Table 2. Solution of distantly homologous targets using search models derived from CONCOORD ensembles.
| Branch of the His phosphatase superfamily | PDB code | Overall sequence identity to 3c7t in MAFFT sequence alignment (%) | GESAMT structural alignment: No. of superimposed residues, Cα r.m.s.d. | Length in crystal structure | Resolution (Å) | No. of successful search models† | Residues in successful search models (No. of solutions with that number of residues) | Side-chain treatments in successful search models (No. of solutions for each side-chain treatment) | SHELXE CC¶ | SHELXE ACL¶ | Final R free ¶ | Solved by MrBUMP with the 3c7t crystal structure or manually derived derivatives? |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1ujb | 24 | 139, 1.85 | 156 | 2.1 | 14/180 | 51 (7), 64 (2), 77 (3), 103 (2) | PolyAla (10), reliable (3), all atom (1) | 48.66–52.28 | 36–155 | 0.235–0.259 | No |
| 2qni | 12 | 148, 2.08 | 194 | 1.8 | 61/180 | 25 (9), 38 (9), 51 (9), 64 (9), 77 (6), 90 (6), 103 (6), 116 (3), 129 (3), 142 (1) | PolyAla (27), reliable (21), all atom (13) | 45.89–49.21 | 29–62 | 0.215–0.320 | Yes | |
| 1e59 | 17 | 174, 2.37 | 239 | 1.3 | 0/540 | — | — | — | — | — | No | |
| 4eo9 | 18 | 173, 2.34 | 240 | 2.45 | 1/540 | 90 | Reliable | 39.45 | 38 | 0.230 | No | |
| 19 | 156, 2.18 | 202 | 2.3 | 1/540 | 77 | PolyAla | 24.72 | 16 | 0.232†† | No | ||
| 3dcy | 18 | 150, 2.20 | 269 | 1.75 | 5/180 | 38, 51 (3), 64 | PolyAla (5) | 46.13–46.99 | 37–79 | 0.302–0.317 | No | |
| 2 | 1qwo | 11 | 153, 3.05 | 434 | 1.5 | 1/540 | 90 | PolyAla | 43.61 | 83 | 0.216 | No |
| 1dkm | 16 | 151, 2.71 | 410 | 2.25 | 0/540 | — | — | — | — | — | No |
A denominator of 180 means that success was achieved among the 180 search models deriving from the first cluster of CONCOORD outputs for 3c7t. A denominator of 540 means that the first cluster did not produce a successful search model and that search models from clusters 2 and 3 were therefore trialled.
The range is shown for multiple solutions.
Required additional rounds of ARP/wARP or Buccaneer to obtain this value.