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BMRB: 18715

2LYA

Structure of HIV-1 myr(-) matrix protein in complex with 1,2-dioctanoyl-sn-phosphatidylcholine

Authors

Vlach, J., Saad, J.

Assembly

Entity

1. MA (polymer, Thiol state: all free), 131 monomers, 14711.42 Da Detail

GARASVLSGG ELDKWEKIRL RPGGKKQYKL KHIVWASREL ERFAVNPGLL ETSEGCRQIL GQLQPSLQTG SEELRSLYNT IAVLYCVHQR IDVKDTKEAL DKIEEEQNKS KKKAQQAAAD TGNNSQVSQN Y

2. 1,2-DIOCTANOYL-SN-GLYCERO-3-PHOSPHOCHOLINE (non-polymer, Thiol state: not present), 510.622 Da

Total weight

15222.042 Da

Max. entity weight

14711.42 Da

Source organism

Human immunodeficiency virus

Exptl. method

solution NMR

Refine. method

simulated annealing, torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 85.6 %, Completeness (bb): 84.4 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	85.6 % (1321 of 1543)	90.9 % (741 of 815)	77.3 % (449 of 581)	89.1 % (131 of 147)
Backbone	84.4 % (658 of 780)	98.5 % (265 of 269)	69.2 % (265 of 383)	100.0 % (128 of 128)
Sidechain	88.5 % (782 of 884)	87.2 % (476 of 546)	95.0 % (303 of 319)	15.8 % (3 of 19)
Aromatic	85.1 % (63 of 74)	86.5 % (32 of 37)	82.9 % (29 of 35)	100.0 % (2 of 2)
Methyl	100.0 % (138 of 138)	100.0 % (69 of 69)	100.0 % (69 of 69)

1. MA

GARASVLSGG ELDKWEKIRL RPGGKKQYKL KHIVWASREL ERFAVNPGLL ETSEGCRQIL GQLQPSLQTG SEELRSLYNT IAVLYCVHQR IDVKDTKEAL DKIEEEQNKS KKKAQQAAAD TGNNSQVSQN Y

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 308 K, pH 5.5

#	Name	Isotope labeling	Concentration
1	MA	[U-95% 13C]	0.4 mM
2	1,2-DIOCTANOYL-SN-GLYCERO-3-PHOSPHOCHOLINE	natural abundance	0.8 ~ 1.0 mM
3	sodium phosphate	natural abundance	50 mM
4	DTT	natural abundance	2 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 308 K, pH 5.5

#	Name	Isotope labeling	Concentration
7	MA	[U-95% 13C; U-95% 15N]	0.4 ~ 1.0 mM
8	1,2-DIOCTANOYL-SN-GLYCERO-3-PHOSPHOCHOLINE	natural abundance	0.8 ~ 1.0 mM
9	sodium phosphate	natural abundance	50 mM
10	DTT	natural abundance	2 mM
11	H2O	natural abundance	90 %
12	D2O	natural abundance	10 %

LACS Plot; CA

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

Referencing offset: -0.24 ppm, Outliers: 1 Detail

LACS Plot; CB

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

Referencing offset: -0.24 ppm, Outliers: 1 Detail

LACS Plot; HA

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

Referencing offset: 0.0 ppm, Outliers: 3 Detail

Protein Blocks Logo

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

Release date

2013-02-10

Citation

Model for the interaction between HIV-1 Gag and plasma membrane
Vlach, J., Saad, J.
Proc. Natl. Acad. Sci. U.S.A.

Related entities 1. MA, : 1 : 14 : 2 : 12 : 91 entities Detail

Interaction partners 1. MA, : 3 interactors Detail

More details for 3 interactors identified by 2 citations

Experiments performed 11 experiments Detail

1 3D 13C-edited/13C-filtered NOESY