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- PDB-1wwv: Solution structure of the SAM domain of human connector enhancer ... -

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Entry
Database: PDB / ID: 1wwv
TitleSolution structure of the SAM domain of human connector enhancer of KSR-like protein CNK1
ComponentsConnector enhancer of kinase suppressor of ras 1
KeywordsTRANSCRIPTION / structural genomics / kinase suppressor / protein regulation / RIKEN Structural Genomics/Proteomics Initiative / RSGI
Function / homology
Function and homology information


cell surface receptor protein tyrosine kinase signaling pathway / Signaling by high-kinase activity BRAF mutants / MAP2K and MAPK activation / Signaling by RAF1 mutants / Signaling by moderate kinase activity BRAF mutants / Paradoxical activation of RAF signaling by kinase inactive BRAF / Signaling downstream of RAS mutants / Signaling by BRAF and RAF1 fusions / cell-cell junction / protein-macromolecule adaptor activity ...cell surface receptor protein tyrosine kinase signaling pathway / Signaling by high-kinase activity BRAF mutants / MAP2K and MAPK activation / Signaling by RAF1 mutants / Signaling by moderate kinase activity BRAF mutants / Paradoxical activation of RAF signaling by kinase inactive BRAF / Signaling downstream of RAS mutants / Signaling by BRAF and RAF1 fusions / cell-cell junction / protein-macromolecule adaptor activity / cell cortex / plasma membrane
Similarity search - Function
CRIC domain / : / Connector enhancer of kinase suppressor of ras / CRIC domain profile. / : / Transcription Factor, Ets-1 / SAM domain (Sterile alpha motif) / SAM domain profile. / Sterile alpha motif. / Sterile alpha motif domain ...CRIC domain / : / Connector enhancer of kinase suppressor of ras / CRIC domain profile. / : / Transcription Factor, Ets-1 / SAM domain (Sterile alpha motif) / SAM domain profile. / Sterile alpha motif. / Sterile alpha motif domain / PH domain / Sterile alpha motif/pointed domain superfamily / PH domain profile. / Pleckstrin homology domain. / Pleckstrin homology domain / PDZ domain profile. / PDZ domain / PDZ superfamily / DNA polymerase; domain 1 / PH-like domain superfamily / Orthogonal Bundle / Mainly Alpha
Similarity search - Domain/homology
Connector enhancer of kinase suppressor of ras 1
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR / torsion angle dynamics
AuthorsGoroncy, A. / Kigawa, T. / Koshiba, S. / Kobayashi, N. / Tochio, N. / Inoue, M. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI)
CitationJournal: To be Published
Title: Solution structure of the SAM domain of human connector enhancer of KSR-like protein CNK1
Authors: Goroncy, A. / Kigawa, T. / Koshiba, S. / Kobayashi, N. / Tochio, N. / Inoue, M. / Yokoyama, S.
History
DepositionJan 18, 2005Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0Jul 18, 2005Provider: repository / Type: Initial release
Revision 1.1Apr 30, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Mar 2, 2022Group: Data collection / Database references / Derived calculations
Category: database_2 / pdbx_nmr_software ...database_2 / pdbx_nmr_software / pdbx_nmr_spectrometer / pdbx_struct_assembly / pdbx_struct_oper_list / struct_ref_seq_dif
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_nmr_software.name / _pdbx_nmr_spectrometer.model / _struct_ref_seq_dif.details
Revision 1.4May 29, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Assembly

Deposited unit
A: Connector enhancer of kinase suppressor of ras 1


Theoretical massNumber of molelcules
Total (without water)9,7581
Polymers9,7581
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)20 / 100target function
RepresentativeModel #1lowest target function

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Components

#1: Protein Connector enhancer of kinase suppressor of ras 1 / human connector enhancer of KSR-like protein CNK1 / Connector enhancer of KSR1 / hCNK1 / Connector ...human connector enhancer of KSR-like protein CNK1 / Connector enhancer of KSR1 / hCNK1 / Connector enhancer of KSR-like / CNK homolog protein 1


Mass: 9757.766 Da / Num. of mol.: 1 / Fragment: SAM domain
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Description: Cell-free protein synthesis / Gene: CNKSR1 / Plasmid: P040301-01 / References: UniProt: Q969H4

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1113D 15N-separated NOESY
1213D 13C-separated NOESY

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Sample preparation

DetailsContents: 1.0mM SAM domain, 20mM Tris-HCl, 100mM NaCl, 1mM d-DTT, 0.02% NaN3
Solvent system: 90% H2O/10% D2O
Sample conditionsIonic strength: 120mM / pH: 7 / Pressure: ambient / Temperature: 298 K

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NMR measurement

RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelengthRelative weight: 1
NMR spectrometerType: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz

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Processing

NMR software
NameVersionDeveloperClassification
XwinNMR3.5BRUKERcollection
NMRPipe20020425FRANK DELAGLIOprocessing
NMRView5.04BRUCE A. JOHNSONdata analysis
KUJIRA0.896NAOHIRO KOBAYASHIdata analysis
CYANA2.0.17PETER GUENTERTrefinement
RefinementMethod: torsion angle dynamics / Software ordinal: 1
NMR representativeSelection criteria: lowest target function
NMR ensembleConformer selection criteria: target function / Conformers calculated total number: 100 / Conformers submitted total number: 20

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