0.006338
0.000000
0.000000
0.000000
0.006338
0.000000
0.000000
0.000000
0.006338
0.000000
0.000000
0.000000
Bonanno, J.B.
Toro, R.
Gizzi, A.
Chan, M.K.
Garrett-Thomson, S.C.
Patel, H.
Lim, S.
Matikainen, B.
Celikgil, A.
Garforth, S.
Hillerich, B.
Seidel, R.
Rand, J.H.
Almo, S.C.
New York Structural Genomics Research Consortium (NYSGRC)
Atoms-to-Animals: The Immune Function Network (IFN)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
48
90.000
90.000
90.000
157.790
157.790
157.790
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
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
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
N
N
159
S
C
N
160
N
C
N
161
N
O
N
162
S
C
N
163
N
C
N
164
N
C
N
165
N
C
N
166
N
O
N
167
N
H
N
168
N
H
N
169
N
H
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
N
N
181
S
C
N
182
N
C
N
183
N
O
N
184
N
C
N
185
N
C
N
186
N
C
N
187
N
C
N
188
N
O
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
N
N
203
S
C
N
204
N
C
N
205
N
O
N
206
N
C
N
207
N
C
N
208
N
C
N
209
N
C
N
210
N
N
N
211
N
O
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
N
N
228
S
C
N
229
N
C
N
230
N
O
N
231
N
C
N
232
N
C
N
233
N
S
N
234
N
C
N
235
N
O
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
S
N
302
N
O
N
303
N
O
N
304
N
O
N
305
N
O
N
306
N
N
N
307
S
C
N
308
N
C
N
309
N
O
N
310
R
C
N
311
N
O
N
312
N
C
N
313
N
O
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
H
N
322
N
H
N
323
N
N
N
324
S
C
N
325
N
C
N
326
N
O
N
327
N
C
Y
328
N
C
Y
329
N
C
Y
330
N
C
Y
331
N
N
Y
332
N
C
Y
333
N
C
Y
334
N
C
Y
335
N
C
Y
336
N
C
N
337
N
O
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
H
N
349
N
H
N
350
N
N
N
351
S
C
N
352
N
C
N
353
N
O
N
354
N
C
Y
355
N
C
Y
356
N
C
Y
357
N
C
Y
358
N
C
Y
359
N
C
Y
360
N
C
N
361
N
O
N
362
N
O
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
H
N
373
N
H
N
374
N
N
N
375
S
C
N
376
N
C
N
377
N
O
N
378
N
C
N
379
N
C
N
380
N
C
N
381
N
O
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
391
N
H
N
392
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
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
doub
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
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
doub
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
doub
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
doub
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
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
doub
N
289
N
doub
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
doub
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
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
Y
319
N
doub
Y
320
N
sing
Y
321
N
sing
N
322
N
sing
Y
323
N
doub
Y
324
N
sing
Y
325
N
sing
N
326
N
sing
Y
327
N
sing
Y
328
N
doub
N
329
N
sing
Y
330
N
doub
N
331
N
sing
Y
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
doub
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
Y
347
N
doub
Y
348
N
sing
Y
349
N
sing
N
350
N
sing
Y
351
N
doub
N
352
N
sing
Y
353
N
doub
N
354
N
sing
Y
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
sing
N
365
N
sing
N
366
N
doub
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
N
376
N
sing
N
377
N
sing
To be Published
0353
Crystal structure of a C-terminal two domain fragment of human beta-2-glycoprotein 1
10.2210/pdb4jhs/pdb
pdb_00004jhs
100
1
CCD
2011-06-19
ADSC QUANTUM 315r
Si(111)
SINGLE WAVELENGTH
M
x-ray
1
0.97950
1.0
X29A
NSLS
0.97950
SYNCHROTRON
NSLS BEAMLINE X29A
20722.479
Beta-2-glycoprotein 1
C-terminal two domain fragment (UNP residues 203-345)
1
man
polymer
96.063
SULFATE ION
3
syn
non-polymer
APC inhibitor, Activated protein C-binding protein, Anticardiolipin cofactor, Apolipoprotein H, Apo-H, Beta-2-glycoprotein I, B2GPI, Beta(2)GPI
no
no
QDYKDDDDKHHHHHHHHHHENLYFQSHVLFIFPRTSGVKCPFPSRPDNGFVNYPAKPTLYYKDKATFGCHDGYSLDGPEE
IECTKLGNWSAMPSCKASCKVPVKKATVVYQGERVKIQEKFKNGMLHGDKVSFFCKNKEKKCSYTEDAQCIDGTIEVPKC
FKEHSSLAFWKTDASDVKPC
QDYKDDDDKHHHHHHHHHHENLYFQSHVLFIFPRTSGVKCPFPSRPDNGFVNYPAKPTLYYKDKATFGCHDGYSLDGPEE
IECTKLGNWSAMPSCKASCKVPVKKATVVYQGERVKIQEKFKNGMLHGDKVSFFCKNKEKKCSYTEDAQCIDGTIEVPKC
FKEHSSLAFWKTDASDVKPC
A
NYSGRC-016193
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
human
sample
APOH, B2G1
9606
Homo sapiens
7111
TRICHOPLUSIA NI
BTI-TN-5B1-4
plasmid
pIEx
1
3.95
68.86
VAPOR DIFFUSION
4.6
100mM sodium acetate trihydrate pH 4.6, 2.0M ammonium sulfate, vapor diffusion, temperature 294K
294
New York Structural Genomics Research Consortium
NYSGRC
PSI:Biology
Atoms-to-Animals: The Immune Function Network
IFN
PSI:Biology
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_ref_seq_dif
struct_site
repository
Initial release
Refinement description
Data collection
Database references
Derived calculations
Refinement description
1
0
2013-04-24
1
1
2017-11-15
1
2
2023-09-20
_software.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
RCSB
Y
RCSB
2013-03-05
REL
REL
SO4
SULFATE ION
1C1Z
PDB
experimental model
SO4
1
2
SO4
SO4
401
A
SO4
2
2
SO4
SO4
402
A
SO4
3
2
SO4
SO4
403
A
n
1
166
A
n
2
167
A
n
3
168
A
n
4
169
A
n
5
170
A
n
6
171
A
n
7
172
A
n
8
173
A
n
9
174
A
n
10
175
A
n
11
176
A
n
12
177
A
n
13
178
A
n
14
179
A
n
15
180
A
n
16
181
A
n
17
182
A
n
18
183
A
n
19
184
A
n
20
185
A
n
21
186
A
n
22
187
A
n
23
188
A
n
24
189
A
n
25
190
A
n
26
191
A
n
27
192
A
n
28
193
A
n
29
194
A
n
30
195
A
n
31
196
A
n
32
197
A
n
33
198
A
n
34
199
A
n
35
200
A
n
36
201
A
n
37
202
A
n
38
203
A
LYS
204
n
39
LYS
204
A
CYS
205
n
40
CYS
205
A
PRO
206
n
41
PRO
206
A
PHE
207
n
42
PHE
207
A
PRO
208
n
43
PRO
208
A
SER
209
n
44
SER
209
A
ARG
210
n
45
ARG
210
A
PRO
211
n
46
PRO
211
A
ASP
212
n
47
ASP
212
A
ASN
213
n
48
ASN
213
A
GLY
214
n
49
GLY
214
A
PHE
215
n
50
PHE
215
A
VAL
216
n
51
VAL
216
A
ASN
217
n
52
ASN
217
A
TYR
218
n
53
TYR
218
A
PRO
219
n
54
PRO
219
A
ALA
220
n
55
ALA
220
A
LYS
221
n
56
LYS
221
A
PRO
222
n
57
PRO
222
A
THR
223
n
58
THR
223
A
LEU
224
n
59
LEU
224
A
TYR
225
n
60
TYR
225
A
TYR
226
n
61
TYR
226
A
LYS
227
n
62
LYS
227
A
ASP
228
n
63
ASP
228
A
LYS
229
n
64
LYS
229
A
ALA
230
n
65
ALA
230
A
THR
231
n
66
THR
231
A
PHE
232
n
67
PHE
232
A
GLY
233
n
68
GLY
233
A
CYS
234
n
69
CYS
234
A
HIS
235
n
70
HIS
235
A
ASP
236
n
71
ASP
236
A
GLY
237
n
72
GLY
237
A
TYR
238
n
73
TYR
238
A
SER
239
n
74
SER
239
A
LEU
240
n
75
LEU
240
A
ASP
241
n
76
ASP
241
A
GLY
242
n
77
GLY
242
A
PRO
243
n
78
PRO
243
A
GLU
244
n
79
GLU
244
A
GLU
245
n
80
GLU
245
A
ILE
246
n
81
ILE
246
A
GLU
247
n
82
GLU
247
A
CYS
248
n
83
CYS
248
A
THR
249
n
84
THR
249
A
LYS
250
n
85
LYS
250
A
LEU
251
n
86
LEU
251
A
GLY
252
n
87
GLY
252
A
ASN
253
n
88
ASN
253
A
TRP
254
n
89
TRP
254
A
SER
255
n
90
SER
255
A
ALA
256
n
91
ALA
256
A
MET
257
n
92
MET
257
A
PRO
258
n
93
PRO
258
A
SER
259
n
94
SER
259
A
CYS
260
n
95
CYS
260
A
LYS
261
n
96
LYS
261
A
ALA
262
n
97
ALA
262
A
SER
263
n
98
SER
263
A
CYS
264
n
99
CYS
264
A
LYS
265
n
100
LYS
265
A
VAL
266
n
101
VAL
266
A
PRO
267
n
102
PRO
267
A
VAL
268
n
103
VAL
268
A
LYS
269
n
104
LYS
269
A
LYS
270
n
105
LYS
270
A
ALA
271
n
106
ALA
271
A
THR
272
n
107
THR
272
A
VAL
273
n
108
VAL
273
A
VAL
274
n
109
VAL
274
A
TYR
275
n
110
TYR
275
A
GLN
276
n
111
GLN
276
A
GLY
277
n
112
GLY
277
A
GLU
278
n
113
GLU
278
A
ARG
279
n
114
ARG
279
A
VAL
280
n
115
VAL
280
A
LYS
281
n
116
LYS
281
A
ILE
282
n
117
ILE
282
A
GLN
283
n
118
GLN
283
A
GLU
284
n
119
GLU
284
A
LYS
285
n
120
LYS
285
A
PHE
286
n
121
PHE
286
A
LYS
287
n
122
LYS
287
A
ASN
288
n
123
ASN
288
A
GLY
289
n
124
GLY
289
A
MET
290
n
125
MET
290
A
LEU
291
n
126
LEU
291
A
HIS
292
n
127
HIS
292
A
GLY
293
n
128
GLY
293
A
ASP
294
n
129
ASP
294
A
LYS
295
n
130
LYS
295
A
VAL
296
n
131
VAL
296
A
SER
297
n
132
SER
297
A
PHE
298
n
133
PHE
298
A
PHE
299
n
134
PHE
299
A
CYS
300
n
135
CYS
300
A
LYS
301
n
136
LYS
301
A
ASN
302
n
137
ASN
302
A
LYS
303
n
138
LYS
303
A
GLU
304
n
139
GLU
304
A
LYS
305
n
140
LYS
305
A
LYS
306
n
141
LYS
306
A
CYS
307
n
142
CYS
307
A
SER
308
n
143
SER
308
A
TYR
309
n
144
TYR
309
A
THR
310
n
145
THR
310
A
GLU
311
n
146
GLU
311
A
ASP
312
n
147
ASP
312
A
ALA
313
n
148
ALA
313
A
GLN
314
n
149
GLN
314
A
CYS
315
n
150
CYS
315
A
ILE
316
n
151
ILE
316
A
ASP
317
n
152
ASP
317
A
GLY
318
n
153
GLY
318
A
THR
319
n
154
THR
319
A
ILE
320
n
155
ILE
320
A
GLU
321
n
156
GLU
321
A
VAL
322
n
157
VAL
322
A
PRO
323
n
158
PRO
323
A
LYS
324
n
159
LYS
324
A
CYS
325
n
160
CYS
325
A
PHE
326
n
161
PHE
326
A
LYS
327
n
162
LYS
327
A
GLU
328
n
163
GLU
328
A
HIS
329
n
164
HIS
329
A
SER
330
n
165
SER
330
A
SER
331
n
166
SER
331
A
LEU
332
n
167
LEU
332
A
ALA
333
n
168
ALA
333
A
PHE
334
n
169
PHE
334
A
TRP
335
n
170
TRP
335
A
LYS
336
n
171
LYS
336
A
THR
337
n
172
THR
337
A
ASP
338
n
173
ASP
338
A
ALA
339
n
174
ALA
339
A
SER
340
n
175
SER
340
A
ASP
341
n
176
ASP
341
A
VAL
342
n
177
VAL
342
A
LYS
343
n
178
LYS
343
A
PRO
344
n
179
PRO
344
A
CYS
345
n
180
CYS
345
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
PHE
215
A
N
PHE
50
A
O
GLY
233
A
O
GLY
68
A
N
ALA
230
A
N
ALA
65
A
O
ILE
246
A
O
ILE
81
A
N
ASP
241
A
N
ASP
76
A
O
SER
259
A
O
SER
94
A
O
VAL
280
A
O
VAL
115
A
N
VAL
273
A
N
VAL
108
A
N
VAL
274
A
N
VAL
109
A
O
SER
297
A
O
SER
132
A
N
CYS
300
A
N
CYS
135
A
O
TYR
309
A
O
TYR
144
1
A
CG
LYS
227
A
CG
LYS
62
1
Y
1
A
CD
LYS
227
A
CD
LYS
62
1
Y
1
A
CE
LYS
227
A
CE
LYS
62
1
Y
1
A
NZ
LYS
227
A
NZ
LYS
62
1
Y
1
A
CG
LYS
250
A
CG
LYS
85
1
Y
1
A
CD
LYS
250
A
CD
LYS
85
1
Y
1
A
CE
LYS
250
A
CE
LYS
85
1
Y
1
A
NZ
LYS
250
A
NZ
LYS
85
1
Y
1
A
CG
LEU
251
A
CG
LEU
86
1
Y
1
A
CD1
LEU
251
A
CD1
LEU
86
1
Y
1
A
CD2
LEU
251
A
CD2
LEU
86
1
Y
1
A
CG
GLU
304
A
CG
GLU
139
1
Y
1
A
CD
GLU
304
A
CD
GLU
139
1
Y
1
A
OE1
GLU
304
A
OE1
GLU
139
1
Y
1
A
OE2
GLU
304
A
OE2
GLU
139
1
Y
1
A
CG
LYS
306
A
CG
LYS
141
1
Y
1
A
CD
LYS
306
A
CD
LYS
141
1
Y
1
A
CE
LYS
306
A
CE
LYS
141
1
Y
1
A
NZ
LYS
306
A
NZ
LYS
141
1
Y
1
A
GLN
166
A
GLN
1
1
Y
1
A
ASP
167
A
ASP
2
1
Y
1
A
TYR
168
A
TYR
3
1
Y
1
A
LYS
169
A
LYS
4
1
Y
1
A
ASP
170
A
ASP
5
1
Y
1
A
ASP
171
A
ASP
6
1
Y
1
A
ASP
172
A
ASP
7
1
Y
1
A
ASP
173
A
ASP
8
1
Y
1
A
LYS
174
A
LYS
9
1
Y
1
A
HIS
175
A
HIS
10
1
Y
1
A
HIS
176
A
HIS
11
1
Y
1
A
HIS
177
A
HIS
12
1
Y
1
A
HIS
178
A
HIS
13
1
Y
1
A
HIS
179
A
HIS
14
1
Y
1
A
HIS
180
A
HIS
15
1
Y
1
A
HIS
181
A
HIS
16
1
Y
1
A
HIS
182
A
HIS
17
1
Y
1
A
HIS
183
A
HIS
18
1
Y
1
A
HIS
184
A
HIS
19
1
Y
1
A
GLU
185
A
GLU
20
1
Y
1
A
ASN
186
A
ASN
21
1
Y
1
A
LEU
187
A
LEU
22
1
Y
1
A
TYR
188
A
TYR
23
1
Y
1
A
PHE
189
A
PHE
24
1
Y
1
A
GLN
190
A
GLN
25
1
Y
1
A
SER
191
A
SER
26
1
Y
1
A
HIS
192
A
HIS
27
1
Y
1
A
VAL
193
A
VAL
28
1
Y
1
A
LEU
194
A
LEU
29
1
Y
1
A
PHE
195
A
PHE
30
1
Y
1
A
ILE
196
A
ILE
31
1
Y
1
A
PHE
197
A
PHE
32
1
Y
1
A
PRO
198
A
PRO
33
1
Y
1
A
ARG
199
A
ARG
34
1
Y
1
A
THR
200
A
THR
35
1
Y
1
A
SER
201
A
SER
36
1
Y
1
A
GLY
202
A
GLY
37
1
Y
1
A
VAL
203
A
VAL
38
1
Y
1
A
TYR
226
164.24
142.69
1
A
LYS
227
62.17
-8.04
1
A
SER
255
-58.38
-6.65
1
A
ALA
256
179.10
178.41
1
A
MET
257
-153.47
86.61
110.960
53.8027
25.750
0.2496
0.2066
0.2086
3.0
20.0
331
6987
6984
99.95
0.2260
0.1818
1.000
1.000
0.8611
0.4440
0.3104
Random
1
THROUGHOUT
0
MOLECULAR REPLACEMENT
1C1Z
Engh & Huber
3.0
20.0
0
1112
15
0
1097
0.010
1.370
7.206
37.724
0.071
0.005
22.262
23.261
0.421
0.285
3.076
24
492
100.00
70.3
3.0
50.0
4JHS
7030
7030
-3
-3
0.180
1
16.900
21.500
100.000
0.819
3.000
3.160
1.000
21340
999
0.819
1
21.400
100.000
0.514
3.160
3.350
1.500
20768
951
0.514
1
21.800
100.000
0.344
3.350
3.590
2.300
19731
892
0.344
1
22.100
100.000
0.233
3.590
3.870
3.300
18342
825
0.233
1
22.200
100.000
0.150
3.870
4.240
5.000
17162
777
0.150
1
22.100
100.000
0.119
4.240
4.740
6.200
15184
702
0.119
1
21.600
100.000
0.120
4.740
5.480
6.100
13456
639
0.120
1
21.100
100.000
0.114
5.480
6.710
6.100
10528
541
0.114
1
19.500
100.000
0.073
6.710
9.490
9.000
9214
433
0.073
1
21.300
100.000
0.059
9.490
49.898
9.700
5088
271
0.059
1
18.800
99.400
data scaling
Phil R. Evans
pre@mrc-lmb.cam.ac.uk
2011/05/18
Fortran_77
http://www.ccp4.ac.uk/dist/html/scala.html
SCALA
other
3.3.20
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
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
MAR345
data reduction
MOSFLM
phasing
MOLREP
model building
Coot
Crystal structure of a C-terminal two domain fragment of human beta-2-glycoprotein 1
1
N
N
2
N
N
2
N
N
2
N
N
A
ILE
282
A
ILE
117
HELX_P
A
PHE
286
A
PHE
121
1
1
5
A
ASP
338
A
ASP
173
HELX_P
A
VAL
342
A
VAL
177
5
2
5
disulf
2.040
A
CYS
205
A
SG
CYS
40
1_555
A
CYS
248
A
SG
CYS
83
1_555
disulf
2.071
A
CYS
234
A
SG
CYS
69
1_555
A
CYS
260
A
SG
CYS
95
1_555
disulf
2.053
A
CYS
264
A
SG
CYS
99
1_555
A
CYS
315
A
SG
CYS
150
1_555
disulf
2.092
A
CYS
300
A
SG
CYS
135
1_555
A
CYS
325
A
SG
CYS
160
1_555
disulf
2.047
A
CYS
307
A
SG
CYS
142
1_555
A
CYS
345
A
SG
CYS
180
1_555
SIGNALING PROTEIN
STRUCTURAL GENOMICS, GLYCOPROTEIN, PSI-Biology, New York Structural Genomics Research Consortium, NYSGRC, Atoms-to-Animals: The Immune Function Network, IFN, SIGNALING PROTEIN
APOH_HUMAN
UNP
1
203
P02749
VKCPFPSRPDNGFVNYPAKPTLYYKDKATFGCHDGYSLDGPEEIECTKLGNWSAMPSCKASCKVPVKKATVVYQGERVKI
QEKFKNGMLHGDKVSFFCKNKEKKCSYTEDAQCIDGTIEVPKCFKEHSSLAFWKTDASDVKPC
203
345
4JHS
203
345
P02749
A
1
38
180
1
expression tag
GLN
166
4JHS
A
P02749
UNP
1
1
expression tag
ASP
167
4JHS
A
P02749
UNP
2
1
expression tag
TYR
168
4JHS
A
P02749
UNP
3
1
expression tag
LYS
169
4JHS
A
P02749
UNP
4
1
expression tag
ASP
170
4JHS
A
P02749
UNP
5
1
expression tag
ASP
171
4JHS
A
P02749
UNP
6
1
expression tag
ASP
172
4JHS
A
P02749
UNP
7
1
expression tag
ASP
173
4JHS
A
P02749
UNP
8
1
expression tag
LYS
174
4JHS
A
P02749
UNP
9
1
expression tag
HIS
175
4JHS
A
P02749
UNP
10
1
expression tag
HIS
176
4JHS
A
P02749
UNP
11
1
expression tag
HIS
177
4JHS
A
P02749
UNP
12
1
expression tag
HIS
178
4JHS
A
P02749
UNP
13
1
expression tag
HIS
179
4JHS
A
P02749
UNP
14
1
expression tag
HIS
180
4JHS
A
P02749
UNP
15
1
expression tag
HIS
181
4JHS
A
P02749
UNP
16
1
expression tag
HIS
182
4JHS
A
P02749
UNP
17
1
expression tag
HIS
183
4JHS
A
P02749
UNP
18
1
expression tag
HIS
184
4JHS
A
P02749
UNP
19
1
expression tag
GLU
185
4JHS
A
P02749
UNP
20
1
expression tag
ASN
186
4JHS
A
P02749
UNP
21
1
expression tag
LEU
187
4JHS
A
P02749
UNP
22
1
expression tag
TYR
188
4JHS
A
P02749
UNP
23
1
expression tag
PHE
189
4JHS
A
P02749
UNP
24
1
expression tag
GLN
190
4JHS
A
P02749
UNP
25
1
expression tag
SER
191
4JHS
A
P02749
UNP
26
1
expression tag
HIS
192
4JHS
A
P02749
UNP
27
1
expression tag
VAL
193
4JHS
A
P02749
UNP
28
1
expression tag
LEU
194
4JHS
A
P02749
UNP
29
1
expression tag
PHE
195
4JHS
A
P02749
UNP
30
1
expression tag
ILE
196
4JHS
A
P02749
UNP
31
1
expression tag
PHE
197
4JHS
A
P02749
UNP
32
1
expression tag
PRO
198
4JHS
A
P02749
UNP
33
1
expression tag
ARG
199
4JHS
A
P02749
UNP
34
1
expression tag
THR
200
4JHS
A
P02749
UNP
35
1
expression tag
SER
201
4JHS
A
P02749
UNP
36
1
expression tag
GLY
202
4JHS
A
P02749
UNP
37
3
2
4
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
GLY
214
A
GLY
49
A
ASN
217
A
ASN
52
A
LYS
229
A
LYS
64
A
CYS
234
A
CYS
69
A
GLU
245
A
GLU
80
A
GLU
247
A
GLU
82
A
TYR
238
A
TYR
73
A
ASP
241
A
ASP
76
A
SER
259
A
SER
94
A
ALA
262
A
ALA
97
A
GLU
278
A
GLU
113
A
LYS
281
A
LYS
116
A
THR
272
A
THR
107
A
TYR
275
A
TYR
110
A
LYS
295
A
LYS
130
A
ASN
302
A
ASN
137
A
CYS
307
A
CYS
142
A
GLN
314
A
GLN
149
BINDING SITE FOR RESIDUE SO4 A 401
A
SO4
401
Software
4
BINDING SITE FOR RESIDUE SO4 A 402
A
SO4
402
Software
5
BINDING SITE FOR RESIDUE SO4 A 403
A
SO4
403
Software
3
A
LYS
301
A
LYS
136
4
1_555
A
LYS
303
A
LYS
138
4
1_555
A
HIS
329
A
HIS
164
4
1_555
A
LYS
336
A
LYS
171
4
1_555
A
LYS
301
A
LYS
136
5
1_555
A
LYS
303
A
LYS
138
5
1_555
A
TRP
335
A
TRP
170
5
1_555
A
LYS
336
A
LYS
171
5
1_555
A
THR
337
A
THR
172
5
1_555
A
ARG
210
A
ARG
45
3
1_555
A
ASN
213
A
ASN
48
3
1_555
A
HIS
235
A
HIS
70
3
1_555
214
I 41 3 2