AUTOBA: Automation of backbone assignment from HN(C)N suite of experiments

@article{Borkar2011AUTOBAAO,
  title={AUTOBA: Automation of backbone assignment from HN(C)N suite of experiments},
  author={Aditi N. Borkar and Dinesh Kumar and Ramakrishna V. Hosur},
  journal={Journal of Biomolecular NMR},
  year={2011},
  volume={50},
  pages={285-297}
}
Development of efficient strategies and automation represent important milestones of progress in rapid structure determination efforts in proteomics research. In this context, we present here an efficient algorithm named as AUTOBA (Automatic Backbone Assignment) designed to automate the assignment protocol based on HN(C)N suite of experiments. Depending upon the spectral dispersion, the user can record 2D or 3D versions of the experiments for assignment. The algorithm uses as inputs: (i… 
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8 Citations
Background Citations
2
Methods Citations
3

8 Citations

A unified NMR strategy for high-throughput determination of backbone fold of small proteins
TLDR
The PFBD strategy, because of its speed and simplicity, will be very valuable in Biomolecular NMR community for high-throughput structural proteomics of small folded proteins of MW < 10–12 kDa, the regime where NMR is generally preferred over X-ray crystallography.
Facile backbone (1H, 15N, 13Ca, and 13C′) assignment of 13C/15N‐labeled proteins using orthogonal projection planes of HNN and HN(C)N experiments and its automation
TLDR
Two improvements are presented to enhance the utility of the proposed high‐throughput AUTOmatic Backbone Assignment protocol, including use of 2D‐hNnH spectrum and its variants that display additional 1H–15N correlations and thus help to resolve ambiguities arising because of amide 1H shift degeneracy.
Reduced dimensionality 3D HNCAN for unambiguous HN, CA and N assignment in proteins.
TSAR: a program for automatic resonance assignment using 2D cross-sections of high dimensionality, high-resolution spectra
TLDR
The program TSAR (Tool for SMFT-based Assignment of Resonances), which exploits all advantages of SMFT input and its flexibility allows to process data from any type of experiments that provide sequential connectivities.
Exploiting image registration for automated resonance assignment in NMR
TLDR
This work shows that by displaying the variables to be compared in two-dimensional plots the process to establish resonance assignment can be simplified and by utilizing a fast Fourier transform cross-correlation algorithm, more common to the field of image registration or pattern matching, this process can be automated.
Reduced dimensionality (3,2)D NMR experiments and their automated analysis: implications to high‐throughput structural studies on proteins
TLDR
It is believed that the method and protocol proposed here can be used for routine high‐throughput structural studies of proteins and is demonstrated using alpha‐helical bovine apo calbindin‐D9k P43M mutant (75 aa) protein.
Parallel acquisition of 3D-HA(CA)NH and 3D-HACACO spectra
We present here an NMR pulse sequence with 5 independent incrementable time delays within the frame of a 3-dimensional experiment, by incorporating polarization sharing and dual receiver concepts.…
Reduced dimensionality tailored HN(C)N experiments for facile backbone resonance assignment of proteins through unambiguous identification of sequential HSQC peaks.

References

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TLDR
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