Table 1. FRET distances compared with distances predicted from X-ray Crystal Structures.
FRET pair | SecA Domain | EFRETa | Distance (Å)b | Distance predicted from Crystal Structure (Å) | ||||
---|---|---|---|---|---|---|---|---|
1M6Nc | 2IBMd | 2IPCe | 2FSFf | 1NL3g | ||||
59IAE-59IAN 59AF568-59AF647 |
NBF1 | 0.38 ± 0.09 ∼1 |
33 ± 10 ≤ 44 (0.5 R0) |
20 | 91 | 83 | 93 | 106 |
402IAE-402IAN 402AF488-402AF568 |
NBF1 | 0.19 ± 0.10 0.31 ± 0.03 |
43 ± 25 54 ± 14 |
16 | 43 | 38 | 68 | 55 |
59IAE-402IAN | NBF1-NBF1 | 0.40 ± 0.16 | 33 ± 15 | 30 | 66 | 61 | 81 | 81 |
340IAE-340IAN 340AF488-340AF568 |
PPXD | 0.12 ± 0.08 0.78 ± 0.08 |
≥32 (1.4 R0) 45 ± 11 |
50 | 50 | 30 | 21 | 69 |
427IAE-427IAN 427AF488-427AF568 427AF568-427AF647 |
NBF2 | 0.10 ±.09 0.19 ± 0.02 0.25 ± 0.02 |
≥48 (1.4 R0) 65 ± 17 68 ± 17 |
71 | 35 | 19 | 64 | 44 |
458AF488-458AF568 | NBF2 | 0.43 ± 0.05 | 62 ± 15 | 63 | 11 | 49 | 27 | 36 |
470IAE-470IAN 470AF488-470AF568 470AF568-470AF647 |
NBF2 | 0.08 ±0.01 0.24 ± 0.02 0.35 ± 0.03 |
≥49 (1.4 R0) 72 ± 16 87 ± 22 |
101 | 13 | 62 | 50 | 55 |
506AF488-506AF568 506AF568-506AF647 |
NBF2 | 0.30 ±0.03 0.70 ± 0.07 |
71 ± 16 67 ± 17 |
63 | 31 | 48 | 24 | 53 |
696IAE-696IAN 696AF488-696AF548 696AF568-696AF647 |
HWD | 0.08 ± 0.02 0.23 ± 0.02 0.59 ± 0.06 |
≥53 (1.4 R0) 76 ± 18 73 ± 18 |
89 | 78 | 25 | 128 | 120 |
734AF568-734AF647 | HWD | 0.43 ± 0.04 | 85 ± 21 | 91 | 94 | 51 | 140 | 127 |
FRET efficiency (EFRET) was measured by the quenching of the donor fluorescence intensity as described.
The donor-acceptor distance (R) was calculated as described.
Coordinates for the antiparallel dimeric B. subtilis SecA crystal structure (PDB ID: 1M6N) were generously provided by John Hunt.
Zimmer et al. B. subtilis structure (PDB ID: 2IBM).
Vassylyev et al. T. thermophilus structure (PDB ID: 2IPC).
Papanikolau et al. E. coli structure (PDB ID: 2FSF). This structure lacked resolution in the PPXD, predicted distance measurements were obtained by modeling the PPXD based on the B. subtilis structure. Coordinates generously provided by Anastasios Economou.
Sharma et al. M. tuberculosis structure (PDB ID: 1NL3).