ADPDB Help

1. ADPDB Text Search Facility

This is a generelized search facility. This search facility is case insensitive. Here one can search with followings.

1. ADPDB ID (e.g., ADPDB10)

2. Peptide Name (e.g., MU1140)

3. Source (e.g., Streptococcus mutans)

4. Taxonomy (e.g., Bacteria)

5. Validation (e.g., Experimentally validated)

6. Sequence (e.g., GTETFDVQEDLFAFDTTDTTIVASNDDPDTR) [Note: This is not a BLAST search]

7. Molecular Formula (e.g., C195H382N48O116S1)

8. Structural Class of the Peptide (e.g., alpha OR alpha_beta)

9. Target Dengue Strain (e.g., DENV-2)

10. PubMed ID (e.g., 29200948)

2. ADPDB Advanced Search Facility

This is a generelized search facility. This search facility is case insensitive. Click on 'Add Field' to add a search field. In case of 'Range Attributes' integer and float values are expected in search fields. An image of a build search query attached below.

3. Understand Text Format of ADPDB database

The text format of ADPDB starts with two-character code followed by 4 blank space characters followed by the data. The description of the two-character code is given below.

ID => ADPDB Accession

PN => Peptide Name

SO => Source Organism

PL => Peptide Length

TX => Taxonomy

PE => Peptide Existence Level/Validation

TO => Target Organism

AC => Counts of Amino Acids

AF => Frequencies of Amino Acids

MA => Missing Amino Acid(s)

MO => Most Occurring Amino Acid(s)

LO => Less Occurring Amino Acid(s)

BA => Hydrophobic Amino Acid(s) Count

LA => Hydrophilic Amino Acid(s) Count

AA => Acidic Amino Acid(s) Count

BC => Basic Amino Acid(s) Count

MC => Modified Amino Acid(s) Count

MF => Modified Amino Acid(s) Frequencies

MM => Molecular Mass

AI => Aliphatic Index

II => Instability Index (Half Life)

HP => Hydrophobicity (GRAVY)

HM => Hydrophobic Moment

IP => Isoelectric Point

NC => Net Charge

SF => Secondary Structure Fraction

AR => Aromaticity

ME => Molar Extinction Coefficient (cysteine|cysteine)

MS => Mass Shift

SC => Structural Class of the Peptide

VF => Virus Family

IC => Inhibition Concentration Information

TC => Target component information

TP => Target process information

MN => Mode of action

TY => Toxicity

HA => Hemolytic activity

XR => Database Cross-reference

SQ => Sequence

XX => Blank Line

// => End of an entry

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