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Yorodumi- PDB-105d: SOLUTION STRUCTURES OF THE I-MOTIF TETRAMERS OF D(TCC), D(5MCCT) ... -
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-Basic information
Entry | Database: PDB / ID: 105d | ||||||||||||||||||
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Title | SOLUTION STRUCTURES OF THE I-MOTIF TETRAMERS OF D(TCC), D(5MCCT) AND D(T5MCC). NOVEL NOE CONNECTIONS BETWEEN AMINO PROTONS AND SUGAR PROTONS | ||||||||||||||||||
Components | DNA (5'-D(*Keywords | DNA | Function / homology | DNA | Function and homology information Method | SOLUTION NMR | Authors | Leroy, J.-L. / Gueron, M. | Citation | Journal: Structure / Year: 1995 | Title: Solution structures of the i-motif tetramers of d(TCC), d(5methylCCT) and d(T5methylCC): novel NOE connections between amino protons and sugar protons. Authors: Leroy, J.L. / Gueron, M. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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PDBx/mmCIF format | 105d.cif.gz | 55.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb105d.ent.gz | 38.3 KB | Display | PDB format |
PDBx/mmJSON format | 105d.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 105d_validation.pdf.gz | 318.8 KB | Display | wwPDB validaton report |
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Full document | 105d_full_validation.pdf.gz | 399 KB | Display | |
Data in XML | 105d_validation.xml.gz | 3.4 KB | Display | |
Data in CIF | 105d_validation.cif.gz | 4.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/05/105d ftp://data.pdbj.org/pub/pdb/validation_reports/05/105d | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: DNA chain | Mass: 837.599 Da / Num. of mol.: 4 / Source method: obtained synthetically |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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-Sample preparation
Crystal grow | *PLUS Method: other / Details: NMR |
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-Processing
Software |
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Refinement | Software ordinal: 1 Details: THE STRUCTURE IS FORMED OF FOUR EQUIVALENT TCC STRANDS DESIGNATED A, B, C, D. STRANDS A AND C, CONNECTED BY TWO HEMI-PROTONATED BASE PAIRS (C2.C2+ AND C3.C3+), FORM A PARALLEL-STRANDED ...Details: THE STRUCTURE IS FORMED OF FOUR EQUIVALENT TCC STRANDS DESIGNATED A, B, C, D. STRANDS A AND C, CONNECTED BY TWO HEMI-PROTONATED BASE PAIRS (C2.C2+ AND C3.C3+), FORM A PARALLEL-STRANDED DUPLEX. THE RELATION BETWEEN STRANDS B AND D IS THE SAME AS THAT BETWEEN STRANDS A AND C. THE STRANDS OF EACH DUPLEX ARE RELATED BY A LONGITUDINAL TWO-FOLD SYMMETRY AXIS. THE DUPLEXES HAVE THE SAME LONGITUDINAL AXIS, AND THEY ARE ANTI-PARALLEL. THEIR HEMI-PROTONATED C.C+ BASE PAIRS ARE INTERCALATED FACE-TO-FACE. THE DUPLEXES CAN BE TRANSFORMED INTO ONE ANOTHER BY A 180 DEGREE ROTATION AROUND A TWO-FOLD AXIS PERPENDICULAR TO THE LONGITUDINAL AXIS, AND CONSEQUENTLY AROUND A THIRD AXIS PERPENDICULAR TO THE FIRST TWO. THE H3 IMINO PROTONS OF THE HEMI-PROTONATED C.C+ PAIRS WERE NOT INCORPORATED IN THE COMPUTATIONS. | ||||||||
NMR ensemble | Conformers submitted total number: 8 |