BMRB Entry 34890

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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/BMR34890
MolProbity Validation Chart

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
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Title:
NMR solution structure of the N-terminal cytoplasmic domain, DdvANt, of the membrane antisigma factor DdvA
Deposition date:
2024-01-04
Original release date:
2024-10-30
Authors:
Pantoja-Uceda, D.; Padmanabhan, S.
Citation:

Citation: Bernal-Bernal, D.; Tascon, I.; Pantoja-Uceda, D.; Lopez-Alonso, J.; Lopez-Rojo, A.; Lopez-Ruiz, J.; Galbis-Martinez, M.; Elias-Arnanz, M.; Ubarretxena-Belandia, I.; Padmanabhan, S.. "Structural basis for regulated expression of a CBASS- CRISPR-Cas defense island by a membrane antisigma factor and its ECF sigma partner"  .

Assembly members:

Assembly members:
entity_1, polymer, 90 residues, 10068.254 Da.
entity_ZN, non-polymer, 65.409 Da.

Natural source:

Natural source:   Common Name: Myxococcus xanthus   Taxonomy ID: 34   Superkingdom: Bacteria   Kingdom: not available   Genus/species: Myxococcus xanthus

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli BL21(DE3)

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: GSSHHHHHHSSGLVPRGSHM MSSSPCDQLQSFADGDLPPM EAQAFGQHLADCEKCQVELT RLLQLDQLGRGYIERHGPVD IPWHALPRNR

Data sets:
Data typeCount
13C chemical shifts270
15N chemical shifts71
1H chemical shifts488

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 90 residues - 10068.254 Da.

1   GLYSERSERHISHISHISHISHISHISSER
2   SERGLYLEUVALPROARGGLYSERHISMET
3   METSERSERSERPROCYSASPGLNLEUGLN
4   SERPHEALAASPGLYASPLEUPROPROMET
5   GLUALAGLNALAPHEGLYGLNHISLEUALA
6   ASPCYSGLULYSCYSGLNVALGLULEUTHR
7   ARGLEULEUGLNLEUASPGLNLEUGLYARG
8   GLYTYRILEGLUARGHISGLYPROVALASP
9   ILEPROTRPHISALALEUPROARGASNARG

Entity 2, unit_2 - Zn - 65.409 Da.

1   ZN

Samples:

sample_1: DdvANt, [U-13C; U-15N], 0.7 mM; sodium chloride 100 mM; Tris 20 mM; beta-mercaptoethanol 2 mM; sodium azide 0.05%

sample_2: DdvANt 0.7 mM; sodium chloride 100 mM; Tris 20 mM; beta-mercaptoethanol 2 mM; sodium azide 0.05%

sample_conditions_1: ionic strength: 100 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_2isotropicsample_conditions_1
2D 1H-13C HSQCsample_2isotropicsample_conditions_1
3D HNCOsample_2isotropicsample_conditions_1
3D HN(CA)COsample_2isotropicsample_conditions_1
3D HNCAsample_2isotropicsample_conditions_1
3D HNCACBsample_2isotropicsample_conditions_1
3D CBCA(CO)NHsample_2isotropicsample_conditions_1
3D H(CCO)NHsample_2isotropicsample_conditions_1
3D (H)CCCONHsample_2isotropicsample_conditions_1
3D HNHAsample_2isotropicsample_conditions_1
3D HBHA(CO)NHsample_2isotropicsample_conditions_1
3D (H)N(COCA)NHsample_2isotropicsample_conditions_1
3D H(MCOCA)NHsample_2isotropicsample_conditions_1
2D NOESYsample_2isotropicsample_conditions_1
2D TOCSYsample_2isotropicsample_conditions_1
3D 1H-15N NOESYsample_2isotropicsample_conditions_1
2D NOESYsample_2isotropicsample_conditions_1
2D TOCSYsample_2isotropicsample_conditions_1

Software:

TopSpin, Bruker Biospin - collection, processing

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

NMRView, Johnson, One Moon Scientific - chemical shift assignment, data analysis, peak picking

CYANA, Guntert, Mumenthaler and Wuthrich - structure calculation

Amber, Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement

NMR spectrometers:

  • Bruker AVANCE NEO 800 MHz

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