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 19014

Title: Solution structure of the putative Ras interaction domain of AFD-1, isoform a from Caenorhabditis elegans

Deposition date: 2013-02-07 Original release date: 2013-03-04

Authors: Harris, R.; Hillerich, B.; Ahmed, M.; Bonanno, J.; Chamala, S.; Evans, B.; Lafleur, J.; Hammonds, J.; Washington, E.; Stead, M.; Love, J.; Attonito, J.; Seidel, R.; Liddington, R.; Weis, W.; Nelson, W.; Girvin, M.; Almo, S.

Citation: Harris, R.; Hillerich, B.; Ahmed, M.; Bonanno, J.; Chamala, S.; Evans, B.; Lafleur, J.; Hammonds, J.; Washington, E.; Stead, M.; Love, J.; Attonito, J.; Seidel, R.; Chook, Y.; Rout, M.; Liddington, R.; Weis, W.; Nelson, W.; Girvin, M.; Almo, S.. "Solution structure of the putative Ras interaction domain of AFD-1, isoform a from Caenorhabditis elegans"  To be published ., .-..

Assembly members:
putative_Ras_interaction_domain_of_AFD-1_isoform_a, polymer, 108 residues, 11972.540 Da.

Natural source:   Common Name: Caenorhabditis elegans   Taxonomy ID: 6239   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Caenorhabditis elegans

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

Entity Sequences (FASTA):
putative_Ras_interaction_domain_of_AFD-1_isoform_a: SMFGGSLKVYGGEIVPTRPY VSILAEINENADRILGAALE KYGLEHSKDDFILVEVSNDD DRKSMSDLREIDGRPIPPTE CPLFEMTARSGNGENGFDSF LAIKRKPH

Data sets:
Data typeCount
13C chemical shifts478
15N chemical shifts108
1H chemical shifts751

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1putative Ras interaction domain of AFD-1, isoform a from Caenorhabditis elegans1

Entities:

Entity 1, putative Ras interaction domain of AFD-1, isoform a from Caenorhabditis elegans 108 residues - 11972.540 Da.

1   SERMETPHEGLYGLYSERLEULYSVALTYR
2   GLYGLYGLUILEVALPROTHRARGPROTYR
3   VALSERILELEUALAGLUILEASNGLUASN
4   ALAASPARGILELEUGLYALAALALEUGLU
5   LYSTYRGLYLEUGLUHISSERLYSASPASP
6   PHEILELEUVALGLUVALSERASNASPASP
7   ASPARGLYSSERMETSERASPLEUARGGLU
8   ILEASPGLYARGPROILEPROPROTHRGLU
9   CYSPROLEUPHEGLUMETTHRALAARGSER
10   GLYASNGLYGLUASNGLYPHEASPSERPHE
11   LEUALAILELYSARGLYSPROHIS

Samples:

sample_1: putative Ras interaction domain of AFD-1, isoform a, [U-100% 13C; U-100% 15N], 1.0 mM; sodium phosphate 20 mM; sodium chloride 50 mM; DTT 1 mM; EDTA 0.1 mM

sample_2: putative Ras interaction domain of AFD-1, isoform a, [U-100% 13C; U-100% 15N], 1.0 mM; sodium phosphate 20 mM; sodium chloride 50 mM; DTT 1 mM; EDTA 0.1 mM

sample_conditions_1: ionic strength: 70 mM; pH: 6.8; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
15N HSQCsample_1isotropicsample_conditions_1
15N NOESY-HSQCsample_1isotropicsample_conditions_1
13C HSQCsample_2isotropicsample_conditions_1
aromatic 13C HSQCsample_2isotropicsample_conditions_1
13C NOESY-HSQCsample_2isotropicsample_conditions_1
13C aromatic NOESY-HSQCsample_2isotropicsample_conditions_1
HNCOsample_1isotropicsample_conditions_1
HNCACOsample_1isotropicsample_conditions_1
HNCAsample_1isotropicsample_conditions_1
HNCOCAsample_1isotropicsample_conditions_1
HNCACBsample_1isotropicsample_conditions_1
CBCACONHsample_1isotropicsample_conditions_1

Software:

CNS v1.21, Brunger A. T. et.al. - refinement

VNMRJ v2.2D, Varian - collection

TOPSPIN v1.3 & 2.1, Bruker Biospin - collection

NMRPipe v7.5, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

MDDNMR v2.2, (MDDNMR) Orekhov, Jaravine, Kazimierczuk - collection, processing

MDDGUI v1.0, (MDDGUI) Lemak, Gutmanas, Chitayat, Karra, Fares, Sunnerhagen, Arrowsmith - collection, processing

CCPN_Analysis, CCPN - data analysis

ARIA v2.3, Linge, O, . - data analysis

SIDER, Hansen - data analysis

X-PLOR NIH v2.32, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure solution

NMR spectrometers:

  • Varian Inova 600 MHz
  • Bruker Avance 600 MHz
  • Bruker Avance 700 MHz

Related Database Links:

UNP Q9BIC1
PDB
EMBL CCD69313 CCD69315 CCD69316 CDO41086
GB AAD20441
REF NP_001021660 NP_001021661 NP_001293329 NP_490938

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