BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 15168

Title: Backbone 1H, 13C, and 15N Chemical Shift Assignments for LARG PDZ domain   PubMed: 18411422

Deposition date: 2007-03-08 Original release date: 2008-06-27

Authors: Liu, Jiangxin; Huang, Hongda; Wu, Jihui; Shi, Yunyu

Citation: Liu, Jiangxin; Zhang, Jiahai; Yang, Yinshan; Huang, Hongda; Shen, Weiqun; Hu, Qi; Wang, Xingsheng; Wu, Jihui; Shi, Yunyu. "Conformational change upon ligand binding and dynamics of the PDZ domain from leukemia-associated Rho guanine nucleotide exchange factor"  Protein Sci. 17, 1003-1014 (2008).

Assembly members:
LARG_PDZ_domain, polymer, 89 residues, Formula weight is not available

Natural source:   Common Name: Human   Taxonomy ID: 9606   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Homo sapiens

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
LARG_PDZ_domain: GSHMGLVQRCVIIQKDDNGF GLTVSGDNPVFVQSVKEDGA AMRAGVQTGDRIIKVNGTLV THSNHLEVVKLIKSGSYVAL TVQGRPPGS

Data sets:
Data typeCount
13C chemical shifts297
15N chemical shifts84
1H chemical shifts528

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1LARG PDZ domain1

Entities:

Entity 1, LARG PDZ domain 89 residues - Formula weight is not available

1   GLYSERHISMETGLYLEUVALGLNARGCYS
2   VALILEILEGLNLYSASPASPASNGLYPHE
3   GLYLEUTHRVALSERGLYASPASNPROVAL
4   PHEVALGLNSERVALLYSGLUASPGLYALA
5   ALAMETARGALAGLYVALGLNTHRGLYASP
6   ARGILEILELYSVALASNGLYTHRLEUVAL
7   THRHISSERASNHISLEUGLUVALVALLYS
8   LEUILELYSSERGLYSERTYRVALALALEU
9   THRVALGLNGLYARGPROPROGLYSER

Samples:

LARG_PDZ_domain-1: LARG PDZ domain, [U-100% 13C; U-100% 15N], 0.9 – 1.3 mM; DTT 1 mM; EDTA 5 mM; phosphate buffer 50 mM; D2O, [U-100% 2H], 10%

LARG_PDZ_domain-2: LARG PDZ domain, [U-100% 13C; U-100% 15N], 1.3 mM; phosphate buffer 50 mM; EDTA 5 mM; DTT 1 mM; D2O, [U-100% 2H], 99.9%

sample_conditions_1: ionic strength: 50 mM; pH: 6.0; pressure: 1 atm; temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
3D CBCA(CO)NHLARG_PDZ_domain-1isotropicsample_conditions_1
3D HBHA(CO)NHLARG_PDZ_domain-1isotropicsample_conditions_1
3D HCCH-TOCSYLARG_PDZ_domain-2isotropicsample_conditions_1
3D HCCH-COSYLARG_PDZ_domain-2isotropicsample_conditions_1
3D C(CO)NHLARG_PDZ_domain-1isotropicsample_conditions_1
3D H(CCO)NHLARG_PDZ_domain-1isotropicsample_conditions_1

Software:

SPARKY v3.0, Goddard - data analysis

NMRPipe vNMRPipe2.2, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

NMR spectrometers:

  • Bruker DMX 500 MHz
  • Bruker DMX 600 MHz

Related Database Links:

BMRB 15163
PDB
DBJ BAA20836 BAC65549 BAD89994 BAG57923 BAG65168
GB AAF36817 AAH63117 AAI52901 AAI56559 AAL87100
REF NP_001013264 NP_001116505 NP_001185594 NP_001288013 NP_056128
SP Q8R4H2 Q9NZN5
TPG DAA22316

Download simulated HSQC data in one of the following formats:
CSV: Backbone or all simulated shifts
SPARKY: Backbone or all simulated shifts