- SASDD85: PDZK1 Domain 1-4 (Uncharacterized protein C1orf159) -
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Open data
ID or keywords:
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Basic information
Entry
Database: SASBDB / ID: SASDD85
Sample
PDZK1 Domain 1-4
Uncharacterized protein C1orf159 (protein), Homo sapiens
Function / homology
Protein of unknown function DUF4501 / Domain of unknown function (DUF4501) / membrane => GO:0016020 / Uncharacterized protein C1orf159
Function and homology information
Biological species
Homo sapiens (human)
Citation
Journal: Structure / Year: 2018 Title: Probing the Architecture of a Multi-PDZ Domain Protein: Structure of PDZK1 in Solution. Authors: Nelly R Hajizadeh / Joanna Pieprzyk / Petr Skopintsev / Ali Flayhan / Dmitri I Svergun / Christian Löw / Abstract: The scaffolding protein PDZK1 has been associated with the regulation of membrane transporters. It contains four conserved PDZ domains, which typically recognize a 3-5-residue long motif at the C ...The scaffolding protein PDZK1 has been associated with the regulation of membrane transporters. It contains four conserved PDZ domains, which typically recognize a 3-5-residue long motif at the C terminus of the binding partner. The atomic structures of the individual domains are available but their spatial arrangement in the full-length context influencing the binding properties remained elusive. Here we report a systematic study of full-length PDZK1 and deletion constructs using small-angle X-ray scattering, complemented with biochemical and functional studies on PDZK1 binding to known membrane protein partners. A hybrid modeling approach utilizing multiple scattering datasets yielded a well-defined, extended, asymmetric L-shaped domain organization of PDZK1 in contrast to a flexible "beads-on-string" model predicted by bioinformatics analysis. The linker regions of PDZK1 appear to play a central role in the arrangement of the four domains underlying the importance of studying scaffolding proteins in their full-length context.
Instrument name: PETRA III EMBL P12 / City: Hamburg / 国: Germany / Type of source: X-ray synchrotron / Wavelength: 0.124 Å / Dist. spec. to detc.: 4 mm
Detector
Name: Pilatus 2M
Scan
Title: PDZK1 Domain 1-4 / Measurement date: Oct 28, 2016 / Storage temperature: 11 °C / Cell temperature: 15 °C / Exposure time: 0.045 sec. / Number of frames: 30 / Unit: 1/nm /
Min
Max
Q
0.0279
3.7771
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 956 /
Min
Max
Q
0.0592187
2.05055
P(R) point
1
956
R
0
14.98
Result
Type of curve: merged
Experimental
Standard
Porod
MW
50.2 kDa
50.2 kDa
75 kDa
Volume
-
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120.03 nm3
P(R)
Guinier
Guinier error
Forward scattering, I0
0.0435
0.043
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Radius of gyration, Rg
4.056 nm
3.94 nm
0.02
Min
Max
D
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14.98
Guinier point
16
147
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