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Yorodumi- PDB-4mba: APLYSIA LIMACINA MYOGLOBIN. CRYSTALLOGRAPHIC ANALYSIS AT 1.6 ANGS... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4mba | ||||||
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Title | APLYSIA LIMACINA MYOGLOBIN. CRYSTALLOGRAPHIC ANALYSIS AT 1.6 ANGSTROMS RESOLUTION | ||||||
Components | MYOGLOBIN | ||||||
Keywords | OXYGEN STORAGE | ||||||
Function / homology | Function and homology information hemoglobin complex / oxygen carrier activity / oxygen binding / oxidoreductase activity / iron ion binding / heme binding / extracellular region Similarity search - Function | ||||||
Biological species | Aplysia limacina (slug sea hare) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | ||||||
Authors | Bolognesi, M. / Onesti, S. / Gatti, G. / Coda, A. / Ascenzi, P. / Brunori, M. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1989 Title: Aplysia limacina myoglobin. Crystallographic analysis at 1.6 A resolution. Authors: Bolognesi, M. / Onesti, S. / Gatti, G. / Coda, A. / Ascenzi, P. / Brunori, M. #1: Journal: To be Published Title: Aplysia Limacina Myoglobin. Molecular Bases for Ligand Binding and Reversible Unfolding Authors: Bolognesi, M. / Gatti, G. / Guanziroli, M.G. / Mattevi, A. / Onesti, S. / Coda, A. / Ascenzi, P. / Brunori, M. #2: Journal: J.Mol.Biol. / Year: 1985 Title: Crystal Structure of Ferric Aplysia Limacina Myoglobin at 2.0 Angstroms Resolution Authors: Bolognesi, M. / Coda, A. / Gatti, G. / Ascenzi, P. / Brunori, M. #3: Journal: J.Mol.Biol. / Year: 1982 Title: Reactivity of Ferric Aplysia and Sperm Whale Myoglobins Towards Imidazole. X-Ray and Binding Study Authors: Bolognesi, M. / Cannillo, E. / Ascenzi, P. / Giacometti, G.M. / Merli, A. / Brunori, M. #4: Journal: Acta Crystallogr.,Sect.A (Supplement) / Year: 1978 Title: The Structure of Aplysia Limacina Myoglobin at 3.6 Angstroms Resolution Authors: Bolognesi, M. / Cannillo, E. / Oberti, R. / Rossi, G. / Ungaretti, L. #5: Journal: Acta Crystallogr.,Sect.B / Year: 1978 Title: The Crystal Structure of met-Myoglobin from Aplysia Limacina at 5 Angstroms Resolution Authors: Ungaretti, L. / Bolognesi, M. / Cannillo, E. / Oberti, R. / Rossi, G. #6: Journal: J.Mol.Biol. / Year: 1975 Title: Crystallization and Preliminary X-Ray Diffraction Studies on met-Myoglobin from Aplysia Limacina Authors: Blundell, T.L. / Brunori, M. / Curti, B. / Bolognesi, M. / Coda, A. / Fumagalli, M. / Ungaretti, L. #7: Journal: Int.J.Pept.Protein Res. / Year: 1973 Title: The Amino Acid Sequence of Myoglobin from the Mollusc Aplysia Limacina Authors: Tentori, L. / Vivaldi, G. / Carta, S. / Marinucci, M. / Massa, A. / Antonini, E. / Brunori, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4mba.cif.gz | 43.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4mba.ent.gz | 30.1 KB | Display | PDB format |
PDBx/mmJSON format | 4mba.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4mba_validation.pdf.gz | 485.8 KB | Display | wwPDB validaton report |
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Full document | 4mba_full_validation.pdf.gz | 490.5 KB | Display | |
Data in XML | 4mba_validation.xml.gz | 5.7 KB | Display | |
Data in CIF | 4mba_validation.cif.gz | 8.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mb/4mba ftp://data.pdbj.org/pub/pdb/validation_reports/mb/4mba | HTTPS FTP |
-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: 15349.438 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Aplysia limacina (slug sea hare) / References: UniProt: P02210 |
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#2: Chemical | ChemComp-HEM / |
#3: Chemical | ChemComp-IMD / |
#4: Water | ChemComp-HOH / |
Nonpolymer details | IMIDAZOLE IS COORDINATE |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 1.97 Å3/Da / Density % sol: 37.58 % | |||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 7 / Method: vapor diffusion | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Reflection | *PLUS Highest resolution: 1.6 Å / Lowest resolution: 5 Å / Num. obs: 14740 / % possible obs: 92 % |
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-Processing
Software | Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||
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Refinement | Rfactor obs: 0.18 / Highest resolution: 2 Å | ||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 2 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2 Å / Rfactor obs: 0.18 | ||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |