0.019410
0.000000
0.007783
-0.000000
0.012517
0.000000
0.000000
-0.000000
0.019437
0.000000
0.000000
0.000000
Gras, S.
Chouquet, A.
Debeaupuis, E.
Echasserieau, K.
Saulquin, X.
Bonneville, M.
Housset, D.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
2
90.000
111.850
90.000
51.520
79.890
55.430
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
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
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
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
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
To be Published
0353
Crystal Structure of MHC class I HLA-A2 molecule complexed with AFP137 nonapeptide
10.2210/pdb3mrk/pdb
pdb_00003mrk
100
1
CCD
2006-09-01
ADSC QUANTUM 315r
SINGLE WAVELENGTH
M
x-ray
1
1.07225
1.0
ID23-1
ESRF
1.07225
SYNCHROTRON
ESRF BEAMLINE ID23-1
34008.711
HLA class I histocompatibility antigen, A-2 alpha chain
HLA-A*0201 alpha chain, UNP resiude 25-300
A245V
1
man
polymer
11879.356
Beta-2-microglobulin
1
man
polymer
1025.195
9-meric peptide from Alpha-fetoprotein
UNP residues 137-145
1
syn
polymer
18.015
water
299
nat
water
MHC class I antigen A*2
Beta-2-microglobulin form pI 5.3
Alpha-1-fetoprotein, Alpha-fetoglobulin
no
no
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGT
LRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYL
EGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWVAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEPGSLHHILDAQKMVWNHR
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGT
LRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYL
EGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWVAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEPGSLHHILDAQKMVWNHR
A
polypeptide(L)
no
no
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYA
CRVNHVTLSQPKIVKWDRDM
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYA
CRVNHVTLSQPKIVKWDRDM
B
polypeptide(L)
no
no
PLFQVPEPV
PLFQVPEPV
P
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
n
n
n
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
C-terminal biotin acceptor peptide sequence tag (GSLHHILDAQKMVWNHR)
sample
HLA, HLA-A, HLAA
9606
Homo sapiens
562
Escherichia coli
X90F LAQQ1
plasmid
pHN1
human
sample
B2M, BETA-2 MICROGLUBULIN, CDABP0092, HDCMA22P
9606
Homo sapiens
562
Escherichia coli
X90F LAQQ1
plasmid
pHN1
1
2.26
45.50
VAPOR DIFFUSION, HANGING DROP
6.5
10% PEG 6000, 0.1M NaCitrate, 5mg/ml protein conc., pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_ref_seq_dif
repository
Initial release
Version format compliance
Data collection
Database references
Refinement description
1
0
2011-05-25
1
1
2011-07-13
1
2
2023-11-01
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
HLA-A2/NLV(M5A) complex
HLA-A2/NLV(A7H) complex
HLA-A2/NLV(V6C) complex
HLA-A2/NLV(V6G) complex
HLA-A2/GLC complex
HLA-A2/GLC(T4P) complex
HLA-A2/CIN complex
HLA-A2/CIN(N3S) complex
HLA-A2/CIN(G4M-V5W) complex
HLA-A2/CIN(V5M) complex
HLA-A2/CIN(C6V) complex
HLA-A2/KLV complex
HLA-A2/LLF complex
HLA-A2/ELA(I5W) complex
HLA-A2/ELA(I5L-L8N) complex
HLA-A2/ELA(I5L-L8N) complex
HLA-A2/LLA complex
HLA-A2/NLV/RA14 TCR complex
HLA-A2/NLV complex
HLA-A2/NLV(M5S) complex
HLA-A2/NLV(M5V) complex
HLA-A2/NLV(M5T) complex
HLA-A2/NLV(M5Q) complex
HLA-A2/NLV(T8A) complex
HLA-A2/NLV(T8V) complex
RCSB
Y
PDBJ
2010-04-29
REL
REL
HOH
water
Chemical synthesis
9606
Human
Homo sapiens
sample
3GSO
PDB ENTRY 3GSO
PDB
experimental model
HOH
2
4
HOH
HOH
294
A
HOH
295
4
HOH
HOH
295
A
HOH
296
4
HOH
HOH
296
A
HOH
4
4
HOH
HOH
297
A
HOH
298
4
HOH
HOH
298
A
HOH
299
4
HOH
HOH
299
A
HOH
300
4
HOH
HOH
300
A
HOH
301
4
HOH
HOH
301
A
HOH
302
4
HOH
HOH
302
A
HOH
5
4
HOH
HOH
303
A
HOH
304
4
HOH
HOH
304
A
HOH
6
4
HOH
HOH
305
A
HOH
306
4
HOH
HOH
306
A
HOH
7
4
HOH
HOH
307
A
HOH
8
4
HOH
HOH
308
A
HOH
309
4
HOH
HOH
309
A
HOH
310
4
HOH
HOH
310
A
HOH
311
4
HOH
HOH
311
A
HOH
312
4
HOH
HOH
312
A
HOH
11
4
HOH
HOH
313
A
HOH
314
4
HOH
HOH
314
A
HOH
315
4
HOH
HOH
315
A
HOH
316
4
HOH
HOH
316
A
HOH
12
4
HOH
HOH
317
A
HOH
13
4
HOH
HOH
318
A
HOH
319
4
HOH
HOH
319
A
HOH
14
4
HOH
HOH
320
A
HOH
15
4
HOH
HOH
321
A
HOH
16
4
HOH
HOH
322
A
HOH
17
4
HOH
HOH
323
A
HOH
18
4
HOH
HOH
324
A
HOH
19
4
HOH
HOH
325
A
HOH
20
4
HOH
HOH
326
A
HOH
21
4
HOH
HOH
327
A
HOH
22
4
HOH
HOH
328
A
HOH
23
4
HOH
HOH
329
A
HOH
24
4
HOH
HOH
330
A
HOH
26
4
HOH
HOH
331
A
HOH
27
4
HOH
HOH
332
A
HOH
28
4
HOH
HOH
333
A
HOH
29
4
HOH
HOH
334
A
HOH
30
4
HOH
HOH
335
A
HOH
31
4
HOH
HOH
336
A
HOH
33
4
HOH
HOH
337
A
HOH
34
4
HOH
HOH
338
A
HOH
35
4
HOH
HOH
339
A
HOH
36
4
HOH
HOH
340
A
HOH
37
4
HOH
HOH
341
A
HOH
38
4
HOH
HOH
342
A
HOH
39
4
HOH
HOH
343
A
HOH
40
4
HOH
HOH
344
A
HOH
41
4
HOH
HOH
345
A
HOH
42
4
HOH
HOH
346
A
HOH
43
4
HOH
HOH
347
A
HOH
44
4
HOH
HOH
348
A
HOH
45
4
HOH
HOH
349
A
HOH
47
4
HOH
HOH
350
A
HOH
48
4
HOH
HOH
351
A
HOH
49
4
HOH
HOH
352
A
HOH
50
4
HOH
HOH
353
A
HOH
51
4
HOH
HOH
354
A
HOH
52
4
HOH
HOH
355
A
HOH
53
4
HOH
HOH
356
A
HOH
55
4
HOH
HOH
357
A
HOH
56
4
HOH
HOH
358
A
HOH
57
4
HOH
HOH
359
A
HOH
58
4
HOH
HOH
360
A
HOH
59
4
HOH
HOH
361
A
HOH
62
4
HOH
HOH
362
A
HOH
63
4
HOH
HOH
363
A
HOH
64
4
HOH
HOH
364
A
HOH
65
4
HOH
HOH
365
A
HOH
66
4
HOH
HOH
366
A
HOH
67
4
HOH
HOH
367
A
HOH
68
4
HOH
HOH
368
A
HOH
69
4
HOH
HOH
369
A
HOH
70
4
HOH
HOH
370
A
HOH
71
4
HOH
HOH
371
A
HOH
72
4
HOH
HOH
372
A
HOH
75
4
HOH
HOH
373
A
HOH
77
4
HOH
HOH
374
A
HOH
78
4
HOH
HOH
375
A
HOH
79
4
HOH
HOH
376
A
HOH
80
4
HOH
HOH
377
A
HOH
82
4
HOH
HOH
378
A
HOH
83
4
HOH
HOH
379
A
HOH
84
4
HOH
HOH
380
A
HOH
85
4
HOH
HOH
381
A
HOH
86
4
HOH
HOH
382
A
HOH
87
4
HOH
HOH
383
A
HOH
89
4
HOH
HOH
384
A
HOH
90
4
HOH
HOH
385
A
HOH
92
4
HOH
HOH
386
A
HOH
96
4
HOH
HOH
387
A
HOH
98
4
HOH
HOH
388
A
HOH
99
4
HOH
HOH
389
A
HOH
101
4
HOH
HOH
390
A
HOH
102
4
HOH
HOH
391
A
HOH
103
4
HOH
HOH
392
A
HOH
105
4
HOH
HOH
393
A
HOH
106
4
HOH
HOH
394
A
HOH
107
4
HOH
HOH
395
A
HOH
108
4
HOH
HOH
396
A
HOH
109
4
HOH
HOH
397
A
HOH
110
4
HOH
HOH
398
A
HOH
112
4
HOH
HOH
399
A
HOH
113
4
HOH
HOH
400
A
HOH
114
4
HOH
HOH
401
A
HOH
115
4
HOH
HOH
402
A
HOH
117
4
HOH
HOH
403
A
HOH
118
4
HOH
HOH
404
A
HOH
119
4
HOH
HOH
405
A
HOH
121
4
HOH
HOH
406
A
HOH
122
4
HOH
HOH
407
A
HOH
123
4
HOH
HOH
408
A
HOH
125
4
HOH
HOH
409
A
HOH
126
4
HOH
HOH
410
A
HOH
127
4
HOH
HOH
411
A
HOH
129
4
HOH
HOH
412
A
HOH
130
4
HOH
HOH
413
A
HOH
131
4
HOH
HOH
414
A
HOH
132
4
HOH
HOH
415
A
HOH
133
4
HOH
HOH
416
A
HOH
134
4
HOH
HOH
417
A
HOH
135
4
HOH
HOH
418
A
HOH
136
4
HOH
HOH
419
A
HOH
137
4
HOH
HOH
420
A
HOH
140
4
HOH
HOH
421
A
HOH
141
4
HOH
HOH
422
A
HOH
142
4
HOH
HOH
423
A
HOH
143
4
HOH
HOH
424
A
HOH
144
4
HOH
HOH
425
A
HOH
145
4
HOH
HOH
426
A
HOH
147
4
HOH
HOH
427
A
HOH
148
4
HOH
HOH
428
A
HOH
150
4
HOH
HOH
429
A
HOH
151
4
HOH
HOH
430
A
HOH
152
4
HOH
HOH
431
A
HOH
154
4
HOH
HOH
432
A
HOH
155
4
HOH
HOH
433
A
HOH
156
4
HOH
HOH
434
A
HOH
157
4
HOH
HOH
435
A
HOH
158
4
HOH
HOH
436
A
HOH
160
4
HOH
HOH
437
A
HOH
161
4
HOH
HOH
438
A
HOH
162
4
HOH
HOH
439
A
HOH
163
4
HOH
HOH
440
A
HOH
164
4
HOH
HOH
441
A
HOH
165
4
HOH
HOH
442
A
HOH
167
4
HOH
HOH
443
A
HOH
168
4
HOH
HOH
444
A
HOH
169
4
HOH
HOH
445
A
HOH
171
4
HOH
HOH
446
A
HOH
173
4
HOH
HOH
447
A
HOH
174
4
HOH
HOH
448
A
HOH
175
4
HOH
HOH
449
A
HOH
176
4
HOH
HOH
450
A
HOH
177
4
HOH
HOH
451
A
HOH
178
4
HOH
HOH
452
A
HOH
179
4
HOH
HOH
453
A
HOH
180
4
HOH
HOH
454
A
HOH
181
4
HOH
HOH
455
A
HOH
182
4
HOH
HOH
456
A
HOH
183
4
HOH
HOH
457
A
HOH
184
4
HOH
HOH
458
A
HOH
185
4
HOH
HOH
459
A
HOH
189
4
HOH
HOH
460
A
HOH
190
4
HOH
HOH
461
A
HOH
191
4
HOH
HOH
462
A
HOH
194
4
HOH
HOH
463
A
HOH
195
4
HOH
HOH
464
A
HOH
196
4
HOH
HOH
465
A
HOH
197
4
HOH
HOH
466
A
HOH
198
4
HOH
HOH
467
A
HOH
200
4
HOH
HOH
468
A
HOH
203
4
HOH
HOH
469
A
HOH
204
4
HOH
HOH
470
A
HOH
208
4
HOH
HOH
471
A
HOH
211
4
HOH
HOH
472
A
HOH
214
4
HOH
HOH
473
A
HOH
215
4
HOH
HOH
474
A
HOH
217
4
HOH
HOH
475
A
HOH
218
4
HOH
HOH
476
A
HOH
219
4
HOH
HOH
477
A
HOH
222
4
HOH
HOH
478
A
HOH
224
4
HOH
HOH
479
A
HOH
225
4
HOH
HOH
480
A
HOH
226
4
HOH
HOH
481
A
HOH
227
4
HOH
HOH
482
A
HOH
228
4
HOH
HOH
483
A
HOH
229
4
HOH
HOH
484
A
HOH
230
4
HOH
HOH
485
A
HOH
232
4
HOH
HOH
486
A
HOH
233
4
HOH
HOH
487
A
HOH
234
4
HOH
HOH
488
A
HOH
242
4
HOH
HOH
489
A
HOH
243
4
HOH
HOH
490
A
HOH
245
4
HOH
HOH
491
A
HOH
247
4
HOH
HOH
492
A
HOH
248
4
HOH
HOH
493
A
HOH
249
4
HOH
HOH
494
A
HOH
250
4
HOH
HOH
495
A
HOH
251
4
HOH
HOH
496
A
HOH
252
4
HOH
HOH
497
A
HOH
253
4
HOH
HOH
498
A
HOH
254
4
HOH
HOH
499
A
HOH
257
4
HOH
HOH
500
A
HOH
261
4
HOH
HOH
501
A
HOH
262
4
HOH
HOH
502
A
HOH
264
4
HOH
HOH
503
A
HOH
265
4
HOH
HOH
504
A
HOH
266
4
HOH
HOH
505
A
HOH
267
4
HOH
HOH
506
A
HOH
269
4
HOH
HOH
507
A
HOH
270
4
HOH
HOH
508
A
HOH
271
4
HOH
HOH
509
A
HOH
273
4
HOH
HOH
510
A
HOH
274
4
HOH
HOH
511
A
HOH
275
4
HOH
HOH
512
A
HOH
277
4
HOH
HOH
513
A
HOH
279
4
HOH
HOH
514
A
HOH
282
4
HOH
HOH
515
A
HOH
286
4
HOH
HOH
516
A
HOH
287
4
HOH
HOH
517
A
HOH
288
4
HOH
HOH
518
A
HOH
289
4
HOH
HOH
519
A
HOH
290
4
HOH
HOH
520
A
HOH
291
4
HOH
HOH
521
A
HOH
292
4
HOH
HOH
522
A
HOH
293
4
HOH
HOH
523
A
HOH
100
4
HOH
HOH
100
B
HOH
1
4
HOH
HOH
101
B
HOH
3
4
HOH
HOH
102
B
HOH
25
4
HOH
HOH
103
B
HOH
104
4
HOH
HOH
104
B
HOH
32
4
HOH
HOH
105
B
HOH
46
4
HOH
HOH
106
B
HOH
54
4
HOH
HOH
107
B
HOH
60
4
HOH
HOH
108
B
HOH
61
4
HOH
HOH
109
B
HOH
73
4
HOH
HOH
110
B
HOH
74
4
HOH
HOH
111
B
HOH
76
4
HOH
HOH
112
B
HOH
81
4
HOH
HOH
113
B
HOH
88
4
HOH
HOH
114
B
HOH
91
4
HOH
HOH
115
B
HOH
116
4
HOH
HOH
116
B
HOH
93
4
HOH
HOH
117
B
HOH
95
4
HOH
HOH
118
B
HOH
97
4
HOH
HOH
119
B
HOH
120
4
HOH
HOH
120
B
HOH
128
4
HOH
HOH
128
B
HOH
138
4
HOH
HOH
138
B
HOH
139
4
HOH
HOH
139
B
HOH
146
4
HOH
HOH
146
B
HOH
149
4
HOH
HOH
149
B
HOH
153
4
HOH
HOH
153
B
HOH
159
4
HOH
HOH
159
B
HOH
166
4
HOH
HOH
166
B
HOH
188
4
HOH
HOH
188
B
HOH
192
4
HOH
HOH
192
B
HOH
193
4
HOH
HOH
193
B
HOH
199
4
HOH
HOH
199
B
HOH
201
4
HOH
HOH
201
B
HOH
205
4
HOH
HOH
205
B
HOH
206
4
HOH
HOH
206
B
HOH
207
4
HOH
HOH
207
B
HOH
209
4
HOH
HOH
209
B
HOH
212
4
HOH
HOH
212
B
HOH
213
4
HOH
HOH
213
B
HOH
216
4
HOH
HOH
216
B
HOH
221
4
HOH
HOH
221
B
HOH
223
4
HOH
HOH
223
B
HOH
231
4
HOH
HOH
231
B
HOH
239
4
HOH
HOH
239
B
HOH
241
4
HOH
HOH
241
B
HOH
256
4
HOH
HOH
256
B
HOH
258
4
HOH
HOH
258
B
HOH
263
4
HOH
HOH
263
B
HOH
268
4
HOH
HOH
268
B
HOH
276
4
HOH
HOH
276
B
HOH
278
4
HOH
HOH
278
B
HOH
280
4
HOH
HOH
280
B
HOH
285
4
HOH
HOH
285
B
HOH
297
4
HOH
HOH
297
B
HOH
305
4
HOH
HOH
305
B
HOH
308
4
HOH
HOH
308
B
HOH
313
4
HOH
HOH
313
B
HOH
317
4
HOH
HOH
317
B
HOH
318
4
HOH
HOH
318
B
HOH
320
4
HOH
HOH
320
B
HOH
10
4
HOH
HOH
10
P
HOH
9
4
HOH
HOH
11
P
HOH
111
4
HOH
HOH
111
P
HOH
124
4
HOH
HOH
124
P
HOH
170
4
HOH
HOH
170
P
HOH
210
4
HOH
HOH
210
P
HOH
237
4
HOH
HOH
237
P
HOH
260
4
HOH
HOH
260
P
GLY
1
n
1
GLY
1
A
SER
2
n
2
SER
2
A
HIS
3
n
3
HIS
3
A
SER
4
n
4
SER
4
A
MET
5
n
5
MET
5
A
ARG
6
n
6
ARG
6
A
TYR
7
n
7
TYR
7
A
PHE
8
n
8
PHE
8
A
PHE
9
n
9
PHE
9
A
THR
10
n
10
THR
10
A
SER
11
n
11
SER
11
A
VAL
12
n
12
VAL
12
A
SER
13
n
13
SER
13
A
ARG
14
n
14
ARG
14
A
PRO
15
n
15
PRO
15
A
GLY
16
n
16
GLY
16
A
ARG
17
n
17
ARG
17
A
GLY
18
n
18
GLY
18
A
GLU
19
n
19
GLU
19
A
PRO
20
n
20
PRO
20
A
ARG
21
n
21
ARG
21
A
PHE
22
n
22
PHE
22
A
ILE
23
n
23
ILE
23
A
ALA
24
n
24
ALA
24
A
VAL
25
n
25
VAL
25
A
GLY
26
n
26
GLY
26
A
TYR
27
n
27
TYR
27
A
VAL
28
n
28
VAL
28
A
ASP
29
n
29
ASP
29
A
ASP
30
n
30
ASP
30
A
THR
31
n
31
THR
31
A
GLN
32
n
32
GLN
32
A
PHE
33
n
33
PHE
33
A
VAL
34
n
34
VAL
34
A
ARG
35
n
35
ARG
35
A
PHE
36
n
36
PHE
36
A
ASP
37
n
37
ASP
37
A
SER
38
n
38
SER
38
A
ASP
39
n
39
ASP
39
A
ALA
40
n
40
ALA
40
A
ALA
41
n
41
ALA
41
A
SER
42
n
42
SER
42
A
GLN
43
n
43
GLN
43
A
ARG
44
n
44
ARG
44
A
MET
45
n
45
MET
45
A
GLU
46
n
46
GLU
46
A
PRO
47
n
47
PRO
47
A
ARG
48
n
48
ARG
48
A
ALA
49
n
49
ALA
49
A
PRO
50
n
50
PRO
50
A
TRP
51
n
51
TRP
51
A
ILE
52
n
52
ILE
52
A
GLU
53
n
53
GLU
53
A
GLN
54
n
54
GLN
54
A
GLU
55
n
55
GLU
55
A
GLY
56
n
56
GLY
56
A
PRO
57
n
57
PRO
57
A
GLU
58
n
58
GLU
58
A
TYR
59
n
59
TYR
59
A
TRP
60
n
60
TRP
60
A
ASP
61
n
61
ASP
61
A
GLY
62
n
62
GLY
62
A
GLU
63
n
63
GLU
63
A
THR
64
n
64
THR
64
A
ARG
65
n
65
ARG
65
A
LYS
66
n
66
LYS
66
A
VAL
67
n
67
VAL
67
A
LYS
68
n
68
LYS
68
A
ALA
69
n
69
ALA
69
A
HIS
70
n
70
HIS
70
A
SER
71
n
71
SER
71
A
GLN
72
n
72
GLN
72
A
THR
73
n
73
THR
73
A
HIS
74
n
74
HIS
74
A
ARG
75
n
75
ARG
75
A
VAL
76
n
76
VAL
76
A
ASP
77
n
77
ASP
77
A
LEU
78
n
78
LEU
78
A
GLY
79
n
79
GLY
79
A
THR
80
n
80
THR
80
A
LEU
81
n
81
LEU
81
A
ARG
82
n
82
ARG
82
A
GLY
83
n
83
GLY
83
A
TYR
84
n
84
TYR
84
A
TYR
85
n
85
TYR
85
A
ASN
86
n
86
ASN
86
A
GLN
87
n
87
GLN
87
A
SER
88
n
88
SER
88
A
GLU
89
n
89
GLU
89
A
ALA
90
n
90
ALA
90
A
GLY
91
n
91
GLY
91
A
SER
92
n
92
SER
92
A
HIS
93
n
93
HIS
93
A
THR
94
n
94
THR
94
A
VAL
95
n
95
VAL
95
A
GLN
96
n
96
GLN
96
A
ARG
97
n
97
ARG
97
A
MET
98
n
98
MET
98
A
TYR
99
n
99
TYR
99
A
GLY
100
n
100
GLY
100
A
CYS
101
n
101
CYS
101
A
ASP
102
n
102
ASP
102
A
VAL
103
n
103
VAL
103
A
GLY
104
n
104
GLY
104
A
SER
105
n
105
SER
105
A
ASP
106
n
106
ASP
106
A
TRP
107
n
107
TRP
107
A
ARG
108
n
108
ARG
108
A
PHE
109
n
109
PHE
109
A
LEU
110
n
110
LEU
110
A
ARG
111
n
111
ARG
111
A
GLY
112
n
112
GLY
112
A
TYR
113
n
113
TYR
113
A
HIS
114
n
114
HIS
114
A
GLN
115
n
115
GLN
115
A
TYR
116
n
116
TYR
116
A
ALA
117
n
117
ALA
117
A
TYR
118
n
118
TYR
118
A
ASP
119
n
119
ASP
119
A
GLY
120
n
120
GLY
120
A
LYS
121
n
121
LYS
121
A
ASP
122
n
122
ASP
122
A
TYR
123
n
123
TYR
123
A
ILE
124
n
124
ILE
124
A
ALA
125
n
125
ALA
125
A
LEU
126
n
126
LEU
126
A
LYS
127
n
127
LYS
127
A
GLU
128
n
128
GLU
128
A
ASP
129
n
129
ASP
129
A
LEU
130
n
130
LEU
130
A
ARG
131
n
131
ARG
131
A
SER
132
n
132
SER
132
A
TRP
133
n
133
TRP
133
A
THR
134
n
134
THR
134
A
ALA
135
n
135
ALA
135
A
ALA
136
n
136
ALA
136
A
ASP
137
n
137
ASP
137
A
MET
138
n
138
MET
138
A
ALA
139
n
139
ALA
139
A
ALA
140
n
140
ALA
140
A
GLN
141
n
141
GLN
141
A
THR
142
n
142
THR
142
A
THR
143
n
143
THR
143
A
LYS
144
n
144
LYS
144
A
HIS
145
n
145
HIS
145
A
LYS
146
n
146
LYS
146
A
TRP
147
n
147
TRP
147
A
GLU
148
n
148
GLU
148
A
ALA
149
n
149
ALA
149
A
ALA
150
n
150
ALA
150
A
HIS
151
n
151
HIS
151
A
VAL
152
n
152
VAL
152
A
ALA
153
n
153
ALA
153
A
GLU
154
n
154
GLU
154
A
GLN
155
n
155
GLN
155
A
LEU
156
n
156
LEU
156
A
ARG
157
n
157
ARG
157
A
ALA
158
n
158
ALA
158
A
TYR
159
n
159
TYR
159
A
LEU
160
n
160
LEU
160
A
GLU
161
n
161
GLU
161
A
GLY
162
n
162
GLY
162
A
THR
163
n
163
THR
163
A
CYS
164
n
164
CYS
164
A
VAL
165
n
165
VAL
165
A
GLU
166
n
166
GLU
166
A
TRP
167
n
167
TRP
167
A
LEU
168
n
168
LEU
168
A
ARG
169
n
169
ARG
169
A
ARG
170
n
170
ARG
170
A
TYR
171
n
171
TYR
171
A
LEU
172
n
172
LEU
172
A
GLU
173
n
173
GLU
173
A
ASN
174
n
174
ASN
174
A
GLY
175
n
175
GLY
175
A
LYS
176
n
176
LYS
176
A
GLU
177
n
177
GLU
177
A
THR
178
n
178
THR
178
A
LEU
179
n
179
LEU
179
A
GLN
180
n
180
GLN
180
A
ARG
181
n
181
ARG
181
A
THR
182
n
182
THR
182
A
ASP
183
n
183
ASP
183
A
ALA
184
n
184
ALA
184
A
PRO
185
n
185
PRO
185
A
LYS
186
n
186
LYS
186
A
THR
187
n
187
THR
187
A
HIS
188
n
188
HIS
188
A
MET
189
n
189
MET
189
A
THR
190
n
190
THR
190
A
HIS
191
n
191
HIS
191
A
HIS
192
n
192
HIS
192
A
ALA
193
n
193
ALA
193
A
VAL
194
n
194
VAL
194
A
SER
195
n
195
SER
195
A
ASP
196
n
196
ASP
196
A
HIS
197
n
197
HIS
197
A
GLU
198
n
198
GLU
198
A
ALA
199
n
199
ALA
199
A
THR
200
n
200
THR
200
A
LEU
201
n
201
LEU
201
A
ARG
202
n
202
ARG
202
A
CYS
203
n
203
CYS
203
A
TRP
204
n
204
TRP
204
A
ALA
205
n
205
ALA
205
A
LEU
206
n
206
LEU
206
A
SER
207
n
207
SER
207
A
PHE
208
n
208
PHE
208
A
TYR
209
n
209
TYR
209
A
PRO
210
n
210
PRO
210
A
ALA
211
n
211
ALA
211
A
GLU
212
n
212
GLU
212
A
ILE
213
n
213
ILE
213
A
THR
214
n
214
THR
214
A
LEU
215
n
215
LEU
215
A
THR
216
n
216
THR
216
A
TRP
217
n
217
TRP
217
A
GLN
218
n
218
GLN
218
A
ARG
219
n
219
ARG
219
A
ASP
220
n
220
ASP
220
A
GLY
221
n
221
GLY
221
A
GLU
222
n
222
GLU
222
A
ASP
223
n
223
ASP
223
A
GLN
224
n
224
GLN
224
A
THR
225
n
225
THR
225
A
GLN
226
n
226
GLN
226
A
ASP
227
n
227
ASP
227
A
THR
228
n
228
THR
228
A
GLU
229
n
229
GLU
229
A
LEU
230
n
230
LEU
230
A
VAL
231
n
231
VAL
231
A
GLU
232
n
232
GLU
232
A
THR
233
n
233
THR
233
A
ARG
234
n
234
ARG
234
A
PRO
235
n
235
PRO
235
A
ALA
236
n
236
ALA
236
A
GLY
237
n
237
GLY
237
A
ASP
238
n
238
ASP
238
A
GLY
239
n
239
GLY
239
A
THR
240
n
240
THR
240
A
PHE
241
n
241
PHE
241
A
GLN
242
n
242
GLN
242
A
LYS
243
n
243
LYS
243
A
TRP
244
n
244
TRP
244
A
VAL
245
n
245
VAL
245
A
ALA
246
n
246
ALA
246
A
VAL
247
n
247
VAL
247
A
VAL
248
n
248
VAL
248
A
VAL
249
n
249
VAL
249
A
PRO
250
n
250
PRO
250
A
SER
251
n
251
SER
251
A
GLY
252
n
252
GLY
252
A
GLN
253
n
253
GLN
253
A
GLU
254
n
254
GLU
254
A
GLN
255
n
255
GLN
255
A
ARG
256
n
256
ARG
256
A
TYR
257
n
257
TYR
257
A
THR
258
n
258
THR
258
A
CYS
259
n
259
CYS
259
A
HIS
260
n
260
HIS
260
A
VAL
261
n
261
VAL
261
A
GLN
262
n
262
GLN
262
A
HIS
263
n
263
HIS
263
A
GLU
264
n
264
GLU
264
A
GLY
265
n
265
GLY
265
A
LEU
266
n
266
LEU
266
A
PRO
267
n
267
PRO
267
A
LYS
268
n
268
LYS
268
A
PRO
269
n
269
PRO
269
A
LEU
270
n
270
LEU
270
A
THR
271
n
271
THR
271
A
LEU
272
n
272
LEU
272
A
ARG
273
n
273
ARG
273
A
TRP
274
n
274
TRP
274
A
n
275
275
A
n
276
276
A
n
277
277
A
n
278
278
A
n
279
279
A
n
280
280
A
n
281
281
A
n
282
282
A
n
283
283
A
n
284
284
A
n
285
285
A
n
286
286
A
n
287
287
A
n
288
288
A
n
289
289
A
n
290
290
A
n
291
291
A
n
292
292
A
n
293
293
A
MET
0
n
1
MET
0
B
ILE
1
n
2
ILE
1
B
GLN
2
n
3
GLN
2
B
ARG
3
n
4
ARG
3
B
THR
4
n
5
THR
4
B
PRO
5
n
6
PRO
5
B
LYS
6
n
7
LYS
6
B
ILE
7
n
8
ILE
7
B
GLN
8
n
9
GLN
8
B
VAL
9
n
10
VAL
9
B
TYR
10
n
11
TYR
10
B
SER
11
n
12
SER
11
B
ARG
12
n
13
ARG
12
B
HIS
13
n
14
HIS
13
B
PRO
14
n
15
PRO
14
B
ALA
15
n
16
ALA
15
B
GLU
16
n
17
GLU
16
B
ASN
17
n
18
ASN
17
B
GLY
18
n
19
GLY
18
B
LYS
19
n
20
LYS
19
B
SER
20
n
21
SER
20
B
ASN
21
n
22
ASN
21
B
PHE
22
n
23
PHE
22
B
LEU
23
n
24
LEU
23
B
ASN
24
n
25
ASN
24
B
CYS
25
n
26
CYS
25
B
TYR
26
n
27
TYR
26
B
VAL
27
n
28
VAL
27
B
SER
28
n
29
SER
28
B
GLY
29
n
30
GLY
29
B
PHE
30
n
31
PHE
30
B
HIS
31
n
32
HIS
31
B
PRO
32
n
33
PRO
32
B
SER
33
n
34
SER
33
B
ASP
34
n
35
ASP
34
B
ILE
35
n
36
ILE
35
B
GLU
36
n
37
GLU
36
B
VAL
37
n
38
VAL
37
B
ASP
38
n
39
ASP
38
B
LEU
39
n
40
LEU
39
B
LEU
40
n
41
LEU
40
B
LYS
41
n
42
LYS
41
B
ASN
42
n
43
ASN
42
B
GLY
43
n
44
GLY
43
B
GLU
44
n
45
GLU
44
B
ARG
45
n
46
ARG
45
B
ILE
46
n
47
ILE
46
B
GLU
47
n
48
GLU
47
B
LYS
48
n
49
LYS
48
B
VAL
49
n
50
VAL
49
B
GLU
50
n
51
GLU
50
B
HIS
51
n
52
HIS
51
B
SER
52
n
53
SER
52
B
ASP
53
n
54
ASP
53
B
LEU
54
n
55
LEU
54
B
SER
55
n
56
SER
55
B
PHE
56
n
57
PHE
56
B
SER
57
n
58
SER
57
B
LYS
58
n
59
LYS
58
B
ASP
59
n
60
ASP
59
B
TRP
60
n
61
TRP
60
B
SER
61
n
62
SER
61
B
PHE
62
n
63
PHE
62
B
TYR
63
n
64
TYR
63
B
LEU
64
n
65
LEU
64
B
LEU
65
n
66
LEU
65
B
TYR
66
n
67
TYR
66
B
TYR
67
n
68
TYR
67
B
THR
68
n
69
THR
68
B
GLU
69
n
70
GLU
69
B
PHE
70
n
71
PHE
70
B
THR
71
n
72
THR
71
B
PRO
72
n
73
PRO
72
B
THR
73
n
74
THR
73
B
GLU
74
n
75
GLU
74
B
LYS
75
n
76
LYS
75
B
ASP
76
n
77
ASP
76
B
GLU
77
n
78
GLU
77
B
TYR
78
n
79
TYR
78
B
ALA
79
n
80
ALA
79
B
CYS
80
n
81
CYS
80
B
ARG
81
n
82
ARG
81
B
VAL
82
n
83
VAL
82
B
ASN
83
n
84
ASN
83
B
HIS
84
n
85
HIS
84
B
VAL
85
n
86
VAL
85
B
THR
86
n
87
THR
86
B
LEU
87
n
88
LEU
87
B
SER
88
n
89
SER
88
B
GLN
89
n
90
GLN
89
B
PRO
90
n
91
PRO
90
B
LYS
91
n
92
LYS
91
B
ILE
92
n
93
ILE
92
B
VAL
93
n
94
VAL
93
B
LYS
94
n
95
LYS
94
B
TRP
95
n
96
TRP
95
B
ASP
96
n
97
ASP
96
B
ARG
97
n
98
ARG
97
B
ASP
98
n
99
ASP
98
B
n
100
99
B
PRO
1
n
1
PRO
1
P
LEU
2
n
2
LEU
2
P
PHE
3
n
3
PHE
3
P
GLN
4
n
4
GLN
4
P
VAL
5
n
5
VAL
5
P
PRO
6
n
6
PRO
6
P
GLU
7
n
7
GLU
7
P
PRO
8
n
8
PRO
8
P
VAL
9
n
9
VAL
9
P
author_and_software_defined_assembly
PISA
3
trimeric
4130
-25
19180
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
GLU
46
A
O
GLU
46
A
N
ARG
35
A
N
ARG
35
A
O
PHE
33
A
O
PHE
33
A
N
GLY
26
A
N
GLY
26
A
O
TYR
27
A
O
TYR
27
A
N
ARG
6
A
N
ARG
6
A
N
TYR
7
A
N
TYR
7
A
O
TYR
99
A
O
TYR
99
A
N
MET
98
A
N
MET
98
A
O
GLN
115
A
O
GLN
115
A
N
HIS
114
A
N
HIS
114
A
O
LEU
126
A
O
LEU
126
A
N
ALA
125
A
N
ALA
125
A
O
THR
134
A
O
THR
134
A
N
HIS
192
A
N
HIS
192
A
O
THR
200
A
O
THR
200
A
N
CYS
203
A
N
CYS
203
A
O
VAL
245
A
O
VAL
245
A
O
ALA
246
A
O
ALA
246
A
N
GLU
229
A
N
GLU
229
A
N
HIS
192
A
N
HIS
192
A
O
THR
200
A
O
THR
200
A
N
CYS
203
A
N
CYS
203
A
O
VAL
245
A
O
VAL
245
A
O
GLN
242
A
O
GLN
242
A
N
ARG
234
A
N
ARG
234
A
O
GLU
222
A
O
GLU
222
A
N
ARG
219
A
N
ARG
219
A
N
THR
216
A
N
THR
216
A
O
HIS
260
A
O
HIS
260
A
N
CYS
259
A
N
CYS
259
A
O
LEU
272
A
O
LEU
272
B
N
TYR
10
B
N
TYR
11
B
O
ASN
24
B
O
ASN
25
B
N
LEU
23
B
N
LEU
24
B
O
THR
68
B
O
THR
69
B
O
TYR
67
B
O
TYR
68
B
N
GLU
50
B
N
GLU
51
B
N
TYR
10
B
N
TYR
11
B
O
ASN
24
B
O
ASN
25
B
N
LEU
23
B
N
LEU
24
B
O
THR
68
B
O
THR
69
B
O
TYR
63
B
O
TYR
64
B
N
SER
55
B
N
SER
56
B
O
GLU
44
B
O
GLU
45
B
N
LYS
41
B
N
LYS
42
B
N
GLU
36
B
N
GLU
37
B
O
ASN
83
B
O
ASN
84
B
N
VAL
82
B
N
VAL
83
B
O
LYS
91
B
O
LYS
92
1
A
GLU
275
A
GLU
275
1
Y
1
A
PRO
276
A
PRO
276
1
Y
1
A
GLY
277
A
GLY
277
1
Y
1
A
SER
278
A
SER
278
1
Y
1
A
LEU
279
A
LEU
279
1
Y
1
A
HIS
280
A
HIS
280
1
Y
1
A
HIS
281
A
HIS
281
1
Y
1
A
ILE
282
A
ILE
282
1
Y
1
A
LEU
283
A
LEU
283
1
Y
1
A
ASP
284
A
ASP
284
1
Y
1
A
ALA
285
A
ALA
285
1
Y
1
A
GLN
286
A
GLN
286
1
Y
1
A
LYS
287
A
LYS
287
1
Y
1
A
MET
288
A
MET
288
1
Y
1
A
VAL
289
A
VAL
289
1
Y
1
A
TRP
290
A
TRP
290
1
Y
1
A
ASN
291
A
ASN
291
1
Y
1
A
HIS
292
A
HIS
292
1
Y
1
A
ARG
293
A
ARG
293
1
Y
1
B
MET
99
B
MET
100
1
Y
1
B
B
O
O
HOH
HOH
113
216
2.03
1
A
A
O
O
HOH
HOH
295
494
2.05
1
B
B
OD2
O
ASP
HOH
98
188
2.12
1
B
B
O
O
LEU
HOH
87
313
2.19
1
A
ASP
29
51.38
-126.07
1
A
TYR
123
-120.75
-62.37
1
A
LEU
230
-162.16
94.46
1
A
LEU
230
-163.96
94.46
1
B
SER
20
-49.30
151.94
1
B
TRP
60
78.78
-1.97
1
B
TRP
60
78.78
-2.09
1
B
ALA
79
B
159.24
169.83
59.51
18.518
5.45
-0.060
0.000
-0.050
-0.010
0.000
0.030
0.953
0.936
U VALUES: REFINED INDIVIDUALLY; 10 to 20 refinement cycles with all observed reflections were performed at the end of the refinement procedure, in order to obtain the most accurate model. Rwork and Rfree values corresponds to the coordinates just before these very last cycles.
0.232
0.200
0.200
1.400
15.000
6738
66692
10.100
81.540
1.00
0.00
1.186
0.046
RANDOM
1
THROUGHOUT
0.00
MOLECULAR REPLACEMENT
0.089
0.800
0.800
1.400
PDB ENTRY 3GSO
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
1.400
15.000
299
3439
0
0
3140
0.009
0.021
3453
1.247
1.922
4721
5.950
5.000
426
29.930
23.115
183
13.844
15.000
561
16.872
15.000
31
0.090
0.200
476
0.006
0.021
2779
1.093
2.000
2050
1.859
3.000
3340
1.875
3.000
1403
2.703
4.000
1380
0.311
0.295
1.436
454
4246
4700
20
78.710
20.516
1.400
50.0
3MRK
69080
-3.00
0.055
1
9.580
2.27
84.300
0.383
1.40
1.50
2.3
29220
13589
1
88.90
0.240
1.50
1.60
3.6
23002
10457
1
89.90
0.170
1.60
1.70
5.1
18026
8065
1
88.30
0.125
1.70
1.80
7.1
14217
6254
1
87.00
0.094
1.80
1.90
9.4
10780
4750
1
82.30
0.069
1.90
2.00
12.4
9094
3960
1
84.50
0.056
2.00
2.50
16.1
26464
11356
1
82.70
0.044
2.50
3.00
20.2
11641
4862
1
80.00
0.033
3.00
4.00
22.9
9500
3766
1
77.20
0.028
4.00
5.00
22.8
2587
1065
1
61.10
0.029
5.00
6.00
23.2
1195
465
1
60.20
0.028
6.00
10.00
23.2
1107
447
1
53.30
0.037
10.00
21.3
92
44
1
18.20
data scaling
Wolfgang Kabsch
http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html
XSCALE
package
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
5.5.0044
data extraction
PDB
help@deposit.rcsb.org
Jan. 22, 2010
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.100
data reduction
XDS
phasing
AMoRE
Crystal Structure of MHC class I HLA-A2 molecule complexed with AFP137 nonapeptide
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
4
N
N
A
ALA
49
A
ALA
49
HELX_P
A
GLU
55
A
GLU
55
5
1
7
A
GLY
56
A
GLY
56
HELX_P
A
TYR
85
A
TYR
85
1
2
30
A
ASP
137
A
ASP
137
HELX_P
A
ALA
150
A
ALA
150
1
3
14
A
HIS
151
A
HIS
151
HELX_P
A
GLY
162
A
GLY
162
1
4
12
A
GLY
162
A
GLY
162
HELX_P
A
GLY
175
A
GLY
175
1
5
14
A
GLY
175
A
GLY
175
HELX_P
A
GLN
180
A
GLN
180
1
6
6
A
GLN
253
A
GLN
253
HELX_P
A
GLN
255
A
GLN
255
5
7
3
disulf
2.046
A
CYS
101
A
SG
CYS
101
1_555
A
CYS
164
A
SG
CYS
164
1_555
disulf
2.046
A
CYS
203
A
SG
CYS
203
1_555
A
CYS
259
A
SG
CYS
259
1_555
disulf
2.005
A
B
CYS
25
B
SG
CYS
26
1_555
B
CYS
80
B
SG
CYS
81
1_555
disulf
2.045
B
B
CYS
25
B
SG
CYS
26
1_555
B
CYS
80
B
SG
CYS
81
1_555
IMMUNE SYSTEM
MHC class I, HLA, IMMUNE SYSTEM, IMMUNE RESPONSE, NONAPEPTIDE, TUMORAL PEPTIDE, ALPHA-FETOPROTEIN
A
TYR
209
A
TYR
209
1
A
PRO
210
A
PRO
210
3.08
B
HIS
31
B
HIS
32
1
B
PRO
32
B
PRO
33
3.64
1A02_HUMAN
UNP
1
25
P01892
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGT
LRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYL
EGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEP
B2MG_HUMAN
UNP
2
21
P61769
IQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYAC
RVNHVTLSQPKIVKWDRDM
FETA_HUMAN
UNP
3
137
P02771
PLFQVPEPV
25
300
3MRK
1
276
P01892
A
1
1
276
21
119
3MRK
1
99
P61769
B
2
2
100
137
145
3MRK
1
9
P02771
P
3
1
9
1
ALA
engineered mutation
VAL
245
3MRK
A
P01892
UNP
269
245
1
expression tag
GLY
277
3MRK
A
P01892
UNP
277
1
expression tag
SER
278
3MRK
A
P01892
UNP
278
1
expression tag
LEU
279
3MRK
A
P01892
UNP
279
1
expression tag
HIS
280
3MRK
A
P01892
UNP
280
1
expression tag
HIS
281
3MRK
A
P01892
UNP
281
1
expression tag
ILE
282
3MRK
A
P01892
UNP
282
1
expression tag
LEU
283
3MRK
A
P01892
UNP
283
1
expression tag
ASP
284
3MRK
A
P01892
UNP
284
1
expression tag
ALA
285
3MRK
A
P01892
UNP
285
1
expression tag
GLN
286
3MRK
A
P01892
UNP
286
1
expression tag
LYS
287
3MRK
A
P01892
UNP
287
1
expression tag
MET
288
3MRK
A
P01892
UNP
288
1
expression tag
VAL
289
3MRK
A
P01892
UNP
289
1
expression tag
TRP
290
3MRK
A
P01892
UNP
290
1
expression tag
ASN
291
3MRK
A
P01892
UNP
291
1
expression tag
HIS
292
3MRK
A
P01892
UNP
292
1
expression tag
ARG
293
3MRK
A
P01892
UNP
293
2
expression tag
MET
0
3MRK
B
P61769
UNP
1
8
4
4
4
4
4
4
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
GLU
46
A
GLU
46
A
PRO
47
A
PRO
47
A
THR
31
A
THR
31
A
ASP
37
A
ASP
37
A
ARG
21
A
ARG
21
A
VAL
28
A
VAL
28
A
HIS
3
A
HIS
3
A
VAL
12
A
VAL
12
A
THR
94
A
THR
94
A
VAL
103
A
VAL
103
A
PHE
109
A
PHE
109
A
TYR
118
A
TYR
118
A
LYS
121
A
LYS
121
A
LEU
126
A
LEU
126
A
TRP
133
A
TRP
133
A
ALA
135
A
ALA
135
A
LYS
186
A
LYS
186
A
ALA
193
A
ALA
193
A
GLU
198
A
GLU
198
A
PHE
208
A
PHE
208
A
PHE
241
A
PHE
241
A
PRO
250
A
PRO
250
A
THR
228
A
THR
228
A
GLU
229
A
GLU
229
A
LYS
186
A
LYS
186
A
ALA
193
A
ALA
193
A
GLU
198
A
GLU
198
A
PHE
208
A
PHE
208
A
PHE
241
A
PHE
241
A
PRO
250
A
PRO
250
A
ARG
234
A
ARG
234
A
PRO
235
A
PRO
235
A
GLU
222
A
GLU
222
A
GLN
224
A
GLN
224
A
THR
214
A
THR
214
A
ARG
219
A
ARG
219
A
TYR
257
A
TYR
257
A
GLN
262
A
GLN
262
A
LEU
270
A
LEU
270
A
ARG
273
A
ARG
273
B
LYS
6
B
LYS
7
B
SER
11
B
SER
12
B
ASN
21
B
ASN
22
B
PHE
30
B
PHE
31
B
PHE
62
B
PHE
63
B
PHE
70
B
PHE
71
B
GLU
50
B
GLU
51
B
HIS
51
B
HIS
52
B
LYS
6
B
LYS
7
B
SER
11
B
SER
12
B
ASN
21
B
ASN
22
B
PHE
30
B
PHE
31
B
PHE
62
B
PHE
63
B
PHE
70
B
PHE
71
B
SER
55
B
SER
56
B
PHE
56
B
PHE
57
B
GLU
44
B
GLU
45
B
ARG
45
B
ARG
46
B
GLU
36
B
GLU
37
B
LYS
41
B
LYS
42
B
TYR
78
B
TYR
79
B
ASN
83
B
ASN
84
B
LYS
91
B
LYS
92
B
LYS
94
B
LYS
95
4
P 1 21 1