BMRB: 16680

Solution structure of human stem cell transcription factor Nanog

Authors

Sahu, S.C., Markley, J.L.

Assembly

Nanog

Entity

1. Nanog (polymer, Thiol state: all free), 84 monomers, 10050.43 Da Detail

SKQPTSAENS VAKKEDKVPV KKQKTRTVFS STQLCVLNDR FQRQKYLSLQ QMQELSNILN LSYKQVKTWF QNQRMKSKRW QKNN

Formula weight

10050.43 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

MOLECULAR DYNAMICS IN EXPLICIT SOLVENT

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 97.7 %, Completeness (bb): 99.6 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	97.7 % (1058 of 1083)	99.3 % (578 of 582)	99.5 % (396 of 398)	81.6 % (84 of 103)
Backbone	99.6 % (498 of 500)	100.0 % (166 of 166)	99.6 % (251 of 252)	98.8 % (81 of 82)
Sidechain	96.6 % (644 of 667)	99.0 % (412 of 416)	99.6 % (229 of 230)	14.3 % (3 of 21)
Aromatic	97.1 % (68 of 70)	100.0 % (35 of 35)	100.0 % (33 of 33)	0.0 % (0 of 2)
Methyl	100.0 % (70 of 70)	100.0 % (35 of 35)	100.0 % (35 of 35)

1. Nanog

SKQPTSAENS VAKKEDKVPV KKQKTRTVFS STQLCVLNDR FQRQKYLSLQ QMQELSNILN LSYKQVKTWF QNQRMKSKRW QKNN

Show sample condition

Sample

Solvent system 95% H2O, 5% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 0.7 mM nanog U-15N/13C, 10 mM MOPS, 5 mM Dithiothreitol, 250 mM NaCl

#	Name	Isotope labeling	Type	Concentration
1	Nanog	[U-95% 13C; U-90% 15N]		0.7 mM
2	MOPS	natural abundance		10 mM
3	Dithiothreitol	natural abundance		5 mM
4	NaCl	natural abundance		250 mM
5	H2O	natural abundance		95 %
6	D2O	natural abundance		5 %

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LACS Plot; CA

Referencing offset: -0.06 ppm, Outliers: 1 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	na	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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LACS Plot; CB

Referencing offset: -0.06 ppm, Outliers: 1 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	na	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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LACS Plot; HA

Referencing offset: 0.04 ppm, Outliers: 2 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	na	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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LACS Plot; CO

Referencing offset: -0.07 ppm, Outliers: 2 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	na	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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Protein Blocks Logo

Calculated from 20 models in PDB: 2KT0, Strand ID: A Detail

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Release date

2012-08-02

Citation

Attenuation of cancer-initiating cells stemness properties by abrogating S100A4 calcium binding ability in head and neck cancers
Sahu, S.C., Markley, J.L.
Oncotarget (2016), 7, 78946-78957, PubMed 27793047 , DOI 10.18632/oncotarget.12935 , Abstract

Related entities 1. Nanog, : 1 : 5 : 81 entities Detail

Interaction partners 1. Nanog, : 1 interactors Detail

Experiments performed 3 experiments Detail