AMPDB_567 | Antimicrobial peptide 1

PEPTIDE SUMMARY

Antimicrobial peptide 1

1 General Description

AMPDB ID: AMPDB_567

Protein Names: Antimicrobial peptide 1 (SmAMP1) [Cleaved into: Antimicrobial peptide 1.1a (SmAMP1.1a) (SmMP1.1a); Antimicrobial peptide 1.2a (Sm-AMP-1.2a)]

Protein Family: Nil

Gene Name: Nil

Source Organism: Stellaria media (Common chickweed) (Alsine media)

Protein Length: 167 AA

Protein Existence: Evidence at protein level

2 Protein Sequence & Composition

2.1 Sequence

MLNMKSFALVMLFATLVGVTIASGPNGQCGPGWGGCRGGLCCSQYGYCGSGPKYCAHNTPLSEIEPTDAGRCSGRGTCSGGRCCSKYGYCGTGPAYCGLGMCQGSCLPDMPNHPAQIQARTEAAQAEAQAEAYNQANEAAQVEAYYQATQAQTQAQPQVEPAVTKAP

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 23, 'R': 5, 'N': 6, 'D': 2, 'C': 14, 'Q': 15, 'E': 8, 'G': 23, 'H': 2, 'I': 3, 'L': 8, 'K': 4, 'M': 5, 'F': 2, 'P': 12, 'S': 9, 'T': 10, 'W': 1, 'Y': 9, 'V': 6

Frequencies of Amino Acids

'A': 13.77%, 'R': 2.99%, 'N': 3.59%, 'D': 1.2%, 'C': 8.38%, 'Q': 8.98%, 'E': 4.79%, 'G': 13.77%, 'H': 1.2%, 'I': 1.8%, 'L': 4.79%, 'K': 2.4%, 'M': 2.99%, 'F': 1.2%, 'P': 7.19%, 'S': 5.39%, 'T': 5.99%, 'W': 0.6%, 'Y': 5.39%, 'V': 3.59%

Missing Amino Acid(s)

No Amino Acid(s) are missing in this protein

Most Occurring Amino Acid(s)

A, G

Less Occurring Amino Acid(s)

Hydrophobic Amino Acid(s) Count

Hydrophilic Amino Acid(s) Count

Basic Amino Acid(s) Count

Acidic Amino Acid(s) Count

Modified Amino Acid(s) Count

Modified Amino Acid(s) Frequencies

Computed by biopython (version 1.79) & proteinAnalysis (version 1)

3 Physicochemical Properties

Sl. No.	Properties	Values	Reference
1.	Molecular Mass	17251.4 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	49.88	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	25.539	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	-0.285	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.567	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	6.429	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	-1.682	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.174, 0.299, 0.263 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.072	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	18910, 19785	Computed by ProtParam module (biopython 1.79)

4 Activity Details

4.1 Target Organism(s)

A.alternata, P.infestans

4.2 Antimicrobial Activity

Antimicrobial, Fungicide

4.3 Enzymatic Activity

Not found

4.4 Inhibitory Effect

Not found

4.5 Other Biological Activity

Non-hemolytic, Non-ribosomal

Activity data manually curated from Literature and UniProt

5 Database Cross-references

5.1 Literature Database

5.1.1 PubMed

Citation 1: R Shukurov R, D Voblikova V, Nikonorova AK, et al. Transformation of tobacco and Arabidopsis plants with Stellaria media genes encoding novel hevein-like peptides increases their resistance to fungal pathogens. Transgenic Res. 2012;21(2):313-25. Published 2012 Apr. doi:10.1007/s11248-011-9534-6

PMID: 21706181

Citation 2: Slavokhotova AA, Shelenkov AA, Korostyleva TV, et al. Defense peptide repertoire of Stellaria media predicted by high throughput next generation sequencing. Biochimie. 2017;135:15-27. Published 2017 Apr. doi:10.1016/j.biochi.2016.12.017

PMID: 28038935

5.2 Protein Sequence Databases

UniProt: E1UYT9

5.3 3D Structure Databases

	Sl. no.	PDB ID	Method	Resolution	Access Links	3D View

AlphaFoldDB: E1UYT9

5.4 Nucleotide Sequence Databases

Sl. no.	Accession(s)	Access Link(s)
1.	FN663151	GenBank \|\| EMBL

CCDS: Not found

RefSeq: Not found

5.5 Protein-Protein Interaction Databases

STRING: Not found

IntAct: Not found

MINT: Not found

DIP: Not found

BioGRID: Not found

5.6 Ligand Databases

BindingDB: Not found

DrugBank: Not found

ChEMBL: Not found

5.7 Family & Domain Databases

InterPro: IPR001002, IPR018371, IPR036861

PANTHER: Not found

PROSITE: PS00026, PS50941

5.8 Genome Annotation Databases

Ensembl: Not found

KEGG: Not found

5.9 Phylogenomic Databases

GeneTree: Not found

5.10 Enzyme & Pathway Databases

BRENDA: Not found

BioCyc: Not found

5.11 Protein-RNA Interaction Databases

RNAct: Not found

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