endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters / micrococcal nuclease / nucleic acid binding / extracellular region / membrane / metal ion binding Similarity search - Function
Thermonuclease family signature 1. / OB fold (Dihydrolipoamide Acetyltransferase, E2P) - #90 / Thermonuclease active site / Thermonuclease family signature 2. / Staphylococcal nuclease (SNase-like), OB-fold / Staphylococcal nuclease homologue / Thermonuclease domain profile. / Staphylococcal nuclease homologues / SNase-like, OB-fold superfamily / OB fold (Dihydrolipoamide Acetyltransferase, E2P) ...Thermonuclease family signature 1. / OB fold (Dihydrolipoamide Acetyltransferase, E2P) - #90 / Thermonuclease active site / Thermonuclease family signature 2. / Staphylococcal nuclease (SNase-like), OB-fold / Staphylococcal nuclease homologue / Thermonuclease domain profile. / Staphylococcal nuclease homologues / SNase-like, OB-fold superfamily / OB fold (Dihydrolipoamide Acetyltransferase, E2P) / Beta Barrel / Mainly Beta Similarity search - Domain/homology
The asymmetric unit contains one monomer whose N-terminus has rearranged to wrap around a symmetry-related molecule, creating a domain-swapped dimeric assembly.
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Components
#1: Protein
Thermonuclease
Mass: 16201.527 Da / Num. of mol.: 1 / Mutation: G50F/V51N/V66R/P117G/H124L/S128A/Del44-49 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Staphylococcus aureus (bacteria) / Gene: nuc / Plasmid: pET24a+ / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P00644, micrococcal nuclease
Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jan 25, 2010 Details: MERIDIONALLY-BENT FUSED SILICA MIRROR WITH PALLADIUM AND UNCOATED STRIPES VERTICALLY- FOCUSING AT 6.6:1 DEMAGNIFICATION.
Radiation
Monochromator: DOUBLE SILICON(111) CRYSTAL MONOCHROMATOR WITH CRYOGENICALLY- COOLED FIRST CRYSTAL AND SAGITTALLY-BENT SECOND CRYSTAL HORIZONTALLY-FOCUSING AT 3.3:1 DEMAGNIFICATION. Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength
Wavelength: 1.1 Å / Relative weight: 1
Reflection
Resolution: 1.85→50 Å / Num. obs: 17185 / % possible obs: 99.9 % / Observed criterion σ(I): 0 / Redundancy: 21.4 % / Biso Wilson estimate: 31 Å2 / Rmerge(I) obs: 0.064 / Net I/σ(I): 17.4
Reflection shell
Resolution: 1.85→1.88 Å / Redundancy: 21.4 % / Rmerge(I) obs: 0.331 / % possible all: 100
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Phasing
Phasing
Method: molecular replacement
Phasing MR
Rfactor: 45.94 / Model details: Phaser MODE: MR_AUTO
Highest resolution
Lowest resolution
Rotation
2.5 Å
47.25 Å
Translation
2.5 Å
47.25 Å
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Processing
Software
Name
Version
Classification
NB
SCALEPACK
datascaling
PHASER
2.1.4
phasing
REFMAC
refinement
PDB_EXTRACT
3.1
dataextraction
HKL-2000
datareduction
HKL-2000
datascaling
Refinement
Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ID: 3BDC RESIDUES 21-141. ALL B-FACTORS WERE SET TO 20 A^2. ARG-66, PHE-113, VAL-114, PHE-115, LYS-116 WERE TRUNCATED TO ALA.
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