+Open data
-Basic information
Entry | Database: PDB / ID: 1b1b | ||||||
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Title | IRON DEPENDENT REGULATOR | ||||||
Components | PROTEIN (IRON DEPENDENT REGULATOR) | ||||||
Keywords | METAL BINDING PROTEIN / IDER / IRON DEPEDENT REGULATOR / MYCOBACTERIUM TUBERCULOSIS | ||||||
Function / homology | Function and homology information catechol-containing siderophore biosynthetic process / cobalt ion binding / cadmium ion binding / nickel cation binding / transition metal ion binding / peptidoglycan-based cell wall / ferrous iron binding / manganese ion binding / response to oxidative stress / protein dimerization activity ...catechol-containing siderophore biosynthetic process / cobalt ion binding / cadmium ion binding / nickel cation binding / transition metal ion binding / peptidoglycan-based cell wall / ferrous iron binding / manganese ion binding / response to oxidative stress / protein dimerization activity / iron ion binding / DNA-binding transcription factor activity / negative regulation of DNA-templated transcription / regulation of DNA-templated transcription / DNA binding / zinc ion binding / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | Mycobacterium tuberculosis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.6 Å | ||||||
Authors | Pohl, E. / Holmes, R.K. / Hol, W.G. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1999 Title: Crystal structure of the iron-dependent regulator (IdeR) from Mycobacterium tuberculosis shows both metal binding sites fully occupied. Authors: Pohl, E. / Holmes, R.K. / Hol, W.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1b1b.cif.gz | 50 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1b1b.ent.gz | 35.9 KB | Display | PDB format |
PDBx/mmJSON format | 1b1b.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/b1/1b1b ftp://data.pdbj.org/pub/pdb/validation_reports/b1/1b1b | 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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-Components
#1: Protein | Mass: 15902.218 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mycobacterium tuberculosis (bacteria) / Plasmid: PMTBKS / Production host: Escherichia coli (E. coli) / Strain (production host): DH5-ALPHA / References: UniProt: P0A672, UniProt: P9WMH1*PLUS | ||||
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#2: Chemical | #3: Chemical | ChemComp-SO4 / | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 4.92 Å3/Da / Density % sol: 74.98 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 7.5 / Details: pH 7.50 | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging dropDetails: protein solution is mixed in a 2:1 ratio with well solution | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL7-1 / Wavelength: 1.008 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Details: MIRROR |
Radiation | Monochromator: MIRROR / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.008 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→8 Å / Num. obs: 9277 / % possible obs: 95.2 % / Observed criterion σ(I): 2 / Redundancy: 15 % / Rsym value: 0.07 / Net I/σ(I): 19.6 |
Reflection shell | Resolution: 2.6→2.7 Å / Redundancy: 10 % / Mean I/σ(I) obs: 4.1 / Rsym value: 0.45 / % possible all: 93 |
Reflection | *PLUS Num. measured all: 147166 / Rmerge(I) obs: 0.07 |
Reflection shell | *PLUS % possible obs: 92.6 % / Rmerge(I) obs: 0.45 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: AMORE Resolution: 2.6→8 Å / Cross valid method: THROUGHOUT / σ(F): 2
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Displacement parameters | Biso mean: 54 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.6→8 Å
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Refine LS restraints |
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