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Yorodumi- PDB-1ovb: THE MECHANISM OF IRON UPTAKE BY TRANSFERRINS: THE STRUCTURE OF AN... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1ovb | ||||||
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Title | THE MECHANISM OF IRON UPTAKE BY TRANSFERRINS: THE STRUCTURE OF AN 18KD NII-DOMAIN FRAGMENT AT 2.3 ANGSTROMS RESOLUTION | ||||||
Components | OVOTRANSFERRIN | ||||||
Keywords | IRON TRANSPORT PROTEIN | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Anas sp. (bird) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.3 Å | ||||||
Authors | Kuser, P. / Lindley, P. / Sarra, R. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 1993 Title: The mechanism of iron uptake by transferrins: the structure of an 18 kDa NII-domain fragment from duck ovotransferrin at 2.3 A resolution. Authors: Lindley, P.F. / Bajaj, M. / Evans, R.W. / Garratt, R.C. / Hasnain, S.S. / Jhoti, H. / Kuser, P. / Neu, M. / Patel, K. / Sarra, R. / Strange, R. / Walton, A. #1: Journal: J.Inorg.Biochem. / Year: 1992 Title: New Perspectives on the Structure and Function of Transferrins Authors: Baker, E.N. / Lindley, P.F. #2: Journal: Acta Crystallogr.,Sect.B / Year: 1990 Title: High-Resolution X-Ray Studies on Rabbit Serum Transferrin-Preliminary Structure Analysis of the N-Terminal Half-Molecule at 2.3 Angstroms Resolution Authors: Sarra, R. / Garratt, R. / Gorinsky, B. / Jhoti, H. / Lindley, P. #3: Journal: Biochemistry / Year: 1988 Title: Molecular Structure of Serum Transferrin at 3.3 Angstroms Resolution Authors: Bailey, S. / Evans, R.W. / Garratt, R.C. / Gorinsky, B. / Hasnain, S. / Horsburgh, C. / Jhoti, H. / Lindley, P.F. / Mydin, A. / Sarra, R. / Watson, J.L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1ovb.cif.gz | 40.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ovb.ent.gz | 31.1 KB | Display | PDB format |
PDBx/mmJSON format | 1ovb.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ov/1ovb ftp://data.pdbj.org/pub/pdb/validation_reports/ov/1ovb | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: GLY 104 - THR 105 OMEGA ANGLE = 137.204 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION 2: ALA 126 - GLY 127 OMEGA ANGLE = 217.267 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION 3: ILE 141 - GLU 142 OMEGA ANGLE = 143.256 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION 4: GLU 142 - SER 143 OMEGA ANGLE = 242.000 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION 5: GLU 224 - LEU 225 OMEGA ANGLE = 211.241 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION |
-Components
#1: Protein | Mass: 17428.719 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Anas sp. (bird) / References: UniProt: P56410 |
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#2: Chemical | ChemComp-FE / |
#3: Chemical | ChemComp-CO3 / |
#4: Water | ChemComp-HOH / |
Sequence details | THE SEQUENCE IS THAT DETERMINED |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.34 Å3/Da / Density % sol: 47.34 % | ||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 4 ℃ / pH: 7.8 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.3 Å / Num. obs: 6535 / % possible obs: 90.1 % / Num. measured all: 13822 / Rmerge(I) obs: 0.044 |
-Processing
Software |
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Refinement | Resolution: 2.3→7 Å /
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Refinement step | Cycle: LAST / Resolution: 2.3→7 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.3 Å / Lowest resolution: 7 Å / Num. reflection obs: 6555 / Rfactor obs: 0.195 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Highest resolution: 2.3 Å / Lowest resolution: 2.44 Å / Total num. of bins used: 6 / Num. reflection obs: 1098 / Rfactor obs: 0.338 |