The crystal structure of Escherichia coli TdcF, a member of the highly conserved YjgF/YER057c/UK114 family

BMC Structural Biology

Table 1 Summary of TdcF structural homologues

Protein	Source	Identity (%)^a	Aligned residues	PDB code	Resolution (Å)	Rmsd (Å)^b	Reference
TdcF	E. coli	100	-	2UYK	1.60	0.0	this work
YjgF	E. coli	73	126	1QU9	1.20	0.5	[6]
HI0719	H. influenzae	63	126	1J7H	NMR	1.4	[8]
PTII^c	C. thermocellum	51	122	1XRG	2.20	1.1	to be published
TM0215	T. maritima	49	124	2B33	2.30	1.0	to be published
YabJ	B. subtilis	49	123	1QD9	1.70	1.1	[7]
APE1501	A. pernix	46	115	2CWJ	3.60	1.3	to be published
UK114	C. hircus	44	124	1NQ3	2.20	1.2	[19]
hp14.5^d	H. sapiens	43	124	1ONI	1.90	1.1	[9]
L-PSP	R. norvegicus	43	124	1QAH	1.80	1.0	to be published
ST0811	S. tokodaii	41	123	1X25	2.00	0.9	[20]
TTHA0137^e	T. thermophilus	40	121	2CVL	1.65	1.2	to be published
Hmf1	S. cerevisiae	35	123	1JD1	1.70	1.1	[10]
YjgH	E. coli	31	122	1PF5	2.50	1.8	to be published
PA3499	P. aeruginosa	27	120	2IG8	1.90	1.6	to be published

^a Identity versus TdcF in a structure-based sequence alignment.
^b Comparisons made between the TdcF as-isolated 1.6 Å resolution structure and its homologues. Only the Cα atoms of monomers (A chains) are compared, and in the case of HI0719 (the only NMR structure), the comparison is with chain A of model 1 from a 20 model ensemble.
^c PTII = putative translation initiation inhibitor
^d Besides TdcF, this is the only other structure of a homologue to contain a biologically relevant ligand, namely benzoic acid.
^e There are in fact three PDB entries for this protein (also 2CSL and 2CW4), which differ in space group. Only the highest resolution structure is shown.

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