BMRB: 19946

3D NMR structure of the cytoplasmic rhodanese domain of the full-length inner membrane protein YgaP from Escherichia coli

Authors

Eichmann, C., Tzitzilonis, C., Bordignon, E., Maslennikov, I., Choe, S., Riek, R.

Assembly

cytoplasmic rhodanese domain of the full-length inner membrane protein YgaP

Entity

1. cytoplasmic rhodanese domain of the full-length inner membrane protein YgaP (polymer), 108 monomers, 11700.18 Da Detail

ALTTISPHDA QELIARGAKL IDIRDADEYL REHIPEADLA PLSVLEQSGL PAKLRHEQII FHCQAGKRTS NNADKLAAIA APAEIFLLED GIDGWKKAGL PVAVNKSQ

Formula weight

11700.18 Da

Source organism

Escherichia coli

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 80.3 %, Completeness (bb): 80.3 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	80.3 % (985 of 1226)	86.9 % (553 of 636)	67.6 % (324 of 479)	97.3 % (108 of 111)
Backbone	80.3 % (511 of 636)	97.2 % (210 of 216)	63.2 % (201 of 318)	98.0 % (100 of 102)
Sidechain	81.8 % (566 of 692)	81.7 % (343 of 420)	81.7 % (215 of 263)	88.9 % (8 of 9)
Aromatic	60.7 % (34 of 56)	64.3 % (18 of 28)	55.6 % (15 of 27)	100.0 % (1 of 1)
Methyl	97.2 % (140 of 144)	100.0 % (72 of 72)	94.4 % (68 of 72)

1. YgaP

ALTTISPHDA QELIARGAKL IDIRDADEYL REHIPEADLA PLSVLEQSGL PAKLRHEQII FHCQAGKRTS NNADKLAAIA APAEIFLLED GIDGWKKAGL PVAVNKSQ

Show sample condition

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 273 K, pH 7.0

#	Name	Isotope labeling	Type	Concentration
1	YgaP	[U-100% 13C; U-100% 15N]		0.5 mM
2	H2O	natural abundance		95 %
3	D2O	[U-100% 2H]		5 %

Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 273 K, pH 7.0

#	Name	Isotope labeling	Type	Concentration
4	YgaP	[U-100% 13C; U-100% 15N; U-80% 2H]		0.5 mM
5	H2O	natural abundance		95 %
6	D2O	[U-100% 2H]		5 %

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LACS Plot; CA

Referencing offset: 0.69 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
13C	DSS	methyl protons	0.0 ppm	na	indirect	0.2514495
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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LACS Plot; CB

Referencing offset: 0.69 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
13C	DSS	methyl protons	0.0 ppm	na	indirect	0.2514495
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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LACS Plot; HA

Referencing offset: 0.04 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
1H	DSS	methyl protons	0.0 ppm	internal	direct	1.0
13C	DSS	methyl protons	0.0 ppm	na	indirect	0.2514495
15N	DSS	methyl protons	0.0 ppm	na	indirect	0.1013291

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Protein Blocks Logo

Calculated from 10 models in PDB: 2MOL, Strand ID: A Detail

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Release date

2014-06-22

Citation

Solution NMR structure and functional analysis of the integral membrane protein YgaP from Escherichia coli
Eichmann, C., Tzitzilonis, C., Bordignon, E., Maslennikov, I., Choe, S., Riek, R.
J. Biol. Chem. (2014), 289, 23482-23503, PubMed 24958726 , DOI 10.1074/jbc.M114.571935 , Abstract

Entries sharing articles BMRB: 2 entries Detail

Related entities 1. cytoplasmic rhodanese domain of the full-length inner membrane protein YgaP, : 1 : 5 : 5 : 63 entities Detail

Interaction partners 1. cytoplasmic rhodanese domain of the full-length inner membrane protein YgaP, : 1 interactors Detail

Experiments performed 6 experiments Detail