BMRB: 10213

Solution structure of the GUCT domain from human ATP-dependent RNA helicase DDX50, DEAD box protein 50

Authors

Ohnishi, S., Paakkonen, K., Guntert, P., Sato, M., Koshiba, S., Harada, T., Watanabe, S., Kigawa, T., Yokoyama, S.

Assembly

ATP-dependent RNA helicase DDX50 (E.C.3.6.1.-)

Entity

1. ATP-dependent RNA helicase DDX50 (E.C.3.6.1.-) (polymer, Thiol state: all free), 92 monomers, 10140.30 Da Detail

GSSGSSGFEP RSLITSDKGF VTMTLESLEE IQDVSCAWKE LNRKLSSNAV SQITRMCLLK GNMGVCFDVP TTESERLQAE WHDSDWILSV PA

Formula weight

10140.3 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics, restrained molecular dynamics

Data set

assigned_chemical_shifts, RDCs

Chem. Shift Complete

Sequence coverage: 95.7 %, Completeness: 93.6 %, Completeness (bb): 91.6 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	93.6 % (968 of 1034)	93.3 % (498 of 534)	95.3 % (383 of 402)	88.8 % (87 of 98)
Backbone	91.6 % (500 of 546)	90.4 % (169 of 187)	93.7 % (253 of 270)	87.6 % (78 of 89)
Sidechain	94.8 % (544 of 574)	93.1 % (323 of 347)	97.2 % (212 of 218)	100.0 % (9 of 9)
Aromatic	100.0 % (70 of 70)	100.0 % (35 of 35)	100.0 % (32 of 32)	100.0 % (3 of 3)
Methyl	97.9 % (94 of 96)	97.9 % (47 of 48)	97.9 % (47 of 48)

1. GUCT domain

GSSGSSGFEP RSLITSDKGF VTMTLESLEE IQDVSCAWKE LNRKLSSNAV SQITRMCLLK GNMGVCFDVP TTESERLQAE WHDSDWILSV PA

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	GUCT domain	[U-13C; U-15N]	protein	0.9 mM
2	d-TrisHCl		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: -0.19 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; CB

Referencing offset: -0.19 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; HA

Referencing offset: -0.04 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: -0.15 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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Protein Blocks Logo

Calculated from 20 models in PDB: 2E29, Strand ID: A Detail

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RDC

130 RDC values in 1 lists
Field strength (¹H) 800 MHz, Pressure 1 (±0.001) atm, Temperature 296 (±0.1) K, pH 7.0 (±0.05) Detail

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Pressure 1 (±0.001) atm, Temperature 296 (±0.1) K, pH 7.0 (±0.05)

Experiment name 3D 15N-separated NOESY, 3D 13C-separated NOESY

List #1 RDC_list_1, RDC code DCC, Field strength (¹H) 800 MHz

List #1 RDC_list_1, RDC code DNH, Field strength (¹H) 800 MHz

Release date

2008-08-18

Citation

Solution structure of the GUCT domain from human RNA helicase II/Gu beta reveals the RRM fold, but implausible RNA interactions
Ohnishi, S., Paakkonen, K., Koshiba, S., Tochio, N., Sato, M., Kobayashi, N., Harada, T., Watanabe, S., Muto, Y., Guntert, P., Tanaka, A., Kigawa, T., Yokoyama, S.
Proteins (2009), 74, 133-144, PubMed 18615715 , DOI 10.1002/prot.22138 , Abstract

Entries sharing articles Swiss-Prot: 1 entries Detail

Related entities 1. ATP-dependent RNA helicase DDX50 (E.C.3.6.1.-), : 1 : 20 entities Detail

Interaction partners 1. ATP-dependent RNA helicase DDX50 (E.C.3.6.1.-), : 24 interactors Detail

Experiments performed 2 experiments Detail