AMPDB_883 | Nigrocin-2GRc

PEPTIDE SUMMARY

Nigrocin-2GRc

1 General Description

AMPDB ID: AMPDB_883

Protein Names: Nigrocin-2GRc (Grahamin-2)

Protein Family: Frog skin active peptide (FSAP) family; Brevinin subfamily

Gene Name: Nil

Source Organism: Odorrana grahami (Yunnanfu frog) (Rana grahami)

Protein Length: 67 AA

Protein Existence: Evidence at protein level

2 Protein Sequence & Composition

2.1 Sequence

MFTMKKSMLLLFFLGTISLSLCEQERNADEEERRDEEVAKMEEIKRGLLSGILGAGKNIVCGLSGLC

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 3, 'R': 4, 'N': 2, 'D': 2, 'C': 3, 'Q': 1, 'E': 9, 'G': 7, 'H': 0, 'I': 4, 'L': 11, 'K': 5, 'M': 4, 'F': 3, 'P': 0, 'S': 5, 'T': 2, 'W': 0, 'Y': 0, 'V': 2

Frequencies of Amino Acids

'A': 4.48%, 'R': 5.97%, 'N': 2.99%, 'D': 2.99%, 'C': 4.48%, 'Q': 1.49%, 'E': 13.43%, 'G': 10.45%, 'H': 0%, 'I': 5.97%, 'L': 16.42%, 'K': 7.46%, 'M': 5.97%, 'F': 4.48%, 'P': 0%, 'S': 7.46%, 'T': 2.99%, 'W': 0%, 'Y': 0%, 'V': 2.99%

Missing Amino Acid(s)

H, P, W, Y

Most Occurring Amino Acid(s)

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	7453.76 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	100.448	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	57.355	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	0.036	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.568	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	4.739	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	-2.173	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.299, 0.209, 0.403 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.045	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	0, 125	Computed by ProtParam module (biopython 1.79)

4 Activity Details

4.1 Target Organism(s)

S.aureus (Gram-positive)

4.2 Antimicrobial Activity

Amphibian defense peptide, Antibiotic, Antimicrobial, Anti-gram-Positive

4.3 Enzymatic Activity

Not found

4.4 Inhibitory Effect

Not found

4.5 Other Biological Activity

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: Xu X, Li J, Han Y, et al. Two antimicrobial peptides from skin secretions of Rana grahami. Toxicon. 2006;47(4):459-64. Published 2006 Mar 15. doi:10.1016/j.toxicon.2006.01.002

PMID: 16487561

Citation 2: Conlon JM, Al-Ghaferi N, Abraham B, et al. Antimicrobial peptides from diverse families isolated from the skin of the Asian frog, Rana grahami. Peptides. 2006;27(9):2111-7. Published 2006 Sep. doi:10.1016/j.peptides.2006.03.002

PMID: 16621155

5.2 Protein Sequence Databases

UniProt: P85070

5.3 3D Structure Databases

No PDB Ids found

AlphaFoldDB: P85070

5.4 Nucleotide Sequence Databases

No entries found in GenBank or 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: IPR004275, IPR032749

PANTHER: Not found

PROSITE: Not found

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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