readme_naming_conventions.txt

This is a README that contains the information on the nine viral proteins used in the study. These proteins are take from Sharamoradi et al. (2014).

		Viral Protein											PDB				Length			Alignment				Tree
1. Hemaglutinin Precursor (HP)								1RD8_AB.pdb		(503 residues) 		HP.fasta			tree_H1N1_HA.tre	
2. West Nile Protease (WNPB)								2FP7_B.pdb 		(147 residues)  	WNPB.fasta			tree_westnile_chainb.tre
3. Crimean Congo Hemorrhagic Fever Nucleocapsid (CCHFN)		4AQF_B.pdb 		(474 residues)		CCHFN.fasta			tree_crimean_congo.Nucleoprotein.tre
4. Dengue Protease Helicase (DPH) 							2JLY_A.pdb 		(451 residues)  	DPH.fasta			tree_dengue_ns3.tre
5. Hepatitis C Protease (HCP) 								3GOL_A.pdb 		(557 residues)  	HCP.fasta			tree_HCV_NS5B.tre
6. Influenza Nucleoprotein (INP) 							4IRY_A.pdb 		(404 residues) 		INP.fasta 			tree_H1N1_NP.tre
7. Japanese Encephalitis Helicase/Nucleoside (JEHN) 		2Z83_A.pdb 		(426 residues) 		JEHN.fasta 			tree_JEV.tre
8. Marburg RNA Binding Domain (MRNABD) 						4GHA_A.pdb 		(122 residues)		MRNABD.fasta		tree_marburg.vp35.tre
9. Rift Valley Fever Virus NucleoProtein (RVFVNP) 			3LYF_A.pdb 		(244 residues) 		RVFVNP.fasta		tree_riftvalley.tre