Genetic characterization of the cell-adapted PanAsia strain of foot-and-mouth disease virus O/Fujian/CHA/5/99 isolated from swine

Table 2 Amino acid differences in the whole genome of FMDV O/Fujian/CHA/5/99 as compared to O/Tibet/CHA/1/99

Untranslated region		Nucleotide mutation[a]	Secondary structure[c]	Polyprotein	Amino acid substitution[b]	Secondary structure[c]
5'-UTR	S	T82C		Lpro	A25T
		T84C			Q26R
		C105T			T55A
		C119T			F68L
		T138C			Y73S
		A139G			P75H
		T145C			D81S
		T147C			K144Q
		C155T			Q146H
		C160T		VP2	G72S	B-C loop, antigenic site 2
		C182T			E136G	E-F loop
		T199-			K175R	G-H loop
		A200-			F214L	C terminus
		T222C		VP3	A174S	G-H loop
		C238T		VP1	Y72C	βD strand
		C280T			T96A	E-F loop
		T288C			G137D	G-H loop, close to antigenic site 1
		T327C			T142A	G-H loop, antigenic site 1
		C345T			A152T	G-H loop, antigenic site 1
	PKs	T26C			Q153P	G-H loop, antigenic site 1
		A51G			I168V	H-I loop
		A52T			A199T	C terminus, antigenic site 1
		T114C			L212S	C terminus
		C121T		2B	S5A
		T132C			K48R
		T193C		2C	K64E
	cre	A30G			V92A
		T33C			I241T
	IRES	T55C	Domain 2		S312N
		C228T	Domain 3	3A	I3V
		C275T	Domain 3		H31C
		T312C	Domain 4		I34V
		C389T	Domain 4		I42V
		T423C			E57D
		A428C			I72M	Transmembrane domain
		C436T			M85T
		T437C			A89V
		-442A			N91D
3'-UTR		C32T			I94T
		A91G			T100A
					E108G
					N112S
					K144E
					E148G
				3B1	K18R
				3Cpro	R196K
				3D	H27Y
					K42Q
					G62E
					N63D
					T98I
					Q210R
					R234K
					R440W

[a] The number gives the nucleotide position independently for each element of untranslated region (5'-UTR and 3'-UTR), according to FMDV O/Tibet/CHA/1/99 strain (accession NO, AF506822). The first letter corresponds to the nucleotide found in O/Tibet/CHA/1/99; -, nucleotide deletion.
[b] Single letter amino acid code is used. Position of amino acid residues is independently numbered for each protein from the amino terminus to the carboxyl terminus.
[c] Secondary structure assignments are as described previously [8, 14, 27, 48, 52, 53].

ISSN: 1743-422X