Table 1. Crystallographic statistics.
Data | ||||
PDB accession code | 3H53 | 3H54 | 3H55 | 3IGU |
Ligand soak | None | GalNAc | Gal | F2-α-Gal-TNP |
X-ray source | Rotating anode | Rotating anode | BNL X6A | BNL X6A |
Wavelength, Å | 1.54 | 1.54 | 0.979 | 0.980 |
Space Group | C2 | C2 | C2 | C2 |
Cell a, b, c in Å | 153.5, 114.3, 68.4 | 153.4, 114.2, 68.3 | 153.9, 114.5, 68.4 | 151.6, 113.6, 68.4 |
Cell α, β, γ in ° | 90., 96.1, 90. | 90., 95.6, 90. | 90., 96.2, 90. | 90., 96.1, 90. |
Resolution, Å (last shell) | 50-2.01 (2.08-2.01) | 50-2.2 (2.28-2.2) | 50-1.9 (1.97-1.9) | 50-2.15 (2.23-2.15) |
No. of Observations (last shell) | 772,346 (60,051) | 356,155 (24,762) | 319,671 (32,173) | 265,173 (21,625) |
Unique Observations (last shell) | 77,785 (7,283) | 59,205 (5,733) | 87,369 (8,937) | 62,455 (6,056) |
Completeness, % (last shell) | 99.3 (93.0) | 99.1 (95.9) | 95.8 (98.2) | 99.7 (97.4) |
Multiplicity (last shell) | 9.9 (8.2) | 6.0 (4.2) | 3.7 (3.6) | 4.2 (3.5) |
Rsym (last shell) | 0.085 (0.610) | 0.106 (0.674) | 0.117 (0.698) | 0.078 (0.634) |
<I/σI> (last shell) | 29.0 (3.2) | 15.9 (2.0) | 10.1 (1.7) | 17.6 (1.8) |
Refinement | ||||
Rwork / Rfree | 0.161/0.194 | 0.165/0.205 | 0.196/0.235 | 0.164/0.199 |
No. of Atoms: Protein | 6192 | 6192 | 6192 | 6192 |
Carbohydrate | 237 | 267 | 285 | 240 |
Water | 735 | 655 | 898 | 675 |
Other | 102 | 90 | 26 | 90 |
Average B factor, Å2: Protein | 26.0 | 33.3 | 20.8 | 26.0 |
Ligand | 43.8 | 37.0 | 21.7 | 40.1 |
Ramachandran: Favored | 90.8% | 90.1% | 89.6% | 89.9% |
Allowed | 8.4% | 9.2% | 9.5% | 9.5% |
Generous | 0.5% | 0.5% | 0.6% | 0.3% |
Forbidden | 0.3% | 0.3% | 0.3% | 0.3% |
RMS Deviations: Bonds, Å | 0.007 | 0.007 | 0.007 | 0.007 |
Angles, ° | 1.05 | 1.11 | 1.09 | 1.10 |
Rsym=ΣhΣi|Ih,i-<Ih>|/ΣhΣi|Ih,i|, where Ih,i is the ith intensity measurement of reflection h and <Ih> is the average intensity of that reflection.
Rwork, Rfree=Σh|FP-FC|/Σh|FP|, where FC is the calculated and FP is the observed structure factor amplitude of reflection h for the working or free set, respectively.
Ramachandran statistics are calculated in PROCHECK.