0.019608
0.000000
0.000000
0.000000
0.012484
0.000000
0.000000
0.000000
0.009643
0.00000
0.00000
0.00000
Zuo, Y.
Wang, Y.
Malhotra, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
51.000
80.100
103.700
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
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
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
Zn 2
65.409
ZINC ION
non-polymer
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
N
N
184
S
C
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
O
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
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
N
N
206
S
C
N
207
N
C
N
208
N
O
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
N
N
214
N
O
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
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
S
N
237
N
C
N
238
N
O
N
239
N
H
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
N
N
251
S
C
N
252
N
C
N
253
N
O
N
254
N
C
Y
255
N
C
Y
256
N
C
Y
257
N
C
Y
258
N
C
Y
259
N
C
Y
260
N
C
N
261
N
O
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
H
N
272
N
H
N
273
N
N
N
274
S
C
N
275
N
C
N
276
N
O
N
277
N
C
N
278
N
C
N
279
N
C
N
280
N
O
N
281
N
H
N
282
N
H
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
N
N
291
S
C
N
292
N
C
N
293
N
O
N
294
N
C
N
295
N
O
N
296
N
O
N
297
N
H
N
298
N
H
N
299
N
H
N
300
N
H
N
301
N
H
N
302
N
H
N
303
N
H
N
304
N
S
N
305
N
O
N
306
N
O
N
307
N
O
N
308
N
O
N
309
N
N
N
310
S
C
N
311
N
C
N
312
N
O
N
313
R
C
N
314
N
O
N
315
N
C
N
316
N
O
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
N
N
327
S
C
N
328
N
C
N
329
N
O
N
330
N
C
Y
331
N
C
Y
332
N
C
Y
333
N
C
Y
334
N
N
Y
335
N
C
Y
336
N
C
Y
337
N
C
Y
338
N
C
Y
339
N
C
N
340
N
O
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
H
N
350
N
H
N
351
N
H
N
352
N
H
N
353
N
N
N
354
S
C
N
355
N
C
N
356
N
O
N
357
N
C
Y
358
N
C
Y
359
N
C
Y
360
N
C
Y
361
N
C
Y
362
N
C
Y
363
N
C
N
364
N
O
N
365
N
O
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
H
N
377
N
N
N
378
S
C
N
379
N
C
N
380
N
O
N
381
N
C
N
382
N
C
N
383
N
C
N
384
N
O
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
H
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
ZN
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
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
doub
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
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
doub
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
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
doub
N
225
N
sing
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
doub
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
Y
248
N
doub
Y
249
N
sing
Y
250
N
sing
N
251
N
sing
Y
252
N
doub
N
253
N
sing
Y
254
N
doub
N
255
N
sing
Y
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
doub
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
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
doub
N
291
N
doub
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
doub
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
Y
321
N
doub
Y
322
N
sing
Y
323
N
sing
N
324
N
sing
Y
325
N
doub
Y
326
N
sing
Y
327
N
sing
N
328
N
sing
Y
329
N
sing
Y
330
N
doub
N
331
N
sing
Y
332
N
doub
N
333
N
sing
Y
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
doub
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
Y
349
N
doub
Y
350
N
sing
Y
351
N
sing
N
352
N
sing
Y
353
N
doub
N
354
N
sing
Y
355
N
doub
N
356
N
sing
Y
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
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
doub
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
sing
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
sing
UK
Structure
STRUE6
2005
0969-2126
13
973
984
10.1016/j.str.2005.04.015
16004870
Crystal Structure of Escherichia coli RNase D, an Exoribonuclease Involved in Structured RNA Processing
2005
10.2210/pdb1yt3/pdb
pdb_00001yt3
100
1
CCD
2003-06-07
CUSTOM-MADE
SI(111)
SINGLE WAVELENGTH
M
x-ray
1
0.97904
1.0
X12C
NSLS
0.97904
SYNCHROTRON
NSLS BEAMLINE X12C
42779.121
Ribonuclease D
3.1.26.3
1
man
polymer
96.063
SULFATE ION
7
syn
non-polymer
65.409
ZINC ION
5
syn
non-polymer
18.015
water
492
nat
water
RNase D
E.C.3.1.26.3
no
no
MNYQMITTDDALASLCEAVRAFPAIALDTEFVRTRTYYPQLGLIQLFDGEHLALIDPLGITDWSPLKAILRDPSITKFLH
AGSEDLEVFLNVFGELPQPLIDTQILAAFCGRPMSWGFASMVEEYSGVTLDKSESRTDWLARPLTERQCEYAAADVWYLL
PITAKLMVETEASGWLPAALDECRLMQMRRQEVVAPEDAWRDITNAWQLRTRQLACLQLLADWRLRKARERDLAVNFVVR
EEHLWSVARYMPGSLGELDSLGLSGSEIRFHGKTLLALVEKAQTLPEDALPQPMLNLMDMPGYRKAFKAIKSLITDVSET
HKISAELLASRRQINQLLNWHWKLKPQNNLPELISGWRGELMAEALHNLLQEYPQ
MNYQMITTDDALASLCEAVRAFPAIALDTEFVRTRTYYPQLGLIQLFDGEHLALIDPLGITDWSPLKAILRDPSITKFLH
AGSEDLEVFLNVFGELPQPLIDTQILAAFCGRPMSWGFASMVEEYSGVTLDKSESRTDWLARPLTERQCEYAAADVWYLL
PITAKLMVETEASGWLPAALDECRLMQMRRQEVVAPEDAWRDITNAWQLRTRQLACLQLLADWRLRKARERDLAVNFVVR
EEHLWSVARYMPGSLGELDSLGLSGSEIRFHGKTLLALVEKAQTLPEDALPQPMLNLMDMPGYRKAFKAIKSLITDVSET
HKISAELLASRRQINQLLNWHWKLKPQNNLPELISGWRGELMAEALHNLLQEYPQ
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Escherichia
Escherichia
sample
RND
562
Escherichia coli
562
Escherichia coli
Rosetta(DE3)pLysS
PLASMID
pET15b
1
2.1
41.2
VAPOR DIFFUSION, HANGING DROP
7.0
Ammonium Sulfate, Zinc Sulfate, HEPES, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_site
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2005-08-09
1
1
2008-04-30
1
2
2011-07-13
1
3
2024-02-14
1
4
2024-04-03
_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_alt_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_alt_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.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr2_label_alt_id
_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_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
N
RCSB
Y
RCSB
2005-02-09
REL
REL
SO4
SULFATE ION
ZN
ZINC ION
HOH
water
A 1.9 A structure of RNase D obtained by MIR phasing using 5 Hg sites and one Zn site.
Other
experimental model
SO4
601
2
SO4
SO4
601
A
SO4
602
2
SO4
SO4
602
A
SO4
603
2
SO4
SO4
603
A
SO4
604
2
SO4
SO4
604
A
SO4
605
2
SO4
SO4
605
A
SO4
606
2
SO4
SO4
606
A
SO4
607
2
SO4
SO4
607
A
ZN
1001
3
ZN
ZN
1001
A
ZN
1002
3
ZN
ZN
1002
A
ZN
1003
3
ZN
ZN
1003
A
ZN
1004
3
ZN
ZN
1004
A
ZN
1005
3
ZN
ZN
1005
A
HOH
1
4
HOH
HOH
1006
A
HOH
2
4
HOH
HOH
1007
A
HOH
3
4
HOH
HOH
1008
A
HOH
4
4
HOH
HOH
1009
A
HOH
5
4
HOH
HOH
1010
A
HOH
6
4
HOH
HOH
1011
A
HOH
7
4
HOH
HOH
1012
A
HOH
8
4
HOH
HOH
1013
A
HOH
9
4
HOH
HOH
1014
A
HOH
10
4
HOH
HOH
1015
A
HOH
11
4
HOH
HOH
1016
A
HOH
12
4
HOH
HOH
1017
A
HOH
13
4
HOH
HOH
1018
A
HOH
14
4
HOH
HOH
1019
A
HOH
15
4
HOH
HOH
1020
A
HOH
16
4
HOH
HOH
1021
A
HOH
17
4
HOH
HOH
1022
A
HOH
18
4
HOH
HOH
1023
A
HOH
19
4
HOH
HOH
1024
A
HOH
20
4
HOH
HOH
1025
A
HOH
21
4
HOH
HOH
1026
A
HOH
22
4
HOH
HOH
1027
A
HOH
23
4
HOH
HOH
1028
A
HOH
24
4
HOH
HOH
1029
A
HOH
25
4
HOH
HOH
1030
A
HOH
26
4
HOH
HOH
1031
A
HOH
27
4
HOH
HOH
1032
A
HOH
28
4
HOH
HOH
1033
A
HOH
29
4
HOH
HOH
1034
A
HOH
30
4
HOH
HOH
1035
A
HOH
31
4
HOH
HOH
1036
A
HOH
32
4
HOH
HOH
1037
A
HOH
33
4
HOH
HOH
1038
A
HOH
34
4
HOH
HOH
1039
A
HOH
35
4
HOH
HOH
1040
A
HOH
36
4
HOH
HOH
1041
A
HOH
37
4
HOH
HOH
1042
A
HOH
38
4
HOH
HOH
1043
A
HOH
39
4
HOH
HOH
1044
A
HOH
40
4
HOH
HOH
1045
A
HOH
41
4
HOH
HOH
1046
A
HOH
42
4
HOH
HOH
1047
A
HOH
43
4
HOH
HOH
1048
A
HOH
44
4
HOH
HOH
1049
A
HOH
45
4
HOH
HOH
1050
A
HOH
46
4
HOH
HOH
1051
A
HOH
47
4
HOH
HOH
1052
A
HOH
48
4
HOH
HOH
1053
A
HOH
49
4
HOH
HOH
1054
A
HOH
50
4
HOH
HOH
1055
A
HOH
51
4
HOH
HOH
1056
A
HOH
52
4
HOH
HOH
1057
A
HOH
53
4
HOH
HOH
1058
A
HOH
54
4
HOH
HOH
1059
A
HOH
55
4
HOH
HOH
1060
A
HOH
56
4
HOH
HOH
1061
A
HOH
57
4
HOH
HOH
1062
A
HOH
58
4
HOH
HOH
1063
A
HOH
59
4
HOH
HOH
1064
A
HOH
60
4
HOH
HOH
1065
A
HOH
61
4
HOH
HOH
1066
A
HOH
62
4
HOH
HOH
1067
A
HOH
63
4
HOH
HOH
1068
A
HOH
64
4
HOH
HOH
1069
A
HOH
65
4
HOH
HOH
1070
A
HOH
66
4
HOH
HOH
1071
A
HOH
67
4
HOH
HOH
1072
A
HOH
68
4
HOH
HOH
1073
A
HOH
69
4
HOH
HOH
1074
A
HOH
70
4
HOH
HOH
1075
A
HOH
71
4
HOH
HOH
1076
A
HOH
72
4
HOH
HOH
1077
A
HOH
73
4
HOH
HOH
1078
A
HOH
74
4
HOH
HOH
1079
A
HOH
75
4
HOH
HOH
1080
A
HOH
76
4
HOH
HOH
1081
A
HOH
77
4
HOH
HOH
1082
A
HOH
78
4
HOH
HOH
1083
A
HOH
79
4
HOH
HOH
1084
A
HOH
80
4
HOH
HOH
1085
A
HOH
81
4
HOH
HOH
1086
A
HOH
82
4
HOH
HOH
1087
A
HOH
83
4
HOH
HOH
1088
A
HOH
84
4
HOH
HOH
1089
A
HOH
85
4
HOH
HOH
1090
A
HOH
86
4
HOH
HOH
1091
A
HOH
87
4
HOH
HOH
1092
A
HOH
88
4
HOH
HOH
1093
A
HOH
89
4
HOH
HOH
1094
A
HOH
90
4
HOH
HOH
1095
A
HOH
91
4
HOH
HOH
1096
A
HOH
92
4
HOH
HOH
1097
A
HOH
93
4
HOH
HOH
1098
A
HOH
94
4
HOH
HOH
1099
A
HOH
95
4
HOH
HOH
1100
A
HOH
96
4
HOH
HOH
1101
A
HOH
97
4
HOH
HOH
1102
A
HOH
98
4
HOH
HOH
1103
A
HOH
99
4
HOH
HOH
1104
A
HOH
100
4
HOH
HOH
1105
A
HOH
101
4
HOH
HOH
1106
A
HOH
102
4
HOH
HOH
1107
A
HOH
103
4
HOH
HOH
1108
A
HOH
104
4
HOH
HOH
1109
A
HOH
105
4
HOH
HOH
1110
A
HOH
106
4
HOH
HOH
1111
A
HOH
107
4
HOH
HOH
1112
A
HOH
108
4
HOH
HOH
1113
A
HOH
109
4
HOH
HOH
1114
A
HOH
110
4
HOH
HOH
1115
A
HOH
111
4
HOH
HOH
1116
A
HOH
112
4
HOH
HOH
1117
A
HOH
113
4
HOH
HOH
1118
A
HOH
114
4
HOH
HOH
1119
A
HOH
115
4
HOH
HOH
1120
A
HOH
116
4
HOH
HOH
1121
A
HOH
117
4
HOH
HOH
1122
A
HOH
118
4
HOH
HOH
1123
A
HOH
119
4
HOH
HOH
1124
A
HOH
120
4
HOH
HOH
1125
A
HOH
121
4
HOH
HOH
1126
A
HOH
122
4
HOH
HOH
1127
A
HOH
123
4
HOH
HOH
1128
A
HOH
124
4
HOH
HOH
1129
A
HOH
125
4
HOH
HOH
1130
A
HOH
126
4
HOH
HOH
1131
A
HOH
127
4
HOH
HOH
1132
A
HOH
128
4
HOH
HOH
1133
A
HOH
129
4
HOH
HOH
1134
A
HOH
130
4
HOH
HOH
1135
A
HOH
131
4
HOH
HOH
1136
A
HOH
132
4
HOH
HOH
1137
A
HOH
133
4
HOH
HOH
1138
A
HOH
134
4
HOH
HOH
1139
A
HOH
135
4
HOH
HOH
1140
A
HOH
136
4
HOH
HOH
1141
A
HOH
137
4
HOH
HOH
1142
A
HOH
138
4
HOH
HOH
1143
A
HOH
139
4
HOH
HOH
1144
A
HOH
140
4
HOH
HOH
1145
A
HOH
141
4
HOH
HOH
1146
A
HOH
142
4
HOH
HOH
1147
A
HOH
143
4
HOH
HOH
1148
A
HOH
144
4
HOH
HOH
1149
A
HOH
145
4
HOH
HOH
1150
A
HOH
146
4
HOH
HOH
1151
A
HOH
147
4
HOH
HOH
1152
A
HOH
148
4
HOH
HOH
1153
A
HOH
149
4
HOH
HOH
1154
A
HOH
150
4
HOH
HOH
1155
A
HOH
151
4
HOH
HOH
1156
A
HOH
152
4
HOH
HOH
1157
A
HOH
153
4
HOH
HOH
1158
A
HOH
154
4
HOH
HOH
1159
A
HOH
155
4
HOH
HOH
1160
A
HOH
156
4
HOH
HOH
1161
A
HOH
157
4
HOH
HOH
1162
A
HOH
158
4
HOH
HOH
1163
A
HOH
159
4
HOH
HOH
1164
A
HOH
160
4
HOH
HOH
1165
A
HOH
161
4
HOH
HOH
1166
A
HOH
162
4
HOH
HOH
1167
A
HOH
163
4
HOH
HOH
1168
A
HOH
164
4
HOH
HOH
1169
A
HOH
165
4
HOH
HOH
1170
A
HOH
166
4
HOH
HOH
1171
A
HOH
167
4
HOH
HOH
1172
A
HOH
168
4
HOH
HOH
1173
A
HOH
169
4
HOH
HOH
1174
A
HOH
170
4
HOH
HOH
1175
A
HOH
171
4
HOH
HOH
1176
A
HOH
172
4
HOH
HOH
1177
A
HOH
173
4
HOH
HOH
1178
A
HOH
174
4
HOH
HOH
1179
A
HOH
175
4
HOH
HOH
1180
A
HOH
176
4
HOH
HOH
1181
A
HOH
177
4
HOH
HOH
1182
A
HOH
178
4
HOH
HOH
1183
A
HOH
179
4
HOH
HOH
1184
A
HOH
180
4
HOH
HOH
1185
A
HOH
181
4
HOH
HOH
1186
A
HOH
182
4
HOH
HOH
1187
A
HOH
183
4
HOH
HOH
1188
A
HOH
184
4
HOH
HOH
1189
A
HOH
185
4
HOH
HOH
1190
A
HOH
186
4
HOH
HOH
1191
A
HOH
187
4
HOH
HOH
1192
A
HOH
188
4
HOH
HOH
1193
A
HOH
189
4
HOH
HOH
1194
A
HOH
190
4
HOH
HOH
1195
A
HOH
191
4
HOH
HOH
1196
A
HOH
192
4
HOH
HOH
1197
A
HOH
193
4
HOH
HOH
1198
A
HOH
194
4
HOH
HOH
1199
A
HOH
195
4
HOH
HOH
1200
A
HOH
196
4
HOH
HOH
1201
A
HOH
197
4
HOH
HOH
1202
A
HOH
198
4
HOH
HOH
1203
A
HOH
199
4
HOH
HOH
1204
A
HOH
200
4
HOH
HOH
1205
A
HOH
201
4
HOH
HOH
1206
A
HOH
202
4
HOH
HOH
1207
A
HOH
203
4
HOH
HOH
1208
A
HOH
204
4
HOH
HOH
1209
A
HOH
205
4
HOH
HOH
1210
A
HOH
206
4
HOH
HOH
1211
A
HOH
207
4
HOH
HOH
1212
A
HOH
208
4
HOH
HOH
1213
A
HOH
209
4
HOH
HOH
1214
A
HOH
210
4
HOH
HOH
1215
A
HOH
211
4
HOH
HOH
1216
A
HOH
212
4
HOH
HOH
1217
A
HOH
213
4
HOH
HOH
1218
A
HOH
214
4
HOH
HOH
1219
A
HOH
215
4
HOH
HOH
1220
A
HOH
216
4
HOH
HOH
1221
A
HOH
217
4
HOH
HOH
1222
A
HOH
218
4
HOH
HOH
1223
A
HOH
219
4
HOH
HOH
1224
A
HOH
220
4
HOH
HOH
1225
A
HOH
221
4
HOH
HOH
1226
A
HOH
222
4
HOH
HOH
1227
A
HOH
223
4
HOH
HOH
1228
A
HOH
224
4
HOH
HOH
1229
A
HOH
225
4
HOH
HOH
1230
A
HOH
226
4
HOH
HOH
1231
A
HOH
227
4
HOH
HOH
1232
A
HOH
228
4
HOH
HOH
1233
A
HOH
229
4
HOH
HOH
1234
A
HOH
230
4
HOH
HOH
1235
A
HOH
231
4
HOH
HOH
1236
A
HOH
232
4
HOH
HOH
1237
A
HOH
233
4
HOH
HOH
1238
A
HOH
234
4
HOH
HOH
1239
A
HOH
235
4
HOH
HOH
1240
A
HOH
236
4
HOH
HOH
1241
A
HOH
237
4
HOH
HOH
1242
A
HOH
238
4
HOH
HOH
1243
A
HOH
239
4
HOH
HOH
1244
A
HOH
240
4
HOH
HOH
1245
A
HOH
241
4
HOH
HOH
1246
A
HOH
242
4
HOH
HOH
1247
A
HOH
243
4
HOH
HOH
1248
A
HOH
244
4
HOH
HOH
1249
A
HOH
245
4
HOH
HOH
1250
A
HOH
246
4
HOH
HOH
1251
A
HOH
247
4
HOH
HOH
1252
A
HOH
248
4
HOH
HOH
1253
A
HOH
249
4
HOH
HOH
1254
A
HOH
250
4
HOH
HOH
1255
A
HOH
251
4
HOH
HOH
1256
A
HOH
252
4
HOH
HOH
1257
A
HOH
253
4
HOH
HOH
1258
A
HOH
254
4
HOH
HOH
1259
A
HOH
255
4
HOH
HOH
1260
A
HOH
256
4
HOH
HOH
1261
A
HOH
257
4
HOH
HOH
1262
A
HOH
258
4
HOH
HOH
1263
A
HOH
259
4
HOH
HOH
1264
A
HOH
260
4
HOH
HOH
1265
A
HOH
261
4
HOH
HOH
1266
A
HOH
262
4
HOH
HOH
1267
A
HOH
263
4
HOH
HOH
1268
A
HOH
264
4
HOH
HOH
1269
A
HOH
265
4
HOH
HOH
1270
A
HOH
266
4
HOH
HOH
1271
A
HOH
267
4
HOH
HOH
1272
A
HOH
268
4
HOH
HOH
1273
A
HOH
269
4
HOH
HOH
1274
A
HOH
270
4
HOH
HOH
1275
A
HOH
271
4
HOH
HOH
1276
A
HOH
272
4
HOH
HOH
1277
A
HOH
273
4
HOH
HOH
1278
A
HOH
274
4
HOH
HOH
1279
A
HOH
275
4
HOH
HOH
1280
A
HOH
276
4
HOH
HOH
1281
A
HOH
277
4
HOH
HOH
1282
A
HOH
278
4
HOH
HOH
1283
A
HOH
279
4
HOH
HOH
1284
A
HOH
280
4
HOH
HOH
1285
A
HOH
281
4
HOH
HOH
1286
A
HOH
282
4
HOH
HOH
1287
A
HOH
283
4
HOH
HOH
1288
A
HOH
284
4
HOH
HOH
1289
A
HOH
285
4
HOH
HOH
1290
A
HOH
286
4
HOH
HOH
1291
A
HOH
287
4
HOH
HOH
1292
A
HOH
288
4
HOH
HOH
1293
A
HOH
289
4
HOH
HOH
1294
A
HOH
290
4
HOH
HOH
1295
A
HOH
291
4
HOH
HOH
1296
A
HOH
292
4
HOH
HOH
1297
A
HOH
293
4
HOH
HOH
1298
A
HOH
294
4
HOH
HOH
1299
A
HOH
295
4
HOH
HOH
1300
A
HOH
296
4
HOH
HOH
1301
A
HOH
297
4
HOH
HOH
1302
A
HOH
298
4
HOH
HOH
1303
A
HOH
299
4
HOH
HOH
1304
A
HOH
300
4
HOH
HOH
1305
A
HOH
301
4
HOH
HOH
1306
A
HOH
302
4
HOH
HOH
1307
A
HOH
303
4
HOH
HOH
1308
A
HOH
304
4
HOH
HOH
1309
A
HOH
305
4
HOH
HOH
1310
A
HOH
306
4
HOH
HOH
1311
A
HOH
307
4
HOH
HOH
1312
A
HOH
308
4
HOH
HOH
1313
A
HOH
309
4
HOH
HOH
1314
A
HOH
310
4
HOH
HOH
1315
A
HOH
311
4
HOH
HOH
1316
A
HOH
312
4
HOH
HOH
1317
A
HOH
313
4
HOH
HOH
1318
A
HOH
314
4
HOH
HOH
1319
A
HOH
315
4
HOH
HOH
1320
A
HOH
316
4
HOH
HOH
1321
A
HOH
317
4
HOH
HOH
1322
A
HOH
318
4
HOH
HOH
1323
A
HOH
319
4
HOH
HOH
1324
A
HOH
320
4
HOH
HOH
1325
A
HOH
321
4
HOH
HOH
1326
A
HOH
322
4
HOH
HOH
1327
A
HOH
323
4
HOH
HOH
1328
A
HOH
324
4
HOH
HOH
1329
A
HOH
325
4
HOH
HOH
1330
A
HOH
326
4
HOH
HOH
1331
A
HOH
327
4
HOH
HOH
1332
A
HOH
328
4
HOH
HOH
1333
A
HOH
329
4
HOH
HOH
1334
A
HOH
330
4
HOH
HOH
1335
A
HOH
331
4
HOH
HOH
1336
A
HOH
332
4
HOH
HOH
1337
A
HOH
333
4
HOH
HOH
1338
A
HOH
334
4
HOH
HOH
1339
A
HOH
335
4
HOH
HOH
1340
A
HOH
336
4
HOH
HOH
1341
A
HOH
337
4
HOH
HOH
1342
A
HOH
338
4
HOH
HOH
1343
A
HOH
339
4
HOH
HOH
1344
A
HOH
340
4
HOH
HOH
1345
A
HOH
341
4
HOH
HOH
1346
A
HOH
342
4
HOH
HOH
1347
A
HOH
343
4
HOH
HOH
1348
A
HOH
344
4
HOH
HOH
1349
A
HOH
345
4
HOH
HOH
1350
A
HOH
346
4
HOH
HOH
1351
A
HOH
347
4
HOH
HOH
1352
A
HOH
348
4
HOH
HOH
1353
A
HOH
349
4
HOH
HOH
1354
A
HOH
350
4
HOH
HOH
1355
A
HOH
351
4
HOH
HOH
1356
A
HOH
352
4
HOH
HOH
1357
A
HOH
353
4
HOH
HOH
1358
A
HOH
354
4
HOH
HOH
1359
A
HOH
355
4
HOH
HOH
1360
A
HOH
356
4
HOH
HOH
1361
A
HOH
357
4
HOH
HOH
1362
A
HOH
358
4
HOH
HOH
1363
A
HOH
359
4
HOH
HOH
1364
A
HOH
360
4
HOH
HOH
1365
A
HOH
361
4
HOH
HOH
1366
A
HOH
362
4
HOH
HOH
1367
A
HOH
363
4
HOH
HOH
1368
A
HOH
364
4
HOH
HOH
1369
A
HOH
365
4
HOH
HOH
1370
A
HOH
366
4
HOH
HOH
1371
A
HOH
367
4
HOH
HOH
1372
A
HOH
368
4
HOH
HOH
1373
A
HOH
369
4
HOH
HOH
1374
A
HOH
370
4
HOH
HOH
1375
A
HOH
371
4
HOH
HOH
1376
A
HOH
372
4
HOH
HOH
1377
A
HOH
373
4
HOH
HOH
1378
A
HOH
374
4
HOH
HOH
1379
A
HOH
375
4
HOH
HOH
1380
A
HOH
376
4
HOH
HOH
1381
A
HOH
377
4
HOH
HOH
1382
A
HOH
378
4
HOH
HOH
1383
A
HOH
379
4
HOH
HOH
1384
A
HOH
380
4
HOH
HOH
1385
A
HOH
381
4
HOH
HOH
1386
A
HOH
382
4
HOH
HOH
1387
A
HOH
383
4
HOH
HOH
1388
A
HOH
384
4
HOH
HOH
1389
A
HOH
385
4
HOH
HOH
1390
A
HOH
386
4
HOH
HOH
1391
A
HOH
387
4
HOH
HOH
1392
A
HOH
388
4
HOH
HOH
1393
A
HOH
389
4
HOH
HOH
1394
A
HOH
390
4
HOH
HOH
1395
A
HOH
391
4
HOH
HOH
1396
A
HOH
392
4
HOH
HOH
1397
A
HOH
393
4
HOH
HOH
1398
A
HOH
394
4
HOH
HOH
1399
A
HOH
395
4
HOH
HOH
1400
A
HOH
396
4
HOH
HOH
1401
A
HOH
397
4
HOH
HOH
1402
A
HOH
398
4
HOH
HOH
1403
A
HOH
399
4
HOH
HOH
1404
A
HOH
400
4
HOH
HOH
1405
A
HOH
401
4
HOH
HOH
1406
A
HOH
402
4
HOH
HOH
1407
A
HOH
403
4
HOH
HOH
1408
A
HOH
404
4
HOH
HOH
1409
A
HOH
405
4
HOH
HOH
1410
A
HOH
406
4
HOH
HOH
1411
A
HOH
407
4
HOH
HOH
1412
A
HOH
408
4
HOH
HOH
1413
A
HOH
409
4
HOH
HOH
1414
A
HOH
410
4
HOH
HOH
1415
A
HOH
411
4
HOH
HOH
1416
A
HOH
412
4
HOH
HOH
1417
A
HOH
413
4
HOH
HOH
1418
A
HOH
414
4
HOH
HOH
1419
A
HOH
415
4
HOH
HOH
1420
A
HOH
416
4
HOH
HOH
1421
A
HOH
417
4
HOH
HOH
1422
A
HOH
418
4
HOH
HOH
1423
A
HOH
419
4
HOH
HOH
1424
A
HOH
420
4
HOH
HOH
1425
A
HOH
421
4
HOH
HOH
1426
A
HOH
422
4
HOH
HOH
1427
A
HOH
423
4
HOH
HOH
1428
A
HOH
424
4
HOH
HOH
1429
A
HOH
425
4
HOH
HOH
1430
A
HOH
426
4
HOH
HOH
1431
A
HOH
427
4
HOH
HOH
1432
A
HOH
428
4
HOH
HOH
1433
A
HOH
429
4
HOH
HOH
1434
A
HOH
430
4
HOH
HOH
1435
A
HOH
431
4
HOH
HOH
1436
A
HOH
432
4
HOH
HOH
1437
A
HOH
433
4
HOH
HOH
1438
A
HOH
434
4
HOH
HOH
1439
A
HOH
435
4
HOH
HOH
1440
A
HOH
436
4
HOH
HOH
1441
A
HOH
437
4
HOH
HOH
1442
A
HOH
438
4
HOH
HOH
1443
A
HOH
439
4
HOH
HOH
1444
A
HOH
440
4
HOH
HOH
1445
A
HOH
441
4
HOH
HOH
1446
A
HOH
442
4
HOH
HOH
1447
A
HOH
443
4
HOH
HOH
1448
A
HOH
444
4
HOH
HOH
1449
A
HOH
445
4
HOH
HOH
1450
A
HOH
446
4
HOH
HOH
1451
A
HOH
447
4
HOH
HOH
1452
A
HOH
448
4
HOH
HOH
1453
A
HOH
449
4
HOH
HOH
1454
A
HOH
450
4
HOH
HOH
1455
A
HOH
451
4
HOH
HOH
1456
A
HOH
452
4
HOH
HOH
1457
A
HOH
453
4
HOH
HOH
1458
A
HOH
454
4
HOH
HOH
1459
A
HOH
455
4
HOH
HOH
1460
A
HOH
456
4
HOH
HOH
1461
A
HOH
457
4
HOH
HOH
1462
A
HOH
458
4
HOH
HOH
1463
A
HOH
459
4
HOH
HOH
1464
A
HOH
460
4
HOH
HOH
1465
A
HOH
461
4
HOH
HOH
1466
A
HOH
462
4
HOH
HOH
1467
A
HOH
463
4
HOH
HOH
1468
A
HOH
464
4
HOH
HOH
1469
A
HOH
465
4
HOH
HOH
1470
A
HOH
466
4
HOH
HOH
1471
A
HOH
467
4
HOH
HOH
1472
A
HOH
468
4
HOH
HOH
1473
A
HOH
469
4
HOH
HOH
1474
A
HOH
470
4
HOH
HOH
1475
A
HOH
471
4
HOH
HOH
1476
A
HOH
472
4
HOH
HOH
1477
A
HOH
473
4
HOH
HOH
1478
A
HOH
474
4
HOH
HOH
1479
A
HOH
475
4
HOH
HOH
1480
A
HOH
476
4
HOH
HOH
1481
A
HOH
477
4
HOH
HOH
1482
A
HOH
478
4
HOH
HOH
1483
A
HOH
479
4
HOH
HOH
1484
A
HOH
480
4
HOH
HOH
1485
A
HOH
481
4
HOH
HOH
1486
A
HOH
482
4
HOH
HOH
1487
A
HOH
483
4
HOH
HOH
1488
A
HOH
484
4
HOH
HOH
1489
A
HOH
485
4
HOH
HOH
1490
A
HOH
486
4
HOH
HOH
1491
A
HOH
487
4
HOH
HOH
1492
A
HOH
488
4
HOH
HOH
1493
A
HOH
489
4
HOH
HOH
1494
A
HOH
490
4
HOH
HOH
1495
A
HOH
491
4
HOH
HOH
1496
A
HOH
492
4
HOH
HOH
1497
A
MET
1
n
1
MET
1
A
ASN
2
n
2
ASN
2
A
TYR
3
n
3
TYR
3
A
GLN
4
n
4
GLN
4
A
MET
5
n
5
MET
5
A
ILE
6
n
6
ILE
6
A
THR
7
n
7
THR
7
A
THR
8
n
8
THR
8
A
ASP
9
n
9
ASP
9
A
ASP
10
n
10
ASP
10
A
ALA
11
n
11
ALA
11
A
LEU
12
n
12
LEU
12
A
ALA
13
n
13
ALA
13
A
SER
14
n
14
SER
14
A
LEU
15
n
15
LEU
15
A
CYS
16
n
16
CYS
16
A
GLU
17
n
17
GLU
17
A
ALA
18
n
18
ALA
18
A
VAL
19
n
19
VAL
19
A
ARG
20
n
20
ARG
20
A
ALA
21
n
21
ALA
21
A
PHE
22
n
22
PHE
22
A
PRO
23
n
23
PRO
23
A
ALA
24
n
24
ALA
24
A
ILE
25
n
25
ILE
25
A
ALA
26
n
26
ALA
26
A
LEU
27
n
27
LEU
27
A
ASP
28
n
28
ASP
28
A
THR
29
n
29
THR
29
A
GLU
30
n
30
GLU
30
A
PHE
31
n
31
PHE
31
A
VAL
32
n
32
VAL
32
A
ARG
33
n
33
ARG
33
A
THR
34
n
34
THR
34
A
ARG
35
n
35
ARG
35
A
THR
36
n
36
THR
36
A
TYR
37
n
37
TYR
37
A
TYR
38
n
38
TYR
38
A
PRO
39
n
39
PRO
39
A
GLN
40
n
40
GLN
40
A
LEU
41
n
41
LEU
41
A
GLY
42
n
42
GLY
42
A
LEU
43
n
43
LEU
43
A
ILE
44
n
44
ILE
44
A
GLN
45
n
45
GLN
45
A
LEU
46
n
46
LEU
46
A
PHE
47
n
47
PHE
47
A
ASP
48
n
48
ASP
48
A
GLY
49
n
49
GLY
49
A
GLU
50
n
50
GLU
50
A
HIS
51
n
51
HIS
51
A
LEU
52
n
52
LEU
52
A
ALA
53
n
53
ALA
53
A
LEU
54
n
54
LEU
54
A
ILE
55
n
55
ILE
55
A
ASP
56
n
56
ASP
56
A
PRO
57
n
57
PRO
57
A
LEU
58
n
58
LEU
58
A
GLY
59
n
59
GLY
59
A
ILE
60
n
60
ILE
60
A
THR
61
n
61
THR
61
A
ASP
62
n
62
ASP
62
A
TRP
63
n
63
TRP
63
A
SER
64
n
64
SER
64
A
PRO
65
n
65
PRO
65
A
LEU
66
n
66
LEU
66
A
LYS
67
n
67
LYS
67
A
ALA
68
n
68
ALA
68
A
ILE
69
n
69
ILE
69
A
LEU
70
n
70
LEU
70
A
ARG
71
n
71
ARG
71
A
ASP
72
n
72
ASP
72
A
PRO
73
n
73
PRO
73
A
SER
74
n
74
SER
74
A
ILE
75
n
75
ILE
75
A
THR
76
n
76
THR
76
A
LYS
77
n
77
LYS
77
A
PHE
78
n
78
PHE
78
A
LEU
79
n
79
LEU
79
A
HIS
80
n
80
HIS
80
A
ALA
81
n
81
ALA
81
A
GLY
82
n
82
GLY
82
A
SER
83
n
83
SER
83
A
GLU
84
n
84
GLU
84
A
ASP
85
n
85
ASP
85
A
LEU
86
n
86
LEU
86
A
GLU
87
n
87
GLU
87
A
VAL
88
n
88
VAL
88
A
PHE
89
n
89
PHE
89
A
LEU
90
n
90
LEU
90
A
ASN
91
n
91
ASN
91
A
VAL
92
n
92
VAL
92
A
PHE
93
n
93
PHE
93
A
GLY
94
n
94
GLY
94
A
GLU
95
n
95
GLU
95
A
LEU
96
n
96
LEU
96
A
PRO
97
n
97
PRO
97
A
GLN
98
n
98
GLN
98
A
PRO
99
n
99
PRO
99
A
LEU
100
n
100
LEU
100
A
ILE
101
n
101
ILE
101
A
ASP
102
n
102
ASP
102
A
THR
103
n
103
THR
103
A
GLN
104
n
104
GLN
104
A
ILE
105
n
105
ILE
105
A
LEU
106
n
106
LEU
106
A
ALA
107
n
107
ALA
107
A
ALA
108
n
108
ALA
108
A
PHE
109
n
109
PHE
109
A
CYS
110
n
110
CYS
110
A
GLY
111
n
111
GLY
111
A
ARG
112
n
112
ARG
112
A
PRO
113
n
113
PRO
113
A
MET
114
n
114
MET
114
A
SER
115
n
115
SER
115
A
TRP
116
n
116
TRP
116
A
GLY
117
n
117
GLY
117
A
PHE
118
n
118
PHE
118
A
ALA
119
n
119
ALA
119
A
SER
120
n
120
SER
120
A
MET
121
n
121
MET
121
A
VAL
122
n
122
VAL
122
A
GLU
123
n
123
GLU
123
A
GLU
124
n
124
GLU
124
A
TYR
125
n
125
TYR
125
A
SER
126
n
126
SER
126
A
GLY
127
n
127
GLY
127
A
VAL
128
n
128
VAL
128
A
THR
129
n
129
THR
129
A
LEU
130
n
130
LEU
130
A
ASP
131
n
131
ASP
131
A
LYS
132
n
132
LYS
132
A
SER
133
n
133
SER
133
A
GLU
134
n
134
GLU
134
A
SER
135
n
135
SER
135
A
ARG
136
n
136
ARG
136
A
THR
137
n
137
THR
137
A
ASP
138
n
138
ASP
138
A
TRP
139
n
139
TRP
139
A
LEU
140
n
140
LEU
140
A
ALA
141
n
141
ALA
141
A
ARG
142
n
142
ARG
142
A
PRO
143
n
143
PRO
143
A
LEU
144
n
144
LEU
144
A
THR
145
n
145
THR
145
A
GLU
146
n
146
GLU
146
A
ARG
147
n
147
ARG
147
A
GLN
148
n
148
GLN
148
A
CYS
149
n
149
CYS
149
A
GLU
150
n
150
GLU
150
A
TYR
151
n
151
TYR
151
A
ALA
152
n
152
ALA
152
A
ALA
153
n
153
ALA
153
A
ALA
154
n
154
ALA
154
A
ASP
155
n
155
ASP
155
A
VAL
156
n
156
VAL
156
A
TRP
157
n
157
TRP
157
A
TYR
158
n
158
TYR
158
A
LEU
159
n
159
LEU
159
A
LEU
160
n
160
LEU
160
A
PRO
161
n
161
PRO
161
A
ILE
162
n
162
ILE
162
A
THR
163
n
163
THR
163
A
ALA
164
n
164
ALA
164
A
LYS
165
n
165
LYS
165
A
LEU
166
n
166
LEU
166
A
MET
167
n
167
MET
167
A
VAL
168
n
168
VAL
168
A
GLU
169
n
169
GLU
169
A
THR
170
n
170
THR
170
A
GLU
171
n
171
GLU
171
A
ALA
172
n
172
ALA
172
A
SER
173
n
173
SER
173
A
GLY
174
n
174
GLY
174
A
TRP
175
n
175
TRP
175
A
LEU
176
n
176
LEU
176
A
PRO
177
n
177
PRO
177
A
ALA
178
n
178
ALA
178
A
ALA
179
n
179
ALA
179
A
LEU
180
n
180
LEU
180
A
ASP
181
n
181
ASP
181
A
GLU
182
n
182
GLU
182
A
CYS
183
n
183
CYS
183
A
ARG
184
n
184
ARG
184
A
LEU
185
n
185
LEU
185
A
MET
186
n
186
MET
186
A
GLN
187
n
187
GLN
187
A
MET
188
n
188
MET
188
A
ARG
189
n
189
ARG
189
A
ARG
190
n
190
ARG
190
A
GLN
191
n
191
GLN
191
A
GLU
192
n
192
GLU
192
A
VAL
193
n
193
VAL
193
A
VAL
194
n
194
VAL
194
A
ALA
195
n
195
ALA
195
A
PRO
196
n
196
PRO
196
A
GLU
197
n
197
GLU
197
A
ASP
198
n
198
ASP
198
A
ALA
199
n
199
ALA
199
A
TRP
200
n
200
TRP
200
A
ARG
201
n
201
ARG
201
A
ASP
202
n
202
ASP
202
A
ILE
203
n
203
ILE
203
A
THR
204
n
204
THR
204
A
ASN
205
n
205
ASN
205
A
ALA
206
n
206
ALA
206
A
TRP
207
n
207
TRP
207
A
GLN
208
n
208
GLN
208
A
LEU
209
n
209
LEU
209
A
ARG
210
n
210
ARG
210
A
THR
211
n
211
THR
211
A
ARG
212
n
212
ARG
212
A
GLN
213
n
213
GLN
213
A
LEU
214
n
214
LEU
214
A
ALA
215
n
215
ALA
215
A
CYS
216
n
216
CYS
216
A
LEU
217
n
217
LEU
217
A
GLN
218
n
218
GLN
218
A
LEU
219
n
219
LEU
219
A
LEU
220
n
220
LEU
220
A
ALA
221
n
221
ALA
221
A
ASP
222
n
222
ASP
222
A
TRP
223
n
223
TRP
223
A
ARG
224
n
224
ARG
224
A
LEU
225
n
225
LEU
225
A
ARG
226
n
226
ARG
226
A
LYS
227
n
227
LYS
227
A
ALA
228
n
228
ALA
228
A
ARG
229
n
229
ARG
229
A
GLU
230
n
230
GLU
230
A
ARG
231
n
231
ARG
231
A
ASP
232
n
232
ASP
232
A
LEU
233
n
233
LEU
233
A
ALA
234
n
234
ALA
234
A
VAL
235
n
235
VAL
235
A
ASN
236
n
236
ASN
236
A
PHE
237
n
237
PHE
237
A
VAL
238
n
238
VAL
238
A
VAL
239
n
239
VAL
239
A
ARG
240
n
240
ARG
240
A
GLU
241
n
241
GLU
241
A
GLU
242
n
242
GLU
242
A
HIS
243
n
243
HIS
243
A
LEU
244
n
244
LEU
244
A
TRP
245
n
245
TRP
245
A
SER
246
n
246
SER
246
A
VAL
247
n
247
VAL
247
A
ALA
248
n
248
ALA
248
A
ARG
249
n
249
ARG
249
A
TYR
250
n
250
TYR
250
A
MET
251
n
251
MET
251
A
PRO
252
n
252
PRO
252
A
GLY
253
n
253
GLY
253
A
SER
254
n
254
SER
254
A
LEU
255
n
255
LEU
255
A
GLY
256
n
256
GLY
256
A
GLU
257
n
257
GLU
257
A
LEU
258
n
258
LEU
258
A
ASP
259
n
259
ASP
259
A
SER
260
n
260
SER
260
A
LEU
261
n
261
LEU
261
A
GLY
262
n
262
GLY
262
A
LEU
263
n
263
LEU
263
A
SER
264
n
264
SER
264
A
GLY
265
n
265
GLY
265
A
SER
266
n
266
SER
266
A
GLU
267
n
267
GLU
267
A
ILE
268
n
268
ILE
268
A
ARG
269
n
269
ARG
269
A
PHE
270
n
270
PHE
270
A
HIS
271
n
271
HIS
271
A
GLY
272
n
272
GLY
272
A
LYS
273
n
273
LYS
273
A
THR
274
n
274
THR
274
A
LEU
275
n
275
LEU
275
A
LEU
276
n
276
LEU
276
A
ALA
277
n
277
ALA
277
A
LEU
278
n
278
LEU
278
A
VAL
279
n
279
VAL
279
A
GLU
280
n
280
GLU
280
A
LYS
281
n
281
LYS
281
A
ALA
282
n
282
ALA
282
A
GLN
283
n
283
GLN
283
A
THR
284
n
284
THR
284
A
LEU
285
n
285
LEU
285
A
PRO
286
n
286
PRO
286
A
GLU
287
n
287
GLU
287
A
ASP
288
n
288
ASP
288
A
ALA
289
n
289
ALA
289
A
LEU
290
n
290
LEU
290
A
PRO
291
n
291
PRO
291
A
GLN
292
n
292
GLN
292
A
PRO
293
n
293
PRO
293
A
MET
294
n
294
MET
294
A
LEU
295
n
295
LEU
295
A
ASN
296
n
296
ASN
296
A
LEU
297
n
297
LEU
297
A
MET
298
n
298
MET
298
A
ASP
299
n
299
ASP
299
A
MET
300
n
300
MET
300
A
PRO
301
n
301
PRO
301
A
GLY
302
n
302
GLY
302
A
TYR
303
n
303
TYR
303
A
ARG
304
n
304
ARG
304
A
LYS
305
n
305
LYS
305
A
ALA
306
n
306
ALA
306
A
PHE
307
n
307
PHE
307
A
LYS
308
n
308
LYS
308
A
ALA
309
n
309
ALA
309
A
ILE
310
n
310
ILE
310
A
LYS
311
n
311
LYS
311
A
SER
312
n
312
SER
312
A
LEU
313
n
313
LEU
313
A
ILE
314
n
314
ILE
314
A
THR
315
n
315
THR
315
A
ASP
316
n
316
ASP
316
A
VAL
317
n
317
VAL
317
A
SER
318
n
318
SER
318
A
GLU
319
n
319
GLU
319
A
THR
320
n
320
THR
320
A
HIS
321
n
321
HIS
321
A
LYS
322
n
322
LYS
322
A
ILE
323
n
323
ILE
323
A
SER
324
n
324
SER
324
A
ALA
325
n
325
ALA
325
A
GLU
326
n
326
GLU
326
A
LEU
327
n
327
LEU
327
A
LEU
328
n
328
LEU
328
A
ALA
329
n
329
ALA
329
A
SER
330
n
330
SER
330
A
ARG
331
n
331
ARG
331
A
ARG
332
n
332
ARG
332
A
GLN
333
n
333
GLN
333
A
ILE
334
n
334
ILE
334
A
ASN
335
n
335
ASN
335
A
GLN
336
n
336
GLN
336
A
LEU
337
n
337
LEU
337
A
LEU
338
n
338
LEU
338
A
ASN
339
n
339
ASN
339
A
TRP
340
n
340
TRP
340
A
HIS
341
n
341
HIS
341
A
TRP
342
n
342
TRP
342
A
LYS
343
n
343
LYS
343
A
LEU
344
n
344
LEU
344
A
LYS
345
n
345
LYS
345
A
PRO
346
n
346
PRO
346
A
GLN
347
n
347
GLN
347
A
ASN
348
n
348
ASN
348
A
ASN
349
n
349
ASN
349
A
LEU
350
n
350
LEU
350
A
PRO
351
n
351
PRO
351
A
GLU
352
n
352
GLU
352
A
LEU
353
n
353
LEU
353
A
ILE
354
n
354
ILE
354
A
SER
355
n
355
SER
355
A
GLY
356
n
356
GLY
356
A
TRP
357
n
357
TRP
357
A
ARG
358
n
358
ARG
358
A
GLY
359
n
359
GLY
359
A
GLU
360
n
360
GLU
360
A
LEU
361
n
361
LEU
361
A
MET
362
n
362
MET
362
A
ALA
363
n
363
ALA
363
A
GLU
364
n
364
GLU
364
A
ALA
365
n
365
ALA
365
A
LEU
366
n
366
LEU
366
A
HIS
367
n
367
HIS
367
A
ASN
368
n
368
ASN
368
A
LEU
369
n
369
LEU
369
A
LEU
370
n
370
LEU
370
A
GLN
371
n
371
GLN
371
A
GLU
372
n
372
GLU
372
A
TYR
373
n
373
TYR
373
A
PRO
374
n
374
PRO
374
A
GLN
375
n
375
GLN
375
A
author_defined_assembly
1
monomeric
A
ASP
28
A
A
OD2
ASP
28
1_555
A
ZN
1001
A
I
ZN
ZN
1_555
A
GLU
30
A
OE2
GLU
30
1_555
97.8
A
ASP
28
A
A
OD2
ASP
28
1_555
A
ZN
1001
A
I
ZN
ZN
1_555
A
ASP
155
A
OD2
ASP
155
1_555
108.0
A
GLU
30
A
OE2
GLU
30
1_555
A
ZN
1001
A
I
ZN
ZN
1_555
A
ASP
155
A
OD2
ASP
155
1_555
115.0
A
ASP
28
A
A
OD2
ASP
28
1_555
A
ZN
1001
A
I
ZN
ZN
1_555
A
HOH
1184
N
O
HOH
1_555
103.2
A
GLU
30
A
OE2
GLU
30
1_555
A
ZN
1001
A
I
ZN
ZN
1_555
A
HOH
1184
N
O
HOH
1_555
117.5
A
ASP
155
A
OD2
ASP
155
1_555
A
ZN
1001
A
I
ZN
ZN
1_555
A
HOH
1184
N
O
HOH
1_555
112.8
A
GLU
30
A
OE2
GLU
30
1_555
A
ZN
1001
B
I
ZN
ZN
1_555
A
ASP
155
A
OD2
ASP
155
1_555
128.3
A
GLU
30
A
OE2
GLU
30
1_555
A
ZN
1001
B
I
ZN
ZN
1_555
A
HOH
1184
N
O
HOH
1_555
102.1
A
ASP
155
A
OD2
ASP
155
1_555
A
ZN
1001
B
I
ZN
ZN
1_555
A
HOH
1184
N
O
HOH
1_555
83.5
A
ASP
85
A
OD1
ASP
85
1_555
A
ZN
1002
J
ZN
ZN
1_555
A
ASP
85
A
OD2
ASP
85
1_555
53.8
A
ASP
85
A
OD1
ASP
85
1_555
A
ZN
1002
J
ZN
ZN
1_555
A
HOH
1181
N
O
HOH
1_555
132.2
A
ASP
85
A
OD2
ASP
85
1_555
A
ZN
1002
J
ZN
ZN
1_555
A
HOH
1181
N
O
HOH
1_555
84.4
A
ASP
85
A
OD1
ASP
85
1_555
A
ZN
1002
J
ZN
ZN
1_555
A
HOH
1188
N
O
HOH
1_555
70.2
A
ASP
85
A
OD2
ASP
85
1_555
A
ZN
1002
J
ZN
ZN
1_555
A
HOH
1188
N
O
HOH
1_555
120.3
A
HOH
1181
N
O
HOH
1_555
A
ZN
1002
J
ZN
ZN
1_555
A
HOH
1188
N
O
HOH
1_555
155.3
A
HOH
1410
N
O
HOH
1_555
A
ZN
1003
K
ZN
ZN
1_555
A
HOH
1412
N
O
HOH
1_555
140.9
A
HOH
1011
N
O
HOH
1_555
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1012
N
O
HOH
1_555
101.5
A
HOH
1011
N
O
HOH
1_555
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1013
N
O
HOH
1_555
107.0
A
HOH
1012
N
O
HOH
1_555
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1013
N
O
HOH
1_555
78.2
A
HOH
1011
N
O
HOH
1_555
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1488
N
O
HOH
1_555
125.9
A
HOH
1012
N
O
HOH
1_555
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1488
N
O
HOH
1_555
131.4
A
HOH
1013
N
O
HOH
1_555
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1488
N
O
HOH
1_555
95.5
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
N
ILE
6
A
N
ILE
6
A
O
LEU
54
A
O
LEU
54
A
O
ILE
55
A
O
ILE
55
A
N
ILE
44
A
N
ILE
44
A
O
PHE
47
A
O
PHE
47
A
N
ALA
26
A
N
ALA
26
A
N
LEU
27
A
N
LEU
27
A
O
PHE
78
A
O
PHE
78
A
N
LYS
77
A
N
LYS
77
A
O
ILE
101
A
O
ILE
101
1
A
NE
ARG
35
A
NE
ARG
35
0
Y
1
A
CZ
ARG
35
A
CZ
ARG
35
0
Y
1
A
NH1
ARG
35
A
NH1
ARG
35
0
Y
1
A
NH2
ARG
35
A
NH2
ARG
35
0
Y
1
A
CG
ARG
136
A
CG
ARG
136
0
Y
1
A
CD
ARG
136
A
CD
ARG
136
0
Y
1
A
NE
ARG
136
A
NE
ARG
136
0
Y
1
A
CZ
ARG
136
A
CZ
ARG
136
0
Y
1
A
NH1
ARG
136
A
NH1
ARG
136
0
Y
1
A
NH2
ARG
136
A
NH2
ARG
136
0
Y
1
A
THR
34
-118.98
-149.40
1
A
ARG
136
-100.36
69.62
PROTEIN_REP.PARAM
PROTEIN.TOP
DNA-RNA_REP.PARAM
DNA-RNA.TOP
WATER_REP.PARAM
WATER.TOP
ION.PARAM
ION.TOP
22.6
6.98
0.00
0.00
-2.65
0.00
-4.33
0.216
0.004
0.196
0.1961
0.1961
1.60
26.95
2727
57290
54165
5.0
95.3
RANDOM
550639.45
0.000000
1
RESTRAINED
THROUGHOUT
0.0
MOLECULAR REPLACEMENT
A 1.9 A structure of RNase D obtained by MIR phasing using 5 Hg sites and one Zn site.
Engh & Huber
FLAT MODEL
45.2295
0.370601
0.20
0.18
5.00
0.15
0.12
1.60
26.95
492
3590
41
0
3057
0.005
1.2
20.8
0.82
1.17
1.50
1.82
2.00
1.96
2.00
2.94
2.50
0.258
0.017
0.249
1.66
232
4373
10
5.0
82.8
18.8
1.60
26.95
1YT3
57290
55994
0
-3.0
0.044
1
32.8
5.6
97.8
0.24
1.60
1.66
5.7
86.6
data reduction
DENZO
data scaling
SCALEPACK
refinement
CNS
phasing
CNS
Crystal Structure of Escherichia coli RNase D, an exoribonuclease involved in structured RNA processing
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
4
N
N
A
THR
8
A
THR
8
HELX_P
A
ARG
20
A
ARG
20
1
1
13
A
PRO
57
A
PRO
57
HELX_P
A
ILE
60
A
ILE
60
5
2
4
A
TRP
63
A
TRP
63
HELX_P
A
ASP
72
A
ASP
72
1
3
10
A
GLY
82
A
GLY
82
HELX_P
A
GLY
94
A
GLY
94
1
4
13
A
THR
103
A
THR
103
HELX_P
A
CYS
110
A
CYS
110
1
5
8
A
GLY
117
A
GLY
117
HELX_P
A
GLY
127
A
GLY
127
1
6
11
A
THR
145
A
THR
145
HELX_P
A
TYR
158
A
TYR
158
1
7
14
A
TYR
158
A
TYR
158
HELX_P
A
SER
173
A
SER
173
1
8
16
A
TRP
175
A
TRP
175
HELX_P
A
GLU
192
A
GLU
192
1
9
18
A
ALA
195
A
ALA
195
HELX_P
A
ILE
203
A
ILE
203
5
10
9
A
ASN
205
A
ASN
205
HELX_P
A
LEU
209
A
LEU
209
5
11
5
A
ARG
210
A
ARG
210
HELX_P
A
ASP
232
A
ASP
232
1
12
23
A
ALA
234
A
ALA
234
HELX_P
A
VAL
238
A
VAL
238
5
13
5
A
ARG
240
A
ARG
240
HELX_P
A
MET
251
A
MET
251
1
14
12
A
SER
254
A
SER
254
HELX_P
A
LEU
261
A
LEU
261
1
15
8
A
SER
264
A
SER
264
HELX_P
A
LEU
285
A
LEU
285
1
16
22
A
PRO
286
A
PRO
286
HELX_P
A
LEU
290
A
LEU
290
5
17
5
A
ASN
296
A
ASN
296
HELX_P
A
MET
300
A
MET
300
5
18
5
A
GLY
302
A
GLY
302
HELX_P
A
LYS
322
A
LYS
322
1
19
21
A
SER
324
A
SER
324
HELX_P
A
ALA
329
A
ALA
329
1
20
6
A
SER
330
A
SER
330
HELX_P
A
TRP
342
A
TRP
342
1
21
13
A
PRO
351
A
PRO
351
HELX_P
A
ILE
354
A
ILE
354
5
22
4
A
SER
355
A
SER
355
HELX_P
A
GLN
371
A
GLN
371
1
23
17
metalc
2.020
B
A
GLU
17
A
OE1
GLU
17
1_555
A
ZN
1005
M
ZN
ZN
1_555
metalc
1.910
A
A
A
ASP
28
A
OD2
ASP
28
1_555
A
ZN
1001
I
ZN
ZN
1_555
metalc
2.125
A
A
GLU
30
A
OE2
GLU
30
1_555
A
ZN
1001
I
ZN
ZN
1_555
metalc
1.720
B
A
GLU
30
A
OE2
GLU
30
1_555
A
ZN
1001
I
ZN
ZN
1_555
metalc
2.595
A
ASP
85
A
OD1
ASP
85
1_555
A
ZN
1002
J
ZN
ZN
1_555
metalc
2.191
A
ASP
85
A
OD2
ASP
85
1_555
A
ZN
1002
J
ZN
ZN
1_555
metalc
1.857
A
A
ASP
155
A
OD2
ASP
155
1_555
A
ZN
1001
I
ZN
ZN
1_555
metalc
2.014
B
A
ASP
155
A
OD2
ASP
155
1_555
A
ZN
1001
I
ZN
ZN
1_555
metalc
1.947
A
A
ZN
1001
I
ZN
ZN
1_555
A
HOH
1184
N
O
HOH
1_555
metalc
2.688
B
A
ZN
1001
I
ZN
ZN
1_555
A
HOH
1184
N
O
HOH
1_555
metalc
1.737
A
ZN
1002
J
ZN
ZN
1_555
A
HOH
1181
N
O
HOH
1_555
metalc
2.147
A
ZN
1002
J
ZN
ZN
1_555
A
HOH
1188
N
O
HOH
1_555
metalc
2.037
A
ZN
1003
K
ZN
ZN
1_555
A
HOH
1410
N
O
HOH
1_555
metalc
2.272
A
ZN
1003
K
ZN
ZN
1_555
A
HOH
1412
N
O
HOH
1_555
metalc
1.961
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1011
N
O
HOH
1_555
metalc
2.428
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1012
N
O
HOH
1_555
metalc
2.298
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1013
N
O
HOH
1_555
metalc
2.304
A
ZN
1004
L
ZN
ZN
1_555
A
HOH
1488
N
O
HOH
1_555
HYDROLASE,TRANSLATION
RNase; exoribonuclease; ribonuclease; exonuclease; nuclease; hydrolase; tRNA processing, HYDROLASE, TRANSLATION
A
GLN
98
A
GLN
98
1
A
PRO
99
A
PRO
99
-0.72
A
ARG
142
A
ARG
142
1
A
PRO
143
A
PRO
143
-1.18
RND_ECOLI
UNP
1
1
P09155
MNYQMITTDDALASLCEAVRAFPAIALDTEFVRTRTYYPQLGLIQLFDGEHLALIDPLGITDWSPLKAILRDPSITKFLH
AGSEDLEVFLNVFGELPQPLIDTQILAAFCGRPMSWGFASMVEEYSGVTLDKSESRTDWLARPLTERQCEYAAADVWYLL
PITAKLMVETEASGWLPAALDECRLMQMRRQEVVAPEDAWRDITNAWQLRTRQLACLQLLADWRLRKARERDLAVNFVVR
EEHLWSVARYMPGSLGELDSLGLSGSEIRFHGKTLLALVEKAQTLPEDALPQPMLNLMDMPGYRKAFKAIKSLITDVSET
HKISAELLASRRQINQLLNWHWKLKPQNNLPELISGWRGELMAEALHNLLQEYPQ
1
375
1YT3
1
375
P09155
A
1
1
375
6
parallel
anti-parallel
anti-parallel
parallel
parallel
A
GLN
4
A
GLN
4
A
ILE
6
A
ILE
6
A
LEU
52
A
LEU
52
A
ILE
55
A
ILE
55
A
GLN
40
A
GLN
40
A
PHE
47
A
PHE
47
A
ALA
24
A
ALA
24
A
VAL
32
A
VAL
32
A
THR
76
A
THR
76
A
LEU
79
A
LEU
79
A
LEU
100
A
LEU
100
A
ASP
102
A
ASP
102
BINDING SITE FOR RESIDUE SO4 A 601
A
SO4
601
Software
8
BINDING SITE FOR RESIDUE SO4 A 602
A
SO4
602
Software
8
BINDING SITE FOR RESIDUE SO4 A 603
A
SO4
603
Software
6
BINDING SITE FOR RESIDUE SO4 A 604
A
SO4
604
Software
6
BINDING SITE FOR RESIDUE SO4 A 605
A
SO4
605
Software
4
BINDING SITE FOR RESIDUE SO4 A 606
A
SO4
606
Software
5
BINDING SITE FOR RESIDUE SO4 A 607
A
SO4
607
Software
6
BINDING SITE FOR RESIDUE ZN A 1001
A
ZN
1001
Software
6
BINDING SITE FOR RESIDUE ZN A 1002
A
ZN
1002
Software
5
BINDING SITE FOR RESIDUE ZN A 1003
A
ZN
1003
Software
2
BINDING SITE FOR RESIDUE ZN A 1004
A
ZN
1004
Software
5
BINDING SITE FOR RESIDUE ZN A 1005
A
ZN
1005
Software
2
A
PRO
301
A
PRO
301
8
1_555
A
GLY
302
A
GLY
302
8
1_555
A
TYR
303
A
TYR
303
8
1_555
A
ARG
304
A
ARG
304
8
1_555
A
LYS
305
A
LYS
305
8
1_555
A
HOH
1076
N
HOH
8
1_555
A
HOH
1078
N
HOH
8
1_555
A
HOH
1487
N
HOH
8
1_555
A
LYS
227
A
LYS
227
8
4_556
A
ARG
231
A
ARG
231
8
4_556
A
HIS
271
A
HIS
271
8
4_556
A
ARG
331
A
ARG
331
8
1_555
A
HOH
1010
N
HOH
8
4_556
A
HOH
1117
N
HOH
8
1_555
A
HOH
1118
N
HOH
8
1_555
A
HOH
1472
N
HOH
8
4_556
A
GLN
336
A
GLN
336
6
1_555
A
LYS
345
A
LYS
345
6
1_555
A
GLN
347
A
GLN
347
6
1_555
A
HOH
1055
N
HOH
6
1_555
A
HOH
1112
N
HOH
6
1_555
A
HOH
1114
N
HOH
6
1_555
A
LYS
273
A
LYS
273
6
4_556
A
SER
330
A
SER
330
6
1_555
A
ARG
331
A
ARG
331
6
1_555
A
HOH
1009
N
HOH
6
4_556
A
HOH
1109
N
HOH
6
1_555
A
HOH
1486
N
HOH
6
1_555
A
SER
266
A
SER
266
4
4_556
A
ARG
269
A
ARG
269
4
4_556
A
LYS
308
A
LYS
308
4
1_555
A
HOH
1329
N
HOH
4
4_556
A
ARG
240
A
ARG
240
5
1_555
A
SER
264
A
SER
264
5
1_555
A
SER
266
A
SER
266
5
1_555
A
HOH
1329
N
HOH
5
1_555
A
HOH
1333
N
HOH
5
1_555
A
ARG
189
A
ARG
189
6
1_555
A
SER
330
A
SER
330
6
1_555
A
ARG
332
A
ARG
332
6
1_555
A
HOH
1109
N
HOH
6
1_555
A
HOH
1110
N
HOH
6
1_555
A
HOH
1199
N
HOH
6
1_555
A
ASP
28
A
ASP
28
6
1_555
A
GLU
30
A
GLU
30
6
1_555
A
TYR
151
A
TYR
151
6
1_555
A
ASP
155
A
ASP
155
6
1_555
A
HOH
1184
N
HOH
6
1_555
A
HOH
1185
N
HOH
6
1_555
A
ASP
28
A
ASP
28
5
1_555
A
ASP
85
A
ASP
85
5
1_555
A
HOH
1180
N
HOH
5
1_555
A
HOH
1181
N
HOH
5
1_555
A
HOH
1188
N
HOH
5
1_555
A
HOH
1410
N
HOH
2
1_555
A
HOH
1412
N
HOH
2
1_555
A
ARG
331
A
ARG
331
5
4_456
A
HOH
1011
N
HOH
5
1_555
A
HOH
1012
N
HOH
5
1_555
A
HOH
1013
N
HOH
5
1_555
A
HOH
1488
N
HOH
5
1_555
A
GLU
17
A
GLU
17
2
1_555
A
HOH
1416
N
HOH
2
1_555
19
orthorhombic
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