- PDB-7qby: Refined structure of the T193A mutant in the C-terminal domain of... -
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Basic information
Entry
Database: PDB / ID: 7qby
Title
Refined structure of the T193A mutant in the C-terminal domain of DNAJB6b
Components
Isoform B of DnaJ homolog subfamily B member 6
Keywords
CHAPERONE / Hsp40 chaperone / anti-aggregation
Function / homology
Function and homology information
chorion development / chorio-allantoic fusion / syncytiotrophoblast cell differentiation involved in labyrinthine layer development / negative regulation of inclusion body assembly / intermediate filament organization / ATPase activator activity / protein localization to nucleus / Regulation of HSF1-mediated heat shock response / chaperone-mediated protein folding / regulation of cellular response to heat ...chorion development / chorio-allantoic fusion / syncytiotrophoblast cell differentiation involved in labyrinthine layer development / negative regulation of inclusion body assembly / intermediate filament organization / ATPase activator activity / protein localization to nucleus / Regulation of HSF1-mediated heat shock response / chaperone-mediated protein folding / regulation of cellular response to heat / protein folding chaperone / heat shock protein binding / Hsp70 protein binding / extracellular matrix organization / negative regulation of cysteine-type endopeptidase activity involved in apoptotic process / Z disc / regulation of protein localization / unfolded protein binding / protein folding / protein-folding chaperone binding / actin cytoskeleton organization / negative regulation of DNA-templated transcription / perinuclear region of cytoplasm / DNA binding / nucleoplasm / identical protein binding / membrane / nucleus / cytosol / cytoplasm Similarity search - Function
BMRB: 34686Refined structure of the T193A mutant in the C-terminal domain of DNAJB6b. BMRB ID 30656 relates to the wild type sequence (w/ different numbering) and was also used to derive assignments.
Mass: 6444.378 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: The C terminal domain of DNAJB6b including the T193A mutation Source: (gene. exp.) Homo sapiens (human) / Gene: DNAJB6, HSJ2, MRJ, MSJ1 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: O75190
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Experimental details
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Experiment
Experiment
Method: SOLUTION NMR
NMR experiment
Conditions-ID
Experiment-ID
Solution-ID
Sample state
Spectrometer-ID
Type
1
1
1
isotropic
1
3D 1H-13C NOESY HCH
1
2
1
isotropic
1
3D 1H-13C NOESY CCH
1
3
1
isotropic
1
JHNHAARTSY
1
4
1
isotropic
1
3D HN(CA)CB
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Sample preparation
Details
Type: solution Contents: 0.2 mM [U-13C; U-15N] DNAJ HOMOLOG SUBFAMILY B MEMBER 6 C-TERMINAL DOMAIN, 20 mM sodium phosphate, 150 mM sodium chloride, 0.02 % v/v sodium azide, 95% H2O/5% D2O Label: 13C15N_sample / Solvent system: 95% H2O/5% D2O
Sample
Conc. (mg/ml)
Component
Isotopic labeling
Solution-ID
0.2mM
DNAJ HOMOLOG SUBFAMILY B MEMBER 6 C-TERMINAL DOMAIN
[U-13C; U-15N]
1
20mM
sodiumphosphate
naturalabundance
1
150mM
sodiumchloride
naturalabundance
1
0.02 % v/v
sodiumazide
naturalabundance
1
Sample conditions
Ionic strength: 87 mM / Label: condition_1 / pH: 6.7 / Pressure: 1 atm / Temperature: 288 K
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NMR measurement
NMR spectrometer
Type: Bruker AVANCE III / Manufacturer: Bruker / Model: AVANCE III / Field strength: 600 MHz
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Processing
NMR software
Name
Developer
Classification
X-PLOR NIH
Schwieters, Kuszewski, TjandraandClore
refinement
NMRPipe
Delaglio, Grzesiek, Vuister, Zhu, PfeiferandBax
processing
CcpNmr Analysis
CCPN
chemicalshiftassignment
Refinement
Method: simulated annealing / Software ordinal: 1
NMR representative
Selection criteria: 1
NMR ensemble
Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 10
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