BMRB: 7364

Solution Structure of Variable-type Domain of Human Receptor for Advanced Glycation Endproducts

Authors

Matsumoto, S., Yoshida, T., Yasumatsu, I., Yamamoto, H., Kobayashi, Y., Ohkubo, T.

Assembly

AG Endproducts

Entity

1. AG Endproducts (polymer, Thiol state: all disulfide bound), 101 monomers, 11200.87 Da Detail

AMAQNITARI GEPLVLKCKG APKKPPQRLE WKLNTGRTEA WKVLSPQGGG PWDSVARVLP NGSLFLPAVG IQDEGIFRCQ AMNRNGKETK SNYRVRVYQI P

Formula weight

11200.87 Da

Entity Connection

disulfide 1 Detail

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ID	Type	Value order	Atom ID 1	Atom ID 2
1	disulfide	sing	1:CYS18:SG	1:CYS79:SG

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 97.0 %, Completeness: 79.4 %, Completeness (bb): 92.7 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	79.4 % (951 of 1198)	73.9 % (469 of 635)	86.6 % (395 of 456)	81.3 % (87 of 107)
Backbone	92.7 % (545 of 588)	91.6 % (186 of 203)	93.5 % (274 of 293)	92.4 % (85 of 92)
Sidechain	70.0 % (491 of 701)	65.5 % (283 of 432)	81.1 % (206 of 254)	13.3 % (2 of 15)
Aromatic	34.7 % (25 of 72)	36.1 % (13 of 36)	36.4 % (12 of 33)	0.0 % (0 of 3)
Methyl	88.5 % (92 of 104)	88.5 % (46 of 52)	88.5 % (46 of 52)

1. Advanced glycosylation end product-specific receptor

AMAQNITARI GEPLVLKCKG APKKPPQRLE WKLNTGRTEA WKVLSPQGGG PWDSVARVLP NGSLFLPAVG IQDEGIFRCQ AMNRNGKETK SNYRVRVYQI P

Show sample condition

Sample #1

Solvent system 90% H2O, 10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 0.2mM Variable-type Domain of Receptor for Advanced Glycation Endproducts U-15N, 13C; 20mM phosphate buffer NA, 100mM NA2SO4; 90% H2O, 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	AG_Endproducts	[U-13C; U-15N]		0.2 mM
2	phosphate buffer			20 mM
3	Na2SO4			100 mM
4	D2O			10 %
5	H2O	natural abundance		90 %

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 0.2mM Variable-type Domain of Receptor for Advanced Glycation Endproducts; 20mM phosphate buffer NA, 100mM NA2SO4; 100% D2O

#	Name	Isotope labeling	Type	Concentration
6	AG_Endproducts	[U-13C; U-15N]		0.2 mM
7	phosphate buffer			20 mM
8	Na2SO4			100 mM
9	D2O			100 %

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LACS Plot; CA

Referencing offset: -0.08 ppm, Outliers: 1 Detail

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LACS Plot; CB

Referencing offset: -0.08 ppm, Outliers: 1 Detail

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LACS Plot; HA

Referencing offset: -0.1 ppm, Outliers: 2 Detail

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LACS Plot; CO

Referencing offset: 0.64 ppm, Outliers: 1 Detail

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Protein Blocks Logo

Calculated from 15 models in PDB: 2E5E, Strand ID: A Detail

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Release date

2009-02-03

Citation

Solution structure of the variable-type domain of the receptor for advanced glycation end products: new insight into AGE-RAGE interaction
Matsumoto, S., Yoshida, T., Murata, H., Harada, S., Fujita, N., Nakamura, S., Yamamoto, Y., Watanabe, T., Yonekura, H., Yamamoto, H., Ohkubo, T., Kobayashi, Y.
Biochemistry (2008), 47, 12299-12311, PubMed 19032093 , DOI 10.1021/bi800910v , Abstract

Related entities 1. AG Endproducts, : 1 : 15 : 10 : 209 entities Detail

Interaction partners 1. AG Endproducts, : 17 interactors Detail

Experiments performed 4 experiments Detail