BMRB Entry 30888

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR30888
MolProbity Validation Chart

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Title:
NMR Structure of GCAP5
Deposition date:
2021-03-17
Original release date:
2021-10-13
Authors:
Ames, J.; Cudia, D.
Citation:

Citation: Cudia, Diana; Roseman, Graham; Assafa, Tufa; Shahu, Manisha Kumari; Scholten, Alexander; Menke-Sell, Sarah-Karina; Yamada, Hiroaki; Koch, Karl-W; Milhauser, Glenn; Ames, James. "NMR and EPR-DEER Structure of a Dimeric Guanylate Cyclase Activator Protein-5 from Zebrafish Photoreceptors"  Biochemistry 60, 3058-3070 (2021).
PubMed: 34609135

Assembly members:

Assembly members:
entity_1, polymer, 198 residues, 22489.383 Da.
entity_MG, non-polymer, 24.305 Da.

Natural source:

Natural source:   Common Name: Zebrafish, Brachydanio rerio   Taxonomy ID: 7955   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Danio rerio

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: XGDSSSMSATELSACKCHQW YRKFMTECPSGQLTFYEFKK FFGLKNLSEKSNAYVNTMFK TFDIDDDGCIDFMEYVAALS LVLKGGVQQKLRWYFKLFDM DGSGCIDKDELLLIFKAVQA INGAEPEISAEDLADIVFNK IDVNGDGELSLEEFMEGISA DEKISEMLTQSLDLTRIVSN IYNDSYIEQEAEIIEDQA

Data sets:
Data typeCount
13C chemical shifts579
15N chemical shifts160
1H chemical shifts812

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1unit_11
2unit_22

Entities:

Entity 1, unit_1 198 residues - 22489.383 Da.

1   MYRGLYASPSERSERSERMETSERALATHR
2   GLULEUSERALACYSLYSCYSHISGLNTRP
3   TYRARGLYSPHEMETTHRGLUCYSPROSER
4   GLYGLNLEUTHRPHETYRGLUPHELYSLYS
5   PHEPHEGLYLEULYSASNLEUSERGLULYS
6   SERASNALATYRVALASNTHRMETPHELYS
7   THRPHEASPILEASPASPASPGLYCYSILE
8   ASPPHEMETGLUTYRVALALAALALEUSER
9   LEUVALLEULYSGLYGLYVALGLNGLNLYS
10   LEUARGTRPTYRPHELYSLEUPHEASPMET
11   ASPGLYSERGLYCYSILEASPLYSASPGLU
12   LEULEULEUILEPHELYSALAVALGLNALA
13   ILEASNGLYALAGLUPROGLUILESERALA
14   GLUASPLEUALAASPILEVALPHEASNLYS
15   ILEASPVALASNGLYASPGLYGLULEUSER
16   LEUGLUGLUPHEMETGLUGLYILESERALA
17   ASPGLULYSILESERGLUMETLEUTHRGLN
18   SERLEUASPLEUTHRARGILEVALSERASN
19   ILETYRASNASPSERTYRILEGLUGLNGLU
20   ALAGLUILEILEGLUASPGLNALA

Entity 2, unit_2 - Mg - 24.305 Da.

1   MG

Samples:

sample_1: GCAP5, [U-100% 15N], 0.5 mM; MAGNESIUM ION 2.0 mM; MES, [U-100% 2H], 10 mM

sample_2: GCAP5, [U-100% 13C; U-100% 15N], 0.5 mM; MAGNESIUM ION 2.0 mM; MES, [U-100% 2H], 10 mM

sample_conditions_1: ionic strength: 10 mM; pH: 6.0; pressure: 1 atm; temperature: 310 K

sample_conditions_2: ionic strength: 10 mM; pH: 6.0; pressure: 1 atm; temperature: 310 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aliphaticsample_2isotropicsample_conditions_2
3D HNCACBsample_2isotropicsample_conditions_2
3D CBCA(CO)NHsample_2isotropicsample_conditions_2
3D HCCH-TOCSYsample_2isotropicsample_conditions_2
3D 1H-13C NOESY aliphaticsample_2isotropicsample_conditions_2

Software:

CNS, Brunger A. T. et.al., Brunger, Adams, Clore, Gros, Nilges and Read - refinement, structure calculation

NMRFAM-SPARKY, Woonghee Lee - chemical shift assignment

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

NMR spectrometers:

  • Bruker AVANCE III 800 MHz

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