0.018630
0.000000
0.000000
0.000000
0.011799
0.000000
0.000000
0.000000
0.014121
0.00000
0.00000
0.00000
Zhou, D.
Wlodawer, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
53.677
84.750
70.817
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C10 H12 O3
180.200
2,7-dihydroxy-4-(propan-2-yl)cyclohepta-2,4,6-trien-1-one
beta-thujaplicinol
non-polymer
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
Mn 2
54.938
MANGANESE (II) ION
non-polymer
C6 H14 O2
118.174
(4R)-2-METHYLPENTANE-2,4-DIOL
non-polymer
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
O4 S -2
96.063
SULFATE ION
non-polymer
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
N
8
N
H
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
N
N
15
S
C
N
16
N
C
N
17
N
O
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
N
N
22
N
C
N
23
N
N
N
24
N
N
N
25
N
O
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
N
N
42
S
C
N
43
N
C
N
44
N
O
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
N
N
49
N
O
N
50
N
H
N
51
N
H
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
H
N
56
N
H
N
57
N
H
N
58
N
N
N
59
S
C
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
O
N
66
N
O
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
N
N
75
R
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
S
N
80
N
O
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
N
N
89
S
C
N
90
N
C
N
91
N
O
N
92
N
C
N
93
N
C
N
94
N
C
N
95
N
O
N
96
N
N
N
97
N
O
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
N
N
109
S
C
N
110
N
C
N
111
N
O
N
112
N
C
N
113
N
C
N
114
N
C
N
115
N
O
N
116
N
O
N
117
N
O
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
N
N
128
N
C
N
129
N
C
N
130
N
O
N
131
N
O
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
N
N
138
S
C
N
139
N
C
N
140
N
O
N
141
N
C
Y
142
N
C
Y
143
N
N
Y
144
N
C
Y
145
N
C
Y
146
N
N
N
147
N
O
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
O
N
159
N
H
N
160
N
H
N
161
N
N
N
162
S
C
N
163
N
C
N
164
N
O
N
165
S
C
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
O
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
C
N
184
N
O
N
185
N
C
N
186
N
O
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
C
N
192
N
O
N
193
N
C
N
194
N
C
N
195
N
C
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
N
N
209
S
C
N
210
N
C
N
211
N
O
N
212
N
C
N
213
N
C
N
214
N
C
N
215
N
C
N
216
N
O
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
N
N
231
S
C
N
232
N
C
N
233
N
O
N
234
N
C
N
235
N
C
N
236
N
C
N
237
N
C
N
238
N
N
N
239
N
O
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
N
N
256
S
C
N
257
N
C
N
258
N
O
N
259
N
C
N
260
N
C
N
261
N
S
N
262
N
C
N
263
N
O
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
H
N
271
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
MN
N
276
N
C
N
277
N
C
N
278
N
O
N
279
N
C
N
280
N
C
N
281
R
C
N
282
N
O
N
283
N
C
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
H
N
298
N
N
N
299
S
C
N
300
N
C
N
301
N
O
N
302
N
C
Y
303
N
C
Y
304
N
C
Y
305
N
C
Y
306
N
C
Y
307
N
C
Y
308
N
C
N
309
N
O
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
H
N
320
N
H
N
321
N
N
N
322
S
C
N
323
N
C
N
324
N
O
N
325
N
C
N
326
N
C
N
327
N
C
N
328
N
O
N
329
N
H
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
N
N
339
S
C
N
340
N
C
N
341
N
O
N
342
N
C
N
343
N
O
N
344
N
O
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
H
N
350
N
H
N
351
N
H
N
352
N
S
N
353
N
O
N
354
N
O
N
355
N
O
N
356
N
O
N
357
N
N
N
358
S
C
N
359
N
C
N
360
N
O
N
361
R
C
N
362
N
O
N
363
N
C
N
364
N
O
N
365
N
H
N
366
N
H
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
N
N
375
S
C
N
376
N
C
N
377
N
O
N
378
N
C
Y
379
N
C
Y
380
N
C
Y
381
N
C
Y
382
N
N
Y
383
N
C
Y
384
N
C
Y
385
N
C
Y
386
N
C
Y
387
N
C
N
388
N
O
N
389
N
H
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
N
H
N
401
N
N
N
402
S
C
N
403
N
C
N
404
N
O
N
405
N
C
Y
406
N
C
Y
407
N
C
Y
408
N
C
Y
409
N
C
Y
410
N
C
Y
411
N
C
N
412
N
O
N
413
N
O
N
414
N
H
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
N
N
426
S
C
N
427
N
C
N
428
N
O
N
429
N
C
N
430
N
C
N
431
N
C
N
432
N
O
N
433
N
H
N
434
N
H
N
435
N
H
N
436
N
H
N
437
N
H
N
438
N
H
N
439
N
H
N
440
N
H
N
441
N
H
N
442
N
H
N
443
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
doub
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
doub
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
doub
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
doub
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
doub
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
doub
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
doub
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
doub
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
doub
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
doub
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
Y
140
N
sing
Y
141
N
doub
Y
142
N
doub
N
143
N
sing
Y
144
N
sing
N
145
N
sing
Y
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
doub
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
doub
N
176
N
doub
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
doub
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
doub
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
doub
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
sing
N
225
N
doub
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
doub
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
doub
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
Y
294
N
doub
Y
295
N
sing
Y
296
N
sing
N
297
N
sing
Y
298
N
doub
N
299
N
sing
Y
300
N
doub
N
301
N
sing
Y
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
doub
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
doub
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
doub
N
337
N
doub
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
doub
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
doub
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
Y
367
N
doub
Y
368
N
sing
Y
369
N
sing
N
370
N
sing
Y
371
N
doub
Y
372
N
sing
Y
373
N
sing
N
374
N
sing
Y
375
N
sing
Y
376
N
doub
N
377
N
sing
Y
378
N
doub
N
379
N
sing
Y
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
doub
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
Y
395
N
doub
Y
396
N
sing
Y
397
N
sing
N
398
N
sing
Y
399
N
doub
N
400
N
sing
Y
401
N
doub
N
402
N
sing
Y
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
doub
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
US
J.Struct.Biol.
JSBIEM
0803
1047-8477
177
638
645
10.1016/j.jsb.2012.02.006
22366278
Crystal structures of the reverse transcriptase-associated ribonuclease H domain of xenotropic murine leukemia-virus related virus.
2012
10.2210/pdb3v1r/pdb
pdb_00003v1r
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
CCD
2011-10-10
MARMOSAIC 300 mm CCD
double crystal Si(111)
SINGLE WAVELENGTH
M
x-ray
1
1.0000
1.0
22-ID
APS
1.0000
SYNCHROTRON
APS BEAMLINE 22-ID
19874.469
Reverse transcriptase/ribonuclease H p80
3.1.26.4
RNase H domain (UNP residues 1154-1328)
1
man
polymer
96.063
SULFATE ION
4
syn
non-polymer
118.174
(4R)-2-METHYLPENTANE-2,4-DIOL
1
syn
non-polymer
54.938
MANGANESE (II) ION
2
syn
non-polymer
180.200
2,7-dihydroxy-4-(propan-2-yl)cyclohepta-2,4,6-trien-1-one
1
syn
non-polymer
18.015
water
12
nat
water
no
no
DRWGSEILAETHGTRPDLTDQPIPDADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALK
MAEGKKLNVYTDSRYAFATAHVHGEIYRRRGLLTSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRM
ADQAAREAAMKAVLETSTLL
DRWGSEILAETHGTRPDLTDQPIPDADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALK
MAEGKKLNVYTDSRYAFATAHVHGEIYRRRGLLTSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRM
ADQAAREAAMKAVLETSTLL
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
XMRV
sample
gag-pol, POL_XMRV3
356663
Xenotropic MuLV-related virus VP35
562
Escherichia coli
1
2.03
39.29
VAPOR DIFFUSION, HANGING DROP
6.5
35% PEG3000, 15% MPD, 2% isopropanol, 0.2 M lithium sulfate, 0.1 M imidazole, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
293.0
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Database references
Data collection
Database references
Derived calculations
1
0
2012-03-14
1
1
2012-03-28
1
2
2024-02-28
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2011-12-09
REL
REL
SO4
SULFATE ION
MRD
(4R)-2-METHYLPENTANE-2,4-DIOL
MN
MANGANESE (II) ION
JTH
2,7-dihydroxy-4-(propan-2-yl)cyclohepta-2,4,6-trien-1-one
HOH
water
SO4
1
2
SO4
SO4
1
A
SO4
2
2
SO4
SO4
2
A
SO4
3
2
SO4
SO4
3
A
SO4
4
2
SO4
SO4
4
A
MPD
1
3
MRD
MRD
672
A
MN
1
4
MN
MN
673
A
MN
2
4
MN
MN
674
A
JTH
1
5
JTH
JTH
675
A
HOH
5
6
HOH
HOH
5
A
HOH
6
6
HOH
HOH
6
A
HOH
7
6
HOH
HOH
7
A
HOH
8
6
HOH
HOH
8
A
HOH
9
6
HOH
HOH
9
A
HOH
10
6
HOH
HOH
10
A
HOH
11
6
HOH
HOH
11
A
HOH
12
6
HOH
HOH
12
A
HOH
1
6
HOH
HOH
676
A
HOH
2
6
HOH
HOH
677
A
HOH
3
6
HOH
HOH
678
A
HOH
4
6
HOH
HOH
679
A
n
1
492
A
n
2
493
A
n
3
494
A
n
4
495
A
n
5
496
A
n
6
497
A
n
7
498
A
n
8
499
A
n
9
500
A
n
10
501
A
n
11
502
A
HIS
503
n
12
HIS
503
A
GLY
504
n
13
GLY
504
A
THR
505
n
14
THR
505
A
ARG
506
n
15
ARG
506
A
PRO
507
n
16
PRO
507
A
ASP
508
n
17
ASP
508
A
LEU
509
n
18
LEU
509
A
THR
510
n
19
THR
510
A
ASP
511
n
20
ASP
511
A
GLN
512
n
21
GLN
512
A
PRO
513
n
22
PRO
513
A
ILE
514
n
23
ILE
514
A
PRO
515
n
24
PRO
515
A
ASP
516
n
25
ASP
516
A
ALA
517
n
26
ALA
517
A
ASP
518
n
27
ASP
518
A
TYR
519
n
28
TYR
519
A
THR
520
n
29
THR
520
A
TRP
521
n
30
TRP
521
A
TYR
522
n
31
TYR
522
A
THR
523
n
32
THR
523
A
ASP
524
n
33
ASP
524
A
GLY
525
n
34
GLY
525
A
SER
526
n
35
SER
526
A
SER
527
n
36
SER
527
A
PHE
528
n
37
PHE
528
A
LEU
529
n
38
LEU
529
A
GLN
530
n
39
GLN
530
A
GLU
531
n
40
GLU
531
A
GLY
532
n
41
GLY
532
A
GLN
533
n
42
GLN
533
A
ARG
534
n
43
ARG
534
A
ARG
535
n
44
ARG
535
A
ALA
536
n
45
ALA
536
A
GLY
537
n
46
GLY
537
A
ALA
538
n
47
ALA
538
A
ALA
539
n
48
ALA
539
A
VAL
540
n
49
VAL
540
A
THR
541
n
50
THR
541
A
THR
542
n
51
THR
542
A
GLU
543
n
52
GLU
543
A
THR
544
n
53
THR
544
A
GLU
545
n
54
GLU
545
A
VAL
546
n
55
VAL
546
A
ILE
547
n
56
ILE
547
A
TRP
548
n
57
TRP
548
A
ALA
549
n
58
ALA
549
A
ARG
550
n
59
ARG
550
A
ALA
551
n
60
ALA
551
A
LEU
552
n
61
LEU
552
A
PRO
553
n
62
PRO
553
A
ALA
554
n
63
ALA
554
A
GLY
555
n
64
GLY
555
A
THR
556
n
65
THR
556
A
SER
557
n
66
SER
557
A
ALA
558
n
67
ALA
558
A
GLN
559
n
68
GLN
559
A
ARG
560
n
69
ARG
560
A
ALA
561
n
70
ALA
561
A
GLU
562
n
71
GLU
562
A
LEU
563
n
72
LEU
563
A
ILE
564
n
73
ILE
564
A
ALA
565
n
74
ALA
565
A
LEU
566
n
75
LEU
566
A
THR
567
n
76
THR
567
A
GLN
568
n
77
GLN
568
A
ALA
569
n
78
ALA
569
A
LEU
570
n
79
LEU
570
A
LYS
571
n
80
LYS
571
A
MET
572
n
81
MET
572
A
ALA
573
n
82
ALA
573
A
GLU
574
n
83
GLU
574
A
GLY
575
n
84
GLY
575
A
LYS
576
n
85
LYS
576
A
LYS
577
n
86
LYS
577
A
LEU
578
n
87
LEU
578
A
ASN
579
n
88
ASN
579
A
VAL
580
n
89
VAL
580
A
TYR
581
n
90
TYR
581
A
THR
582
n
91
THR
582
A
ASP
583
n
92
ASP
583
A
SER
584
n
93
SER
584
A
ARG
585
n
94
ARG
585
A
TYR
586
n
95
TYR
586
A
ALA
587
n
96
ALA
587
A
PHE
588
n
97
PHE
588
A
ALA
589
n
98
ALA
589
A
THR
590
n
99
THR
590
A
ALA
591
n
100
ALA
591
A
HIS
592
n
101
HIS
592
A
VAL
593
n
102
VAL
593
A
HIS
594
n
103
HIS
594
A
GLY
595
n
104
GLY
595
A
GLU
596
n
105
GLU
596
A
ILE
597
n
106
ILE
597
A
TYR
598
n
107
TYR
598
A
ARG
599
n
108
ARG
599
A
ARG
600
n
109
ARG
600
A
ARG
601
n
110
ARG
601
A
GLY
602
n
111
GLY
602
A
LEU
603
n
112
LEU
603
A
LEU
604
n
113
LEU
604
A
THR
605
n
114
THR
605
A
SER
606
n
115
SER
606
A
GLU
607
n
116
GLU
607
A
GLY
608
n
117
GLY
608
A
ARG
609
n
118
ARG
609
A
GLU
610
n
119
GLU
610
A
ILE
611
n
120
ILE
611
A
LYS
612
n
121
LYS
612
A
ASN
613
n
122
ASN
613
A
LYS
614
n
123
LYS
614
A
ASN
615
n
124
ASN
615
A
GLU
616
n
125
GLU
616
A
ILE
617
n
126
ILE
617
A
LEU
618
n
127
LEU
618
A
ALA
619
n
128
ALA
619
A
LEU
620
n
129
LEU
620
A
LEU
621
n
130
LEU
621
A
LYS
622
n
131
LYS
622
A
ALA
623
n
132
ALA
623
A
LEU
624
n
133
LEU
624
A
PHE
625
n
134
PHE
625
A
LEU
626
n
135
LEU
626
A
PRO
627
n
136
PRO
627
A
LYS
628
n
137
LYS
628
A
ARG
629
n
138
ARG
629
A
LEU
630
n
139
LEU
630
A
SER
631
n
140
SER
631
A
ILE
632
n
141
ILE
632
A
ILE
633
n
142
ILE
633
A
HIS
634
n
143
HIS
634
A
CYS
635
n
144
CYS
635
A
PRO
636
n
145
PRO
636
A
GLY
637
n
146
GLY
637
A
HIS
638
n
147
HIS
638
A
GLN
639
n
148
GLN
639
A
LYS
640
n
149
LYS
640
A
GLY
641
n
150
GLY
641
A
ASN
642
n
151
ASN
642
A
SER
643
n
152
SER
643
A
ALA
644
n
153
ALA
644
A
GLU
645
n
154
GLU
645
A
ALA
646
n
155
ALA
646
A
ARG
647
n
156
ARG
647
A
GLY
648
n
157
GLY
648
A
ASN
649
n
158
ASN
649
A
ARG
650
n
159
ARG
650
A
MET
651
n
160
MET
651
A
ALA
652
n
161
ALA
652
A
ASP
653
n
162
ASP
653
A
GLN
654
n
163
GLN
654
A
ALA
655
n
164
ALA
655
A
ALA
656
n
165
ALA
656
A
ARG
657
n
166
ARG
657
A
GLU
658
n
167
GLU
658
A
ALA
659
n
168
ALA
659
A
ALA
660
n
169
ALA
660
A
MET
661
n
170
MET
661
A
LYS
662
n
171
LYS
662
A
ALA
663
n
172
ALA
663
A
VAL
664
n
173
VAL
664
A
LEU
665
n
174
LEU
665
A
GLU
666
n
175
GLU
666
A
THR
667
n
176
THR
667
A
n
177
668
A
n
178
669
A
n
179
670
A
n
180
671
A
3.1182
-0.1707
-0.1231
2.0395
-0.1330
3.1519
-0.0817
0.0294
-0.3771
0.0966
0.0145
0.0890
0.4341
0.0626
-0.0443
0.0679
-0.0428
-0.0087
0.1605
0.0211
0.1021
refined
-3.6215
-26.3225
1.6180
X-RAY DIFFRACTION
X-RAY DIFFRACTION
1
all
author_defined_assembly
1
monomeric
A
ASP
524
A
OD1
ASP
33
1_555
A
MN
673
G
MN
MN
1_555
A
GLU
562
A
OE2
GLU
71
1_555
107.4
A
ASP
524
A
OD1
ASP
33
1_555
A
MN
673
G
MN
MN
1_555
A
ASP
583
A
OD1
ASP
92
1_555
91.3
A
GLU
562
A
OE2
GLU
71
1_555
A
MN
673
G
MN
MN
1_555
A
ASP
583
A
OD1
ASP
92
1_555
120.0
A
ASP
524
A
OD1
ASP
33
1_555
A
MN
673
G
MN
MN
1_555
A
ASP
583
A
OD2
ASP
92
1_555
89.3
A
GLU
562
A
OE2
GLU
71
1_555
A
MN
673
G
MN
MN
1_555
A
ASP
583
A
OD2
ASP
92
1_555
162.3
A
ASP
583
A
OD1
ASP
92
1_555
A
MN
673
G
MN
MN
1_555
A
ASP
583
A
OD2
ASP
92
1_555
51.9
A
ASP
524
A
OD1
ASP
33
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O7
JTH
1_555
140.9
A
GLU
562
A
OE2
GLU
71
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O7
JTH
1_555
64.7
A
ASP
583
A
OD1
ASP
92
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O7
JTH
1_555
126.6
A
ASP
583
A
OD2
ASP
92
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O7
JTH
1_555
106.0
A
ASP
524
A
OD1
ASP
33
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
78.4
A
GLU
562
A
OE2
GLU
71
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
112.9
A
ASP
583
A
OD1
ASP
92
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
126.7
A
ASP
583
A
OD2
ASP
92
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
75.5
A
JTH
675
I
O7
JTH
1_555
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
71.3
A
ASP
524
A
OD2
ASP
33
1_555
A
MN
674
H
MN
MN
1_555
A
ASP
653
A
OD1
ASP
162
1_555
101.0
A
ASP
524
A
OD2
ASP
33
1_555
A
MN
674
H
MN
MN
1_555
A
ARG
657
A
NH1
ARG
166
1_555
95.1
A
ASP
653
A
OD1
ASP
162
1_555
A
MN
674
H
MN
MN
1_555
A
ARG
657
A
NH1
ARG
166
1_555
59.6
A
ASP
524
A
OD2
ASP
33
1_555
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
107.9
A
ASP
653
A
OD1
ASP
162
1_555
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
147.4
A
ARG
657
A
NH1
ARG
166
1_555
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
130.3
A
ASP
524
A
OD2
ASP
33
1_555
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O2
JTH
1_555
164.9
A
ASP
653
A
OD1
ASP
162
1_555
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O2
JTH
1_555
88.8
A
ARG
657
A
NH1
ARG
166
1_555
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O2
JTH
1_555
79.9
A
JTH
675
I
O1
JTH
1_555
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O2
JTH
1_555
66.5
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
O
LEU
552
A
O
LEU
61
A
N
ALA
536
A
N
ALA
45
A
O
THR
541
A
O
THR
50
A
N
TYR
522
A
N
TYR
31
A
N
TYR
519
A
N
TYR
28
A
O
ASN
579
A
O
ASN
88
A
N
VAL
580
A
N
VAL
89
A
O
SER
631
A
O
SER
140
1
A
SO4
2
C
SO4
1
A
ASP
492
A
ASP
1
1
Y
1
A
ARG
493
A
ARG
2
1
Y
1
A
TRP
494
A
TRP
3
1
Y
1
A
GLY
495
A
GLY
4
1
Y
1
A
SER
496
A
SER
5
1
Y
1
A
GLU
497
A
GLU
6
1
Y
1
A
ILE
498
A
ILE
7
1
Y
1
A
LEU
499
A
LEU
8
1
Y
1
A
ALA
500
A
ALA
9
1
Y
1
A
GLU
501
A
GLU
10
1
Y
1
A
THR
502
A
THR
11
1
Y
1
A
SER
668
A
SER
177
1
Y
1
A
THR
669
A
THR
178
1
Y
1
A
LEU
670
A
LEU
179
1
Y
1
A
LEU
671
A
LEU
180
1
Y
1
A
VAL
593
-127.18
-64.45
-18.5342
0.0000
-0.0000
31.3402
0.0000
-12.8060
0.2774
0.1954
0.2055
2.800
27.171
496
4042
4020
12.34
96.06
0.93
RANDOM
1
1.36
MOLECULAR REPLACEMENT
28.88
0.72
1.00
ML
FLAT BULK SOLVENT MODEL
59.382
0.383
2.800
27.171
12
1333
43
0
1278
0.013
1346
0.748
1828
11.330
489
0.050
200
0.003
230
0.3098
0.2200
3.0818
114
764
86.0
0.2781
0.1978
3.5269
119
886
98.0
0.2353
0.1646
4.4404
121
928
100.0
0.2994
0.2111
27.1725
142
946
99.0
2.796
45.347
3V1R
4202
4042
2.0
2.0
0.134
1
3.7
96.2
0.354
2.796
2.90
398
1
3.1
79.4
data collection
HKL-2000
phasing
PHASES
refinement
PHENIX
(phenix.refine: 1.7.1_743)
data reduction
HKL-2000
data scaling
SCALEPACK
Crystal structures of the reverse transcriptase-associated ribonuclease H domain of XMRV with inhibitor beta-thujaplicinol
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
4
N
N
4
N
N
5
N
N
6
N
N
A
SER
557
A
SER
66
HELX_P
A
ALA
573
A
ALA
82
1
1
17
A
SER
584
A
SER
93
HELX_P
A
VAL
593
A
VAL
102
1
2
10
A
VAL
593
A
VAL
102
HELX_P
A
GLY
602
A
GLY
111
1
3
10
A
ASN
613
A
ASN
122
HELX_P
A
LEU
624
A
LEU
133
1
4
12
A
SER
643
A
SER
152
HELX_P
A
GLU
666
A
GLU
175
1
5
24
metalc
2.166
A
ASP
524
A
OD1
ASP
33
1_555
A
MN
673
G
MN
MN
1_555
metalc
2.162
A
ASP
524
A
OD2
ASP
33
1_555
A
MN
674
H
MN
MN
1_555
metalc
2.158
A
GLU
562
A
OE2
GLU
71
1_555
A
MN
673
G
MN
MN
1_555
metalc
2.179
A
ASP
583
A
OD1
ASP
92
1_555
A
MN
673
G
MN
MN
1_555
metalc
2.708
A
ASP
583
A
OD2
ASP
92
1_555
A
MN
673
G
MN
MN
1_555
metalc
2.144
A
ASP
653
A
OD1
ASP
162
1_555
A
MN
674
H
MN
MN
1_555
metalc
2.577
A
ARG
657
A
NH1
ARG
166
1_555
A
MN
674
H
MN
MN
1_555
metalc
2.251
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O7
JTH
1_555
metalc
2.391
A
MN
673
G
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
metalc
2.155
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O1
JTH
1_555
metalc
2.312
A
MN
674
H
MN
MN
1_555
A
JTH
675
I
O2
JTH
1_555
HYDROLASE/HYDROLASE INHIBITOR
Reverse Transcription, HYDROLASE-HYDROLASE INHIBITOR complex
POL_XMRV3
UNP
1
1154
Q2F7J3
EILAETHGTRPDLTDQPIPDADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGK
KLNVYTDSRYAFATAHVHGEIYRRRGLLTSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMADQAA
REAAMKAVLETSTLL
1154
1328
3V1R
497
671
Q2F7J3
A
1
6
180
1
expression tag
ASP
492
3V1R
A
Q2F7J3
UNP
1
1
expression tag
ARG
493
3V1R
A
Q2F7J3
UNP
2
1
expression tag
TRP
494
3V1R
A
Q2F7J3
UNP
3
1
expression tag
GLY
495
3V1R
A
Q2F7J3
UNP
4
1
expression tag
SER
496
3V1R
A
Q2F7J3
UNP
5
5
anti-parallel
anti-parallel
parallel
parallel
A
VAL
546
A
VAL
55
A
LEU
552
A
LEU
61
A
ARG
534
A
ARG
43
A
THR
541
A
THR
50
A
TYR
519
A
TYR
28
A
LEU
529
A
LEU
38
A
LYS
577
A
LYS
86
A
THR
582
A
THR
91
A
ARG
629
A
ARG
138
A
HIS
634
A
HIS
143
BINDING SITE FOR RESIDUE SO4 A 1
A
SO4
1
Software
4
BINDING SITE FOR RESIDUE SO4 A 2
A
SO4
2
Software
2
BINDING SITE FOR RESIDUE SO4 A 3
A
SO4
3
Software
4
BINDING SITE FOR RESIDUE SO4 A 4
A
SO4
4
Software
3
BINDING SITE FOR RESIDUE MRD A 672
A
MRD
672
Software
7
BINDING SITE FOR RESIDUE MN A 673
A
MN
673
Software
4
BINDING SITE FOR RESIDUE MN A 674
A
MN
674
Software
5
BINDING SITE FOR RESIDUE JTH A 675
A
JTH
675
Software
9
A
SER
584
A
SER
93
4
1_555
A
ARG
585
A
ARG
94
4
1_555
A
TYR
586
A
TYR
95
4
1_555
A
LYS
640
A
LYS
149
4
4_545
A
ARG
534
A
ARG
43
2
1_555
A
ARG
534
A
ARG
43
2
3_555
A
PHE
528
A
PHE
37
4
1_555
A
LEU
529
A
LEU
38
4
1_555
A
ARG
534
A
ARG
43
4
1_555
A
ARG
650
A
ARG
159
4
4_545
A
TYR
522
A
TYR
31
3
6_445
A
ARG
601
A
ARG
110
3
1_555
A
ALA
644
A
ALA
153
3
6_445
A
ARG
560
A
ARG
69
7
3_555
A
ARG
560
A
ARG
69
7
1_555
A
ARG
609
A
ARG
118
7
1_555
A
ARG
609
A
ARG
118
7
3_555
A
LYS
612
A
LYS
121
7
1_555
A
ASN
613
A
ASN
122
7
1_555
A
LYS
614
A
LYS
123
7
1_555
A
ASP
524
A
ASP
33
4
1_555
A
GLU
562
A
GLU
71
4
1_555
A
ASP
583
A
ASP
92
4
1_555
A
JTH
675
I
JTH
4
1_555
A
ASP
524
A
ASP
33
5
1_555
A
HIS
638
A
HIS
147
5
1_555
A
ASP
653
A
ASP
162
5
1_555
A
ARG
657
A
ARG
166
5
1_555
A
JTH
675
I
JTH
5
1_555
A
ASP
524
A
ASP
33
9
1_555
A
GLU
562
A
GLU
71
9
1_555
A
ASP
583
A
ASP
92
9
1_555
A
HIS
638
A
HIS
147
9
4_545
A
HIS
638
A
HIS
147
9
1_555
A
ASP
653
A
ASP
162
9
1_555
A
ARG
657
A
ARG
166
9
1_555
A
MN
673
G
MN
9
1_555
A
MN
674
H
MN
9
1_555
20
C 2 2 21