0.024624
0.000000
0.008803
-0.000000
0.017029
0.000000
0.000000
-0.000000
0.024537
0.00000
0.00000
0.00000
Suematsu, K.
Ueda, T.
Nakashima, T.
Kakuta, Y.
Kimura, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
2
90.00
109.67
90.00
40.610
58.725
43.280
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
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
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
non-polymer
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
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
S
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
C
N
80
N
C
N
81
N
O
N
82
N
N
N
83
N
O
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
N
N
95
S
C
N
96
N
C
N
97
N
O
N
98
N
C
N
99
N
C
N
100
N
C
N
101
N
O
N
102
N
O
N
103
N
O
N
104
N
H
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
N
N
114
N
C
N
115
N
C
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
C
N
124
N
O
N
125
N
C
N
126
N
O
N
127
N
C
N
128
N
O
N
129
N
H
N
130
N
H
N
131
N
H
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
N
N
305
S
C
N
306
N
C
N
307
N
O
N
308
R
C
N
309
N
O
N
310
N
C
N
311
N
O
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
Y
326
N
C
Y
327
N
C
Y
328
N
C
Y
329
N
N
Y
330
N
C
Y
331
N
C
Y
332
N
C
Y
333
N
C
Y
334
N
C
N
335
N
O
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
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
N
N
349
S
C
N
350
N
C
N
351
N
O
N
352
N
C
Y
353
N
C
Y
354
N
C
Y
355
N
C
Y
356
N
C
Y
357
N
C
Y
358
N
C
N
359
N
O
N
360
N
O
N
361
N
H
N
362
N
H
N
363
N
H
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
N
N
373
S
C
N
374
N
C
N
375
N
O
N
376
N
C
N
377
N
C
N
378
N
C
N
379
N
O
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
H
N
387
N
H
N
388
N
H
N
389
N
H
N
390
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
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
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
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
doub
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
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
Y
317
N
doub
Y
318
N
sing
Y
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
sing
Y
326
N
doub
N
327
N
sing
Y
328
N
doub
N
329
N
sing
Y
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
doub
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
Y
345
N
doub
Y
346
N
sing
Y
347
N
sing
N
348
N
sing
Y
349
N
doub
N
350
N
sing
Y
351
N
doub
N
352
N
sing
Y
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
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
JA
Biosci.Biotechnol.Biochem.
BBBIEJ
2094
0916-8451
79
952
959
10.1080/09168451.2014.1003130
25704799
On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis.
2015
10.2210/pdb3wyz/pdb
pdb_00003wyz
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
RAYONIX MX300HE
SINGLE WAVELENGTH
M
x-ray
1
0.9
1.0
BL44XU
SPring-8
0.9
SYNCHROTRON
SPRING-8 BEAMLINE BL44XU
25306.330
Ribonuclease P protein component 3
3.1.26.5
1
man
polymer
92.094
GLYCEROL
1
syn
non-polymer
18.015
water
39
nat
water
RNase P component 3, Rpp30
no
no
MSEEEVSFSRDYFVEMDVRDEEAHELASDWFDEVVFTKKLVLEDPPDWGSLKEELKELRGKYGKVALLLVTRKPSLIREV
KSRNLKALLYVQGGDMRINRMAIESGVDALISPWFGRKDPGFDHTLAGMAARRGVAIGFSLSPLLNANPYGRAQILRFMM
KTWQLVKKYRVPRFITSSAESRWEVRGPRDLMSLGINIGMEIPEARASLNFYPRTIVWKL
MSEEEVSFSRDYFVEMDVRDEEAHELASDWFDEVVFTKKLVLEDPPDWGSLKEELKELRGKYGKVALLLVTRKPSLIREV
KSRNLKALLYVQGGDMRINRMAIESGVDALISPWFGRKDPGFDHTLAGMAARRGVAIGFSLSPLLNANPYGRAQILRFMM
KTWQLVKKYRVPRFITSSAESRWEVRGPRDLMSLGINIGMEIPEARASLNFYPRTIVWKL
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
sample
rnp3, TK1450
69014
Thermococcus kodakarensis KOD1
562
Escherichia coli
1
1.92
35.95
Purification
7.5
50mM Tris-HCl (pH 7.5), 200mM NaCl, 10mM MgCl2, Purification, temperature 283K
283
software
chem_comp_atom
chem_comp_bond
database_2
struct_site
repository
Initial release
Refinement description
Data collection
Database references
Derived calculations
1
0
2015-09-16
1
1
2017-11-22
1
2
2024-03-20
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
PDBJ
Y
PDBJ
2014-09-11
REL
REL
GOL
GLYCEROL
HOH
water
GOL
1
2
GOL
GOL
301
A
HOH
19
3
HOH
HOH
401
A
HOH
20
3
HOH
HOH
402
A
HOH
31
3
HOH
HOH
403
A
HOH
37
3
HOH
HOH
404
A
HOH
39
3
HOH
HOH
405
A
HOH
40
3
HOH
HOH
406
A
HOH
43
3
HOH
HOH
407
A
HOH
48
3
HOH
HOH
408
A
HOH
50
3
HOH
HOH
409
A
HOH
51
3
HOH
HOH
410
A
HOH
53
3
HOH
HOH
411
A
HOH
54
3
HOH
HOH
412
A
HOH
55
3
HOH
HOH
413
A
HOH
56
3
HOH
HOH
414
A
HOH
59
3
HOH
HOH
415
A
HOH
80
3
HOH
HOH
416
A
HOH
87
3
HOH
HOH
417
A
HOH
88
3
HOH
HOH
418
A
HOH
102
3
HOH
HOH
419
A
HOH
113
3
HOH
HOH
420
A
HOH
114
3
HOH
HOH
421
A
HOH
131
3
HOH
HOH
422
A
HOH
133
3
HOH
HOH
423
A
HOH
135
3
HOH
HOH
424
A
HOH
136
3
HOH
HOH
425
A
HOH
137
3
HOH
HOH
426
A
HOH
140
3
HOH
HOH
427
A
HOH
142
3
HOH
HOH
428
A
HOH
150
3
HOH
HOH
429
A
HOH
189
3
HOH
HOH
430
A
HOH
230
3
HOH
HOH
431
A
HOH
235
3
HOH
HOH
432
A
HOH
265
3
HOH
HOH
433
A
HOH
268
3
HOH
HOH
434
A
HOH
269
3
HOH
HOH
435
A
HOH
272
3
HOH
HOH
436
A
HOH
273
3
HOH
HOH
437
A
HOH
288
3
HOH
HOH
438
A
HOH
289
3
HOH
HOH
439
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
n
7
7
A
PHE
8
n
8
PHE
8
A
SER
9
n
9
SER
9
A
ARG
10
n
10
ARG
10
A
ASP
11
n
11
ASP
11
A
TYR
12
n
12
TYR
12
A
PHE
13
n
13
PHE
13
A
VAL
14
n
14
VAL
14
A
GLU
15
n
15
GLU
15
A
MET
16
n
16
MET
16
A
ASP
17
n
17
ASP
17
A
VAL
18
n
18
VAL
18
A
ARG
19
n
19
ARG
19
A
ASP
20
n
20
ASP
20
A
GLU
21
n
21
GLU
21
A
GLU
22
n
22
GLU
22
A
ALA
23
n
23
ALA
23
A
HIS
24
n
24
HIS
24
A
GLU
25
n
25
GLU
25
A
LEU
26
n
26
LEU
26
A
ALA
27
n
27
ALA
27
A
SER
28
n
28
SER
28
A
ASP
29
n
29
ASP
29
A
TRP
30
n
30
TRP
30
A
PHE
31
n
31
PHE
31
A
ASP
32
n
32
ASP
32
A
GLU
33
n
33
GLU
33
A
VAL
34
n
34
VAL
34
A
VAL
35
n
35
VAL
35
A
PHE
36
n
36
PHE
36
A
THR
37
n
37
THR
37
A
LYS
38
n
38
LYS
38
A
LYS
39
n
39
LYS
39
A
LEU
40
n
40
LEU
40
A
VAL
41
n
41
VAL
41
A
LEU
42
n
42
LEU
42
A
GLU
43
n
43
GLU
43
A
ASP
44
n
44
ASP
44
A
PRO
45
n
45
PRO
45
A
PRO
46
n
46
PRO
46
A
ASP
47
n
47
ASP
47
A
TRP
48
n
48
TRP
48
A
GLY
49
n
49
GLY
49
A
SER
50
n
50
SER
50
A
LEU
51
n
51
LEU
51
A
LYS
52
n
52
LYS
52
A
GLU
53
n
53
GLU
53
A
GLU
54
n
54
GLU
54
A
LEU
55
n
55
LEU
55
A
LYS
56
n
56
LYS
56
A
GLU
57
n
57
GLU
57
A
LEU
58
n
58
LEU
58
A
ARG
59
n
59
ARG
59
A
GLY
60
n
60
GLY
60
A
LYS
61
n
61
LYS
61
A
TYR
62
n
62
TYR
62
A
GLY
63
n
63
GLY
63
A
LYS
64
n
64
LYS
64
A
VAL
65
n
65
VAL
65
A
ALA
66
n
66
ALA
66
A
LEU
67
n
67
LEU
67
A
LEU
68
n
68
LEU
68
A
LEU
69
n
69
LEU
69
A
VAL
70
n
70
VAL
70
A
THR
71
n
71
THR
71
A
ARG
72
n
72
ARG
72
A
LYS
73
n
73
LYS
73
A
PRO
74
n
74
PRO
74
A
SER
75
n
75
SER
75
A
LEU
76
n
76
LEU
76
A
ILE
77
n
77
ILE
77
A
ARG
78
n
78
ARG
78
A
GLU
79
n
79
GLU
79
A
VAL
80
n
80
VAL
80
A
LYS
81
n
81
LYS
81
A
SER
82
n
82
SER
82
A
ARG
83
n
83
ARG
83
A
ASN
84
n
84
ASN
84
A
LEU
85
n
85
LEU
85
A
LYS
86
n
86
LYS
86
A
ALA
87
n
87
ALA
87
A
LEU
88
n
88
LEU
88
A
LEU
89
n
89
LEU
89
A
TYR
90
n
90
TYR
90
A
VAL
91
n
91
VAL
91
A
GLN
92
n
92
GLN
92
A
GLY
93
n
93
GLY
93
A
GLY
94
n
94
GLY
94
A
ASP
95
n
95
ASP
95
A
MET
96
n
96
MET
96
A
ARG
97
n
97
ARG
97
A
ILE
98
n
98
ILE
98
A
ASN
99
n
99
ASN
99
A
ARG
100
n
100
ARG
100
A
MET
101
n
101
MET
101
A
ALA
102
n
102
ALA
102
A
ILE
103
n
103
ILE
103
A
GLU
104
n
104
GLU
104
A
SER
105
n
105
SER
105
A
GLY
106
n
106
GLY
106
A
VAL
107
n
107
VAL
107
A
ASP
108
n
108
ASP
108
A
ALA
109
n
109
ALA
109
A
LEU
110
n
110
LEU
110
A
ILE
111
n
111
ILE
111
A
SER
112
n
112
SER
112
A
PRO
113
n
113
PRO
113
A
TRP
114
n
114
TRP
114
A
PHE
115
n
115
PHE
115
A
GLY
116
n
116
GLY
116
A
ARG
117
n
117
ARG
117
A
LYS
118
n
118
LYS
118
A
ASP
119
n
119
ASP
119
A
PRO
120
n
120
PRO
120
A
GLY
121
n
121
GLY
121
A
PHE
122
n
122
PHE
122
A
ASP
123
n
123
ASP
123
A
HIS
124
n
124
HIS
124
A
THR
125
n
125
THR
125
A
LEU
126
n
126
LEU
126
A
ALA
127
n
127
ALA
127
A
GLY
128
n
128
GLY
128
A
MET
129
n
129
MET
129
A
ALA
130
n
130
ALA
130
A
ALA
131
n
131
ALA
131
A
ARG
132
n
132
ARG
132
A
ARG
133
n
133
ARG
133
A
GLY
134
n
134
GLY
134
A
VAL
135
n
135
VAL
135
A
ALA
136
n
136
ALA
136
A
ILE
137
n
137
ILE
137
A
GLY
138
n
138
GLY
138
A
PHE
139
n
139
PHE
139
A
SER
140
n
140
SER
140
A
LEU
141
n
141
LEU
141
A
SER
142
n
142
SER
142
A
PRO
143
n
143
PRO
143
A
LEU
144
n
144
LEU
144
A
LEU
145
n
145
LEU
145
A
ASN
146
n
146
ASN
146
A
ALA
147
n
147
ALA
147
A
ASN
148
n
148
ASN
148
A
PRO
149
n
149
PRO
149
A
TYR
150
n
150
TYR
150
A
GLY
151
n
151
GLY
151
A
ARG
152
n
152
ARG
152
A
ALA
153
n
153
ALA
153
A
GLN
154
n
154
GLN
154
A
ILE
155
n
155
ILE
155
A
LEU
156
n
156
LEU
156
A
ARG
157
n
157
ARG
157
A
PHE
158
n
158
PHE
158
A
MET
159
n
159
MET
159
A
MET
160
n
160
MET
160
A
LYS
161
n
161
LYS
161
A
THR
162
n
162
THR
162
A
TRP
163
n
163
TRP
163
A
GLN
164
n
164
GLN
164
A
LEU
165
n
165
LEU
165
A
VAL
166
n
166
VAL
166
A
LYS
167
n
167
LYS
167
A
LYS
168
n
168
LYS
168
A
TYR
169
n
169
TYR
169
A
ARG
170
n
170
ARG
170
A
VAL
171
n
171
VAL
171
A
PRO
172
n
172
PRO
172
A
ARG
173
n
173
ARG
173
A
PHE
174
n
174
PHE
174
A
ILE
175
n
175
ILE
175
A
THR
176
n
176
THR
176
A
SER
177
n
177
SER
177
A
SER
178
n
178
SER
178
A
ALA
179
n
179
ALA
179
A
GLU
180
n
180
GLU
180
A
SER
181
n
181
SER
181
A
ARG
182
n
182
ARG
182
A
TRP
183
n
183
TRP
183
A
GLU
184
n
184
GLU
184
A
VAL
185
n
185
VAL
185
A
ARG
186
n
186
ARG
186
A
GLY
187
n
187
GLY
187
A
PRO
188
n
188
PRO
188
A
ARG
189
n
189
ARG
189
A
ASP
190
n
190
ASP
190
A
LEU
191
n
191
LEU
191
A
MET
192
n
192
MET
192
A
SER
193
n
193
SER
193
A
LEU
194
n
194
LEU
194
A
GLY
195
n
195
GLY
195
A
ILE
196
n
196
ILE
196
A
ASN
197
n
197
ASN
197
A
ILE
198
n
198
ILE
198
A
GLY
199
n
199
GLY
199
A
MET
200
n
200
MET
200
A
GLU
201
n
201
GLU
201
A
ILE
202
n
202
ILE
202
A
PRO
203
n
203
PRO
203
A
GLU
204
n
204
GLU
204
A
ALA
205
n
205
ALA
205
A
ARG
206
n
206
ARG
206
A
ALA
207
n
207
ALA
207
A
SER
208
n
208
SER
208
A
LEU
209
n
209
LEU
209
A
ASN
210
n
210
ASN
210
A
PHE
211
n
211
PHE
211
A
TYR
212
n
212
TYR
212
A
PRO
213
n
213
PRO
213
A
ARG
214
n
214
ARG
214
A
THR
215
n
215
THR
215
A
ILE
216
n
216
ILE
216
A
VAL
217
n
217
VAL
217
A
TRP
218
n
218
TRP
218
A
LYS
219
n
219
LYS
219
A
n
220
220
A
author_and_software_defined_assembly
PISA
1
monomeric
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
VAL
18
A
N
VAL
18
A
O
THR
37
A
O
THR
37
A
N
LEU
40
A
N
LEU
40
A
O
LEU
68
A
O
LEU
68
A
N
LEU
67
A
N
LEU
67
A
O
LEU
88
A
O
LEU
88
A
N
VAL
91
A
N
VAL
91
A
O
ILE
111
A
O
ILE
111
A
N
LEU
110
A
N
LEU
110
A
O
GLY
138
A
O
GLY
138
A
N
PHE
139
A
N
PHE
139
A
O
PHE
174
A
O
PHE
174
1
A
MET
1
A
MET
1
1
Y
1
A
SER
2
A
SER
2
1
Y
1
A
GLU
3
A
GLU
3
1
Y
1
A
GLU
4
A
GLU
4
1
Y
1
A
GLU
5
A
GLU
5
1
Y
1
A
VAL
6
A
VAL
6
1
Y
1
A
SER
7
A
SER
7
1
Y
1
A
LEU
220
A
LEU
220
1
Y
1
A
ASP
11
-104.70
55.26
1
A
GLU
43
-159.65
76.12
1
A
ASP
44
-123.17
-105.64
1
A
ASP
47
78.99
31.02
1
A
ASN
84
55.66
72.61
1
A
SER
112
49.60
74.46
1
A
ASN
146
-100.46
46.98
1
A
ASN
210
-115.78
-75.91
56.060
-0.01
-0.00
0.04
-0.04
-0.00
0.02
0.953
0.925
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.28136
0.21901
0.22191
0.22191
2.21
33.48
431
8799
8799
4.7
94.63
10.894
0.262
RANDOM
1
THROUGHOUT
0.0
0.0
MOLECULAR REPLACEMENT
0.510
0.288
0.80
0.80
1.20
MAXIMUM LIKELIHOOD
MASK
2.21
33.48
39
1762
6
0
1717
0.005
0.019
1775
0.001
0.020
1747
0.939
1.972
2394
0.686
3.000
4012
5.043
5.000
215
30.083
22.099
81
14.138
15.000
326
13.973
15.000
20
0.050
0.200
255
0.004
0.021
1960
0.001
0.020
420
1.971
5.355
851
1.971
5.354
850
3.268
8.024
1063
3.267
8.025
1064
2.222
5.802
924
2.222
5.802
924
3.700
8.554
1330
7.223
50.702
7366
7.223
50.698
7365
0.235
0.332
2.263
25
580
20
83.45
2.2
50.0
3WYZ
9422
9422
0.0
0.0
0.141
1
18.4
3.2
96.8
0.917
2.2
2.3
2.7
1
3.0
93.5
phasing
MOLREP
refinement
REFMAC
5.8.0049
data reduction
HKL-2000
data scaling
HKL-2000
On archaeal homologs of the human RNase P protein Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis
1
N
N
2
N
N
3
N
N
A
ASP
20
A
ASP
20
HELX_P
A
PHE
31
A
PHE
31
1
1
12
A
ASP
47
A
ASP
47
HELX_P
A
GLY
63
A
GLY
63
1
2
17
A
LYS
73
A
LYS
73
HELX_P
A
ASN
84
A
ASN
84
1
3
12
A
ASP
95
A
ASP
95
HELX_P
A
SER
105
A
SER
105
1
4
11
A
ASP
123
A
ASP
123
HELX_P
A
GLY
134
A
GLY
134
1
5
12
A
LEU
141
A
LEU
141
HELX_P
A
ASN
146
A
ASN
146
1
6
6
A
ASN
148
A
ASN
148
HELX_P
A
TYR
169
A
TYR
169
1
7
22
A
SER
181
A
SER
181
HELX_P
A
VAL
185
A
VAL
185
5
8
5
A
GLY
187
A
GLY
187
HELX_P
A
GLY
199
A
GLY
199
1
9
13
A
GLU
201
A
GLU
201
HELX_P
A
ASN
210
A
ASN
210
1
10
10
A
ASN
210
A
ASN
210
HELX_P
A
TRP
218
A
TRP
218
1
11
9
HYDROLASE
TIM barrel-like structure, pre-tRNA cleavage, RNA binding, HYDROLASE
A
GLU
43
A
GLU
43
1
A
ASP
44
A
ASP
44
3.75
A
PRO
46
A
PRO
46
1
A
ASP
47
A
ASP
47
9.11
RNP3_THEKO
UNP
1
1
Q5JH47
MSEEEVSFSRDYFVEMDVRDEEAHELASDWFDEVVFTKKLVLEDPPDWGSLKEELKELRGKYGKVALLLVTRKPSLIREV
KSRNLKALLYVQGGDMRINRMAIESGVDALISPWFGRKDPGFDHTLAGMAARRGVAIGFSLSPLLNANPYGRAQILRFMM
KTWQLVKKYRVPRFITSSAESRWEVRGPRDLMSLGINIGMEIPEARASLNFYPRTIVWKL
1
220
3WYZ
1
220
Q5JH47
A
1
1
220
7
parallel
parallel
parallel
parallel
parallel
parallel
A
VAL
14
A
VAL
14
A
VAL
18
A
VAL
18
A
GLU
33
A
GLU
33
A
VAL
41
A
VAL
41
A
VAL
65
A
VAL
65
A
VAL
70
A
VAL
70
A
LEU
88
A
LEU
88
A
GLN
92
A
GLN
92
A
ALA
109
A
ALA
109
A
ILE
111
A
ILE
111
A
ALA
136
A
ALA
136
A
SER
140
A
SER
140
A
ARG
173
A
ARG
173
A
THR
176
A
THR
176
BINDING SITE FOR RESIDUE GOL A 301
A
GOL
301
Software
8
A
ARG
19
A
ARG
19
8
1_555
A
GLN
92
A
GLN
92
8
1_555
A
ILE
111
A
ILE
111
8
1_555
A
SER
112
A
SER
112
8
1_555
A
SER
140
A
SER
140
8
1_555
A
SER
142
A
SER
142
8
1_555
A
SER
178
A
SER
178
8
1_555
A
HOH
402
C
HOH
8
1_555
4
P 1 21 1