BMRB Entry 10295

Name: Solution structure of the homeobox domain of Homeobox protein BarH-like 1
Published: 2009-12-17

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PDB ID: 2dmt
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR10295
MolProbity Validation Chart

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution structure of the homeobox domain of Homeobox protein BarH-like 1

Deposition date:

2008-12-17

Original release date:

2009-12-17

Authors:

Ohnishi, S.; Yoneyama, M.; Koshiba, S.; Inoue, M.; Kigawa, T.; Yokoyama, S.

Citation:

Citation: Ohnishi, S.; Yoneyama, M.; Koshiba, S.; Inoue, M.; Kigawa, T.; Yokoyama, S.. "Solution structure of the homeobox domain of Homeobox protein BarH-like 1" .

Assembly members:

Assembly members:
homeobox domain, polymer, 80 residues, Formula weight is not available

Natural source:

Natural source: Common Name: human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source:

Experimental source: Production method: cell free synthesis Vector: P050919-24

Entity Sequences (FASTA):

Entity Sequences (FASTA):
homeobox domain: GSSGSSGGEPGTKAKKGRRS RTVFTELQLMGLEKRFEKQK YLSTPDRIDLAESLGLSQLQ VKTWYQNRRMKWKKSGPSSG

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	317
15N chemical shifts	70
1H chemical shifts	482

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	homeobox domain	1

Entities:

Entity 1, homeobox domain 80 residues - Formula weight is not available

1	GLY	SER	SER	GLY	SER	SER	GLY	GLY	GLU	PRO
2	GLY	THR	LYS	ALA	LYS	LYS	GLY	ARG	ARG	SER
3	ARG	THR	VAL	PHE	THR	GLU	LEU	GLN	LEU	MET
4	GLY	LEU	GLU	LYS	ARG	PHE	GLU	LYS	GLN	LYS
5	TYR	LEU	SER	THR	PRO	ASP	ARG	ILE	ASP	LEU
6	ALA	GLU	SER	LEU	GLY	LEU	SER	GLN	LEU	GLN
7	VAL	LYS	THR	TRP	TYR	GLN	ASN	ARG	ARG	MET
8	LYS	TRP	LYS	LYS	SER	GLY	PRO	SER	SER	GLY

Samples:

sample_1: homeobox domain, [U-13C; U-15N], 1.0 mM; d-Tris-HCl 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; D2O 10%; H2O 90%

condition_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 13C-separated NOESY	sample_1	isotropic	condition_1
3D 15N-separated NOESY	sample_1	isotropic	condition_1

Software:

xwinnmr v3.5, Bruker - collection

NMRPipe v20030801, Delaglio, F. - processing

NMRView v5.0.4, Johnson, B.A. - data analysis

Kujira v0.965, Kobayashi, N. - data analysis

CYANA v2.0.17, Guntert, P. - refinement, structure solution

NMR spectrometers:

Bruker AVANCE 800 MHz

PDB	2DMT
DBJ	BAO79524
EMBL	CAA69257 CAC10357
GB	AAD21043 AAG18573 AAG23738 AAH09458 AAH64363
REF	NP_001102350 NP_031552 NP_067545 XP_001109954 XP_001507934
SP	Q9ER42 Q9HBU1 Q9W6D8
AlphaFold	Q9ER42 Q9HBU1 Q9W6D8

1	GLY	SER	SER	GLY	SER	SER	GLY	GLY	GLU	PRO
2	GLY	THR	LYS	ALA	LYS	LYS	GLY	ARG	ARG	SER
3	ARG	THR	VAL	PHE	THR	GLU	LEU	GLN	LEU	MET
4	GLY	LEU	GLU	LYS	ARG	PHE	GLU	LYS	GLN	LYS
5	TYR	LEU	SER	THR	PRO	ASP	ARG	ILE	ASP	LEU
6	ALA	GLU	SER	LEU	GLY	LEU	SER	GLN	LEU	GLN
7	VAL	LYS	THR	TRP	TYR	GLN	ASN	ARG	ARG	MET
8	LYS	TRP	LYS	LYS	SER	GLY	PRO	SER	SER	GLY

1	GLY	SER	SER	GLY	SER	SER	GLY	GLY	GLU	PRO
2	GLY	THR	LYS	ALA	LYS	LYS	GLY	ARG	ARG	SER
3	ARG	THR	VAL	PHE	THR	GLU	LEU	GLN	LEU	MET
4	GLY	LEU	GLU	LYS	ARG	PHE	GLU	LYS	GLN	LYS
5	TYR	LEU	SER	THR	PRO	ASP	ARG	ILE	ASP	LEU
6	ALA	GLU	SER	LEU	GLY	LEU	SER	GLN	LEU	GLN
7	VAL	LYS	THR	TRP	TYR	GLN	ASN	ARG	ARG	MET
8	LYS	TRP	LYS	LYS	SER	GLY	PRO	SER	SER	GLY