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Found 1 Document (0.38 seconds)

BMRB: 17709

2LEE

Solution-state structures of monomeric and dimeric G-quadruplexes formed by a sequence from N-myc

Authors

Trajkovski, M., Plavec, J., Webba da Silva, M.

Assembly

N-myc

Entity

1. N-myc (polymer, Thiol state: not present), 19 monomers, 6127.892 Da Detail

TAGGGCGGGA GGGAGGGAA

Formula weight

6127.892 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 64.9 %, Completeness (bb): 58.6 % Detail

Polymer type: polydeoxyribonucleotide

	Total	¹H
All	64.9 % (113 of 174)	64.9 % (113 of 174)
Suger, PO4	58.6 % (78 of 133)	58.6 % (78 of 133)
Nucleobase	85.4 % (35 of 41)	85.4 % (35 of 41)
Aromatic	89.5 % (34 of 38)	89.5 % (34 of 38)
Methyl	100.0 % (1 of 1)	100.0 % (1 of 1)

1. N-myc

TAGGGCGGGA GGGAGGGAA

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 6.5

#	Name	Isotope labeling	Concentration
1	N-myc	natural abundance	0.4 ~ 6.6 mM
2	D2O	natural abundance	10 %
3	H2O	natural abundance	90 %

Release date

2012-03-08

Citation

Unique structural features of interconverting monomeric and dimeric G-quadruplexes adopted by a sequence from the intron of the N-myc gene
Trajkovski, M., Webba da Silva, M., Plavec, J.
J. Am. Chem. Soc. (2012), 134, 4132-4141, PubMed 22303871 , DOI 10.1021/ja208483v , Abstract

Entries sharing articles BMRB: 1 entries Detail

BMRB: 17708 released on 2012-03-08
Title Solution-state structures of monomeric and dimeric G-quadruplexes adopted by a sequence from N-myc

Related entities 1. N-myc, : 1 entities Detail

Experiments performed 4 experiments Detail

NMR combined restraints 4 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints	combined_17709_2lee.nef
Input source #2: Coordindates	2lee.cif
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	None
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	Warning

Disulfide bonds

None

Other bonds (neither disulfide, covalent nor hydrogen bonds, e.g. Zinc–sulphur bond)

None

Non-standard residues

None

Sequence alignments

Entity_assembly_ID (NMR): A vs Auth_asym_ID (model): A

--------10---------
TAGGGCGGGAGGGAGGGAA
|||||||||||||||||||
TAGGGCGGGAGGGAGGGAA

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	19	0	0	100.0

Content subtype: combined_17709_2lee.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	OK	113		100.0 (chain: A, length: 19)
1	Distance restraints	AMBER_distance_constraints_2	OK	332 (1)	noe	100.0 (chain: A, length: 19)
2	Distance restraints	AMBER_distance_constraints_3	OK	24 (1)	hbond	63.2 (chain: A, length: 19)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: OK
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 19, Sequence coverage: 100.0%
- Total number of assignments
  - ¹H chemical shifts: 113
- Completeness of assignments
  - Entity_assemble_ID: A
- Histogram of normalized assigned chemical shifts

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	174	113	64.9

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	133	78	58.6

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	41	35	85.4

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	1	1	100.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	22	19	86.4

Distance restraints

Saveframe: AMBER_distance_constraints_2
- Status: OK
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 19, Sequence coverage: 100.0%
- Total number of restraints: 332
- Weight of restraints: 1.0 (332)
- Potential type of restraints: square-well-parabolic (332)
- Range of distance target values: 2.95, 5.25 (Å)
- Histogram of distance target values
- Histogram of discrepancy in distance target values
- Distance restraints per residue
  - Chain_ID: A
- Distance restraints on contact map
- Saveframe: AMBER_distance_constraints_3
  - Status: OK
  - Experiment type: hbond
  - Sequence coverage of experimental data
    - Entity_assembly_ID: A, Chain length: 19, Sequence coverage: 63.2%
  - Total number of restraints: 24
  - Weight of restraints: 1.0 (24)
  - Potential type of restraints: square-well-parabolic (24)
  - Range of distance target values: 2.05, 2.25 (Å)
  - Histogram of distance target values
  - Distance restraints per residue
    - Chain_ID: A
  - Distance restraints on contact map

Keywords dimeric, DNA, G-quadruplex, intron, monomeric, NMR-structure, N-myc

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Found 1 Document (0.38 seconds)

BMRB: 17709

Sample

Entries sharing articles BMRB: 1 entries Detail

Related entities 1. N-myc, : 1 entities Detail

Experiments performed 4 experiments Detail

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

NMR combined restraints 4 contents Detail