. Author manuscript; available in PMC: 2014 Jul 3.

Published in final edited form as: Proteins. 2009 May 15;75(3):760–773. doi: 10.1002/prot.22287

Table 3.

Summary of differences between EVE, ASCH and PUA domains *

	EVE	ASCH	PUA (1j2b, 2vhy, 1re3)
Topology	Add* strand 6 paired to strand 1; add INS1+INS2 (Fig. 1C)	Add INS1 (Fig 1B)	Add strand 2′ paired to strand 1; add INS1+INS0 (Fig 1D)
Conserved residues	Y3, W4, F13, W26, V29, G44, D45, W142 (numbers as in 2eve)	G19-x-K21-x-x-E24-x-R26 (numbers as in 1xne) Y12 (aligned to F13 of EVE), G38 (aligned to G44), D39 (aligned to D45)	Depend on PUA domain
Cavity size	Lined by helix A, strand 1,2 and 6. Surface area ~ 200 Å²	Lined by helix A, strand 1 and strand 2. Surface area ~ 300 Å²	Lined by helix A and strand 2. Surface area < 100 Å ²
Residues lining the cavity	Mainly hydrophobic (F13, W26, V29)	Mainly charged and polar residues (Y12, E24 and R26)	Presence of a positive patch although not completely conserved throughout the family
Sequence identity (alignment length)	EVE/ASCH: 18%, (77) EVE/PUA: 9%, (66)	ASCH/EVE: 18%, (77) ASCH/PUA:10%, (68)	PUA/EVE:9%, (66) PUA/ASCH:10%, (68)
RMSD (alignment length)	EVE/ASCH: 3.4 Å, (84) EVE/PUA: 3.3 Å, (66)	ASCH/EVE:3.4 Å, (84) ASCH/PUA:3.7 Å, (68)	PUA/EVE:3.3 Å, (66) PUA/ASCH:3.7 Å, (68)

‘Add’ refers to structural changes with respect to the SCOP-fold core topology (Fig. 1A). Sequence identities in row 7 are the highest among any pair of domains belonging to the two structural themes indicated. For example, EVE/ASCH 18% sequence identity means that 18% is the maximum sequence identity (according to Skan structure-based sequence alignments) between any two EVE and ASCH domains. Similarly, 3.4 EVE/ASCH RMSD is the minimum RMSD between any two EVE and ASCH domains. Numbers in parentheses represent alignment lengths.