+Open data
-Basic information
Entry | Database: PDB / ID: 1gcv | ||||||
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Title | DEOXY FORM HEMOGLOBIN FROM MUSTELUS GRISEUS | ||||||
Components | (HEMOGLOBIN) x 2 | ||||||
Keywords | OXYGEN STORAGE/TRANSPORT / Hemoglobin / DEOXY FORM / OXYGEN STORAGE-TRANSPORT COMPLEX | ||||||
Function / homology | Function and homology information hemoglobin complex / oxygen carrier activity / oxygen binding / heme binding / metal ion binding Similarity search - Function | ||||||
Biological species | Mustelus griseus (fish) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2 Å | ||||||
Authors | Naoi, Y. / Chong, K.T. / Yoshimatsu, K. / Miyazaki, G. / Tame, J.R.H. / Park, S.Y. / Adachi, S.I. / Morimoto, H. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2001 Title: The functional similarity and structural diversity of human and cartilaginous fish hemoglobins. Authors: Naoi, Y. / Chong, K.T. / Yoshimatsu, K. / Miyazaki, G. / Tame, J.R. / Park, S.Y. / Adachi, S. / Morimoto, H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1gcv.cif.gz | 124.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1gcv.ent.gz | 99.9 KB | Display | PDB format |
PDBx/mmJSON format | 1gcv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gc/1gcv ftp://data.pdbj.org/pub/pdb/validation_reports/gc/1gcv | HTTPS FTP |
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-Related 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: 15319.614 Da / Num. of mol.: 2 / Fragment: ALPHA CHAIN / Source method: isolated from a natural source / Source: (natural) Mustelus griseus (fish) / Cell: RED BLOOD CELL / Tissue: BLOOD / References: UniProt: Q9YGW2 #2: Protein | Mass: 15969.229 Da / Num. of mol.: 2 / Fragment: BETA CHAIN / Source method: isolated from a natural source / Source: (natural) Mustelus griseus (fish) / Cell: RED BLOOD CELL / Tissue: BLOOD / References: UniProt: Q9YGW1 #3: Chemical | ChemComp-HEM / #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: 2.54 Å3/Da / Density % sol: 51.5 % | ||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: small tubes / pH: 6.5 Details: ammonium sulfate, ammonium phosphate, hydro sulfide, pH 6.5, SMALL TUBES, temperature 298K | ||||||||||||||||||||
Crystal grow | *PLUS Method: unknown | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: SYNCHROTRON / Site: SPring-8 / Beamline: BL44B2 / Wavelength: 0.6 |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Nov 15, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.6 Å / Relative weight: 1 |
Reflection | Resolution: 2→30 Å / Num. all: 181593 / Num. obs: 180156 / % possible obs: 98.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 4.3 % / Biso Wilson estimate: 27.17 Å2 / Rmerge(I) obs: 0.044 |
Reflection shell | Resolution: 2→2.11 Å / Redundancy: 4.5 % / Rmerge(I) obs: 0.166 / % possible all: 98.1 |
Reflection | *PLUS Num. obs: 41763 / Num. measured all: 181593 |
-Processing
Software |
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Refinement | Resolution: 2→10 Å / σ(F): 0 / σ(I): 0
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Refinement step | Cycle: LAST / Resolution: 2→10 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.851 / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2 Å / Lowest resolution: 10 Å / σ(F): 0 / % reflection Rfree: 5 % / Rfactor obs: 0.181 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS |