BMRB: 11426

Solution structure of SecDF periplasmic domain P4

Authors

Tanaka, T., Tsukazaki, T., Echizen, Y., Nureki, O., Kohno, T.

Assembly

Probable SecDF protein-export membrane protein

Entity

1. Probable SecDF protein-export membrane protein (polymer, Thiol state: not present), 92 monomers, 10280.59 Da Detail

MVGFNYSIDF TGGTAYTLRA EPNVEVETLR RFLEEKGFPG KEAVITQVQA PTAAYREFLV KLPPLSDERR LELERLFASE LKATVLASET VG

Formula weight

10280.59 Da

Source organism

Thermus thermophilus HB8

Exptl. method

solution NMR

Refine. method

Energy Minimization

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 89.1 %, Completeness (bb): 97.8 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	89.1 % (956 of 1073)	88.6 % (492 of 555)	87.8 % (375 of 427)	97.8 % (89 of 91)
Backbone	97.8 % (530 of 542)	97.3 % (180 of 185)	97.8 % (264 of 270)	98.9 % (86 of 87)
Sidechain	82.8 % (511 of 617)	84.3 % (312 of 370)	80.7 % (196 of 243)	75.0 % (3 of 4)
Aromatic	21.4 % (18 of 84)	42.9 % (18 of 42)	0.0 % (0 of 42)
Methyl	97.5 % (115 of 118)	96.6 % (57 of 59)	98.3 % (58 of 59)

1. entity

MVGFNYSIDF TGGTAYTLRA EPNVEVETLR RFLEEKGFPG KEAVITQVQA PTAAYREFLV KLPPLSDERR LELERLFASE LKATVLASET VG

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 303 K, pH 6.5

#	Name	Isotope labeling	Type	Concentration
1	P4 domain	[U-13C; U-15N]	protein	1 mM
2	TRIS	natural abundance	buffer	20 mM
3	sodium chloride	natural abundance	salt	50 mM
4	H2O		solvent	90 %
5	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: -0.25 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	na	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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LACS Plot; CB

Referencing offset: -0.25 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	na	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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LACS Plot; HA

Referencing offset: -0.1 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	na	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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LACS Plot; CO

Referencing offset: 0.21 ppm, Outliers: 3 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	na	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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Protein Blocks Logo

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

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Release date

2012-01-29

Citation

Structure and function of a membrane component SecDF that enhances protein export
Tsukazaki, T., Mori, H., Echizen, Y., Ishitani, R., Fukai, S., Tanaka, T., Perederina, A., Vassylyev, D.G., Kohno, T., Maturana, A.D., Ito, K., Nureki, O.
Nature (2011), 474, 235-238, PubMed 21562494 , DOI 10.1038/nature09980 , Abstract

Related entities 1. Probable SecDF protein-export membrane protein, : 1 : 3 : 12 entities Detail

Experiments performed 2 experiments Detail