BMRB: 10279

Solution structure of the PH domain of Docking protein 2 from human

Authors

Li, H., Tomizawa, T., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Assembly

Docking protein 2

Entity

1. Docking protein 2 (polymer, Thiol state: all free), 127 monomers, 13606.21 Da Detail

GSSGSSGMGD GAVKQGFLYL QQQQTFGKKW RRFGASLYGG SDCALARLEL QEGPEKPRRC EAARKVIRLS DCLRVAEAGG EASSPRDTSA FFLETKERLY LLAAPAAERG DWVQAICLLA FSGPSSG

Formula weight

13606.21 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 96.1 %, Completeness: 92.8 %, Completeness (bb): 92.2 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	92.8 % (1311 of 1412)	92.0 % (678 of 737)	94.3 % (513 of 544)	91.6 % (120 of 131)
Backbone	92.2 % (693 of 752)	90.9 % (241 of 265)	93.4 % (341 of 365)	91.0 % (111 of 122)
Sidechain	94.0 % (725 of 771)	92.6 % (437 of 472)	96.2 % (279 of 290)	100.0 % (9 of 9)
Aromatic	94.4 % (102 of 108)	94.4 % (51 of 54)	94.2 % (49 of 52)	100.0 % (2 of 2)
Methyl	95.8 % (113 of 118)	94.9 % (56 of 59)	96.6 % (57 of 59)

1. PH domain

GSSGSSGMGD GAVKQGFLYL QQQQTFGKKW RRFGASLYGG SDCALARLEL QEGPEKPRRC EAARKVIRLS DCLRVAEAGG EASSPRDTSA FFLETKERLY LLAAPAAERG DWVQAICLLA FSGPSSG

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 (±0.001) atm, Temperature 296 (±0.1) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Type	Concentration
1	PH domain	[U-13C; U-15N]	protein	0.93 mM
2	d-Tris-HCl		buffer	20 mM
3	NaCl		salt	100 mM
4	d-DTT		salt	1 mM
5	NaN3		salt	0.02 %
6	H2O		solvent	90 %
7	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: -0.17 ppm, Outliers: 4 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	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CB

Referencing offset: -0.17 ppm, Outliers: 4 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	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; HA

Referencing offset: -0.07 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	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CO

Referencing offset: 0.33 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	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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Protein Blocks Logo

Calculated from 20 models in PDB: 2D9W, Strand ID: A Detail

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Release date

2009-12-13

Citation

Solution structure of the PH domain of Docking protein 2 from human
Li, H., Tomizawa, T., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Related entities 1. Docking protein 2, : 1 : 2 : 28 entities Detail

Interaction partners 1. Docking protein 2, : 15 interactors Detail

Experiments performed 2 experiments Detail