BMRBj - BMREntryMaster

Found 1 Document (1.581 seconds)

BMRB: 5349

1LFU

PBX Homeodomain-DNA complex

Authors

Sprules, T., Green, N.C., Featherstone, M.S., Gehring, K.

Assembly

Extended PBX Homeodomain-DNA complex

Entity

1. PBX homeodomain (polymer, Thiol state: not present), 82 monomers, 9560.692 Da Detail

MARRKRRNFN KQATEILNEY FYSHLSNPYP SEEAKEELAK KSGITVSQVS NWFGNKRIRY KKNIGKFQEE ANIYAAKTAV TA

2. DNA (polymer, Thiol state: not present), 28 monomers, 8670.499 Da Detail

GCGCATGATT GCCCGGGCAA TCATGCGC

Total weight

18231.191 Da

Max. entity weight

9560.692 Da

Source organism

Mus musculus

Exptl. method

NMR

Refine. method

dynamical annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete1

Sequence coverage: 74.5 %, Completeness: 68.7 %, Completeness (bb): 60.2 % Detail

Polymer type: polypeptide(L) polydeoxyribonucleotide

	Total	¹H	¹³C	¹⁵N
All	68.7 % (882 of 1284)	62.8 % (508 of 809)	74.4 % (285 of 383)	96.7 % (89 of 92)
Backbone	60.2 % (412 of 684)	44.9 % (162 of 361)	70.8 % (172 of 243)	97.5 % (78 of 80)
Sidechain	80.4 % (546 of 679)	77.2 % (346 of 448)	86.3 % (189 of 219)	91.7 % (11 of 12)
Aromatic	50.0 % (76 of 152)	45.2 % (47 of 104)	59.6 % (28 of 47)	100.0 % (1 of 1)
Methyl	93.3 % (70 of 75)	87.5 % (35 of 40)	100.0 % (35 of 35)

1. PBX homeodomain

MARRKRRNFN KQATEILNEY FYSHLSNPYP SEEAKEELAK KSGITVSQVS NWFGNKRIRY KKNIGKFQEE ANIYAAKTAV TA

2. DNA

GCGCATGATT GCCCGGGCAA TCATGCGC

Show sample condition

Sample #1

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
1	PBX homeodomain	[U-15N]	1.5 mM
2	DNA		1.5 mM
3	DSS		0.2 mM
4	sodium phosphate		10 mM

Sample #2

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

Chem. Shift Complete2

Sequence coverage: 35.5 %, Completeness: 43.7 %, Completeness (bb): 43.2 % Detail

Polymer type: polypeptide(L) polydeoxyribonucleotide

	Total	¹H	¹³C	¹⁵N
All	43.7 % (1121 of 2568)	44.2 % (715 of 1618)	39.9 % (306 of 766)	54.3 % (100 of 184)
Backbone	43.2 % (591 of 1368)	42.8 % (309 of 722)	39.7 % (193 of 486)	55.6 % (89 of 160)
Sidechain	45.0 % (611 of 1358)	45.3 % (406 of 896)	44.3 % (194 of 438)	45.8 % (11 of 24)
Aromatic	41.8 % (127 of 304)	47.1 % (98 of 208)	29.8 % (28 of 94)	50.0 % (1 of 2)
Methyl	50.0 % (75 of 150)	50.0 % (40 of 80)	50.0 % (35 of 70)

1. PBX homeodomain

MARRKRRNFN KQATEILNEY FYSHLSNPYP SEEAKEELAK KSGITVSQVS NWFGNKRIRY KKNIGKFQEE ANIYAAKTAV TA

2. DNA

GCGCATGATT GCCCGGGCAA TCATGCGC

Show sample condition

Sample

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

LACS Plot; CA

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

Referencing offset: -0.06 ppm, Outliers: 1 Detail

LACS Plot; CB

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

Referencing offset: -0.06 ppm, Outliers: 1 Detail

LACS Plot; HA

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

Referencing offset: -0.01 ppm, Outliers: 2 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 1LFU, Strand ID: P Detail

Release date

2003-01-05

Citation

Lock and key binding of the HOX YPWM peptide to the PBX homeodomain
Sprules, T., Green, N.C., Featherstone, M.S., Gehring, K.
J. Biol. Chem. (2003), 278, 1053-1058, PubMed 12409300 , DOI 10.1074/jbc.M207504200 , Abstract

Related entities 1. PBX homeodomain, : 1 : 8 : 72 entities Detail

Experiments performed 7 experiments Detail

1 15N HSQC-NOESY

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Varian INOVA (750 MHz)

Sample #1

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
1	PBX homeodomain	[U-15N]	1.5 mM
2	DNA		1.5 mM
3	DSS		0.2 mM
4	sodium phosphate		10 mM

Sample #2

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

Sample #3

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Concentration
9	PBX homeodomain	1.4 mM
10	DNA	1.4 mM
11	DSS	0.2 mM
12	sodium phosphate	10 mM

2 13C HSQC-NOESY

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Varian INOVA (750 MHz)

Sample #1

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
1	PBX homeodomain	[U-15N]	1.5 mM
2	DNA		1.5 mM
3	DSS		0.2 mM
4	sodium phosphate		10 mM

Sample #2

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

Sample #3

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Concentration
9	PBX homeodomain	1.4 mM
10	DNA	1.4 mM
11	DSS	0.2 mM
12	sodium phosphate	10 mM

3 HNHA

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Varian INOVA (750 MHz)

Sample #1

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
1	PBX homeodomain	[U-15N]	1.5 mM
2	DNA		1.5 mM
3	DSS		0.2 mM
4	sodium phosphate		10 mM

Sample #2

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

Sample #3

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Concentration
9	PBX homeodomain	1.4 mM
10	DNA	1.4 mM
11	DSS	0.2 mM
12	sodium phosphate	10 mM

4 2D NOESY

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Varian INOVA (750 MHz)

Sample #1

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
1	PBX homeodomain	[U-15N]	1.5 mM
2	DNA		1.5 mM
3	DSS		0.2 mM
4	sodium phosphate		10 mM

Sample #2

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

Sample #3

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Concentration
9	PBX homeodomain	1.4 mM
10	DNA	1.4 mM
11	DSS	0.2 mM
12	sodium phosphate	10 mM

5 CBCACONH

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Varian INOVA (750 MHz)

Sample #1

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
1	PBX homeodomain	[U-15N]	1.5 mM
2	DNA		1.5 mM
3	DSS		0.2 mM
4	sodium phosphate		10 mM

Sample #2

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

Sample #3

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Concentration
9	PBX homeodomain	1.4 mM
10	DNA	1.4 mM
11	DSS	0.2 mM
12	sodium phosphate	10 mM

6 13C HSQC

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Varian INOVA (750 MHz)

Sample #1

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
1	PBX homeodomain	[U-15N]	1.5 mM
2	DNA		1.5 mM
3	DSS		0.2 mM
4	sodium phosphate		10 mM

Sample #2

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

Sample #3

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Concentration
9	PBX homeodomain	1.4 mM
10	DNA	1.4 mM
11	DSS	0.2 mM
12	sodium phosphate	10 mM

7 13C-filtered NOESY

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Varian INOVA (750 MHz)

Sample #1

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
1	PBX homeodomain	[U-15N]	1.5 mM
2	DNA		1.5 mM
3	DSS		0.2 mM
4	sodium phosphate		10 mM

Sample #2

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Concentration
5	PBX homeodomain	[U-15N; U-13C]	1.9 mM
6	DNA		1.9 mM
7	DSS		0.2 mM
8	sodium phosphate		10 mM

Sample #3

Temperature 303 (±0.5) K, pH 7.0 (±0.05)

#	Name	Concentration
9	PBX homeodomain	1.4 mM
10	DNA	1.4 mM
11	DSS	0.2 mM
12	sodium phosphate	10 mM

nullKeywords PBX-DNA complex, PBX homeodomain

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Found 1 Document (1.581 seconds)

BMRB: 5349

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Chemical shift reference

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Chemical shift reference

Related entities 1. PBX homeodomain, : 1 : 8 : 72 entities Detail

Experiments performed 7 experiments Detail

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