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- PDB-2yui: Solution structure of the N-terminal domain in human cytokine-ind... -

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Basic information

Entry
Database: PDB / ID: 2yui
TitleSolution structure of the N-terminal domain in human cytokine-induced apoptosis inhibitor anamorsin
ComponentsAnamorsin
KeywordsAPOPTOSIS / Cytokine-induced apoptosis inhibitor 1 / CIAPIN1 / Structural Genomics / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI
Function / homology
Function and homology information


Cytosolic iron-sulfur cluster assembly / iron-sulfur cluster assembly / hemopoiesis / mitochondrial intermembrane space / 2 iron, 2 sulfur cluster binding / 4 iron, 4 sulfur cluster binding / electron transfer activity / iron ion binding / apoptotic process / nucleolus ...Cytosolic iron-sulfur cluster assembly / iron-sulfur cluster assembly / hemopoiesis / mitochondrial intermembrane space / 2 iron, 2 sulfur cluster binding / 4 iron, 4 sulfur cluster binding / electron transfer activity / iron ion binding / apoptotic process / nucleolus / negative regulation of apoptotic process / mitochondrion / nucleoplasm / cytoplasm
Similarity search - Function
Anamorsin, C-terminal / : / Anamorsin, N-terminal / Anamorsin / Cytokine-induced anti-apoptosis inhibitor 1, Fe-S biogenesis / Methyltransferase domain / Vaccinia Virus protein VP39 / S-adenosyl-L-methionine-dependent methyltransferase superfamily / Rossmann fold / 3-Layer(aba) Sandwich / Alpha Beta
Similarity search - Domain/homology
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR
AuthorsSaito, K. / Tomizawa, T. / Tochio, N. / Kigawa, T. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI)
CitationJournal: To be Published
Title: Solution structure of the N-terminal domain in human cytokine-induced apoptosis inhibitor anamorsin
Authors: Saito, K. / Tomizawa, T. / Tochio, N. / Kigawa, T. / Yokoyama, S.
History
DepositionApr 6, 2007Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0Apr 15, 2008Provider: repository / Type: Initial release
Revision 1.1Jul 13, 2011Group: Version format compliance
Revision 1.2Mar 16, 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 1.3May 29, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: Anamorsin


Theoretical massNumber of molelcules
Total (without water)19,2001
Polymers19,2001
Non-polymers00
Water0
1


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

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Components

#1: Protein Anamorsin / Cytokine-induced apoptosis inhibitor 1 / CUA001


Mass: 19199.701 Da / Num. of mol.: 1 / Fragment: N-terminal domain
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Description: cell-free protein synthesis / Gene: IOH4051 / Plasmid: P051025-15 / References: UniProt: Q6FI81

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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: 1mM protein, 20mM d-Tris-HCl, 100mM NaCl, 1mM d-DTT, 0.02% NaN3; 90% H2O, 10% D2O
Solvent system: 90% H2O/10% D2O
Sample conditionsIonic strength: 120 / pH: 7.0 / Pressure: ambient / Temperature: 298 K

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NMR measurement

NMR spectrometerType: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 900 MHz

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Processing

NMR software
NameVersionDeveloperClassification
TopSpin1.3brukercollection
NMRPipe2006delaglioprocessing
NMRView5johnsondata analysis
CNS1.1structure solution
CNS1.1refinement
NMR representativeSelection criteria: lowest energy
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 100 / Conformers submitted total number: 20

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