0.011360
0.000000
0.005642
0.000000
0.033704
0.000000
0.000000
0.000000
0.018009
0.000000
0.000000
0.000000
Musselman, C.A.
Roy, S.
Nunez, J.
Kutateladze, T.G.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.000
116.410
90.000
88.030
29.670
62.000
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 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
C9 H21 N2 O2 1
189.275
n
N-TRIMETHYLLYSINE
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
O
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
N
N
58
R
C
N
59
N
C
N
60
N
O
N
61
N
C
N
62
N
S
N
63
N
O
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
N
N
72
S
C
N
73
N
C
N
74
N
O
N
75
N
C
N
76
N
C
N
77
N
C
N
78
N
O
N
79
N
N
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
H
N
89
N
H
N
90
N
H
N
91
N
N
N
92
S
C
N
93
N
C
N
94
N
O
N
95
N
C
N
96
N
C
N
97
N
C
N
98
N
O
N
99
N
O
N
100
N
O
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
H
N
109
N
H
N
110
N
N
N
111
N
C
N
112
N
C
N
113
N
O
N
114
N
O
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
H
N
119
N
H
N
120
N
N
N
121
S
C
N
122
N
C
N
123
N
O
N
124
N
C
Y
125
N
C
Y
126
N
N
Y
127
N
C
Y
128
N
C
Y
129
N
N
N
130
N
O
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
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
O
N
142
N
H
N
143
N
H
N
144
N
N
N
145
S
C
N
146
N
C
N
147
N
O
N
148
S
C
N
149
N
C
N
150
N
C
N
151
N
C
N
152
N
O
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
H
N
166
N
N
N
167
S
C
N
168
N
C
N
169
N
O
N
170
N
C
N
171
N
C
N
172
N
C
N
173
N
C
N
174
N
O
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
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
N
N
189
S
C
N
190
N
C
N
191
N
O
N
192
N
C
N
193
N
C
N
194
N
C
N
195
N
C
N
196
N
N
N
197
N
O
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
N
N
214
S
C
N
215
N
C
N
216
N
C
N
217
N
C
N
218
N
C
N
219
N
N
N
220
N
C
N
221
N
O
N
222
N
O
N
223
N
C
N
224
N
C
N
225
N
C
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
H
N
238
N
H
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
N
N
248
S
C
N
249
N
C
N
250
N
O
N
251
N
C
Y
252
N
C
Y
253
N
C
Y
254
N
C
Y
255
N
C
Y
256
N
C
Y
257
N
C
N
258
N
O
N
259
N
H
N
260
N
H
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
N
N
271
S
C
N
272
N
C
N
273
N
O
N
274
N
C
N
275
N
C
N
276
N
C
N
277
N
O
N
278
N
H
N
279
N
H
N
280
N
H
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
N
N
288
S
C
N
289
N
C
N
290
N
O
N
291
N
C
N
292
N
O
N
293
N
O
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
H
N
298
N
H
N
299
N
H
N
300
N
H
N
301
N
N
N
302
S
C
N
303
N
C
N
304
N
O
N
305
R
C
N
306
N
O
N
307
N
C
N
308
N
O
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
Y
323
N
C
Y
324
N
C
Y
325
N
C
Y
326
N
N
Y
327
N
C
Y
328
N
C
Y
329
N
C
Y
330
N
C
Y
331
N
C
N
332
N
O
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
H
N
344
N
H
N
345
N
N
N
346
S
C
N
347
N
C
N
348
N
O
N
349
N
C
Y
350
N
C
Y
351
N
C
Y
352
N
C
Y
353
N
C
Y
354
N
C
Y
355
N
C
N
356
N
O
N
357
N
O
N
358
N
H
N
359
N
H
N
360
N
H
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
N
N
370
S
C
N
371
N
C
N
372
N
O
N
373
N
C
N
374
N
C
N
375
N
C
N
376
N
O
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
H
N
387
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
doub
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
doub
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
doub
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
sing
N
90
N
sing
N
91
N
sing
N
92
N
doub
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
doub
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
doub
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
sing
N
119
N
doub
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
Y
124
N
sing
Y
125
N
doub
Y
126
N
doub
N
127
N
sing
Y
128
N
sing
N
129
N
sing
Y
130
N
sing
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
doub
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
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
doub
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
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
doub
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
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
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
doub
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
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
doub
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
Y
246
N
doub
Y
247
N
sing
Y
248
N
sing
N
249
N
sing
Y
250
N
doub
N
251
N
sing
Y
252
N
doub
N
253
N
sing
Y
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
doub
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
doub
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
doub
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
sing
N
308
N
sing
N
309
N
sing
N
310
N
doub
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
Y
315
N
doub
Y
316
N
sing
Y
317
N
sing
N
318
N
sing
Y
319
N
doub
Y
320
N
sing
Y
321
N
sing
N
322
N
sing
Y
323
N
sing
Y
324
N
doub
N
325
N
sing
Y
326
N
doub
N
327
N
sing
Y
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
doub
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
Y
343
N
doub
Y
344
N
sing
Y
345
N
sing
N
346
N
sing
Y
347
N
doub
N
348
N
sing
Y
349
N
doub
N
350
N
sing
Y
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
doub
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
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
US
Nat.Struct.Mol.Biol.
1545-9993
19
1266
1272
10.1038/nsmb.2435
23142980
Molecular basis for H3K36me3 recognition by the Tudor domain of PHF1.
2012
10.2210/pdb4hcz/pdb
pdb_00004hcz
100
1
IMAGE PLATE
2011-01-20
RIGAKU RAXIS IV++
Ni Filter
SINGLE WAVELENGTH
M
x-ray
1
1.541
1.0
1.541
ROTATING ANODE
RIGAKU RUH3R
6623.570
PHD finger protein 1
Tudor domain
2
man
polymer
1112.326
H3L-like histone
H3K36me3
2
syn
polymer
18.015
water
161
nat
water
Protein PHF1, Polycomb-like protein 1, hPCl1
no
no
RPRLWEGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLVLWKDISPAALPG
RPRLWEGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLVLWKDISPAALPG
A,B
polypeptide(L)
no
yes
STGGV(M3L)KPHR
STGGVKKPHR
C,D
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
human
sample
PHF1, PCL1
9606
Homo sapiens
562
Escherichia coli
1
2.34
47.51
VAPOR DIFFUSION, SITTING DROP
7.5
0.1 M HEPES pH 7.5, 20% PEG 10000, VAPOR DIFFUSION, SITTING DROP, temperature 277.15K
277.15
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_conn
repository
Initial release
Database references
Data collection
Database references
Derived calculations
Refinement description
1
0
2012-11-14
1
1
2012-12-19
1
2
2023-09-20
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
RCSB
Y
RCSB
2012-10-01
REL
REL
HOH
water
Synthetic human H3K36me3 peptide
9606
human
Homo sapiens
sample
2E5P
PDB ENTRY 2E5P
PDB
experimental model
HOH
1
3
HOH
HOH
101
A
HOH
2
3
HOH
HOH
102
A
HOH
3
3
HOH
HOH
103
A
HOH
11
3
HOH
HOH
104
A
HOH
12
3
HOH
HOH
105
A
HOH
13
3
HOH
HOH
106
A
HOH
17
3
HOH
HOH
107
A
HOH
19
3
HOH
HOH
108
A
HOH
22
3
HOH
HOH
109
A
HOH
23
3
HOH
HOH
110
A
HOH
26
3
HOH
HOH
111
A
HOH
27
3
HOH
HOH
112
A
HOH
28
3
HOH
HOH
113
A
HOH
31
3
HOH
HOH
114
A
HOH
32
3
HOH
HOH
115
A
HOH
35
3
HOH
HOH
116
A
HOH
36
3
HOH
HOH
117
A
HOH
39
3
HOH
HOH
118
A
HOH
43
3
HOH
HOH
119
A
HOH
44
3
HOH
HOH
120
A
HOH
46
3
HOH
HOH
121
A
HOH
48
3
HOH
HOH
122
A
HOH
51
3
HOH
HOH
123
A
HOH
52
3
HOH
HOH
124
A
HOH
53
3
HOH
HOH
125
A
HOH
57
3
HOH
HOH
126
A
HOH
58
3
HOH
HOH
127
A
HOH
60
3
HOH
HOH
128
A
HOH
61
3
HOH
HOH
129
A
HOH
66
3
HOH
HOH
130
A
HOH
70
3
HOH
HOH
131
A
HOH
71
3
HOH
HOH
132
A
HOH
72
3
HOH
HOH
133
A
HOH
73
3
HOH
HOH
134
A
HOH
74
3
HOH
HOH
135
A
HOH
75
3
HOH
HOH
136
A
HOH
76
3
HOH
HOH
137
A
HOH
77
3
HOH
HOH
138
A
HOH
78
3
HOH
HOH
139
A
HOH
79
3
HOH
HOH
140
A
HOH
80
3
HOH
HOH
141
A
HOH
84
3
HOH
HOH
142
A
HOH
85
3
HOH
HOH
143
A
HOH
86
3
HOH
HOH
144
A
HOH
87
3
HOH
HOH
145
A
HOH
88
3
HOH
HOH
146
A
HOH
89
3
HOH
HOH
147
A
HOH
90
3
HOH
HOH
148
A
HOH
92
3
HOH
HOH
149
A
HOH
93
3
HOH
HOH
150
A
HOH
94
3
HOH
HOH
151
A
HOH
95
3
HOH
HOH
152
A
HOH
96
3
HOH
HOH
153
A
HOH
97
3
HOH
HOH
154
A
HOH
98
3
HOH
HOH
155
A
HOH
99
3
HOH
HOH
156
A
HOH
133
3
HOH
HOH
157
A
HOH
134
3
HOH
HOH
158
A
HOH
135
3
HOH
HOH
159
A
HOH
136
3
HOH
HOH
160
A
HOH
137
3
HOH
HOH
161
A
HOH
138
3
HOH
HOH
162
A
HOH
141
3
HOH
HOH
163
A
HOH
142
3
HOH
HOH
164
A
HOH
143
3
HOH
HOH
165
A
HOH
144
3
HOH
HOH
166
A
HOH
145
3
HOH
HOH
167
A
HOH
146
3
HOH
HOH
168
A
HOH
147
3
HOH
HOH
169
A
HOH
4
3
HOH
HOH
101
B
HOH
5
3
HOH
HOH
102
B
HOH
6
3
HOH
HOH
103
B
HOH
7
3
HOH
HOH
104
B
HOH
8
3
HOH
HOH
105
B
HOH
9
3
HOH
HOH
106
B
HOH
10
3
HOH
HOH
107
B
HOH
14
3
HOH
HOH
108
B
HOH
16
3
HOH
HOH
109
B
HOH
18
3
HOH
HOH
110
B
HOH
20
3
HOH
HOH
111
B
HOH
21
3
HOH
HOH
112
B
HOH
24
3
HOH
HOH
113
B
HOH
25
3
HOH
HOH
114
B
HOH
29
3
HOH
HOH
115
B
HOH
30
3
HOH
HOH
116
B
HOH
33
3
HOH
HOH
117
B
HOH
34
3
HOH
HOH
118
B
HOH
37
3
HOH
HOH
119
B
HOH
38
3
HOH
HOH
120
B
HOH
40
3
HOH
HOH
121
B
HOH
41
3
HOH
HOH
122
B
HOH
42
3
HOH
HOH
123
B
HOH
45
3
HOH
HOH
124
B
HOH
47
3
HOH
HOH
125
B
HOH
49
3
HOH
HOH
126
B
HOH
50
3
HOH
HOH
127
B
HOH
54
3
HOH
HOH
128
B
HOH
55
3
HOH
HOH
129
B
HOH
56
3
HOH
HOH
130
B
HOH
62
3
HOH
HOH
131
B
HOH
63
3
HOH
HOH
132
B
HOH
64
3
HOH
HOH
133
B
HOH
65
3
HOH
HOH
134
B
HOH
68
3
HOH
HOH
135
B
HOH
100
3
HOH
HOH
136
B
HOH
101
3
HOH
HOH
137
B
HOH
102
3
HOH
HOH
138
B
HOH
103
3
HOH
HOH
139
B
HOH
104
3
HOH
HOH
140
B
HOH
105
3
HOH
HOH
141
B
HOH
106
3
HOH
HOH
142
B
HOH
107
3
HOH
HOH
143
B
HOH
108
3
HOH
HOH
144
B
HOH
109
3
HOH
HOH
145
B
HOH
110
3
HOH
HOH
146
B
HOH
111
3
HOH
HOH
147
B
HOH
112
3
HOH
HOH
148
B
HOH
113
3
HOH
HOH
149
B
HOH
114
3
HOH
HOH
150
B
HOH
115
3
HOH
HOH
151
B
HOH
116
3
HOH
HOH
152
B
HOH
117
3
HOH
HOH
153
B
HOH
118
3
HOH
HOH
154
B
HOH
119
3
HOH
HOH
155
B
HOH
120
3
HOH
HOH
156
B
HOH
121
3
HOH
HOH
157
B
HOH
122
3
HOH
HOH
158
B
HOH
123
3
HOH
HOH
159
B
HOH
124
3
HOH
HOH
160
B
HOH
125
3
HOH
HOH
161
B
HOH
126
3
HOH
HOH
162
B
HOH
127
3
HOH
HOH
163
B
HOH
128
3
HOH
HOH
164
B
HOH
129
3
HOH
HOH
165
B
HOH
130
3
HOH
HOH
166
B
HOH
131
3
HOH
HOH
167
B
HOH
148
3
HOH
HOH
168
B
HOH
149
3
HOH
HOH
169
B
HOH
150
3
HOH
HOH
170
B
HOH
151
3
HOH
HOH
171
B
HOH
152
3
HOH
HOH
172
B
HOH
153
3
HOH
HOH
173
B
HOH
154
3
HOH
HOH
174
B
HOH
155
3
HOH
HOH
175
B
HOH
156
3
HOH
HOH
176
B
HOH
157
3
HOH
HOH
177
B
HOH
158
3
HOH
HOH
178
B
HOH
59
3
HOH
HOH
101
C
HOH
69
3
HOH
HOH
102
C
HOH
81
3
HOH
HOH
103
C
HOH
82
3
HOH
HOH
104
C
HOH
83
3
HOH
HOH
105
C
HOH
91
3
HOH
HOH
106
C
HOH
132
3
HOH
HOH
107
C
HOH
139
3
HOH
HOH
108
C
HOH
140
3
HOH
HOH
109
C
HOH
15
3
HOH
HOH
101
D
HOH
67
3
HOH
HOH
102
D
HOH
159
3
HOH
HOH
103
D
HOH
160
3
HOH
HOH
104
D
HOH
161
3
HOH
HOH
105
D
ARG
28
n
1
ARG
28
A
PRO
29
n
2
PRO
29
A
ARG
30
n
3
ARG
30
A
LEU
31
n
4
LEU
31
A
TRP
32
n
5
TRP
32
A
GLU
33
n
6
GLU
33
A
GLY
34
n
7
GLY
34
A
GLN
35
n
8
GLN
35
A
ASP
36
n
9
ASP
36
A
VAL
37
n
10
VAL
37
A
LEU
38
n
11
LEU
38
A
ALA
39
n
12
ALA
39
A
ARG
40
n
13
ARG
40
A
TRP
41
n
14
TRP
41
A
THR
42
n
15
THR
42
A
ASP
43
n
16
ASP
43
A
GLY
44
n
17
GLY
44
A
LEU
45
n
18
LEU
45
A
LEU
46
n
19
LEU
46
A
TYR
47
n
20
TYR
47
A
LEU
48
n
21
LEU
48
A
GLY
49
n
22
GLY
49
A
THR
50
n
23
THR
50
A
ILE
51
n
24
ILE
51
A
LYS
52
n
25
LYS
52
A
LYS
53
n
26
LYS
53
A
VAL
54
n
27
VAL
54
A
ASP
55
n
28
ASP
55
A
SER
56
n
29
SER
56
A
ALA
57
n
30
ALA
57
A
ARG
58
n
31
ARG
58
A
GLU
59
n
32
GLU
59
A
VAL
60
n
33
VAL
60
A
CYS
61
n
34
CYS
61
A
LEU
62
n
35
LEU
62
A
VAL
63
n
36
VAL
63
A
GLN
64
n
37
GLN
64
A
PHE
65
n
38
PHE
65
A
GLU
66
n
39
GLU
66
A
ASP
67
n
40
ASP
67
A
ASP
68
n
41
ASP
68
A
SER
69
n
42
SER
69
A
GLN
70
n
43
GLN
70
A
PHE
71
n
44
PHE
71
A
LEU
72
n
45
LEU
72
A
VAL
73
n
46
VAL
73
A
LEU
74
n
47
LEU
74
A
TRP
75
n
48
TRP
75
A
LYS
76
n
49
LYS
76
A
ASP
77
n
50
ASP
77
A
ILE
78
n
51
ILE
78
A
SER
79
n
52
SER
79
A
PRO
80
n
53
PRO
80
A
ALA
81
n
54
ALA
81
A
ALA
82
n
55
ALA
82
A
LEU
83
n
56
LEU
83
A
PRO
84
n
57
PRO
84
A
GLY
85
n
58
GLY
85
A
ARG
28
n
1
ARG
28
B
PRO
29
n
2
PRO
29
B
ARG
30
n
3
ARG
30
B
LEU
31
n
4
LEU
31
B
TRP
32
n
5
TRP
32
B
GLU
33
n
6
GLU
33
B
GLY
34
n
7
GLY
34
B
GLN
35
n
8
GLN
35
B
ASP
36
n
9
ASP
36
B
VAL
37
n
10
VAL
37
B
LEU
38
n
11
LEU
38
B
ALA
39
n
12
ALA
39
B
ARG
40
n
13
ARG
40
B
TRP
41
n
14
TRP
41
B
THR
42
n
15
THR
42
B
ASP
43
n
16
ASP
43
B
GLY
44
n
17
GLY
44
B
LEU
45
n
18
LEU
45
B
LEU
46
n
19
LEU
46
B
TYR
47
n
20
TYR
47
B
LEU
48
n
21
LEU
48
B
GLY
49
n
22
GLY
49
B
THR
50
n
23
THR
50
B
ILE
51
n
24
ILE
51
B
LYS
52
n
25
LYS
52
B
LYS
53
n
26
LYS
53
B
VAL
54
n
27
VAL
54
B
ASP
55
n
28
ASP
55
B
SER
56
n
29
SER
56
B
ALA
57
n
30
ALA
57
B
ARG
58
n
31
ARG
58
B
GLU
59
n
32
GLU
59
B
VAL
60
n
33
VAL
60
B
CYS
61
n
34
CYS
61
B
LEU
62
n
35
LEU
62
B
VAL
63
n
36
VAL
63
B
GLN
64
n
37
GLN
64
B
PHE
65
n
38
PHE
65
B
GLU
66
n
39
GLU
66
B
ASP
67
n
40
ASP
67
B
ASP
68
n
41
ASP
68
B
SER
69
n
42
SER
69
B
GLN
70
n
43
GLN
70
B
PHE
71
n
44
PHE
71
B
LEU
72
n
45
LEU
72
B
VAL
73
n
46
VAL
73
B
LEU
74
n
47
LEU
74
B
TRP
75
n
48
TRP
75
B
LYS
76
n
49
LYS
76
B
ASP
77
n
50
ASP
77
B
ILE
78
n
51
ILE
78
B
SER
79
n
52
SER
79
B
PRO
80
n
53
PRO
80
B
ALA
81
n
54
ALA
81
B
ALA
82
n
55
ALA
82
B
LEU
83
n
56
LEU
83
B
PRO
84
n
57
PRO
84
B
n
58
85
B
SER
31
n
1
SER
31
C
THR
32
n
2
THR
32
C
GLY
33
n
3
GLY
33
C
GLY
34
n
4
GLY
34
C
VAL
35
n
5
VAL
35
C
M3L
36
n
6
M3L
36
C
LYS
37
n
7
LYS
37
C
PRO
38
n
8
PRO
38
C
HIS
39
n
9
HIS
39
C
ARG
40
n
10
ARG
40
C
n
1
31
D
n
2
32
D
n
3
33
D
GLY
34
n
4
GLY
34
D
VAL
35
n
5
VAL
35
D
M3L
36
n
6
M3L
36
D
LYS
37
n
7
LYS
37
D
PRO
38
n
8
PRO
38
D
HIS
39
n
9
HIS
39
D
ALA
40
n
10
ARG
40
D
1.2675
0.2667
0.6046
1.3977
0.8212
0.6479
-0.0042
0.0173
0.1757
-0.0297
0.0397
0.1476
-0.0169
-0.0492
-0.0000
0.1690
0.0084
0.0061
0.1649
0.0177
0.1609
refined
-0.3947
-1.4904
24.6741
X-RAY DIFFRACTION
A
28
A
85
X-RAY DIFFRACTION
1
Chain A
author_and_software_defined_assembly
PISA
2
dimeric
author_and_software_defined_assembly
PISA
2
dimeric
970
-6
4920
820
-7
4540
C
M3L
36
N-TRIMETHYLLYSINE
C
M3L
6
LYS
D
M3L
36
N-TRIMETHYLLYSINE
D
M3L
6
LYS
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
O
PHE
71
A
O
PHE
44
A
N
VAL
63
A
N
VAL
36
A
O
LEU
62
A
O
LEU
35
A
N
LYS
52
A
N
LYS
25
A
O
GLY
49
A
O
GLY
22
A
N
VAL
37
A
N
VAL
10
A
N
LEU
38
A
N
LEU
11
A
O
SER
79
A
O
SER
52
B
O
PHE
71
B
O
PHE
44
B
N
VAL
63
B
N
VAL
36
B
O
LEU
62
B
O
LEU
35
B
N
LYS
52
B
N
LYS
25
B
O
GLY
49
B
O
GLY
22
B
N
VAL
37
B
N
VAL
10
B
N
LEU
38
B
N
LEU
11
B
O
SER
79
B
O
SER
52
1
D
CG
ARG
40
D
CG
ARG
10
1
Y
1
D
CD
ARG
40
D
CD
ARG
10
1
Y
1
D
NE
ARG
40
D
NE
ARG
10
1
Y
1
D
CZ
ARG
40
D
CZ
ARG
10
1
Y
1
D
NH1
ARG
40
D
NH1
ARG
10
1
Y
1
D
NH2
ARG
40
D
NH2
ARG
10
1
Y
1
B
GLY
85
B
GLY
58
1
Y
1
D
SER
31
D
SER
1
1
Y
1
D
THR
32
D
THR
2
1
Y
1
D
GLY
33
D
GLY
3
1
Y
1
A
ASP
68
77.54
-2.30
1
B
ASP
68
74.44
-0.60
83.090
30.1275
13.770
-3.3304
-0.0000
-1.2310
-5.0827
-0.0000
8.4130
0.2439
0.2038
0.2058
1.8500
23.4130
580
12091
12073
4.8000
96.2300
1.000
1.000
0.7729
0.3000
Random
1
0.000
MOLECULAR REPLACEMENT
28.7700
0.6100
0.9000
PDB ENTRY 2E5P
ML
FLAT BULK SOLVENT MODEL
60.8670
0.3940
1.8500
23.4130
161
1222
0
0
1061
0.007
1085
1.060
1473
0.071
161
0.004
183
14.919
409
0.3932
0.2898
2.0361
144
2667
2811
4
91.0000
0.2511
0.2061
2.3305
156
2932
3088
4
99.0000
0.2705
0.2031
2.9353
129
2977
3106
4
99.0000
0.2066
0.1886
23.4144
151
2917
3068
4
95.0000
25.160
1.85
23.413
4HCZ
12091
12091
0.00
-3.00
1
96.4
1.85
1.92
1
81.1
phasing
Randy J. Read
cimr-phaser@lists.cam.ac.uk
http://www-structmed.cimr.cam.ac.uk/phaser/
PHASER
program
refinement
Paul D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
1.6.4_486
data extraction
PDB
deposit@deposit.rcsb.org
April 22, 2011
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.11
data collection
CrystalClear
data reduction
d*TREK
data scaling
d*TREK
PHF1 Tudor in complex with H3K36me3
1
N
N
1
N
N
2
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
covale
1.330
both
C
VAL
35
C
C
VAL
5
1_555
C
M3L
36
C
N
M3L
6
1_555
covale
1.326
both
C
M3L
36
C
C
M3L
6
1_555
C
LYS
37
C
N
LYS
7
1_555
covale
1.324
both
D
VAL
35
D
C
VAL
5
1_555
D
M3L
36
D
N
M3L
6
1_555
covale
1.324
both
D
M3L
36
D
C
M3L
6
1_555
D
LYS
37
D
N
LYS
7
1_555
TRANSCRIPTION
Protein-peptide complex, Tudor, Histone binding, H3K36me3, NA, Nucleus, TRANSCRIPTION
B
LEU
83
B
LEU
56
1
B
PRO
84
B
PRO
57
3.84
PHF1_HUMAN
UNP
1
28
O43189
RPRLWEGQDVLARWTDGLLYLGTIKKVDSAREVCLVQFEDDSQFLVLWKDISPAALPG
Q6TXQ4_HUMAN
UNP
2
17
Q6TXQ4
STGGVKKPHR
28
85
4HCZ
28
85
O43189
A
1
1
58
28
85
4HCZ
28
85
O43189
B
1
1
58
17
26
4HCZ
31
40
Q6TXQ4
C
2
1
10
17
26
4HCZ
31
40
Q6TXQ4
D
2
1
10
5
5
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
GLN
70
A
GLN
43
A
LEU
74
A
LEU
47
A
VAL
60
A
VAL
33
A
PHE
65
A
PHE
38
A
LEU
46
A
LEU
19
A
ASP
55
A
ASP
28
A
ASP
36
A
ASP
9
A
ARG
40
A
ARG
13
A
ILE
78
A
ILE
51
A
PRO
80
A
PRO
53
B
GLN
70
B
GLN
43
B
LEU
74
B
LEU
47
B
VAL
60
B
VAL
33
B
PHE
65
B
PHE
38
B
LEU
46
B
LEU
19
B
ASP
55
B
ASP
28
B
ASP
36
B
ASP
9
B
ARG
40
B
ARG
13
B
ILE
78
B
ILE
51
B
PRO
80
B
PRO
53
5
C 1 2 1