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Getting Started with UCSF Chimera - bmb uga

Getting Started with UCSF Chimera - bmb uga 2025

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The document is a tutorial for UCSF Chimera, detailing how to use its basic features for displaying and manipulating molecular structures. It covers interactions through menus and commands, providing step-by-step instructions on opening structures, using the mouse for manipulation, selecting atoms, changing displays, and utilizing various tools within Chimera. The tutorial is divided into sections focusing on menu operations and command line usage, with practical examples involving specific molecular structures.

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What is the structure of a chimaera?

Chimaeras are tapered fishes with large pectoral and pelvic fins, large eyes, and two dorsal fins, the first preceded by a sharp spine. They have slender tails, from which the name ratfish, applied to some, has been derived.

What is the use of UCSF Chimera?

UCSF Chimera is a program for the interactive visualization and analysis of molecular structures and related data, including density maps, trajectories, and sequence alignments. It is available free of charge for noncommercial use. Commercial users, please see Chimera commercial licensing.

How to use chimera command line?

Chimera command files can be created manually or by saving the Command History. Rules and tips: Lines that begin with a pound sign (#) are interpreted as comments. Multiple commands separated by semicolons (;) can be combined into a single line.

How do I open AlphaFold in Chimerax?

Open the AlphaFold window in the Chimera Gui via Tools Structure Prediction AlphaFold. Fetch an AlphaFold prediction from the Alphafold-EBI database by setting the Sequence input field to UniProt identifier and provide the Uniprot ID of the protein of interest, e.g. INSRHUMAN.

How do I open a file in Chimera?

0:34 2:23 We click into it. Then it will open that protein structure for us.MoreWe click into it. Then it will open that protein structure for us.

How to move structure in chimera?

Tools Viewing ControlsSide View. To rotate the structure click and move the mouse. To move a structure, click and drag the middle mouse button.

How to open structure in chimera?

Each Chimera window or tool can be moved to a convenient location by clicking its top bar and dragging. Now open a structure. Choose FileFetch by ID and type 1zik in the PDB ID field. The structure will appear in the main graphics window; it is a leucine zipper formed by two peptides.

Getting Started with UCSF Chimera - bmb uga 2025

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