AFTM

AFTM identifies and characterizes transmembrane segments in human proteins by analyzing AlphaFold-generated structural models to improve annotation and analysis of human transmembrane proteins.

Key Features:

• AlphaFold Integration: Uses AlphaFold-generated structural models of human proteins.
• Transmembrane Segment Identification: Predicts transmembrane regions using the positioning of proteins in membranes (PoPM) version 3 program applied to AlphaFold models.
• Automatic Corrections: Applies automated corrections to initial predictions informed by manual analyses.
• Comparative Analysis: Performs comparative analyses against UniProt, the Human Transmembrane Proteome (HTP) database, TmAlphaFold, PDBTM, and Membranome.
• Comprehensive Resource: Aggregates candidate human TMPs from AlphaFold analyses and cross-database comparisons.

Scientific Applications:

• Structural Biology: Provides structural predictions of TMPs to support interpretation and comparison with experimental structures.
• Functional Genomics: Facilitates identification and characterization of transmembrane regions to inform functional annotation of human proteins.
• Drug Discovery: Supplies structural insights relevant to targeting transmembrane proteins in drug discovery.
• Validation Against Experimental Data: Shows greater consistency with experimental structures from the PDBTM database.
• Reevaluation of TMP Annotations: Reclassifies some proteins previously annotated as TMPs, suggesting they may not be transmembrane proteins.

Methodology:

Analyzes AlphaFold-generated structural models of human proteins, predicts transmembrane segments with the PoPM version 3 program, and applies automated corrections informed by manual result analyses.