BMRB Entry 18715

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR18715
MolProbity Validation Chart

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Title:
Structure of HIV-1 myr(-) matrix protein in complex with 1,2-dioctanoyl-sn-phosphatidylcholine
Deposition date:
2012-09-14
Original release date:
2013-02-11
Authors:
Vlach, Jiri; Saad, Jamil
Citation:

Citation: Vlach, Jiri; Saad, Jamil. "Model for the interaction between HIV-1 Gag and plasma membrane"  Proc. Natl. Acad. Sci. U.S.A. ., .-..

Assembly members:

Assembly members:
MA, polymer, 131 residues, 14734.753 Da.
1,2-DIOCTANOYL-SN-GLYCERO-3-PHOSPHOCHOLINE, non-polymer, 510.622 Da.

Natural source:

Natural source:   Common Name: HIV   Taxonomy ID: 12721   Superkingdom: Viruses   Kingdom: not available   Genus/species: Lentivirus not available

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli   Vector: pET-11a

Entity Sequences (FASTA):

Entity Sequences (FASTA):
MA: GARASVLSGGELDKWEKIRL RPGGKKQYKLKHIVWASREL ERFAVNPGLLETSEGCRQIL GQLQPSLQTGSEELRSLYNT IAVLYCVHQRIDVKDTKEAL DKIEEEQNKSKKKAQQAAAD TGNNSQVSQNY

Data sets:
Data typeCount
13C chemical shifts434
15N chemical shifts131
1H chemical shifts880

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1MA1
2entity_PC82

Entities:

Entity 1, MA 131 residues - 14734.753 Da.

1   GLYALAARGALASERVALLEUSERGLYGLY
2   GLULEUASPLYSTRPGLULYSILEARGLEU
3   ARGPROGLYGLYLYSLYSGLNTYRLYSLEU
4   LYSHISILEVALTRPALASERARGGLULEU
5   GLUARGPHEALAVALASNPROGLYLEULEU
6   GLUTHRSERGLUGLYCYSARGGLNILELEU
7   GLYGLNLEUGLNPROSERLEUGLNTHRGLY
8   SERGLUGLULEUARGSERLEUTYRASNTHR
9   ILEALAVALLEUTYRCYSVALHISGLNARG
10   ILEASPVALLYSASPTHRLYSGLUALALEU
11   ASPLYSILEGLUGLUGLUGLNASNLYSSER
12   LYSLYSLYSALAGLNGLNALAALAALAASP
13   THRGLYASNASNSERGLNVALSERGLNASN
14   TYR

Entity 2, entity_PC8 - C24 H49 N O8 P - 510.622 Da.

1   PC8

Samples:

sample_1: MA, [U-95% 13C], 0.4 mM; 1,2-DIOCTANOYL-SN-GLYCERO-3-PHOSPHOCHOLINE0.8 – 1.0 mM; sodium phosphate 50 mM; DTT 2 mM; H2O 90%; D2O 10%

sample_2: MA, [U-95% 13C; U-95% 15N], 0.4 – 1.0 mM; 1,2-DIOCTANOYL-SN-GLYCERO-3-PHOSPHOCHOLINE0.8 – 1.0 mM; sodium phosphate 50 mM; DTT 2 mM; H2O 90%; D2O 10%

sample_conditions_1: ionic strength: 50 mM; pH: 5.5; pressure: 1 atm; temperature: 308 K

Experiments:

NameSampleSample stateSample conditions
3D 13C-edited/13C-filtered NOESYsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
3D HNCAsample_2isotropicsample_conditions_1
3D HN(CO)CAsample_2isotropicsample_conditions_1
3D HNCACBsample_2isotropicsample_conditions_1
3D CBCA(CO)NHsample_2isotropicsample_conditions_1
3D 1H-15N TOCSYsample_2isotropicsample_conditions_1
3D 1H-15N NOESYsample_2isotropicsample_conditions_1
3D 1H-13C NOESYsample_1isotropicsample_conditions_1
2D 1H-15N HSQCsample_2isotropicsample_conditions_1

Software:

CYANA v2.1, Guntert, Mumenthaler and Wuthrich - structure solution

TOPSPIN, Bruker Biospin - collection

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

CCPN_Analysis, CCPN - data analysis

NMR spectrometers:

  • Bruker Avance II 700 MHz

Related Database Links:

EMBL P12493 CBI61180 CBI61181 CBI61182 CBI61183 CBI61184
BMRB 15114 15116 18716
PDB
DBJ BAF34641 BAG48474
GB AAA44987 AAB00898 AAB60571 AAC28445 AAC29216
SP P12493 P12497
AlphaFold P12493 P12497

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks