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BMRB: 16577

2LD5

Backbone Chemical Shift Assignments of Mouse HOXA13 DNA Binding Domain in Complex with DNA Duplex

Authors

Zhang, Y.

Assembly

Homeodomain DNA complex

Entity

1. DNA duplex chain 1 (polymer, Thiol state: not present), 11 monomers, 3397.211 Da Detail

CAAATAAAAT C

2. DNA duplex chain 2 (polymer, Thiol state: not present), 11 monomers, 3432.189 Da Detail

GATTTTATTT G

3. Hoxa13 DNA binding domain (polymer, Thiol state: not present), 73 monomers, 8792.142 Da Detail

GSHMLEGRKK RVPYTKVQLK ELEREYATNK FITKDKRRRI SATTNLSERQ VTIWFQNRRV KEKKVINKLK TTS

Total weight

15621.541 Da

Max. entity weight

8792.142 Da

Source organism

Mus musculus

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 76.8 %, Completeness: 40.6 %, Completeness (bb): 64.7 % Detail

Polymer type: polydeoxyribonucleotide polypeptide(D)

	Total	¹H	¹³C	¹⁵N
All	40.6 % (465 of 1146)	24.9 % (177 of 712)	61.0 % (216 of 354)	90.0 % (72 of 80)
Backbone	64.7 % (382 of 590)	35.2 % (106 of 301)	94.9 % (206 of 217)	97.2 % (70 of 72)
Sidechain	24.2 % (152 of 627)	17.5 % (72 of 411)	37.5 % (78 of 208)	25.0 % (2 of 8)
Aromatic	9.4 % (9 of 96)	11.4 % (8 of 70)	0.0 % (0 of 25)	100.0 % (1 of 1)
Methyl	18.8 % (16 of 85)	21.3 % (10 of 47)	15.8 % (6 of 38)

1. DNA duplex chain 1

CAAATAAAAT C

2. DNA duplex chain 2

GATTTTATTT G

3. Hoxa13 DNA binding domain

GSHMLEGRKK RVPYTKVQLK ELEREYATNK FITKDKRRRI SATTNLSERQ VTIWFQNRRV KEKKVINKLK TTS

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 310 K, pH 6.0

#	Name	Isotope labeling	Concentration
1	DNA duplex, chain 1	natural abundance	0.5 mM
2	DNA duplex, chain 2	natural abundance	0.5 mM
3	Hoxa13 DNA binding domain	[U-98% 13C; U-98% 15N]	0.5 mM
4	sodium phosphate	natural abundance	20 mM
5	magnesium chloride	natural abundance	5 mM

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 310 K, pH 6.0

#	Name	Isotope labeling	Concentration
6	DNA duplex, chain 1	natural abundance	0.5 mM
7	DNA duplex, chain 2	natural abundance	0.5 mM
8	Hoxa13 DNA binding domain	[U-98% 13C; U-98% 15N]	0.5 mM
9	sodium phosphate	natural abundance	20 mM
10	magnesium chloride	natural abundance	5 mM

LACS Plot; CA

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

Referencing offset: -0.07 ppm, Outliers: 1 Detail

LACS Plot; CB

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

Referencing offset: -0.07 ppm, Outliers: 1 Detail

LACS Plot; HA

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

Referencing offset: 0.01 ppm, Outliers: 2 Detail

LACS Plot; CO

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

Referencing offset: -0.51 ppm, Outliers: 2 Detail

Protein Blocks Logo

Calculated from 10 models in PDB: 2LD5, Strand ID: A Detail

Release date

2009-10-25

Citation

Backbone chemical shift assignments of mouse HOXA13 DNA binding domain bound to duplex DNA
Zhang, Y., Thornburg, C.K., Stadler, H., Ames, J.B.
Biomol. NMR Assign. (2010), 4, 97-99, PubMed 20232265 , DOI 10.1007/s12104-010-9216-y , Abstract

Related entities 3. Hoxa13 DNA binding domain, : 1 : 8 : 176 entities Detail

Interaction partners 3. Hoxa13 DNA binding domain, : 1 interactors Detail

More details for 1 interactors identified by 1 citations

Experiments performed 7 experiments Detail

1 2D 1H-15N HSQC