BMRBj - BMREntryMaster

Found 1 Document (2.034 seconds)

BMRB: 16639

2KRI

Structure of a complex between domain V of beta2-glycoprotein I and the fourth ligand-binding module from LDLR determined with Haddock.

Authors

Beglova, N.

Assembly

V of beta2-glycoprotein I and ligand-binding module complex

Entity

1. beta2GPI (polymer, Thiol state: all disulfide bound), 85 monomers, 9563.980 Da Detail

GSCKLPVKKA TVVYQGERVK IQEKFKNGML HGDKVSFFCK NKEKKCSYTE DAQCIDGTIE VPKCFKEHSS LAFWKTDASD VKPCA

2. LDLR (polymer, Thiol state: all disulfide bound), 40 monomers, 4393.697 Da Detail

TCGPASFQCN SSTCIPQLWA CDNDPDCEDG SDEWPQRCRG

3. CA (non-polymer), 40.078 Da

Total weight

13997.756 Da

Max. entity weight

9563.98 Da

Entity Connection

disulfide 6 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	disulfide	sing	1:CYS3:SG	1:CYS54:SG
2	disulfide	sing	1:CYS39:SG	1:CYS64:SG
3	disulfide	sing	1:CYS46:SG	1:CYS84:SG
4	disulfide	sing	2:CYS2:SG	2:CYS14:SG
5	disulfide	sing	2:CYS9:SG	2:CYS27:SG
6	disulfide	sing	2:CYS21:SG	2:CYS38:SG

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts, heteronucl_T1_relaxation, heteronucl_T2_relaxation

Chem. Shift Complete

Sequence coverage: 84.0 %, Completeness: 26.2 %, Completeness (bb): 58.0 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹⁵N
All	26.2 % (232 of 884)	16.9 % (127 of 753)	80.2 % (105 of 131)
Backbone	58.0 % (214 of 369)	43.4 % (109 of 251)	89.0 % (105 of 118)
Sidechain	3.5 % (18 of 515)	3.6 % (18 of 502)	0.0 % (0 of 13)
Aromatic	0.0 % (0 of 63)	0.0 % (0 of 60)	0.0 % (0 of 3)
Methyl	2.3 % (1 of 43)	2.3 % (1 of 43)

1. beta2GPI

GSCKLPVKKA TVVYQGERVK IQEKFKNGML HGDKVSFFCK NKEKKCSYTE DAQCIDGTIE VPKCFKEHSS LAFWKTDASD VKPCA

2. LDLR

TCGPASFQCN SSTCIPQLWA CDNDPDCEDG SDEWPQRCRG

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM CaCl, 10 mM bis-Tris pH 7.06

#	Name	Isotope labeling	Concentration
1	entity_1	[U-100% 13C; U-100% 15N]	600 uM
2	entity_2	[U-100% 13C; U-100% 15N]	1 mM
3	CaCl2	natural abundance	10 mM
4	bis-Tris	natural abundance	10 mM

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM bis-tris, 10 mM CaCl2 pH 7.0

#	Name	Isotope labeling	Concentration
5	entity_1	[U-100% 15N]	300 uM
6	entity_2	[U-100% 15N]	100 uM
7	CaCl2	natural abundance	10 mM
8	bis-Tris	natural abundance	10 mM

Sample #3

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM bis-tris, 10 mM CaCl2 pH 7.0

#	Name	Isotope labeling	Concentration
9	entity_1	[U-100% 15N]	515 uM
10	entity_2	[U-100% 15N]	300 uM
11	CaCl2	natural abundance	10 mM
12	bis-Tris	natural abundance	10 mM

Protein Blocks Logo

Calculated from 1 models in PDB: 2KRI, Strand ID: A, B Detail

Heteronucl. T₁

95 T₁ values in 1 lists
Coherence Sz, Field strength (¹H) 500 MHz, Pressure 1 atm, Temperature 298 K, pH 7.0 Detail

Heteronucl. T₂

95 T₂ values in 1 lists
Coherence S(+,-), Field strength (¹H) 500 MHz, Pressure 1 atm, Temperature 298 K, pH 7.0 Detail

Heteronucl. T₁/T₂

95 T₁/T₂ values in 1 lists
Field strength (¹H) 500 MHz, Pressure 1 atm, Temperature 298 K, pH 7.0 Detail

Release date

2015-07-23

Citation

Mode of interaction between beta2GPI and lipoprotein receptors suggests mutually exclusive binding of beta2GPI to the receptors and anionic phospholipids
Lee, C., De Biasio, A., Beglova, N.
Structure (2010), 18, 366-376, PubMed 20223219 , DOI 10.1016/j.str.2009.12.013 , Abstract

Related entities 1. beta2GPI, : 1 : 1 : 3 : 17 entities Detail

Related entities 2. LDLR, : 2 : 789 entities Detail

Interaction partners 1. beta2GPI, : 14 : 1 interactors Detail

More details for 15 interactors identified by 8 citations

Interaction partners 2. LDLR, : 15 : 1 interactors Detail

More details for 16 interactors identified by 11 citations

Experiments performed 8 experiments Detail

1 2D 1H-15N HSQC

Instrument

Varian Unity - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM CaCl, 10 mM bis-Tris pH 7.06

#	Name	Isotope labeling	Concentration
1	entity_1	[U-100% 13C; U-100% 15N]	600 uM
2	entity_2	[U-100% 13C; U-100% 15N]	1 mM
3	CaCl2	natural abundance	10 mM
4	bis-Tris	natural abundance	10 mM

2 2D 1H-15N HSQC

Instrument

Varian Unity - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM bis-tris, 10 mM CaCl2 pH 7.0

#	Name	Isotope labeling	Concentration
5	entity_1	[U-100% 15N]	300 uM
6	entity_2	[U-100% 15N]	100 uM
7	CaCl2	natural abundance	10 mM
8	bis-Tris	natural abundance	10 mM

3 3D HNCA

Instrument

Varian Unity - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM CaCl, 10 mM bis-Tris pH 7.06

#	Name	Isotope labeling	Concentration
1	entity_1	[U-100% 13C; U-100% 15N]	600 uM
2	entity_2	[U-100% 13C; U-100% 15N]	1 mM
3	CaCl2	natural abundance	10 mM
4	bis-Tris	natural abundance	10 mM

4 3D HNCACB

Instrument

Varian Unity - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM CaCl, 10 mM bis-Tris pH 7.06

#	Name	Isotope labeling	Concentration
1	entity_1	[U-100% 13C; U-100% 15N]	600 uM
2	entity_2	[U-100% 13C; U-100% 15N]	1 mM
3	CaCl2	natural abundance	10 mM
4	bis-Tris	natural abundance	10 mM

5 3D HN(CO)CA

Instrument

Varian Unity - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM CaCl, 10 mM bis-Tris pH 7.06

#	Name	Isotope labeling	Concentration
1	entity_1	[U-100% 13C; U-100% 15N]	600 uM
2	entity_2	[U-100% 13C; U-100% 15N]	1 mM
3	CaCl2	natural abundance	10 mM
4	bis-Tris	natural abundance	10 mM

6 3D HNCA

Instrument

Varian Unity - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM bis-tris, 10 mM CaCl2 pH 7.0

#	Name	Isotope labeling	Concentration
5	entity_1	[U-100% 15N]	300 uM
6	entity_2	[U-100% 15N]	100 uM
7	CaCl2	natural abundance	10 mM
8	bis-Tris	natural abundance	10 mM

7 3D CBCA(CO)NH

Instrument

Varian Unity - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM bis-tris, 10 mM CaCl2 pH 7.0

#	Name	Isotope labeling	Concentration
5	entity_1	[U-100% 15N]	300 uM
6	entity_2	[U-100% 15N]	100 uM
7	CaCl2	natural abundance	10 mM
8	bis-Tris	natural abundance	10 mM

8 3D HN(CO)CA

Instrument

Varian Unity - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 10 mM bis-tris, 10 mM CaCl2 pH 7.0

#	Name	Isotope labeling	Concentration
5	entity_1	[U-100% 15N]	300 uM
6	entity_2	[U-100% 15N]	100 uM
7	CaCl2	natural abundance	10 mM
8	bis-Tris	natural abundance	10 mM

nullKeywords protein/protein complex

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Found 1 Document (2.034 seconds)

BMRB: 16639

Sample #1

Sample #2

Sample #3

Related entities 1. beta2GPI, : 1 : 1 : 3 : 17 entities Detail

Related entities 2. LDLR, : 2 : 789 entities Detail

Interaction partners 1. beta2GPI, : 14 : 1 interactors Detail

Interaction partners 2. LDLR, : 15 : 1 interactors Detail

Experiments performed 8 experiments Detail

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