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Open data
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Basic information
Entry | Database: PDB / ID: 7f19 | |||||||||
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Title | Structure of the G304E mutant of CueO | |||||||||
![]() | Blue copper oxidase CueO | |||||||||
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Function / homology | ![]() | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Takata, S.T. / Kawano, T.K. / Nakata, S.N. / Takado, K.T. / Imaizumi, R.I. / Sakai, N.S. / Takeshita, K.T. / Yamashita, S.Y. / Sakurai, T.S. / Kataoka, K.K. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structure of the G304E mutant of CueO Authors: Takata, S.T. / Kawano, T.K. / Nakata, S.N. / Takado, K.T. / Imaizumi, R.I. / Sakai, N.S. / Takeshita, K.T. / Yamashita, S.Y. / Sakurai, T.S. / Kataoka, K.K. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 112.3 KB | Display | ![]() |
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PDB format | ![]() | 80.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 3od3S S: Starting model for refinement |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 56695.055 Da / Num. of mol.: 1 / Mutation: G304E Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Gene: cueO, A9R57_04170, AUQ13_07730, BANRA_00502, BANRA_02318, BANRA_03294, BHS87_00550, BJJ90_21590, BMA87_12960, BUE81_03880, BvCms2454_01631, BvCmsHHP056_04875, BvCmsKKP036_02792, BvCmsKSP026_ ...Gene: cueO, A9R57_04170, AUQ13_07730, BANRA_00502, BANRA_02318, BANRA_03294, BHS87_00550, BJJ90_21590, BMA87_12960, BUE81_03880, BvCms2454_01631, BvCmsHHP056_04875, BvCmsKKP036_02792, BvCmsKSP026_04756, BvCmsSINP011_00803, BW690_21865, C5F72_22005, C5F73_07705, C5N07_08325, C6669_04510, C9E25_07140, CA593_03120, CG692_01085, CI693_14840, CWS33_09370, D0X26_09670, D3821_05970, D6T60_04275, D9C99_10035, D9D44_07015, D9I18_13120, D9J11_09660, D9J52_04795, D9Z28_05630, DAH34_04440, DJ503_00645, DNC98_11530, DT034_05590, E2119_07645, E2134_11740, E2135_03380, E4K53_07200, E4K55_07200, E4K61_10655, E5P28_13255, E5S44_09260, EA213_09430, EAI42_26240, EAI46_26365, EAI52_02170, EC1094V2_3732, EC3234A_2c01050, ECTO6_03944, EEP23_00405, EG808_12120, EI021_04575, EI041_03395, EJC75_22495, EL75_3641, EL79_3751, EL80_3698, EPT01_02830, ERS150873_01065, ETECE1441_03949, EYD11_18775, EYV18_05255, EYY78_13140, FRV13_02155, FV293_03130, G5632_10235, G5688_04010, G5696_01080, G9P49_18255, GHD50_13365, GKF39_00960, GKF74_00135, GKF86_00960, GKF89_02255, GKG12_02350, GQE22_02395, GQE33_14025, GQE34_09055, GQE42_19525, GQE64_01625, GQM04_26830, GRW02_08355, GRW05_24815, GRW57_18925, GRW80_09165, GRW81_09580, H4P50_20865, H4P51_20715, HH707_001039, HLT96_06715, HLU13_04335, HMQ05_02945, HNC40_15140, HNC94_15135, HNN86_16410, HPE39_04120, HV005_17560, HV022_19655, HV068_19765, HV109_19610, HVX22_18960, HVY77_21410, HVY79_03855, HVY93_19425, HVZ24_18700, HVZ62_10495, HX136_20845, NCTC11022_04845, NCTC9045_04770, NCTC9058_02748, NCTC9062_04168, NCTC9706_01385, RK56_013325, SAMEA3472043_02481, SAMEA3472070_02440, SAMEA3484427_01313, SAMEA3484429_01168, SAMEA3752557_00827, SAMEA3752559_03758, SAMEA3753300_01926, SK85_00121, WP2S18E08_38200, WP7S17E04_36210, WQ89_09325 Production host: ![]() ![]() ![]() ![]() |
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-Non-polymers , 5 types, 196 molecules ![](data/chem/img/C2O.gif)
![](data/chem/img/PEG.gif)
![](data/chem/img/CU.gif)
![](data/chem/img/NO3.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/PEG.gif)
![](data/chem/img/CU.gif)
![](data/chem/img/NO3.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-C2O / ![]() | ||||||
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#3: Chemical | ChemComp-PEG / ![]() #4: Chemical | ![]() #5: Chemical | ![]() #6: Water | ChemComp-HOH / | ![]() |
-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.03 Å3/Da / Density % sol: 39.39 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion, hanging drop / Details: PEG 3350, KNO3 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 9M / Detector: PIXEL / Date: Jan 27, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.77→48.993 Å / Num. obs: 43540 / % possible obs: 97.8 % / Redundancy: 1.79 % / CC1/2: 0.97 / Rrim(I) all: 0.198 / Net I/σ(I): 3.95 |
Reflection shell | Resolution: 1.77→1.88 Å / Mean I/σ(I) obs: 0.48 / Num. unique obs: 13250 / CC1/2: 0.466 / Rrim(I) all: 1.288 / % possible all: 95.1 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 3od3 Resolution: 1.773→48.335 Å / Cor.coef. Fo:Fc: 0.966 / Cor.coef. Fo:Fc free: 0.947 / WRfactor Rfree: 0.287 / WRfactor Rwork: 0.238 / SU B: 5.555 / SU ML: 0.155 / Average fsc free: 0.768 / Average fsc work: 0.7964 / Cross valid method: FREE R-VALUE / ESU R: 0.138 / ESU R Free: 0.137 Details: Hydrogens have been added in their riding positions
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK BULK SOLVENT | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 43.305 Å2
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Refinement step | Cycle: LAST / Resolution: 1.773→48.335 Å
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Refine LS restraints |
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LS refinement shell |
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