Chromosome 1 open reading frame 41 Structure

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Protein Structure

PDB ID: 1TVG Information from the PDB stated that x-ray diffraction was sued to solve the structure of this protein with an R value of 0.215 and at 1.6Å. Two ligands were present in the crystal structure, a calcium (II) ion and a samarium (III) ion. This protein has 153 residues and its secondary structure consists of two helices and nine beta sheet strands.

Picture 2.png

Above is the representation of 1TVG secondary structure using PDBsum.

This protein is monomeric and the connectivities between the secondary structures are shown below.

Pymol ss1.PNG

Structure analysis

1)Structure similarities

DALI was used to find protein that are similar in structure to 1TVG. The results showed that sialidases, alpha-N-acetylglucosaminidases and galactose oxidases have similar structure to our protein as presented below.

Picture 1.png

2)Domain Classification

Pfam result indicated that our protein has a F5/8 type C domain, also known as the discoidin domain which is apart of galactose binding domain super family.

1TVG pfam.png

Closer inspection of the other proteins from the DALI result showed that they also have discoidin domain in their structures.

3)Possible ligand binding sites

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