BMRBj - BMREntryMaster

Found 1 Document (0.685 seconds)

BMRB: 34463

6TOB

Structural and DNA Binding Properties of Mycobacterial Integration Host Factor mIHF

Authors

Herrmann, T.

Assembly

Integration host factor MIHF

Entity

1. Integration host factor MIHF (polymer, Thiol state: not present), 109 monomers, 11886.70 Da Detail

GSHMVALPQL TDEQRAAALE KAAAARRARA ELKDRLKRGG TNLTQVLKDA ESDEVLGKMK VSALLEALPK VGKVKAQEIM TELEIAPTRR LRGLGDRQRK ALLEKFGSA

Formula weight

11886.7 Da

Source organism

Mycobacterium tuberculosis

Exptl. method

solution NMR

Refine. method

molecular dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 95.4 %, Completeness: 77.7 %, Completeness (bb): 77.9 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	77.7 % (971 of 1250)	81.3 % (536 of 659)	69.3 % (332 of 479)	92.0 % (103 of 112)
Backbone	77.9 % (505 of 648)	90.1 % (201 of 223)	64.6 % (206 of 319)	92.5 % (98 of 106)
Sidechain	79.9 % (562 of 703)	76.8 % (335 of 436)	85.1 % (222 of 261)	83.3 % (5 of 6)
Aromatic	0.0 % (0 of 14)	0.0 % (0 of 7)	0.0 % (0 of 7)
Methyl	90.0 % (126 of 140)	90.0 % (63 of 70)	90.0 % (63 of 70)

1. entity 1

GSHMVALPQL TDEQRAAALE KAAAARRARA ELKDRLKRGG TNLTQVLKDA ESDEVLGKMK VSALLEALPK VGKVKAQEIM TELEIAPTRR LRGLGDRQRK ALLEKFGSA

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1.34 mM [U-13C; U-15N] Mycobacterial integration host factor (mIHF), 50 mM sodium phosphate, 100 mM sodium chloride, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
1	Mycobacterial integration host factor (mIHF)	[U-13C; U-15N]	1.34 mM
2	sodium phosphate	natural abundance	50 mM
3	sodium chloride	natural abundance	100 mM

LACS Plot; CA

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

Referencing offset: 0.06 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 6TOB, Strand ID: A Detail

Release date

2019-12-18

Citation

Structural and DNA Binding Properties of Mycobacterial Integration Host Factor mIHF
Odermatt, N.T., Lelli, M., Herrmann, T., Abriata, L.A., Japaridze, A., Voilquin, H., Singh, R., Piton, J., Emsley, L., Dietler, G., Cole, S.T.
J. Struct. Biol. (2019), 209, 107434-107434, PubMed 31846718 , DOI 10.1016/j.jsb.2019.107434 , Abstract

Related entities 1. Integration host factor MIHF, : 1 : 6 entities Detail

Experiments performed 5 experiments Detail

1 CBCACONH

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1.34 mM [U-13C; U-15N] Mycobacterial integration host factor (mIHF), 50 mM sodium phosphate, 100 mM sodium chloride, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
1	Mycobacterial integration host factor (mIHF)	[U-13C; U-15N]	1.34 mM
2	sodium phosphate	natural abundance	50 mM
3	sodium chloride	natural abundance	100 mM

2 HACACONH

Instrument

Bruker AVANCE III - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	Mycobacterial integration host factor (mIHF)	[U-13C; U-15N]	1.34 mM
2	sodium phosphate	natural abundance	50 mM
3	sodium chloride	natural abundance	100 mM

3 HACANH

Instrument

Bruker AVANCE III - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	Mycobacterial integration host factor (mIHF)	[U-13C; U-15N]	1.34 mM
2	sodium phosphate	natural abundance	50 mM
3	sodium chloride	natural abundance	100 mM

4 1H-13C 3D HSQC NOESY

Instrument

Bruker AVANCE III - na MHz

Sample

#	Name	Isotope labeling	Concentration
1	Mycobacterial integration host factor (mIHF)	[U-13C; U-15N]	1.34 mM
2	sodium phosphate	natural abundance	50 mM
3	sodium chloride	natural abundance	100 mM

5 1H-15N 3D HSQC NOESY

Instrument

Bruker AVANCE III - na MHz

Sample

#	Name	Isotope labeling	Concentration
1	Mycobacterial integration host factor (mIHF)	[U-13C; U-15N]	1.34 mM
2	sodium phosphate	natural abundance	50 mM
3	sodium chloride	natural abundance	100 mM

Chemical shift validation 3 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr34463_3.str
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

Content subtype: bmr34463_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chemical_shifts_1	Warning	1109		95.4 (chain: 1, length: 109)
1	Chemical shift references	chem_shift_reference_1	OK	3		No information

Assigned chemical shifts

Saveframe: assigned_chemical_shifts_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 109, Sequence coverage: 95.4%
- Total number of assignments
  - ¹H chemical shifts: 674
  - ¹³C chemical shifts: 324
  - ¹⁵N chemical shifts: 111
- Completeness of assignments
  - Entity_assemble_ID: 1
- Peptide bond of PRO
- Rotameric state of ILE , LEU, and VAL
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: 1

Comp_index_ID	Comp_ID	Atom_ID	CS value (ppm)
35	ARG	HH22	7.503
35	ARG	NH2	78.283
38	ARG	HH21	7.505
38	ARG	HH22	8.776
38	ARG	NH2	75.396
90	ARG	HH22	8.227
90	ARG	NH2	75.109

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	659	540	81.9
¹³C chemical shifts	479	324	67.6
¹⁵N chemical shifts	123	108	87.8

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	223	206	92.4
¹³C chemical shifts	218	102	46.8
¹⁵N chemical shifts	106	98	92.5

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	436	334	76.6
¹³C chemical shifts	261	222	85.1
¹⁵N chemical shifts	17	10	58.8

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	73	65	89.0
¹³C chemical shifts	73	65	89.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	7	0	0.0
¹³C chemical shifts	7	0	0.0

Keywords DNA BINDING PROTEIN, transcriptional control. Mycobacterial integration host factor - mIHF is an alpha-helical protein with two DNA-binding sites

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Found 1 Document (0.685 seconds)

BMRB: 34463

Sample

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. Integration host factor MIHF, : 1 : 6 entities Detail

Experiments performed 5 experiments Detail

Instrument

Sample

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Sample

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Chemical shift validation 3 contents Detail