A3M Combiner

Combines multiple A3M MSA dictionaries into a single A3M input, supporting up to five sources and optional chain prefixing to avoid ID conflicts.

Quick Start

1. Connect up to five A3M MSA dictionary inputs (e.g., from MSA Search nodes).
2. (Optional) Enable chain prefixing to avoid chain ID conflicts.
3. Use the combined A3M output in downstream structure prediction nodes.

Setup Guide

1. Prepare Inputs

1. Generate A3M MSA dictionaries using MSA Search or similar nodes.
2. Ensure each input is a valid A3M dictionary.

2. Configure Node

1. Connect A3M inputs to the corresponding slots (a3m_1 to a3m_5).
2. Enable prefix_chains if chain ID conflicts are possible.

3. Use Output

1. Connect the combined_a3m output to nodes requiring a merged MSA input.

Basic Usage

Merging Multiple MSAs

• Combine up to five A3M dictionaries into one.
• Optionally add prefixes to chain IDs to prevent conflicts.
• Use in workflows requiring unified MSA input for multimeric or complex assemblies.

Configuration

Required Inputs

None

Optional Inputs

Field	Description	Type	Example
a3m_1	First A3M MSA dictionary	A3M	{"A": "..."}
a3m_2	Second A3M MSA dictionary	A3M	{"B": "..."}
a3m_3	Third A3M MSA dictionary	A3M	{"C": "..."}
a3m_4	Fourth A3M MSA dictionary	A3M	{"D": "..."}
a3m_5	Fifth A3M MSA dictionary	A3M	{"E": "..."}
prefix_chains	Add prefixes to chain IDs to avoid conflicts	BOOLEAN	True

Outputs

Field	Description	Example
combined_a3m	Combined A3M MSA dictionary	{"A": "...", "B": "..."}

Best Practices

Avoiding Chain ID Conflicts

• Enable prefix_chains when combining MSAs with overlapping chain IDs.
• Review output chain IDs before downstream use.

Workflow Integration

• Use this node to prepare MSAs for multimeric structure prediction.
• Combine only relevant MSAs to minimize unnecessary data.

Troubleshooting

Common Issues

• Chain ID conflict: Enable prefix_chains to resolve duplicate chain IDs.
• Empty output: Ensure at least one valid A3M input is connected.

Need Help?

• Contact support for further assistance.