Table 2 Evaluation of SecA Solution Dimers.

From: An alternate mode of oligomerization for E. coli SecA

Organism

Structure

R G(Å)

aSAXSχ

N-term in Interface

bFRET χ2 value

Reference and Comments

B. subtilis

1M6N

38.1

25.5

Yes

1.1

Hunt et al.28

E. coli

1M6N (E. coli model)

39.8

17.6

Yes

1.1

SecA-N68 used to model E. coli protomer structure; 1M6N dimer interface

B. subtilis

2IBM

39.5

44.7

No

6.2

Zimmer et al.68

B. subtilis

3JV2

45.4

36.4

No

Zimmer and Rapoport, 2009

M. tuberculosis SecA1

1NKT AB dimer

46.3

50.5

No

6.7

Sharma et al.63

M. tuberculosis SecA1

1NKT AC dimer

39.8

31.9

(Yes)c

Sharma et al.63; similar arrangement to 1M6N dimer

T. thermophilus

2IPC

44.7

34.3

Yes

4.7

Vassylyev et al.64; parallel dimer

E. coli

2FSF

42.9

16.1

No

6.9

Papanikolau et al.34; PPXD from SecA-N68∆NC added to structure

B. subtilis

3JV2 SAXS-based Model

36.9

10.3

Yes

3JV2 protomer conformation (Zimmer and Rapoport)48; new dimer structure found using SAXS

E. coli

3JV2 SAXS-based Model

38.0

10.6

Yes

2.8

SecA-N68 and 3JV2 CT domains used to model E. coli protomer structure; SAXS-based dimer interface.

  1. aThe χ value as reported by the FoXS server60,66 after fitting the structures to SAXS data for E. coli SecA-N95.
  2. bFifteen FRET-based distance measurements were used from Auclair et al., as listed in Table 1 of the manuscript22. For each measurement, the χ2 value was calculated as the square of the difference between observed and theoretical distance, divided by the squared estimated FRET error. The value reported is the reduced χ2, namely the sum of the 15 values divided by 15.
  3. cThis dimer resembles the antiparallel 1M6N dimer but the N-terminus in the interface includes 17 N-terminal residues from the recombinant expression vector.