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Protocols

NCBI Protein specifications

Information


Unique identifier OMICS_03909
Name NCBI Protein
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Maintainer


  • person_outline Eric W Sayers

Publication for NCBI Protein

NCBI Protein citations

 (719)
library_books

Diversity of nonribosomal peptide synthetase and polyketide synthase gene clusters among taxonomically close Streptomyces strains

2018
Sci Rep
PMCID: 5932044
PMID: 29720592
DOI: 10.1038/s41598-018-24921-y

[…] Coding regions in the draft genome sequences were predicted using Prodigal v2.6. NRPS and PKS gene clusters were determined as previously reported,. A BLASTP search was performed using the NCBI Protein BLAST program (https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=Proteins), in which the non-redundant protein sequence (nr) database was chosen as the Search Set. AntiSMASH was used to predi […]

library_books

Structural and functional dissection of differentially expressed tomato WRKY transcripts in host defense response against the vascular wilt pathogen (Fusarium oxysporum f. sp. lycopersici)

2018
PLoS One
PMCID: 5927432
PMID: 29709017
DOI: 10.1371/journal.pone.0193922

[…] olyWRKY37 were used for further studies. The functional characterization of the SolyWRKY4 (XP_004235494.1) has been already reported in our previous publication [].The Blast-p program research in the NCBI protein database (http://blast.ncbi.nlm.nih.gov/blast.cgi [] was used to find sequential homologs for both SolyWRKY33 and SolyWRKY37. Blast annotations were filtered using subject to query covera […]

call_split

Membrane containing virus particles exhibit the mechanics of a composite material for genome protection† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c8nr00196k

2018
PMCID: 5944389
PMID: 29658555
DOI: 10.1039/c8nr00196k
call_split See protocol

[…] with CID-MS2 top 20 most intense precursor ions within the ion trap (energy 35). Data were acquired using LTQ Tune software.The acquired MS2 scans were searched against the enterobacteria phage PRD1 (NCBI) protein database using the Sequest search algorithms in Thermo Proteome Discoverer. The allowed mass error for the precursor ions was 15 ppm and for the fragment 0.8 Da. A static residue modific […]

library_books

SRARP and HSPB7 are epigenetically regulated gene pairs that function as tumor suppressors and predict clinical outcome in malignancies

2018
Mol Oncol
PMCID: 5928383
PMID: 29577611
DOI: 10.1002/1878-0261.12195

[…] core, percentile of score compared to all records used in this search, sequence of each motif, and surface accessibility for the predicted sites. HSPB7 and SRARP sequence alignment was examined using NCBI Protein BLAST (https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=Proteins). […]

library_books

High yield production of 1,3 propanediol from glycerol by metabolically engineered Klebsiella pneumoniae

2018
Biotechnol Biofuels
PMCID: 5890353
PMID: 29657579
DOI: 10.1186/s13068-018-1100-5

[…] ratio was highest when mannitol was used as co-substrate (Fig. c, d). It is suspected that this additional NADH was beneficial to 1,3-PDO production, since 1,3-PDO production requires NADH for DhaT (NCBI-Protein ID: AEJ99987) enzymatic reaction (Fig. c, d).Fig. 3 However, when mannitol was used as a co-substrate, its consumption over 24 h was much higher than consumption of other co-substrates (F […]

call_split

Discovery of a unique Mycobacterium tuberculosis protein through proteomic analysis of urine from patients with active tuberculosis

2018
PMCID: 5946903
PMID: 29306028
DOI: 10.1016/j.micinf.2017.12.011
call_split See protocol

[…] aded the assembly draft protein.gff file from NCBI and preformed protein-blast using the TBCG_03312 peptide. To query public finished genomes for the TBCG_03312 protein and its fragments, we used the NCBI protein and nucleotide BLAST functions. […]


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