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BMRB: 34218

6F99

Solution structure of the MRH domain of Yos9

Authors

Kniss, A., Kazemi, S., Lohr, F., Guntert, P., Dotsch, V.

Assembly

ER quality-control lectin

Entity

1. ER quality-control lectin (polymer, Thiol state: all disulfide bound), 162 monomers, 18311.46 Da Detail

GASNSEKTAL LTKTLNQGVK TIFDKLNERC IFYQAGFWIY EYCPGIEFVQ FHGRVNTKTG EIVNRDESLV YRLGKPKANV EEREFELLYD DVGYYISEII GSGDICDVTG AERMVEIQYV CGGSNSGPST IQWVRETKIC VYEAQVTIPE LCNLELLAKN ED

Formula weight

18311.46 Da

Entity Connection

disulfide 3 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	disulfide	sing	1:CYS30:SG	1:CYS43:SG
2	disulfide	sing	1:CYS106:SG	1:CYS140:SG
3	disulfide	sing	1:CYS121:SG	1:CYS152:SG

Source organism

Saccharomyces cerevisiae

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts, spectral_peak_list

Chem. Shift Complete

Sequence coverage: 97.5 %, Completeness: 92.7 %, Completeness (bb): 95.6 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	92.7 % (1751 of 1888)	92.0 % (899 of 977)	95.0 % (699 of 736)	87.4 % (153 of 175)
Backbone	95.6 % (922 of 964)	94.6 % (316 of 334)	96.6 % (456 of 472)	94.9 % (150 of 158)
Sidechain	90.7 % (972 of 1072)	90.7 % (583 of 643)	93.7 % (386 of 412)	17.6 % (3 of 17)
Aromatic	91.3 % (146 of 160)	100.0 % (80 of 80)	82.1 % (64 of 78)	100.0 % (2 of 2)
Methyl	96.2 % (179 of 186)	97.8 % (91 of 93)	94.6 % (88 of 93)

1. entity 1

GASNSEKTAL LTKTLNQGVK TIFDKLNERC IFYQAGFWIY EYCPGIEFVQ FHGRVNTKTG EIVNRDESLV YRLGKPKANV EEREFELLYD DVGYYISEII GSGDICDVTG AERMVEIQYV CGGSNSGPST IQWVRETKIC VYEAQVTIPE LCNLELLAKN ED

Show sample condition

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 bar, Temperature 303 K, pH 7.0, Details 1.2 mM [U-98% 13C; U-98% 15N] MRH domain of Yos9, 95% H2O/5% D2O

#	Name	Isotope labeling	Type	Concentration
1	MRH domain of Yos9	[U-98% 13C; U-98% 15N]		1.2 mM

Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 bar, Temperature 303 K, pH 7.0, Details 1 mM [U-98% 15N] MRH domain of Yos9, 95% H2O/5% D2O

#	Name	Isotope labeling	Type	Concentration
2	MRH domain of Yos9	[U-98% 15N]		1 mM

LACS Plot; CA

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

Referencing offset: -0.13 ppm, Outliers: 2 Detail

LACS Plot; CB

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

Referencing offset: -0.13 ppm, Outliers: 2 Detail

LACS Plot; HA

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

Referencing offset: -0.06 ppm, Outliers: 1 Detail

LACS Plot; CO

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

Referencing offset: 0.3 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 6F99, Strand ID: A Detail

Release date

2019-01-21

Citation

Structural investigation of glycan recognition by the ERAD quality control lectin Yos9
Kniss, A., Kazemi, S., Lohr, F., Berger, M., Rogov, V.V., Guntert, P., Sommer, T., Jarosch, E., Dotsch, V.
J. Biomol. NMR (2018), 72, 1-10, PubMed 30066206 , DOI 10.1007/s10858-018-0201-6 , Abstract

Entries sharing articles BMRB: 1 entries Detail

BMRB: 34219 released on 2019-01-21
Title Solution structure of the MRH domain of Yos9 complexed with alpha3,alpha6-Man5

Related entities 1. ER quality-control lectin, : 2 : 24 entities Detail

Interaction partners 1. ER quality-control lectin, : 8 interactors Detail

More details for 8 interactors identified by 4 citations

Experiments performed 15 experiments Detail

1 3D 1H-15N NOESY

Instrument

Bruker Avance - 950 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 bar, Temperature 303 K, pH 7.0, Details 1 mM [U-98% 15N] MRH domain of Yos9, 95% H2O/5% D2O

#	Name	Isotope labeling	Type	Concentration
2	MRH domain of Yos9	[U-98% 15N]		1 mM

2 3D 1H-13C NOESY aliphatic