AN EARLY VERSION OF PDB ENTRY 1GQQ Resolution: 1.8→20 Å / SU B: 3.26087 / SU ML: 0.09953 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.12872 / ESU R Free: 0.12945 Details: DISORDERED SIDE CHAINS WERE MODELLED STEREOCHEMICALLY
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Displacement parameters | Biso mean: 30.035 Å2
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Refinement step | Cycle: LAST / Resolution: 1.8→20 Å
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