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 30201

Title: solution structure of nysgrc-2016   PubMed: 28162953

Authors: Dutta, K.; Sampathkumar, P.; Cowburn, D.; Almo, S.; Rout, M.; Fernandez-Martinez, J.

Citation: Upla, P.; Kim, S.; Dutta, K.; Sampathkumar, P.; Cahill, S.; Chemmama, I.; Williams, R.; Bonanno, J.; Rice, W.; Stokes, D.; Cowburn, D.; Almo, S.; Sali, A.; Rout, M.; Fernandez-Martinez, J.. "Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex"  Structure 25, 434-445 (2017).

Assembly members:
Nucleoporin POM152, polymer, 114 residues, 12741.649 Da.

Natural source:   Common Name: Baker's yeast   Taxonomy ID: 4932   Superkingdom: Eukaryota   Kingdom: Fungi   Genus/species: Saccharomyces cerevisiae

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

Entity Sequences (FASTA):
Nucleoporin POM152: MSLRVKPSASLKLHHDLKLC LGDHSSVPVALKGQGPFTLT YDIIETFSSKRKTFEIKEIK TNEYVIKTPVFTTGGDYILS LVSIKDSTGCVVGLSQPDAK IQVRRDEGHHHHHH

Data sets:
Data typeCount
13C chemical shifts471
15N chemical shifts106
1H chemical shifts760

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1entity_11

Entities:

Entity 1, entity_1 114 residues - 12741.649 Da.

1   METSERLEUARGVALLYSPROSERALASER
2   LEULYSLEUHISHISASPLEULYSLEUCYS
3   LEUGLYASPHISSERSERVALPROVALALA
4   LEULYSGLYGLNGLYPROPHETHRLEUTHR
5   TYRASPILEILEGLUTHRPHESERSERLYS
6   ARGLYSTHRPHEGLUILELYSGLUILELYS
7   THRASNGLUTYRVALILELYSTHRPROVAL
8   PHETHRTHRGLYGLYASPTYRILELEUSER
9   LEUVALSERILELYSASPSERTHRGLYCYS
10   VALVALGLYLEUSERGLNPROASPALALYS
11   ILEGLNVALARGARGASPGLUGLYHISHIS
12   HISHISHISHIS

Samples:

sample_1: POM152, [U-100% 13C; U-100% 15N], 235 uM; H2O 90%; D2O 10%; NaCl 150 mM

sample_2: POM152, [U-100% 13C; U-100% 15N], 402 uM; H2O 90%; D2O 10%; NaCl 150 mM

sample_3: POM152, [U-100% 13C; U-100% 15N], 300 uM; H2O 90%; D2O 10%; NaCl 150 mM

sample_4: POM152, [U-100% 13C; U-100% 15N], 1.2 mM; H2O 90%; D2O 10%; NaCl 150 mM

sample_5: POM152, [U-100% 13C; U-100% 15N], 324 uM; D2O 100%; NaCl 150 mM

sample_conditions_1: ionic strength: 160 mM; pH: 6.8; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3d HNCACOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HN(CO)CAsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_2isotropicsample_conditions_1
3D HBHA(CO)NHsample_2isotropicsample_conditions_1
3D 1H-15N NOESYsample_2isotropicsample_conditions_1
3D H(CCO)NHsample_3isotropicsample_conditions_1
3D C(CO)NHsample_4isotropicsample_conditions_1
2D 1H-13C HSQC aliphaticsample_5isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_5isotropicsample_conditions_1
3D HCCH-TOCSYsample_5isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_5isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_5isotropicsample_conditions_1

Software:

ARIA, Linge, O'Donoghue and Nilges - structure calculation

CNS, Brunger, Adams, Clore, Gros, Nilges and Read - structure calculation

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

NMRView, Johnson, One Moon Scientific - chemical shift assignment

NMR spectrometers:

  • Bruker DRX 600 MHz
  • Varian INOVA 600 MHz
  • Bruker DRX 900 MHz

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