Table 2. Structural alignments of loop regions.
(a) Loops of apo-Tr were aligned to biotin–Tr, apo-SA and biotin–SA. Residues comprising each loop are shown in parentheses. (b) Loops of apo-SA were aligned to biotin–SA, apo-Tr and biotin–Tr. Only main-chain atoms were used to calculate the alignments. *The loop of 1SWA was compared only with the resolved residues of 45 and 49–52, since 46–48 were disordered.
| (a) | |||
|---|---|---|---|
| Rmsd (Å) of alignment of loop in: | |||
| Apo-Tr (chain A) aligned with | Biotin–Tr | Apo-SA (1SWA chain B) | Biotin–SA (1SWE chain D) |
| L1/2 (23–26) | 0.050 | 0.20 | 0.21 |
| L2/3 (33–38) | 0.14 | 0.23 | 0.15 |
| L3/4 (45–52) | 0.25 | 2.3* | 0.25 |
| L4/5 (62–70) | 0.20 | 0.20 | 0.22 |
| L5/6 (79–88) | 0.18 | 0.28 | 0.18 |
| L6/7 (98–102) | 0.14 | 0.22 | 0.37 |
| L7/8 (113–121) | 0.20 | 0.23 | 0.24 |
| Overall structure | 0.21 | 0.29 | 0.35 |
| (b) | |||
| Rmsd (Å) of alignment of loop in: | |||
| Apo-SA (1SWA chain B) aligned with | Biotin–SA (1SWE, chain D) | Apo-Tr (chain A) | Biotin–Tr |
| L1/2 (23–26) | 0.27 | 0.20 | 0.18 |
| L2/3 (33–38) | 0.23 | 0.23 | 0.22 |
| L3/4 (45–52) | 2.6* | 2.3* | 2.3* |
| L4/5 (62–70) | 0.25 | 0.20 | 0.25 |
| L5/6 (79–88) | 0.31 | 0.28 | 0.27 |
| L6/7 (98–102) | 0.42 | 0.22 | 0.26 |
| L7/8 (113–121) | 0.17 | 0.23 | 0.15 |
| Overall structure | 0.36 | 0.29 | 0.25 |