0.020812
0.000000
0.000000
0.000000
0.020812
0.000000
0.000000
0.000000
0.015873
0.00000
0.00000
0.00000
CIS PROLINE - PRO 117
Libson, A.
Gittis, A.
Lattman, E.E.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
48.050
48.050
63.000
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
Ca 2
40.078
CALCIUM ION
non-polymer
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
C10 H16 N2 O11 P2
402.188
THYMIDINE-3',5'-DIPHOSPHATE
DNA linking
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
CA
N
75
N
N
N
76
S
C
N
77
N
C
N
78
N
O
N
79
N
C
N
80
N
C
N
81
N
C
N
82
N
O
N
83
N
N
N
84
N
O
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
H
N
95
N
N
N
96
S
C
N
97
N
C
N
98
N
O
N
99
N
C
N
100
N
C
N
101
N
C
N
102
N
O
N
103
N
O
N
104
N
O
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
N
N
115
N
C
N
116
N
C
N
117
N
O
N
118
N
O
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
N
N
125
S
C
N
126
N
C
N
127
N
O
N
128
N
C
Y
129
N
C
Y
130
N
N
Y
131
N
C
Y
132
N
C
Y
133
N
N
N
134
N
O
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
O
N
146
N
H
N
147
N
H
N
148
N
N
N
149
S
C
N
150
N
C
N
151
N
O
N
152
S
C
N
153
N
C
N
154
N
C
N
155
N
C
N
156
N
O
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
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
N
N
171
S
C
N
172
N
C
N
173
N
O
N
174
N
C
N
175
N
C
N
176
N
C
N
177
N
C
N
178
N
O
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
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
N
N
193
S
C
N
194
N
C
N
195
N
O
N
196
N
C
N
197
N
C
N
198
N
C
N
199
N
C
N
200
N
N
N
201
N
O
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
H
N
209
N
H
N
210
N
H
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
N
N
218
S
C
N
219
N
C
N
220
N
O
N
221
N
C
N
222
N
C
N
223
N
S
N
224
N
C
N
225
N
O
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
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
N
N
238
S
C
N
239
N
C
N
240
N
O
N
241
N
C
Y
242
N
C
Y
243
N
C
Y
244
N
C
Y
245
N
C
Y
246
N
C
Y
247
N
C
N
248
N
O
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
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
N
N
261
S
C
N
262
N
C
N
263
N
O
N
264
N
C
N
265
N
C
N
266
N
C
N
267
N
O
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
H
N
276
N
H
N
277
N
N
N
278
S
C
N
279
N
C
N
280
N
O
N
281
N
C
N
282
N
O
N
283
N
O
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
P
N
292
N
O
N
293
N
O
N
294
N
O
N
295
N
P
N
296
N
O
N
297
N
O
N
298
N
O
N
299
N
O
N
300
N
C
N
301
R
C
N
302
N
O
N
303
S
C
N
304
N
O
N
305
N
C
N
306
R
C
N
307
N
N
N
308
N
C
N
309
N
O
N
310
N
N
N
311
N
C
N
312
N
O
N
313
N
C
N
314
N
C
N
315
N
C
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
H
N
332
N
N
N
333
S
C
N
334
N
C
N
335
N
O
N
336
R
C
N
337
N
O
N
338
N
C
N
339
N
O
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
N
N
350
S
C
N
351
N
C
N
352
N
O
N
353
N
C
Y
354
N
C
Y
355
N
C
Y
356
N
C
Y
357
N
N
Y
358
N
C
Y
359
N
C
Y
360
N
C
Y
361
N
C
Y
362
N
C
N
363
N
O
N
364
N
H
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
H
N
375
N
H
N
376
N
N
N
377
S
C
N
378
N
C
N
379
N
O
N
380
N
C
Y
381
N
C
Y
382
N
C
Y
383
N
C
Y
384
N
C
Y
385
N
C
Y
386
N
C
N
387
N
O
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
N
N
401
S
C
N
402
N
C
N
403
N
O
N
404
N
C
N
405
N
C
N
406
N
C
N
407
N
O
N
408
N
H
N
409
N
H
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
H
N
418
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
doub
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
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
doub
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
doub
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
doub
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
Y
127
N
sing
Y
128
N
doub
Y
129
N
doub
N
130
N
sing
Y
131
N
sing
N
132
N
sing
Y
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
doub
N
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
sing
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
doub
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
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
doub
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
sing
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
doub
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
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
doub
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
Y
235
N
doub
Y
236
N
sing
Y
237
N
sing
N
238
N
sing
Y
239
N
doub
N
240
N
sing
Y
241
N
doub
N
242
N
sing
Y
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
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
doub
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
doub
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
doub
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
doub
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
sing
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
doub
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
doub
N
312
N
sing
N
313
N
sing
N
314
N
doub
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
doub
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
doub
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
Y
346
N
doub
Y
347
N
sing
Y
348
N
sing
N
349
N
sing
Y
350
N
doub
Y
351
N
sing
Y
352
N
sing
N
353
N
sing
Y
354
N
sing
Y
355
N
doub
N
356
N
sing
Y
357
N
doub
N
358
N
sing
Y
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
doub
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
Y
374
N
doub
Y
375
N
sing
Y
376
N
sing
N
377
N
sing
Y
378
N
doub
N
379
N
sing
Y
380
N
doub
N
381
N
sing
Y
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
sing
N
391
N
sing
N
392
N
sing
N
393
N
doub
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
sing
US
Biochemistry
BICHAW
0033
0006-2960
33
8007
8016
10.1021/bi00192a004
8025105
Crystal structures of the binary Ca2+ and pdTp complexes and the ternary complex of the Asp21-->Glu mutant of staphylococcal nuclease. Implications for catalysis and ligand binding.
1994
10.2210/pdb1enc/pdb
pdb_00001enc
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
x-ray
1
1.0
16857.355
STAPHYLOCOCCAL NUCLEASE
3.1.31.1
1
man
polymer
40.078
CALCIUM ION
1
syn
non-polymer
402.188
THYMIDINE-3',5'-DIPHOSPHATE
1
syn
non-polymer
18.015
water
41
nat
water
no
no
ATSTKKLHKEPATLIKAIDGETVKLMYKGQPMTFRLLLVDTPETKHPKKGVEKYGPEASAFTKKMVENAKKIEVEFDKGQ
RTDKYGRGLAYIYADGKMVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSEDNADSGQ
ATSTKKLHKEPATLIKAIDGETVKLMYKGQPMTFRLLLVDTPETKHPKKGVEKYGPEASAFTKKMVENAKKIEVEFDKGQ
RTDKYGRGLAYIYADGKMVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSEDNADSGQ
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
Staphylococcus
sample
1280
Staphylococcus aureus
2.16
42.96
pdbx_database_status
struct_conf
struct_conf_type
software
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Derived calculations
Other
Data collection
Refinement description
Data collection
Refinement description
Data collection
Database references
Derived calculations
1
0
1994-05-31
1
1
2008-03-03
1
2
2011-07-13
1
3
2017-11-29
1
4
2019-07-17
1
5
2019-08-14
1
6
2024-02-07
_pdbx_database_status.process_site
_software.classification
_software.classification
_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.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_conn.ptnr2_label_seq_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
BNL
1994-02-14
REL
CA
CALCIUM ION
THP
THYMIDINE-3',5'-DIPHOSPHATE
HOH
water
ASP 21 IS LIGAND OF ACTIVE SITE CA2+ IN THE WILD TYPE
STRUCTURE. THE D21E MUTANT STILL BINDS CA2+, BUT MOVES
THE METAL ION 1.5 ANGSTROMS OUT OF THE ACTIVE SITE POCKET.
THIS MOVEMENT CAUSES GLU 43 TO BECOME AN INNER SPHERE
LIGAND OF CA2+ AND PERTURBS THE NORMAL WATER COORDINATION
FOUND ABOUT CA2+ IN THE WILD TYPE STRUCTURE.
CA
143
2
CA
CA
150
A
PTP
142
3
THP
THP
151
A
HOH
144
4
HOH
HOH
152
A
HOH
145
4
HOH
HOH
153
A
HOH
146
4
HOH
HOH
154
A
HOH
147
4
HOH
HOH
155
A
HOH
148
4
HOH
HOH
156
A
HOH
149
4
HOH
HOH
157
A
HOH
150
4
HOH
HOH
158
A
HOH
151
4
HOH
HOH
159
A
HOH
152
4
HOH
HOH
160
A
HOH
153
4
HOH
HOH
161
A
HOH
154
4
HOH
HOH
162
A
HOH
155
4
HOH
HOH
163
A
HOH
156
4
HOH
HOH
164
A
HOH
157
4
HOH
HOH
165
A
HOH
158
4
HOH
HOH
166
A
HOH
159
4
HOH
HOH
167
A
HOH
160
4
HOH
HOH
168
A
HOH
161
4
HOH
HOH
169
A
HOH
162
4
HOH
HOH
170
A
HOH
163
4
HOH
HOH
171
A
HOH
164
4
HOH
HOH
172
A
HOH
165
4
HOH
HOH
173
A
HOH
166
4
HOH
HOH
174
A
HOH
167
4
HOH
HOH
175
A
HOH
168
4
HOH
HOH
176
A
HOH
169
4
HOH
HOH
177
A
HOH
170
4
HOH
HOH
178
A
HOH
171
4
HOH
HOH
179
A
HOH
172
4
HOH
HOH
180
A
HOH
173
4
HOH
HOH
181
A
HOH
174
4
HOH
HOH
182
A
HOH
175
4
HOH
HOH
183
A
HOH
176
4
HOH
HOH
184
A
HOH
177
4
HOH
HOH
185
A
HOH
178
4
HOH
HOH
186
A
HOH
179
4
HOH
HOH
187
A
HOH
180
4
HOH
HOH
188
A
HOH
181
4
HOH
HOH
189
A
HOH
182
4
HOH
HOH
190
A
HOH
183
4
HOH
HOH
191
A
HOH
184
4
HOH
HOH
192
A
n
1
1
A
n
2
2
A
n
3
3
A
n
4
4
A
n
5
5
A
n
6
6
A
LEU
7
n
7
LEU
7
A
HIS
8
n
8
HIS
8
A
LYS
9
n
9
LYS
9
A
GLU
10
n
10
GLU
10
A
PRO
11
n
11
PRO
11
A
ALA
12
n
12
ALA
12
A
THR
13
n
13
THR
13
A
LEU
14
n
14
LEU
14
A
ILE
15
n
15
ILE
15
A
LYS
16
n
16
LYS
16
A
ALA
17
n
17
ALA
17
A
ILE
18
n
18
ILE
18
A
ASP
19
n
19
ASP
19
A
GLY
20
n
20
GLY
20
A
GLU
21
n
21
GLU
21
A
THR
22
n
22
THR
22
A
VAL
23
n
23
VAL
23
A
LYS
24
n
24
LYS
24
A
LEU
25
n
25
LEU
25
A
MET
26
n
26
MET
26
A
TYR
27
n
27
TYR
27
A
LYS
28
n
28
LYS
28
A
GLY
29
n
29
GLY
29
A
GLN
30
n
30
GLN
30
A
PRO
31
n
31
PRO
31
A
MET
32
n
32
MET
32
A
THR
33
n
33
THR
33
A
PHE
34
n
34
PHE
34
A
ARG
35
n
35
ARG
35
A
LEU
36
n
36
LEU
36
A
LEU
37
n
37
LEU
37
A
LEU
38
n
38
LEU
38
A
VAL
39
n
39
VAL
39
A
ASP
40
n
40
ASP
40
A
THR
41
n
41
THR
41
A
PRO
42
n
42
PRO
42
A
GLU
43
n
43
GLU
43
A
THR
44
n
44
THR
44
A
LYS
45
n
45
LYS
45
A
HIS
46
n
46
HIS
46
A
PRO
47
n
47
PRO
47
A
LYS
48
n
48
LYS
48
A
LYS
49
n
49
LYS
49
A
GLY
50
n
50
GLY
50
A
VAL
51
n
51
VAL
51
A
GLU
52
n
52
GLU
52
A
LYS
53
n
53
LYS
53
A
TYR
54
n
54
TYR
54
A
GLY
55
n
55
GLY
55
A
PRO
56
n
56
PRO
56
A
GLU
57
n
57
GLU
57
A
ALA
58
n
58
ALA
58
A
SER
59
n
59
SER
59
A
ALA
60
n
60
ALA
60
A
PHE
61
n
61
PHE
61
A
THR
62
n
62
THR
62
A
LYS
63
n
63
LYS
63
A
LYS
64
n
64
LYS
64
A
MET
65
n
65
MET
65
A
VAL
66
n
66
VAL
66
A
GLU
67
n
67
GLU
67
A
ASN
68
n
68
ASN
68
A
ALA
69
n
69
ALA
69
A
LYS
70
n
70
LYS
70
A
LYS
71
n
71
LYS
71
A
ILE
72
n
72
ILE
72
A
GLU
73
n
73
GLU
73
A
VAL
74
n
74
VAL
74
A
GLU
75
n
75
GLU
75
A
PHE
76
n
76
PHE
76
A
ASP
77
n
77
ASP
77
A
LYS
78
n
78
LYS
78
A
GLY
79
n
79
GLY
79
A
GLN
80
n
80
GLN
80
A
ARG
81
n
81
ARG
81
A
THR
82
n
82
THR
82
A
ASP
83
n
83
ASP
83
A
LYS
84
n
84
LYS
84
A
TYR
85
n
85
TYR
85
A
GLY
86
n
86
GLY
86
A
ARG
87
n
87
ARG
87
A
GLY
88
n
88
GLY
88
A
LEU
89
n
89
LEU
89
A
ALA
90
n
90
ALA
90
A
TYR
91
n
91
TYR
91
A
ILE
92
n
92
ILE
92
A
TYR
93
n
93
TYR
93
A
ALA
94
n
94
ALA
94
A
ASP
95
n
95
ASP
95
A
GLY
96
n
96
GLY
96
A
LYS
97
n
97
LYS
97
A
MET
98
n
98
MET
98
A
VAL
99
n
99
VAL
99
A
ASN
100
n
100
ASN
100
A
GLU
101
n
101
GLU
101
A
ALA
102
n
102
ALA
102
A
LEU
103
n
103
LEU
103
A
VAL
104
n
104
VAL
104
A
ARG
105
n
105
ARG
105
A
GLN
106
n
106
GLN
106
A
GLY
107
n
107
GLY
107
A
LEU
108
n
108
LEU
108
A
ALA
109
n
109
ALA
109
A
LYS
110
n
110
LYS
110
A
VAL
111
n
111
VAL
111
A
ALA
112
n
112
ALA
112
A
TYR
113
n
113
TYR
113
A
VAL
114
n
114
VAL
114
A
TYR
115
n
115
TYR
115
A
LYS
116
n
116
LYS
116
A
PRO
117
n
117
PRO
117
A
ASN
118
n
118
ASN
118
A
ASN
119
n
119
ASN
119
A
THR
120
n
120
THR
120
A
HIS
121
n
121
HIS
121
A
GLU
122
n
122
GLU
122
A
GLN
123
n
123
GLN
123
A
HIS
124
n
124
HIS
124
A
LEU
125
n
125
LEU
125
A
ARG
126
n
126
ARG
126
A
LYS
127
n
127
LYS
127
A
SER
128
n
128
SER
128
A
GLU
129
n
129
GLU
129
A
ALA
130
n
130
ALA
130
A
GLN
131
n
131
GLN
131
A
ALA
132
n
132
ALA
132
A
LYS
133
n
133
LYS
133
A
LYS
134
n
134
LYS
134
A
GLU
135
n
135
GLU
135
A
LYS
136
n
136
LYS
136
A
LEU
137
n
137
LEU
137
A
ASN
138
n
138
ASN
138
A
ILE
139
n
139
ILE
139
A
TRP
140
n
140
TRP
140
A
SER
141
n
141
SER
141
A
n
142
142
A
n
143
143
A
n
144
144
A
n
145
145
A
n
146
146
A
n
147
147
A
n
148
148
A
n
149
149
A
author_defined_assembly
1
monomeric
A
GLU
21
A
OE1
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
21
A
OE2
GLU
21
1_555
46.8
A
GLU
21
A
OE1
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
ASP
40
A
OD1
ASP
40
1_555
84.8
A
GLU
21
A
OE2
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
ASP
40
A
OD1
ASP
40
1_555
129.7
A
GLU
21
A
OE1
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
THR
41
A
O
THR
41
1_555
76.1
A
GLU
21
A
OE2
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
THR
41
A
O
THR
41
1_555
99.9
A
ASP
40
A
OD1
ASP
40
1_555
A
CA
150
B
CA
CA
1_555
A
THR
41
A
O
THR
41
1_555
75.9
A
GLU
21
A
OE1
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE2
GLU
43
1_555
97.3
A
GLU
21
A
OE2
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE2
GLU
43
1_555
78.8
A
ASP
40
A
OD1
ASP
40
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE2
GLU
43
1_555
128.2
A
THR
41
A
O
THR
41
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE2
GLU
43
1_555
55.0
A
GLU
21
A
OE1
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE1
GLU
43
1_555
102.8
A
GLU
21
A
OE2
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE1
GLU
43
1_555
61.9
A
ASP
40
A
OD1
ASP
40
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE1
GLU
43
1_555
164.4
A
THR
41
A
O
THR
41
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE1
GLU
43
1_555
92.6
A
GLU
43
A
OE2
GLU
43
1_555
A
CA
150
B
CA
CA
1_555
A
GLU
43
A
OE1
GLU
43
1_555
38.1
A
GLU
21
A
OE1
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
THP
151
C
O4P
THP
1_555
93.0
A
GLU
21
A
OE2
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
A
THP
151
C
O4P
THP
1_555
73.1
A
ASP
40
A
OD1
ASP
40
1_555
A
CA
150
B
CA
CA
1_555
A
THP
151
C
O4P
THP
1_555
101.9
A
THR
41
A
O
THR
41
1_555
A
CA
150
B
CA
CA
1_555
A
THP
151
C
O4P
THP
1_555
169.0
A
GLU
43
A
OE2
GLU
43
1_555
A
CA
150
B
CA
CA
1_555
A
THP
151
C
O4P
THP
1_555
129.5
A
GLU
43
A
OE1
GLU
43
1_555
A
CA
150
B
CA
CA
1_555
A
THP
151
C
O4P
THP
1_555
91.4
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
N
GLU
10
A
N
GLU
10
A
O
VAL
74
A
O
VAL
74
A
N
GLU
73
A
N
GLU
73
A
O
TYR
93
A
O
TYR
93
A
N
ILE
18
A
N
ILE
18
A
O
THR
22
A
O
THR
22
A
N
VAL
23
A
N
VAL
23
A
O
PHE
34
A
O
PHE
34
1
A
ALA
1
A
ALA
1
1
Y
1
A
THR
2
A
THR
2
1
Y
1
A
SER
3
A
SER
3
1
Y
1
A
THR
4
A
THR
4
1
Y
1
A
LYS
5
A
LYS
5
1
Y
1
A
LYS
6
A
LYS
6
1
Y
1
A
GLU
142
A
GLU
142
1
Y
1
A
ASP
143
A
ASP
143
1
Y
1
A
ASN
144
A
ASN
144
1
Y
1
A
ALA
145
A
ALA
145
1
Y
1
A
ASP
146
A
ASP
146
1
Y
1
A
SER
147
A
SER
147
1
Y
1
A
GLY
148
A
GLY
148
1
Y
1
A
GLN
149
A
GLN
149
1
Y
1
7.64
0.90
118.30
125.94
A
A
A
CB
CG
OD1
ASP
ASP
ASP
40
40
40
N
1
-8.58
1.40
123.60
115.02
A
A
A
CD
NE
CZ
ARG
ARG
ARG
81
81
81
N
1
-5.49
0.50
120.30
114.81
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
81
81
81
N
1
10.34
1.40
123.60
133.94
A
A
A
CD
NE
CZ
ARG
ARG
ARG
126
126
126
N
1
7.36
0.50
120.30
127.66
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
126
126
126
N
1
A
HIS
46
176.88
134.12
1
A
TYR
54
81.34
-11.29
1
A
ASN
119
-144.26
24.68
1
A
ASN
138
36.26
-105.50
0.1740000
0.1740000
1.95
1
1.95
41
1175
26
0
1108
0.011
3.1
model building
X-PLOR
refinement
PROLSQ
refinement
X-PLOR
phasing
X-PLOR
CRYSTAL STRUCTURES OF THE BINARY CA2+ AND PDTP COMPLEXES AND THE TERNARY COMPLEX OF THE ASP 21->GLU MUTANT OF STAPHYLOCOCCAL NUCLEASE. IMPLICATIONS FOR CATALYSIS AND LIGAND BINDING
1
N
N
2
N
N
3
N
N
4
N
N
A
TYR
54
A
TYR
54
HELX_P
A
ASN
68
A
ASN
68
1
H1
15
A
MET
98
A
MET
98
HELX_P
A
GLN
106
A
GLN
106
1
H2
9
A
HIS
121
A
HIS
121
HELX_P
A
GLU
135
A
GLU
135
1
H3
15
metalc
2.692
A
GLU
21
A
OE1
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
metalc
2.660
A
GLU
21
A
OE2
GLU
21
1_555
A
CA
150
B
CA
CA
1_555
metalc
2.162
A
ASP
40
A
OD1
ASP
40
1_555
A
CA
150
B
CA
CA
1_555
metalc
3.251
A
THR
41
A
O
THR
41
1_555
A
CA
150
B
CA
CA
1_555
metalc
1.912
A
GLU
43
A
OE2
GLU
43
1_555
A
CA
150
B
CA
CA
1_555
metalc
3.375
A
GLU
43
A
OE1
GLU
43
1_555
A
CA
150
B
CA
CA
1_555
metalc
2.726
A
CA
150
B
CA
CA
1_555
A
THP
151
C
O4P
THP
1_555
HYDROLASE(PHOSPHORIC DIESTER)
HYDROLASE(PHOSPHORIC DIESTER)
A
LYS
116
A
LYS
116
1
A
PRO
117
A
PRO
117
-0.51
NUC_STAAU
UNP
1
1
P00644
MLVMTEYLLSAGICMAIVSILLIGMAISNVSKGQYAKRFFFFATSCLVLTLVVVSSLSSSANASQTDNGVNRSGSEDPTV
YSATSTKKLHKEPATLIKAIDGDTVKLMYKGQPMTFRLLLVDTPETKHPKKGVEKYGPEASAFTKKMVENAKKIEVEFDK
GQRTDKYGRGLAYIYADGKMVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSEDNADSGQ
83
231
1ENC
1
149
P00644
A
1
1
149
1
ASP
conflict
GLU
21
1ENC
A
P00644
UNP
103
21
3
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
LEU
7
A
LEU
7
A
GLU
10
A
GLU
10
A
LYS
71
A
LYS
71
A
GLU
75
A
GLU
75
A
TYR
91
A
TYR
91
A
ASP
95
A
ASP
95
A
THR
13
A
THR
13
A
ASP
19
A
ASP
19
A
GLU
21
A
GLU
21
A
TYR
27
A
TYR
27
A
GLY
29
A
GLY
29
A
ARG
35
A
ARG
35
THE BINDING SITE FOR THE CALCIUM ION
Author
4
THE ACTIVE SITE
Author
3
BINDING SITE FOR RESIDUE CA A 150
A
CA
150
Software
5
BINDING SITE FOR RESIDUE THP A 151
A
THP
151
Software
15
A
GLU
21
A
GLU
21
4
1_555
A
ASP
40
A
ASP
40
4
1_555
A
THR
41
A
THR
41
4
1_555
A
GLU
43
A
GLU
43
4
1_555
A
ARG
35
A
ARG
35
3
1_555
A
GLU
43
A
GLU
43
3
1_555
A
ARG
87
A
ARG
87
3
1_555
A
GLU
21
A
GLU
21
5
1_555
A
ASP
40
A
ASP
40
5
1_555
A
THR
41
A
THR
41
5
1_555
A
GLU
43
A
GLU
43
5
1_555
A
THP
151
C
THP
5
1_555
A
GLU
21
A
GLU
21
15
1_555
A
ARG
35
A
ARG
35
15
1_555
A
LYS
70
A
LYS
70
15
3_655
A
LYS
71
A
LYS
71
15
3_655
A
ASP
83
A
ASP
83
15
1_555
A
LYS
84
A
LYS
84
15
1_555
A
TYR
85
A
TYR
85
15
1_555
A
ARG
87
A
ARG
87
15
1_555
A
LEU
89
A
LEU
89
15
1_555
A
TYR
113
A
TYR
113
15
1_555
A
TYR
115
A
TYR
115
15
1_555
A
CA
150
B
CA
15
1_555
A
HOH
164
D
HOH
15
1_555
A
HOH
170
D
HOH
15
1_555
A
HOH
176
D
HOH
15
1_555
76
P 41