0.011715
0.000000
0.000000
0.000000
0.012263
0.000000
0.000000
0.000000
0.022031
0.00000
0.00000
0.00000
Chiu, T.K.
Sohn, C.
Johnson, R.C.
Dickerson, R.E.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
85.362
81.543
45.390
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
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C9 H14 N3 O7 P
307.197
y
2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA 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
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
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
C4 H9 N O3
119.119
y
THREONINE
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
O
N
59
N
P
N
60
N
O
N
61
N
O
N
62
N
O
N
63
N
C
N
64
R
C
N
65
N
O
N
66
S
C
N
67
N
O
N
68
N
C
N
69
R
C
Y
70
N
N
Y
71
N
C
Y
72
N
N
Y
73
N
C
Y
74
N
C
N
75
N
N
Y
76
N
N
Y
77
N
C
Y
78
N
N
Y
79
N
C
N
80
N
H
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
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
O
N
95
N
P
N
96
N
O
N
97
N
O
N
98
N
O
N
99
N
C
N
100
R
C
N
101
N
O
N
102
S
C
N
103
N
O
N
104
N
C
N
105
R
C
N
106
N
N
N
107
N
C
N
108
N
O
N
109
N
N
N
110
N
C
N
111
N
N
N
112
N
C
N
113
N
C
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
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
H
N
128
N
O
N
129
N
P
N
130
N
O
N
131
N
O
N
132
N
O
N
133
N
C
N
134
R
C
N
135
N
O
N
136
S
C
N
137
N
O
N
138
N
C
N
139
R
C
Y
140
N
N
Y
141
N
C
Y
142
N
N
Y
143
N
C
N
144
N
C
N
145
N
O
N
146
N
N
N
147
N
C
N
148
N
N
N
149
N
N
Y
150
N
C
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
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
O
N
166
N
P
N
167
N
O
N
168
N
O
N
169
N
O
N
170
N
C
N
171
R
C
N
172
N
O
N
173
S
C
N
174
N
O
N
175
N
C
N
176
R
C
N
177
N
N
N
178
N
C
N
179
N
O
N
180
N
N
N
181
N
C
N
182
N
O
N
183
N
C
N
184
N
C
N
185
N
C
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
N
N
202
S
C
N
203
N
C
N
204
N
O
N
205
N
C
N
206
N
C
N
207
N
C
N
208
N
O
N
209
N
N
N
210
N
O
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
N
N
222
S
C
N
223
N
C
N
224
N
O
N
225
N
C
N
226
N
C
N
227
N
C
N
228
N
O
N
229
N
O
N
230
N
O
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
N
N
241
N
C
N
242
N
C
N
243
N
O
N
244
N
O
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
N
N
251
S
C
N
252
N
C
N
253
N
O
N
254
N
C
Y
255
N
C
Y
256
N
N
Y
257
N
C
Y
258
N
C
Y
259
N
N
N
260
N
O
N
261
N
H
N
262
N
H
N
263
N
H
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
O
N
272
N
H
N
273
N
H
N
274
N
N
N
275
S
C
N
276
N
C
N
277
N
O
N
278
S
C
N
279
N
C
N
280
N
C
N
281
N
C
N
282
N
O
N
283
N
H
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
N
N
297
S
C
N
298
N
C
N
299
N
O
N
300
N
C
N
301
N
C
N
302
N
C
N
303
N
C
N
304
N
O
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
H
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
N
N
319
S
C
N
320
N
C
N
321
N
O
N
322
N
C
N
323
N
C
N
324
N
C
N
325
N
C
N
326
N
N
N
327
N
O
N
328
N
H
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
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
N
N
344
S
C
N
345
N
C
N
346
N
O
N
347
N
C
N
348
N
C
N
349
N
S
N
350
N
C
N
351
N
O
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
N
N
364
S
C
N
365
N
C
N
366
N
O
N
367
N
C
Y
368
N
C
Y
369
N
C
Y
370
N
C
Y
371
N
C
Y
372
N
C
Y
373
N
C
N
374
N
O
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
H
N
386
N
N
N
387
S
C
N
388
N
C
N
389
N
O
N
390
N
C
N
391
N
C
N
392
N
C
N
393
N
O
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
H
N
402
N
H
N
403
N
N
N
404
S
C
N
405
N
C
N
406
N
O
N
407
N
C
N
408
N
O
N
409
N
O
N
410
N
H
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
H
N
417
N
N
N
418
S
C
N
419
N
C
N
420
N
O
N
421
R
C
N
422
N
O
N
423
N
C
N
424
N
O
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
432
N
H
N
433
N
H
N
434
N
N
N
435
S
C
N
436
N
C
N
437
N
O
N
438
N
C
Y
439
N
C
Y
440
N
C
Y
441
N
C
Y
442
N
C
Y
443
N
C
Y
444
N
C
N
445
N
O
N
446
N
O
N
447
N
H
N
448
N
H
N
449
N
H
N
450
N
H
N
451
N
H
N
452
N
H
N
453
N
H
N
454
N
H
N
455
N
H
N
456
N
H
N
457
N
H
N
458
N
N
N
459
S
C
N
460
N
C
N
461
N
O
N
462
N
C
N
463
N
C
N
464
N
C
N
465
N
O
N
466
N
H
N
467
N
H
N
468
N
H
N
469
N
H
N
470
N
H
N
471
N
H
N
472
N
H
N
473
N
H
N
474
N
H
N
475
N
H
N
476
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
doub
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
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
sing
N
77
N
sing
Y
78
N
sing
Y
79
N
sing
Y
80
N
doub
N
81
N
sing
Y
82
N
sing
Y
83
N
sing
Y
84
N
doub
N
85
N
sing
Y
86
N
doub
N
87
N
sing
N
88
N
sing
Y
89
N
sing
Y
90
N
doub
N
91
N
sing
Y
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
doub
N
96
N
sing
N
97
N
sing
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
sing
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
sing
N
117
N
sing
N
118
N
doub
N
119
N
sing
N
120
N
doub
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
doub
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
doub
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
Y
151
N
sing
Y
152
N
sing
Y
153
N
doub
N
154
N
sing
Y
155
N
sing
N
156
N
sing
Y
157
N
doub
N
158
N
doub
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
doub
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
doub
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
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
doub
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
doub
N
197
N
sing
N
198
N
sing
N
199
N
doub
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
doub
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
doub
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
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
doub
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
doub
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
doub
N
248
N
sing
N
249
N
sing
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
doub
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
Y
261
N
sing
Y
262
N
doub
Y
263
N
doub
N
264
N
sing
Y
265
N
sing
N
266
N
sing
Y
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
doub
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
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
doub
N
301
N
sing
N
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
sing
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
doub
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
sing
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
sing
N
337
N
sing
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
doub
N
346
N
sing
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
sing
N
363
N
sing
N
364
N
doub
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
Y
369
N
doub
Y
370
N
sing
Y
371
N
sing
N
372
N
sing
Y
373
N
doub
N
374
N
sing
Y
375
N
doub
N
376
N
sing
Y
377
N
sing
N
378
N
sing
N
379
N
sing
N
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
doub
N
388
N
sing
N
389
N
sing
N
390
N
sing
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
doub
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
sing
N
415
N
sing
N
416
N
sing
N
417
N
doub
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
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
sing
N
432
N
sing
N
433
N
doub
N
434
N
sing
N
435
N
sing
N
436
N
sing
N
437
N
sing
Y
438
N
doub
Y
439
N
sing
Y
440
N
sing
N
441
N
sing
Y
442
N
doub
N
443
N
sing
Y
444
N
doub
N
445
N
sing
Y
446
N
sing
N
447
N
sing
N
448
N
sing
N
449
N
sing
N
450
N
sing
N
451
N
sing
N
452
N
sing
N
453
N
sing
N
454
N
sing
N
455
N
sing
N
456
N
sing
N
457
N
doub
N
458
N
sing
N
459
N
sing
N
460
N
sing
N
461
N
sing
N
462
N
sing
N
463
N
sing
N
464
N
sing
N
465
N
sing
N
466
N
sing
N
467
N
sing
N
468
N
sing
UK
EMBO J.
EMJODG
0897
0261-4189
21
801
814
10.1093/emboj/21.4.801
11847127
Testing water-mediated DNA recognition by the Hin recombinase.
2002
Thesis
145
241
How Hin Recombinase, FIS and Cations Bind DNA. Chapter 4. Water-Mediated Sequence-Specific Recognition by Hin Recombinase
2001
US
Science
SCIEAS
0038
0036-8075
263
348
355
Hin Recombinase Bound to DNA: The Origin of Specificity in Major and Minor Groove Interactions
1994
10.2210/pdb1jkp/pdb
pdb_00001jkp
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
IMAGE PLATE
1997-09-01
MAR scanner 300 mm plate
MOLECULAR REPLACEMENT WITH 1IJW HAVING THE PROPER DNA SUBSTITUTIONS AS THE STARTING MODEL.
M
x-ray
1
1.100
1.0
X25
NSLS
1.100
SYNCHROTRON
NSLS BEAMLINE X25
4349.850
5'-D(*TP*GP*TP*TP*TP*TP*TP*GP*AP*GP*AP*AP*GP*A)-3'
1
syn
polymer
4207.781
5'-D(*AP*TP*CP*TP*TP*CP*TP*CP*AP*AP*AP*AP*AP*C)-3'
1
syn
polymer
6047.051
DNA-INVERTASE HIN
RESIDUES 139 TO 190
1
syn
polymer
18.015
water
4
nat
water
Hin Recombinase
no
no
(DT)(DG)(DT)(DT)(DT)(DT)(DT)(DG)(DA)(DG)(DA)(DA)(DG)(DA)
TGTTTTTGAGAAGA
A
polydeoxyribonucleotide
no
no
(DA)(DT)(DC)(DT)(DT)(DC)(DT)(DC)(DA)(DA)(DA)(DA)(DA)(DC)
ATCTTCTCAAAAAC
B
polydeoxyribonucleotide
no
no
GRPRAINKHEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYFPASSIKKRMN
GRPRAINKHEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYFPASSIKKRMN
C
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
1
2.72
53.11
VAPOR DIFFUSION, HANGING DROP
8.50
HANGING DROP VAPOR DIFFUSION AT 4C, WITH INITIAL
CONCENTRATION IN DROP OF 0.10 MM DNA, 0.06 MM HIN,
10 MM TRIS (PH 8.5), 5 MM CACL2, 23 MM NACL,
2.5% V/V PEG400, AND 1.56 MM NA CACODYLATE.
RESERVOIR SOLUTION CONTAINS 100 MM TRIS (PH 8.5),
50 MM CACL2, 100 MM NACL, AND 25% PEG400.
CONCENTRATION OF PEG400 IN RESERVOIR SOLUTION WAS
INCREASED IN 5% INCREMENTS TO 35%., pH 8.50, VAPOR DIFFUSION, HANGING DROP
DNA
1
HIN
1
TRIS
1
CaCl2
1
NaCl
1
PEG 400
1
sodium cacodylate
1
Tris
2
CaCl2
2
NaCl
2
PEG 400
2
-24.888
1
19
A
3
B
29
1.954
A_DG3:DC29_B
1
3.201
-1.004
-1.080
0.126
-2.068
1
20
A
4
B
28
-11.801
A_DT4:DA28_B
2
-1.841
0.135
-0.208
0.325
2.794
1
20
A
5
B
27
5.632
A_DT5:DA27_B
3
-15.904
0.019
-0.427
0.231
1.767
1
20
A
6
B
26
-2.332
A_DT6:DA26_B
4
-25.202
0.044
-0.422
0.209
-3.868
1
20
A
7
B
25
-2.292
A_DT7:DA25_B
5
-3.381
-0.141
-0.072
-0.283
-11.429
1
20
A
8
B
24
-0.134
A_DT8:DA24_B
6
-14.217
-0.684
0.209
-0.044
-2.440
1
19
A
9
B
23
7.605
A_DG9:DC23_B
7
2.025
-1.376
-0.331
-0.372
7.788
1
20
A
10
B
22
0.493
A_DA10:DT22_B
8
-12.190
-0.273
0.332
-0.272
-2.004
1
19
A
11
B
21
0.074
A_DG11:DC21_B
9
-7.363
-0.254
0.058
-0.446
-4.812
1
20
A
12
B
20
-2.061
A_DA12:DT20_B
10
-12.039
-0.142
-0.045
-0.345
6.224
1
20
A
13
B
19
0.022
A_DA13:DT19_B
11
-4.443
0.890
0.362
0.091
0.012
1
19
A
14
B
18
-0.295
A_DG14:DC18_B
12
-1.999
-0.659
0.198
-0.171
3.010
38.600
A
A
3
4
10.209
B
B
29
28
2.854
6.681
-1.380
-0.013
AA_DG3DT4:DA28DC29_BB
1
-7.086
10.827
37.397
-0.772
1.291
3.122
29.363
A
A
4
5
1.126
B
B
28
27
3.089
0.568
0.511
-0.400
AA_DT4DT5:DA27DA28_BB
2
5.216
-10.343
28.901
-0.906
0.066
3.175
34.770
A
A
5
6
13.363
B
B
27
26
3.212
7.904
-0.238
0.392
AA_DT5DT6:DA26DA27_BB
3
3.833
-6.480
33.675
-0.541
0.978
3.322
39.921
A
A
6
7
-7.003
B
B
26
25
3.371
-4.770
1.233
0.510
AA_DT6DT7:DA25DA26_BB
4
1.094
-1.607
39.632
1.310
-1.676
3.442
29.582
A
A
7
8
0.801
B
B
25
24
3.461
0.409
-0.415
-0.586
AA_DT7DT8:DA24DA25_BB
5
0.680
-1.331
29.572
-1.239
0.965
3.456
35.772
A
A
8
9
3.755
B
B
24
23
3.204
2.292
1.228
1.400
AA_DT8DG9:DC23DA24_BB
6
6.801
-11.144
35.067
1.940
-0.992
3.253
42.961
A
A
9
10
9.648
B
B
23
22
3.001
7.012
-0.975
1.151
AA_DG9DA10:DT22DC23_BB
7
-6.536
8.993
41.928
0.898
0.704
3.666
31.795
A
A
10
11
3.975
B
B
22
21
3.668
2.176
0.356
0.085
AA_DA10DG11:DC21DT22_BB
8
0.037
-0.067
31.722
-0.292
-0.642
3.310
39.576
A
A
11
12
4.123
B
B
21
20
3.277
2.786
-0.632
-0.018
AA_DG11DA12:DT20DC21_BB
9
-3.473
5.140
39.334
-0.356
0.522
2.834
37.122
A
A
12
13
-4.164
B
B
20
19
2.860
-2.646
0.081
0.018
AA_DA12DA13:DT19DT20_BB
10
-3.311
5.212
36.887
0.336
-0.513
3.088
27.042
A
A
13
14
14.615
B
B
19
18
3.457
6.759
-0.348
-1.134
AA_DA13DG14:DC18DT19_BB
11
-1.838
3.974
26.135
-4.174
0.268
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Refinement description
1
0
2002-02-22
1
1
2008-04-27
1
2
2011-07-13
1
3
2023-08-16
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
Native wild-type Hin recombinase DNA-binding domain bound to underivatized
hixL half-site.
FORM1 BR18 DERIVATIVE
FORM1 I5 DERIVATIVE
FORM2 I4 DERIVATIVE
FORM1 A10G MUTANT
FORM1 G9T MUTANT
FORM1 T11C MUTANT
RCSB
Y
RCSB
2001-07-13
REL
REL
HOH
water
SYNTHETIC PEPTIDE
sample
1IJW
PDB
experimental model
HOH
201
4
HOH
HOH
201
A
HOH
202
4
HOH
HOH
202
B
HOH
203
4
HOH
HOH
203
B
HOH
204
4
HOH
HOH
204
B
T
2
n
1
DT
2
A
G
3
n
2
DG
3
A
T
4
n
3
DT
4
A
T
5
n
4
DT
5
A
T
6
n
5
DT
6
A
T
7
n
6
DT
7
A
T
8
n
7
DT
8
A
G
9
n
8
DG
9
A
A
10
n
9
DA
10
A
G
11
n
10
DG
11
A
A
12
n
11
DA
12
A
A
13
n
12
DA
13
A
G
14
n
13
DG
14
A
A
15
n
14
DA
15
A
A
16
n
1
DA
16
B
T
17
n
2
DT
17
B
C
18
n
3
DC
18
B
T
19
n
4
DT
19
B
T
20
n
5
DT
20
B
C
21
n
6
DC
21
B
T
22
n
7
DT
22
B
C
23
n
8
DC
23
B
A
24
n
9
DA
24
B
A
25
n
10
DA
25
B
A
26
n
11
DA
26
B
A
27
n
12
DA
27
B
A
28
n
13
DA
28
B
C
29
n
14
DC
29
B
GLY
139
n
1
GLY
139
C
ARG
140
n
2
ARG
140
C
PRO
141
n
3
PRO
141
C
ARG
142
n
4
ARG
142
C
ALA
143
n
5
ALA
143
C
ILE
144
n
6
ILE
144
C
ASN
145
n
7
ASN
145
C
LYS
146
n
8
LYS
146
C
HIS
147
n
9
HIS
147
C
GLU
148
n
10
GLU
148
C
GLN
149
n
11
GLN
149
C
GLU
150
n
12
GLU
150
C
GLN
151
n
13
GLN
151
C
ILE
152
n
14
ILE
152
C
SER
153
n
15
SER
153
C
ARG
154
n
16
ARG
154
C
LEU
155
n
17
LEU
155
C
LEU
156
n
18
LEU
156
C
GLU
157
n
19
GLU
157
C
LYS
158
n
20
LYS
158
C
GLY
159
n
21
GLY
159
C
HIS
160
n
22
HIS
160
C
PRO
161
n
23
PRO
161
C
ARG
162
n
24
ARG
162
C
GLN
163
n
25
GLN
163
C
GLN
164
n
26
GLN
164
C
LEU
165
n
27
LEU
165
C
ALA
166
n
28
ALA
166
C
ILE
167
n
29
ILE
167
C
ILE
168
n
30
ILE
168
C
PHE
169
n
31
PHE
169
C
GLY
170
n
32
GLY
170
C
ILE
171
n
33
ILE
171
C
GLY
172
n
34
GLY
172
C
VAL
173
n
35
VAL
173
C
SER
174
n
36
SER
174
C
THR
175
n
37
THR
175
C
LEU
176
n
38
LEU
176
C
TYR
177
n
39
TYR
177
C
ARG
178
n
40
ARG
178
C
TYR
179
n
41
TYR
179
C
PHE
180
n
42
PHE
180
C
PRO
181
n
43
PRO
181
C
ALA
182
n
44
ALA
182
C
SER
183
n
45
SER
183
C
SER
184
n
46
SER
184
C
ILE
185
n
47
ILE
185
C
n
48
186
C
n
49
187
C
n
50
188
C
n
51
189
C
n
52
190
C
author_defined_assembly
3
trimeric
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
1
C
CG
GLU
157
C
CG
GLU
19
1
Y
1
C
CD
GLU
157
C
CD
GLU
19
1
Y
1
C
OE1
GLU
157
C
OE1
GLU
19
1
Y
1
C
OE2
GLU
157
C
OE2
GLU
19
1
Y
1
C
CG
GLN
164
C
CG
GLN
26
1
Y
1
C
CD
GLN
164
C
CD
GLN
26
1
Y
1
C
OE1
GLN
164
C
OE1
GLN
26
1
Y
1
C
NE2
GLN
164
C
NE2
GLN
26
1
Y
1
C
LYS
186
C
LYS
48
1
Y
1
C
LYS
187
C
LYS
49
1
Y
1
C
ARG
188
C
ARG
50
1
Y
1
C
MET
189
C
MET
51
1
Y
1
C
ASN
190
C
ASN
52
1
Y
1
A
DA
15
0.090
SIDE CHAIN
1
B
DA
28
0.093
SIDE CHAIN
1
11.79
1.20
115.70
127.49
B
B
B
C5'
C4'
C3'
DA
DA
DA
16
16
16
A
N
1
-17.17
2.00
110.40
93.23
C
C
C
CB
CA
C
ARG
ARG
ARG
178
178
178
B
N
1
C
PHE
169
-68.33
9.66
PROTEIN_REP.PARAM
PROTEIN.TOP
DNA-RNA_REP.PARAM
DNA-RNA.TOP
WATER_REP.PARAM
WATER.TOP
54.10
12.54
0.00000
0.00000
12.184
0.00000
-24.724
0.3277000
0.2477000
0.2477000
2.80
42.70
402
3774
9.72
91.23
RANDOM
1
ANISOTROPIC_FIXED_ISOTROPIC
0.000
MOLECULAR REPLACEMENT
1IJW
MLF
50.00
0.20
0.60
0.42
5.00
0.71
0.62
2.80
42.70
4
959
0
576
379
0.009
1.364
19.085
1.600
6.93
4.000
10.27
6.000
10.70
6.000
15.19
7.000
0.5012000
0.4163000
2.93
53
338
8
10.35
76.37
43.00
2.80
42.70
1JKP
3774
0.000
0.0770000
1
16.90
13.00
91.23
2.80
2.93
4.06
0.2180000
3.00
76.37
refinement
CNS
data reduction
DENZO
data scaling
SCALEPACK
phasing
CNS
Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
C
ASN
145
C
ASN
7
HELX_P
C
LYS
158
C
LYS
20
1
1
14
C
PRO
161
C
PRO
23
HELX_P
C
PHE
169
C
PHE
31
1
2
9
C
GLY
172
C
GLY
34
HELX_P
C
PHE
180
C
PHE
42
1
3
9
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
2
1_555
B
DC
29
B
N3
DC
14
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
2
1_555
B
DC
29
B
O2
DC
14
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
2
1_555
B
DC
29
B
N4
DC
14
1_555
hydrog
WATSON-CRICK
A
DT
4
A
N3
DT
3
1_555
B
DA
28
B
N1
DA
13
1_555
hydrog
WATSON-CRICK
A
DT
4
A
O4
DT
3
1_555
B
DA
28
B
N6
DA
13
1_555
hydrog
WATSON-CRICK
A
DT
5
A
N3
DT
4
1_555
B
DA
27
B
N1
DA
12
1_555
hydrog
WATSON-CRICK
A
DT
5
A
O4
DT
4
1_555
B
DA
27
B
N6
DA
12
1_555
hydrog
WATSON-CRICK
A
DT
6
A
N3
DT
5
1_555
B
DA
26
B
N1
DA
11
1_555
hydrog
WATSON-CRICK
A
DT
6
A
O4
DT
5
1_555
B
DA
26
B
N6
DA
11
1_555
hydrog
WATSON-CRICK
A
DT
7
A
N3
DT
6
1_555
B
DA
25
B
N1
DA
10
1_555
hydrog
WATSON-CRICK
A
DT
7
A
O4
DT
6
1_555
B
DA
25
B
N6
DA
10
1_555
hydrog
WATSON-CRICK
A
DT
8
A
N3
DT
7
1_555
B
DA
24
B
N1
DA
9
1_555
hydrog
WATSON-CRICK
A
DT
8
A
O4
DT
7
1_555
B
DA
24
B
N6
DA
9
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N1
DG
8
1_555
B
DC
23
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N2
DG
8
1_555
B
DC
23
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
9
A
O6
DG
8
1_555
B
DC
23
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
A
DA
10
A
N1
DA
9
1_555
B
DT
22
B
N3
DT
7
1_555
hydrog
WATSON-CRICK
A
DA
10
A
N6
DA
9
1_555
B
DT
22
B
O4
DT
7
1_555
hydrog
WATSON-CRICK
A
DG
11
A
N1
DG
10
1_555
B
DC
21
B
N3
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
11
A
N2
DG
10
1_555
B
DC
21
B
O2
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
11
A
O6
DG
10
1_555
B
DC
21
B
N4
DC
6
1_555
hydrog
WATSON-CRICK
A
DA
12
A
N1
DA
11
1_555
B
DT
20
B
N3
DT
5
1_555
hydrog
WATSON-CRICK
A
DA
12
A
N6
DA
11
1_555
B
DT
20
B
O4
DT
5
1_555
hydrog
WATSON-CRICK
A
DA
13
A
N1
DA
12
1_555
B
DT
19
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
A
DA
13
A
N6
DA
12
1_555
B
DT
19
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
A
DG
14
A
N1
DG
13
1_555
B
DC
18
B
N3
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
14
A
N2
DG
13
1_555
B
DC
18
B
O2
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
14
A
O6
DG
13
1_555
B
DC
18
B
N4
DC
3
1_555
DNA BINDING PROTEIN/DNA
WATER-MEDIATED RECOGNITION, PROTEIN-DNA COMPLEX, HIN RECOMBINASE, T11G MUTANT, DNA BINDING PROTEIN-DNA COMPLEX
HIN_SALTY
UNP
3
139
P03013
GRPRAINKHEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYFPASSIKKRMN
1JKP
PDB
1
1JKP
1JKP
PDB
2
1JKP
139
190
1JKP
139
190
P03013
C
1
1
52
2
15
1JKP
2
15
1JKP
A
2
1
14
16
29
1JKP
16
29
1JKP
B
3
1
14
20
C 2 2 21