DNA integration / RNA stem-loop binding / RNA-directed DNA polymerase activity / endonuclease activity / DNA recombination / symbiont entry into host cell / DNA binding / zinc ion binding Similarity search - Function
Method to determine structure: FOURIER SYNTHESIS / Resolution: 1.982→32.62 Å / Cor.coef. Fo:Fc: 0.941 / Cor.coef. Fo:Fc free: 0.921 / SU B: 4.081 / SU ML: 0.115 / Cross valid method: THROUGHOUT / ESU R: 0.197 / ESU R Free: 0.172 Details: Hydrogens have been added in their riding positions
Rfactor
Num. reflection
% reflection
Rfree
0.2494
835
7.587 %
Rwork
0.2092
10170
-
all
0.212
-
-
obs
-
11005
99.665 %
Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK BULK SOLVENT
Displacement parameters
Biso mean: 31.879 Å2
Baniso -1
Baniso -2
Baniso -3
1-
0.657 Å2
0 Å2
-0 Å2
2-
-
0.657 Å2
-0 Å2
3-
-
-
-1.314 Å2
Refinement step
Cycle: LAST / Resolution: 1.982→32.62 Å
Protein
Nucleic acid
Ligand
Solvent
Total
Num. atoms
1069
0
50
42
1161
Refine LS restraints
Refine-ID
Type
Dev ideal
Dev ideal target
Number
X-RAY DIFFRACTION
r_bond_refined_d
0.011
0.013
1142
X-RAY DIFFRACTION
r_bond_other_d
0.001
0.017
1079
X-RAY DIFFRACTION
r_angle_refined_deg
1.635
1.67
1551
X-RAY DIFFRACTION
r_angle_other_deg
1.357
1.598
2484
X-RAY DIFFRACTION
r_dihedral_angle_1_deg
7.599
5
141
X-RAY DIFFRACTION
r_dihedral_angle_2_deg
31.934
23.673
49
X-RAY DIFFRACTION
r_dihedral_angle_3_deg
18.445
15
191
X-RAY DIFFRACTION
r_dihedral_angle_4_deg
14.811
15
4
X-RAY DIFFRACTION
r_chiral_restr
0.085
0.2
153
X-RAY DIFFRACTION
r_gen_planes_refined
0.008
0.02
1264
X-RAY DIFFRACTION
r_gen_planes_other
0.001
0.02
245
X-RAY DIFFRACTION
r_nbd_refined
0.225
0.2
228
X-RAY DIFFRACTION
r_symmetry_nbd_other
0.195
0.2
983
X-RAY DIFFRACTION
r_nbtor_refined
0.167
0.2
536
X-RAY DIFFRACTION
r_symmetry_nbtor_other
0.08
0.2
560
X-RAY DIFFRACTION
r_xyhbond_nbd_refined
0.326
0.2
47
X-RAY DIFFRACTION
r_symmetry_nbd_refined
0.229
0.2
29
X-RAY DIFFRACTION
r_nbd_other
0.247
0.2
87
X-RAY DIFFRACTION
r_symmetry_xyhbond_nbd_refined
0.178
0.2
9
X-RAY DIFFRACTION
r_xyhbond_nbd_other
0.029
0.2
1
X-RAY DIFFRACTION
r_mcbond_it
2.985
3.006
558
X-RAY DIFFRACTION
r_mcbond_other
2.983
3
557
X-RAY DIFFRACTION
r_mcangle_it
4.376
4.483
695
X-RAY DIFFRACTION
r_mcangle_other
4.373
4.49
696
X-RAY DIFFRACTION
r_scbond_it
4.829
3.648
584
X-RAY DIFFRACTION
r_scbond_other
4.673
3.636
581
X-RAY DIFFRACTION
r_scangle_it
7.21
5.254
854
X-RAY DIFFRACTION
r_scangle_other
7.101
5.228
849
X-RAY DIFFRACTION
r_lrange_it
9.373
35.427
1288
X-RAY DIFFRACTION
r_lrange_other
9.37
35.427
1289
LS refinement shell
Resolution (Å)
Rfactor Rfree
Num. reflection Rfree
Rfactor Rwork
Num. reflection Rwork
Refine-ID
% reflection obs (%)
1.982-2.033
0.3
57
0.251
734
X-RAY DIFFRACTION
99.7478
2.033-2.089
0.357
66
0.244
705
X-RAY DIFFRACTION
99.4839
2.089-2.149
0.302
51
0.236
679
X-RAY DIFFRACTION
99.7268
2.149-2.215
0.171
50
0.196
687
X-RAY DIFFRACTION
99.7294
2.215-2.288
0.251
50
0.189
668
X-RAY DIFFRACTION
100
2.288-2.368
0.201
47
0.175
628
X-RAY DIFFRACTION
99.8521
2.368-2.457
0.268
47
0.196
611
X-RAY DIFFRACTION
99.697
2.457-2.557
0.221
49
0.199
616
X-RAY DIFFRACTION
99.5509
2.557-2.67
0.301
47
0.205
557
X-RAY DIFFRACTION
100
2.67-2.8
0.266
47
0.217
541
X-RAY DIFFRACTION
99.8302
2.8-2.951
0.297
37
0.215
539
X-RAY DIFFRACTION
99.8267
2.951-3.129
0.252
51
0.188
489
X-RAY DIFFRACTION
100
3.129-3.344
0.265
49
0.221
454
X-RAY DIFFRACTION
99.8016
3.344-3.61
0.219
44
0.177
444
X-RAY DIFFRACTION
100
3.61-3.952
0.161
28
0.178
420
X-RAY DIFFRACTION
100
3.952-4.414
0.169
31
0.178
374
X-RAY DIFFRACTION
99.7537
4.414-5.088
0.201
31
0.197
343
X-RAY DIFFRACTION
100
5.088-6.21
0.266
22
0.256
282
X-RAY DIFFRACTION
97.7492
6.21-8.695
0.35
17
0.258
248
X-RAY DIFFRACTION
99.6241
+
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