0.014934
0.000000
0.000000
0.000000
0.007937
0.000000
0.000000
0.000000
0.005222
0.00000
0.00000
0.00000
Kwon, Y.D.
Kwong, P.D.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.00
90.00
90.00
66.960
126.000
191.480
C17 H24 Cl N3 O2
337.844
N-(4-chlorophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide
NBD-556
non-polymer
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
C8 H15 N O6
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
D-saccharide, beta 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
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
109
5663
5668
10.1073/pnas.1112391109
22451932
Unliganded HIV-1 gp120 core structures assume the CD4-bound conformation with regulation by quaternary interactions and variable loops.
2012
100
1
IMAGE PLATE
2009-08-07
MAR scanner 300 mm plate
SINGLE WAVELENGTH
M
x-ray
1
1
1.0
22-ID
APS
1
SYNCHROTRON
APS BEAMLINE 22-ID
39755.664
HIV-1 clade C1086 gp120 core
2
man
polymer
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
13
man
non-polymer
337.844
N-(4-chlorophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide
2
syn
non-polymer
18.015
water
104
nat
water
no
no
VWKEAKTTLFCASDAKAYEKEVHNVWATHACVPTDPNPQEMVLANVTENFNMWKNDMVEQMHEDIISLWDESLKPCVKLT
GGSAITQACPKVSFDPIPLHYCAPAGFAILKCNNKTFNGTGPCRNVSTVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSEN
LTNNAKTIIVHLNESVNIVCTRPNNGGSGSGGNIRQAHCNINESKWNNTLQKVGEELAKHFPSKTIKFEPSSGGDLEITT
HSFNCRGEFFYCNTSDLFNGTYRNGTYNHTGRSSNGTITLQCKIKQIINMWQEVGRAIYAPPIEGEITCNSNITGLLLLR
DGGQSNETNDTETFRPGGGDMRDNWRSELYKYKVVEIK
VWKEAKTTLFCASDAKAYEKEVHNVWATHACVPTDPNPQEMVLANVTENFNMWKNDMVEQMHEDIISLWDESLKPCVKLT
GGSAITQACPKVSFDPIPLHYCAPAGFAILKCNNKTFNGTGPCRNVSTVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSEN
LTNNAKTIIVHLNESVNIVCTRPNNGGSGSGGNIRQAHCNINESKWNNTLQKVGEELAKHFPSKTIKFEPSSGGDLEITT
HSFNCRGEFFYCNTSDLFNGTYRNGTYNHTGRSSNGTITLQCKIKQIINMWQEVGRAIYAPPIEGEITCNSNITGLLLLR
DGGQSNETNDTETFRPGGGDMRDNWRSELYKYKVVEIK
A,B
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
HIV-1
sample
11676
Human immunodeficiency virus 1
HEK 293
9606
HOMO SAPIENS
plasmid
pVRC8400
1
2.54
51.57
VAPOR DIFFUSION, HANGING DROP
6.5
16% PEG 1500, 0.1M CaCl2, 0.1M imidazole, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 6.5
293
software
chem_comp
entity
pdbx_chem_comp_identifier
pdbx_entity_nonpoly
struct_conn
struct_site
struct_site_gen
repository
Initial release
Carbohydrate remediation
repository
Remediation
Database references
Non-polymer description
Refinement description
Data collection
Derived calculations
Structure summary
1
0
2012-04-04
1
1
2012-05-23
1
2
2014-12-17
1
3
2017-11-08
1
4
2020-07-29
_chem_comp.name
_chem_comp.type
_entity.pdbx_description
_pdbx_entity_nonpoly.name
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_role
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
DGlcpNAcb
N-acetyl-b-D-glucopyranosamine
b-D-GlcpNAc
GlcNAc
RCSB
Y
RCSB
2011-08-17
REL
REL
NAG
2-acetamido-2-deoxy-beta-D-glucopyranose
03G
N-(4-chlorophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide
HOH
water
NAG
734
2
NAG
NAG
501
A
NAG
762
2
NAG
NAG
502
A
NAG
776
2
NAG
NAG
503
A
NAG
789
2
NAG
NAG
504
A
NAG
839
2
NAG
NAG
505
A
NAG
886
2
NAG
NAG
506
A
NBD
1
3
03G
03G
507
A
NAG
892
2
NAG
NAG
508
A
NAG
948
2
NAG
NAG
509
A
NAG
734
2
NAG
NAG
501
B
NBD
1
3
03G
03G
502
B
NAG
762
2
NAG
NAG
503
B
NAG
789
2
NAG
NAG
504
B
NAG
886
2
NAG
NAG
505
B
NAG
892
2
NAG
NAG
506
B
HOH
2
4
HOH
HOH
601
A
HOH
3
4
HOH
HOH
602
A
HOH
4
4
HOH
HOH
603
A
HOH
5
4
HOH
HOH
604
A
HOH
7
4
HOH
HOH
605
A
HOH
8
4
HOH
HOH
606
A
HOH
9
4
HOH
HOH
607
A
HOH
15
4
HOH
HOH
608
A
HOH
21
4
HOH
HOH
609
A
HOH
22
4
HOH
HOH
610
A
HOH
25
4
HOH
HOH
611
A
HOH
26
4
HOH
HOH
612
A
HOH
29
4
HOH
HOH
613
A
HOH
31
4
HOH
HOH
614
A
HOH
32
4
HOH
HOH
615
A
HOH
33
4
HOH
HOH
616
A
HOH
35
4
HOH
HOH
617
A
HOH
36
4
HOH
HOH
618
A
HOH
37
4
HOH
HOH
619
A
HOH
38
4
HOH
HOH
620
A
HOH
40
4
HOH
HOH
621
A
HOH
43
4
HOH
HOH
622
A
HOH
45
4
HOH
HOH
623
A
HOH
46
4
HOH
HOH
624
A
HOH
47
4
HOH
HOH
625
A
HOH
49
4
HOH
HOH
626
A
HOH
51
4
HOH
HOH
627
A
HOH
52
4
HOH
HOH
628
A
HOH
54
4
HOH
HOH
629
A
HOH
55
4
HOH
HOH
630
A
HOH
57
4
HOH
HOH
631
A
HOH
58
4
HOH
HOH
632
A
HOH
62
4
HOH
HOH
633
A
HOH
64
4
HOH
HOH
634
A
HOH
65
4
HOH
HOH
635
A
HOH
66
4
HOH
HOH
636
A
HOH
67
4
HOH
HOH
637
A
HOH
71
4
HOH
HOH
638
A
HOH
72
4
HOH
HOH
639
A
HOH
73
4
HOH
HOH
640
A
HOH
76
4
HOH
HOH
641
A
HOH
77
4
HOH
HOH
642
A
HOH
79
4
HOH
HOH
643
A
HOH
80
4
HOH
HOH
644
A
HOH
84
4
HOH
HOH
645
A
HOH
86
4
HOH
HOH
646
A
HOH
87
4
HOH
HOH
647
A
HOH
88
4
HOH
HOH
648
A
HOH
90
4
HOH
HOH
649
A
HOH
92
4
HOH
HOH
650
A
HOH
93
4
HOH
HOH
651
A
HOH
95
4
HOH
HOH
652
A
HOH
96
4
HOH
HOH
653
A
HOH
99
4
HOH
HOH
654
A
HOH
100
4
HOH
HOH
655
A
HOH
101
4
HOH
HOH
656
A
HOH
103
4
HOH
HOH
657
A
HOH
104
4
HOH
HOH
658
A
HOH
1
4
HOH
HOH
601
B
HOH
6
4
HOH
HOH
602
B
HOH
10
4
HOH
HOH
603
B
HOH
11
4
HOH
HOH
604
B
HOH
12
4
HOH
HOH
605
B
HOH
13
4
HOH
HOH
606
B
HOH
14
4
HOH
HOH
607
B
HOH
16
4
HOH
HOH
608
B
HOH
17
4
HOH
HOH
609
B
HOH
18
4
HOH
HOH
610
B
HOH
19
4
HOH
HOH
611
B
HOH
20
4
HOH
HOH
612
B
HOH
23
4
HOH
HOH
613
B
HOH
24
4
HOH
HOH
614
B
HOH
27
4
HOH
HOH
615
B
HOH
28
4
HOH
HOH
616
B
HOH
30
4
HOH
HOH
617
B
HOH
34
4
HOH
HOH
618
B
HOH
39
4
HOH
HOH
619
B
HOH
41
4
HOH
HOH
620
B
HOH
42
4
HOH
HOH
621
B
HOH
44
4
HOH
HOH
622
B
HOH
48
4
HOH
HOH
623
B
HOH
50
4
HOH
HOH
624
B
HOH
53
4
HOH
HOH
625
B
HOH
56
4
HOH
HOH
626
B
HOH
59
4
HOH
HOH
627
B
HOH
60
4
HOH
HOH
628
B
HOH
61
4
HOH
HOH
629
B
HOH
63
4
HOH
HOH
630
B
HOH
68
4
HOH
HOH
631
B
HOH
69
4
HOH
HOH
632
B
HOH
70
4
HOH
HOH
633
B
HOH
74
4
HOH
HOH
634
B
HOH
75
4
HOH
HOH
635
B
HOH
78
4
HOH
HOH
636
B
HOH
81
4
HOH
HOH
637
B
HOH
82
4
HOH
HOH
638
B
HOH
83
4
HOH
HOH
639
B
HOH
85
4
HOH
HOH
640
B
HOH
89
4
HOH
HOH
641
B
HOH
91
4
HOH
HOH
642
B
HOH
94
4
HOH
HOH
643
B
HOH
98
4
HOH
HOH
644
B
HOH
102
4
HOH
HOH
645
B
HOH
105
4
HOH
HOH
646
B
VAL
44
n
1
VAL
44
A
TRP
45
n
2
TRP
45
A
LYS
46
n
3
LYS
46
A
GLU
47
n
4
GLU
47
A
ALA
48
n
5
ALA
48
A
LYS
49
n
6
LYS
49
A
THR
50
n
7
THR
50
A
THR
51
n
8
THR
51
A
LEU
52
n
9
LEU
52
A
PHE
53
n
10
PHE
53
A
CYS
54
n
11
CYS
54
A
ALA
55
n
12
ALA
55
A
SER
56
n
13
SER
56
A
ASP
57
n
14
ASP
57
A
ALA
58
n
15
ALA
58
A
LYS
59
n
16
LYS
59
A
ALA
60
n
17
ALA
60
A
TYR
61
n
18
TYR
61
A
GLU
62
n
19
GLU
62
A
LYS
63
n
20
LYS
63
A
GLU
64
n
21
GLU
64
A
VAL
65
n
22
VAL
65
A
HIS
66
n
23
HIS
66
A
ASN
67
n
24
ASN
67
A
VAL
68
n
25
VAL
68
A
TRP
69
n
26
TRP
69
A
ALA
70
n
27
ALA
70
A
THR
71
n
28
THR
71
A
HIS
72
n
29
HIS
72
A
ALA
73
n
30
ALA
73
A
CYS
74
n
31
CYS
74
A
VAL
75
n
32
VAL
75
A
PRO
76
n
33
PRO
76
A
THR
77
n
34
THR
77
A
ASP
78
n
35
ASP
78
A
PRO
79
n
36
PRO
79
A
ASN
80
n
37
ASN
80
A
PRO
81
n
38
PRO
81
A
GLN
82
n
39
GLN
82
A
GLU
83
n
40
GLU
83
A
MET
84
n
41
MET
84
A
VAL
85
n
42
VAL
85
A
LEU
86
n
43
LEU
86
A
ALA
87
n
44
ALA
87
A
ASN
88
n
45
ASN
88
A
VAL
89
n
46
VAL
89
A
THR
90
n
47
THR
90
A
GLU
91
n
48
GLU
91
A
ASN
92
n
49
ASN
92
A
PHE
93
n
50
PHE
93
A
ASN
94
n
51
ASN
94
A
MET
95
n
52
MET
95
A
TRP
96
n
53
TRP
96
A
LYS
97
n
54
LYS
97
A
ASN
98
n
55
ASN
98
A
ASP
99
n
56
ASP
99
A
MET
100
n
57
MET
100
A
VAL
101
n
58
VAL
101
A
GLU
102
n
59
GLU
102
A
GLN
103
n
60
GLN
103
A
MET
104
n
61
MET
104
A
HIS
105
n
62
HIS
105
A
GLU
106
n
63
GLU
106
A
ASP
107
n
64
ASP
107
A
ILE
108
n
65
ILE
108
A
ILE
109
n
66
ILE
109
A
SER
110
n
67
SER
110
A
LEU
111
n
68
LEU
111
A
TRP
112
n
69
TRP
112
A
ASP
113
n
70
ASP
113
A
GLU
114
n
71
GLU
114
A
SER
115
n
72
SER
115
A
LEU
116
n
73
LEU
116
A
LYS
117
n
74
LYS
117
A
PRO
118
n
75
PRO
118
A
CYS
119
n
76
CYS
119
A
VAL
120
n
77
VAL
120
A
LYS
121
n
78
LYS
121
A
LEU
122
n
79
LEU
122
A
THR
123
n
80
THR
123
A
GLY
124
n
81
GLY
124
A
GLY
198
n
82
GLY
198
A
SER
199
n
83
SER
199
A
ALA
200
n
84
ALA
200
A
ILE
201
n
85
ILE
201
A
THR
202
n
86
THR
202
A
GLN
203
n
87
GLN
203
A
ALA
204
n
88
ALA
204
A
CYS
205
n
89
CYS
205
A
PRO
206
n
90
PRO
206
A
LYS
207
n
91
LYS
207
A
VAL
208
n
92
VAL
208
A
SER
209
n
93
SER
209
A
PHE
210
n
94
PHE
210
A
ASP
211
n
95
ASP
211
A
PRO
212
n
96
PRO
212
A
ILE
213
n
97
ILE
213
A
PRO
214
n
98
PRO
214
A
LEU
215
n
99
LEU
215
A
HIS
216
n
100
HIS
216
A
TYR
217
n
101
TYR
217
A
CYS
218
n
102
CYS
218
A
ALA
219
n
103
ALA
219
A
PRO
220
n
104
PRO
220
A
ALA
221
n
105
ALA
221
A
GLY
222
n
106
GLY
222
A
PHE
223
n
107
PHE
223
A
ALA
224
n
108
ALA
224
A
ILE
225
n
109
ILE
225
A
LEU
226
n
110
LEU
226
A
LYS
227
n
111
LYS
227
A
CYS
228
n
112
CYS
228
A
ASN
229
n
113
ASN
229
A
ASN
230
n
114
ASN
230
A
LYS
231
n
115
LYS
231
A
THR
232
n
116
THR
232
A
PHE
233
n
117
PHE
233
A
ASN
234
n
118
ASN
234
A
GLY
235
n
119
GLY
235
A
THR
236
n
120
THR
236
A
GLY
237
n
121
GLY
237
A
PRO
238
n
122
PRO
238
A
CYS
239
n
123
CYS
239
A
ARG
240
n
124
ARG
240
A
ASN
241
n
125
ASN
241
A
VAL
242
n
126
VAL
242
A
SER
243
n
127
SER
243
A
THR
244
n
128
THR
244
A
VAL
245
n
129
VAL
245
A
GLN
246
n
130
GLN
246
A
CYS
247
n
131
CYS
247
A
THR
248
n
132
THR
248
A
HIS
249
n
133
HIS
249
A
GLY
250
n
134
GLY
250
A
ILE
251
n
135
ILE
251
A
LYS
252
n
136
LYS
252
A
PRO
253
n
137
PRO
253
A
VAL
254
n
138
VAL
254
A
VAL
255
n
139
VAL
255
A
SER
256
n
140
SER
256
A
THR
257
n
141
THR
257
A
GLN
258
n
142
GLN
258
A
LEU
259
n
143
LEU
259
A
LEU
260
n
144
LEU
260
A
LEU
261
n
145
LEU
261
A
ASN
262
n
146
ASN
262
A
GLY
263
n
147
GLY
263
A
SER
264
n
148
SER
264
A
LEU
265
n
149
LEU
265
A
ALA
266
n
150
ALA
266
A
GLU
267
n
151
GLU
267
A
GLU
268
n
152
GLU
268
A
GLU
269
n
153
GLU
269
A
ILE
270
n
154
ILE
270
A
ILE
271
n
155
ILE
271
A
ILE
272
n
156
ILE
272
A
ARG
273
n
157
ARG
273
A
SER
274
n
158
SER
274
A
GLU
275
n
159
GLU
275
A
ASN
276
n
160
ASN
276
A
LEU
277
n
161
LEU
277
A
THR
278
n
162
THR
278
A
ASN
279
n
163
ASN
279
A
ASN
280
n
164
ASN
280
A
ALA
281
n
165
ALA
281
A
LYS
282
n
166
LYS
282
A
THR
283
n
167
THR
283
A
ILE
284
n
168
ILE
284
A
ILE
285
n
169
ILE
285
A
VAL
286
n
170
VAL
286
A
HIS
287
n
171
HIS
287
A
LEU
288
n
172
LEU
288
A
ASN
289
n
173
ASN
289
A
GLU
290
n
174
GLU
290
A
SER
291
n
175
SER
291
A
VAL
292
n
176
VAL
292
A
ASN
293
n
177
ASN
293
A
ILE
294
n
178
ILE
294
A
VAL
295
n
179
VAL
295
A
CYS
296
n
180
CYS
296
A
THR
297
n
181
THR
297
A
ARG
298
n
182
ARG
298
A
PRO
299
n
183
PRO
299
A
ASN
300
n
184
ASN
300
A
n
185
317
A
n
186
318
A
n
187
319
A
n
188
320
A
n
189
321
A
n
190
322
A
n
191
323
A
n
192
324
A
ASN
325
n
193
ASN
325
A
ILE
326
n
194
ILE
326
A
ARG
327
n
195
ARG
327
A
GLN
328
n
196
GLN
328
A
ALA
329
n
197
ALA
329
A
HIS
330
n
198
HIS
330
A
CYS
331
n
199
CYS
331
A
ASN
332
n
200
ASN
332
A
ILE
333
n
201
ILE
333
A
ASN
334
n
202
ASN
334
A
GLU
335
n
203
GLU
335
A
SER
336
n
204
SER
336
A
LYS
337
n
205
LYS
337
A
TRP
338
n
206
TRP
338
A
ASN
339
n
207
ASN
339
A
ASN
340
n
208
ASN
340
A
THR
341
n
209
THR
341
A
LEU
342
n
210
LEU
342
A
GLN
343
n
211
GLN
343
A
LYS
344
n
212
LYS
344
A
VAL
345
n
213
VAL
345
A
GLY
346
n
214
GLY
346
A
GLU
347
n
215
GLU
347
A
GLU
348
n
216
GLU
348
A
LEU
349
n
217
LEU
349
A
ALA
350
n
218
ALA
350
A
LYS
351
n
219
LYS
351
A
HIS
352
n
220
HIS
352
A
PHE
353
n
221
PHE
353
A
PRO
354
n
222
PRO
354
A
SER
356
n
223
SER
356
A
LYS
357
n
224
LYS
357
A
THR
358
n
225
THR
358
A
ILE
359
n
226
ILE
359
A
LYS
360
n
227
LYS
360
A
PHE
361
n
228
PHE
361
A
GLU
362
n
229
GLU
362
A
PRO
363
n
230
PRO
363
A
SER
364
n
231
SER
364
A
SER
365
n
232
SER
365
A
GLY
366
n
233
GLY
366
A
GLY
367
n
234
GLY
367
A
ASP
368
n
235
ASP
368
A
LEU
369
n
236
LEU
369
A
GLU
370
n
237
GLU
370
A
ILE
371
n
238
ILE
371
A
THR
372
n
239
THR
372
A
THR
373
n
240
THR
373
A
HIS
374
n
241
HIS
374
A
SER
375
n
242
SER
375
A
PHE
376
n
243
PHE
376
A
ASN
377
n
244
ASN
377
A
CYS
378
n
245
CYS
378
A
ARG
379
n
246
ARG
379
A
GLY
380
n
247
GLY
380
A
GLU
381
n
248
GLU
381
A
PHE
382
n
249
PHE
382
A
PHE
383
n
250
PHE
383
A
TYR
384
n
251
TYR
384
A
CYS
385
n
252
CYS
385
A
ASN
386
n
253
ASN
386
A
THR
387
n
254
THR
387
A
SER
388
n
255
SER
388
A
ASP
389
n
256
ASP
389
A
LEU
390
n
257
LEU
390
A
PHE
391
n
258
PHE
391
A
ASN
392
n
259
ASN
392
A
GLY
393
n
260
GLY
393
A
THR
394
n
261
THR
394
A
TYR
395
n
262
TYR
395
A
ARG
396
n
263
ARG
396
A
ASN
397
n
264
ASN
397
A
GLY
398
n
265
GLY
398
A
THR
399
n
266
THR
399
A
TYR
403
n
267
TYR
403
A
ASN
404
n
268
ASN
404
A
HIS
405
n
269
HIS
405
A
THR
406
n
270
THR
406
A
GLY
407
n
271
GLY
407
A
ARG
408
n
272
ARG
408
A
SER
409
n
273
SER
409
A
SER
410
n
274
SER
410
A
ASN
411
n
275
ASN
411
A
GLY
412
n
276
GLY
412
A
THR
413
n
277
THR
413
A
ILE
414
n
278
ILE
414
A
THR
415
n
279
THR
415
A
LEU
416
n
280
LEU
416
A
GLN
417
n
281
GLN
417
A
CYS
418
n
282
CYS
418
A
LYS
419
n
283
LYS
419
A
ILE
420
n
284
ILE
420
A
LYS
421
n
285
LYS
421
A
GLN
422
n
286
GLN
422
A
ILE
423
n
287
ILE
423
A
ILE
424
n
288
ILE
424
A
ASN
425
n
289
ASN
425
A
MET
426
n
290
MET
426
A
TRP
427
n
291
TRP
427
A
GLN
428
n
292
GLN
428
A
GLU
429
n
293
GLU
429
A
VAL
430
n
294
VAL
430
A
GLY
431
n
295
GLY
431
A
ARG
432
n
296
ARG
432
A
ALA
433
n
297
ALA
433
A
ILE
434
n
298
ILE
434
A
TYR
435
n
299
TYR
435
A
ALA
436
n
300
ALA
436
A
PRO
437
n
301
PRO
437
A
PRO
438
n
302
PRO
438
A
ILE
439
n
303
ILE
439
A
GLU
440
n
304
GLU
440
A
GLY
441
n
305
GLY
441
A
GLU
442
n
306
GLU
442
A
ILE
443
n
307
ILE
443
A
THR
444
n
308
THR
444
A
CYS
445
n
309
CYS
445
A
ASN
446
n
310
ASN
446
A
SER
447
n
311
SER
447
A
ASN
448
n
312
ASN
448
A
ILE
449
n
313
ILE
449
A
THR
450
n
314
THR
450
A
GLY
451
n
315
GLY
451
A
LEU
452
n
316
LEU
452
A
LEU
453
n
317
LEU
453
A
LEU
454
n
318
LEU
454
A
LEU
455
n
319
LEU
455
A
ARG
456
n
320
ARG
456
A
ASP
457
n
321
ASP
457
A
GLY
458
n
322
GLY
458
A
GLY
459
n
323
GLY
459
A
n
324
A
459
A
n
325
B
459
A
n
326
C
459
A
n
327
D
459
A
n
328
E
459
A
ASN
463
n
329
ASN
463
A
ASP
464
n
330
ASP
464
A
THR
465
n
331
THR
465
A
GLU
466
n
332
GLU
466
A
THR
467
n
333
THR
467
A
PHE
468
n
334
PHE
468
A
ARG
469
n
335
ARG
469
A
PRO
470
n
336
PRO
470
A
GLY
471
n
337
GLY
471
A
GLY
472
n
338
GLY
472
A
GLY
473
n
339
GLY
473
A
ASP
474
n
340
ASP
474
A
MET
475
n
341
MET
475
A
ARG
476
n
342
ARG
476
A
ASP
477
n
343
ASP
477
A
ASN
478
n
344
ASN
478
A
TRP
479
n
345
TRP
479
A
ARG
480
n
346
ARG
480
A
SER
481
n
347
SER
481
A
GLU
482
n
348
GLU
482
A
LEU
483
n
349
LEU
483
A
TYR
484
n
350
TYR
484
A
LYS
485
n
351
LYS
485
A
TYR
486
n
352
TYR
486
A
LYS
487
n
353
LYS
487
A
VAL
488
n
354
VAL
488
A
VAL
489
n
355
VAL
489
A
GLU
490
n
356
GLU
490
A
ILE
491
n
357
ILE
491
A
LYS
492
n
358
LYS
492
A
VAL
44
n
1
VAL
44
B
TRP
45
n
2
TRP
45
B
LYS
46
n
3
LYS
46
B
GLU
47
n
4
GLU
47
B
ALA
48
n
5
ALA
48
B
LYS
49
n
6
LYS
49
B
THR
50
n
7
THR
50
B
THR
51
n
8
THR
51
B
LEU
52
n
9
LEU
52
B
PHE
53
n
10
PHE
53
B
CYS
54
n
11
CYS
54
B
ALA
55
n
12
ALA
55
B
SER
56
n
13
SER
56
B
ASP
57
n
14
ASP
57
B
ALA
58
n
15
ALA
58
B
LYS
59
n
16
LYS
59
B
ALA
60
n
17
ALA
60
B
TYR
61
n
18
TYR
61
B
GLU
62
n
19
GLU
62
B
LYS
63
n
20
LYS
63
B
GLU
64
n
21
GLU
64
B
VAL
65
n
22
VAL
65
B
HIS
66
n
23
HIS
66
B
ASN
67
n
24
ASN
67
B
VAL
68
n
25
VAL
68
B
TRP
69
n
26
TRP
69
B
ALA
70
n
27
ALA
70
B
THR
71
n
28
THR
71
B
HIS
72
n
29
HIS
72
B
ALA
73
n
30
ALA
73
B
CYS
74
n
31
CYS
74
B
VAL
75
n
32
VAL
75
B
PRO
76
n
33
PRO
76
B
THR
77
n
34
THR
77
B
ASP
78
n
35
ASP
78
B
PRO
79
n
36
PRO
79
B
ASN
80
n
37
ASN
80
B
PRO
81
n
38
PRO
81
B
GLN
82
n
39
GLN
82
B
GLU
83
n
40
GLU
83
B
MET
84
n
41
MET
84
B
VAL
85
n
42
VAL
85
B
LEU
86
n
43
LEU
86
B
ALA
87
n
44
ALA
87
B
ASN
88
n
45
ASN
88
B
VAL
89
n
46
VAL
89
B
THR
90
n
47
THR
90
B
GLU
91
n
48
GLU
91
B
ASN
92
n
49
ASN
92
B
PHE
93
n
50
PHE
93
B
ASN
94
n
51
ASN
94
B
MET
95
n
52
MET
95
B
TRP
96
n
53
TRP
96
B
LYS
97
n
54
LYS
97
B
ASN
98
n
55
ASN
98
B
ASP
99
n
56
ASP
99
B
MET
100
n
57
MET
100
B
VAL
101
n
58
VAL
101
B
GLU
102
n
59
GLU
102
B
GLN
103
n
60
GLN
103
B
MET
104
n
61
MET
104
B
HIS
105
n
62
HIS
105
B
GLU
106
n
63
GLU
106
B
ASP
107
n
64
ASP
107
B
ILE
108
n
65
ILE
108
B
ILE
109
n
66
ILE
109
B
SER
110
n
67
SER
110
B
LEU
111
n
68
LEU
111
B
TRP
112
n
69
TRP
112
B
ASP
113
n
70
ASP
113
B
GLU
114
n
71
GLU
114
B
SER
115
n
72
SER
115
B
LEU
116
n
73
LEU
116
B
LYS
117
n
74
LYS
117
B
PRO
118
n
75
PRO
118
B
CYS
119
n
76
CYS
119
B
VAL
120
n
77
VAL
120
B
LYS
121
n
78
LYS
121
B
LEU
122
n
79
LEU
122
B
THR
123
n
80
THR
123
B
GLY
124
n
81
GLY
124
B
GLY
198
n
82
GLY
198
B
SER
199
n
83
SER
199
B
ALA
200
n
84
ALA
200
B
ILE
201
n
85
ILE
201
B
THR
202
n
86
THR
202
B
GLN
203
n
87
GLN
203
B
ALA
204
n
88
ALA
204
B
CYS
205
n
89
CYS
205
B
PRO
206
n
90
PRO
206
B
LYS
207
n
91
LYS
207
B
VAL
208
n
92
VAL
208
B
SER
209
n
93
SER
209
B
PHE
210
n
94
PHE
210
B
ASP
211
n
95
ASP
211
B
PRO
212
n
96
PRO
212
B
ILE
213
n
97
ILE
213
B
PRO
214
n
98
PRO
214
B
LEU
215
n
99
LEU
215
B
HIS
216
n
100
HIS
216
B
TYR
217
n
101
TYR
217
B
CYS
218
n
102
CYS
218
B
ALA
219
n
103
ALA
219
B
PRO
220
n
104
PRO
220
B
ALA
221
n
105
ALA
221
B
GLY
222
n
106
GLY
222
B
PHE
223
n
107
PHE
223
B
ALA
224
n
108
ALA
224
B
ILE
225
n
109
ILE
225
B
LEU
226
n
110
LEU
226
B
LYS
227
n
111
LYS
227
B
CYS
228
n
112
CYS
228
B
ASN
229
n
113
ASN
229
B
ASN
230
n
114
ASN
230
B
LYS
231
n
115
LYS
231
B
THR
232
n
116
THR
232
B
PHE
233
n
117
PHE
233
B
ASN
234
n
118
ASN
234
B
GLY
235
n
119
GLY
235
B
THR
236
n
120
THR
236
B
GLY
237
n
121
GLY
237
B
PRO
238
n
122
PRO
238
B
CYS
239
n
123
CYS
239
B
ARG
240
n
124
ARG
240
B
ASN
241
n
125
ASN
241
B
VAL
242
n
126
VAL
242
B
SER
243
n
127
SER
243
B
THR
244
n
128
THR
244
B
VAL
245
n
129
VAL
245
B
GLN
246
n
130
GLN
246
B
CYS
247
n
131
CYS
247
B
THR
248
n
132
THR
248
B
HIS
249
n
133
HIS
249
B
GLY
250
n
134
GLY
250
B
ILE
251
n
135
ILE
251
B
LYS
252
n
136
LYS
252
B
PRO
253
n
137
PRO
253
B
VAL
254
n
138
VAL
254
B
VAL
255
n
139
VAL
255
B
SER
256
n
140
SER
256
B
THR
257
n
141
THR
257
B
GLN
258
n
142
GLN
258
B
LEU
259
n
143
LEU
259
B
LEU
260
n
144
LEU
260
B
LEU
261
n
145
LEU
261
B
ASN
262
n
146
ASN
262
B
GLY
263
n
147
GLY
263
B
SER
264
n
148
SER
264
B
LEU
265
n
149
LEU
265
B
ALA
266
n
150
ALA
266
B
GLU
267
n
151
GLU
267
B
GLU
268
n
152
GLU
268
B
GLU
269
n
153
GLU
269
B
ILE
270
n
154
ILE
270
B
ILE
271
n
155
ILE
271
B
ILE
272
n
156
ILE
272
B
ARG
273
n
157
ARG
273
B
SER
274
n
158
SER
274
B
GLU
275
n
159
GLU
275
B
ASN
276
n
160
ASN
276
B
LEU
277
n
161
LEU
277
B
THR
278
n
162
THR
278
B
ASN
279
n
163
ASN
279
B
ASN
280
n
164
ASN
280
B
ALA
281
n
165
ALA
281
B
LYS
282
n
166
LYS
282
B
THR
283
n
167
THR
283
B
ILE
284
n
168
ILE
284
B
ILE
285
n
169
ILE
285
B
VAL
286
n
170
VAL
286
B
HIS
287
n
171
HIS
287
B
LEU
288
n
172
LEU
288
B
ASN
289
n
173
ASN
289
B
GLU
290
n
174
GLU
290
B
SER
291
n
175
SER
291
B
VAL
292
n
176
VAL
292
B
ASN
293
n
177
ASN
293
B
ILE
294
n
178
ILE
294
B
VAL
295
n
179
VAL
295
B
CYS
296
n
180
CYS
296
B
THR
297
n
181
THR
297
B
ARG
298
n
182
ARG
298
B
PRO
299
n
183
PRO
299
B
ASN
300
n
184
ASN
300
B
n
185
317
B
n
186
318
B
n
187
319
B
n
188
320
B
n
189
321
B
n
190
322
B
n
191
323
B
n
192
324
B
ASN
325
n
193
ASN
325
B
ILE
326
n
194
ILE
326
B
ARG
327
n
195
ARG
327
B
GLN
328
n
196
GLN
328
B
ALA
329
n
197
ALA
329
B
HIS
330
n
198
HIS
330
B
CYS
331
n
199
CYS
331
B
ASN
332
n
200
ASN
332
B
ILE
333
n
201
ILE
333
B
ASN
334
n
202
ASN
334
B
GLU
335
n
203
GLU
335
B
SER
336
n
204
SER
336
B
LYS
337
n
205
LYS
337
B
TRP
338
n
206
TRP
338
B
ASN
339
n
207
ASN
339
B
ASN
340
n
208
ASN
340
B
THR
341
n
209
THR
341
B
LEU
342
n
210
LEU
342
B
GLN
343
n
211
GLN
343
B
LYS
344
n
212
LYS
344
B
VAL
345
n
213
VAL
345
B
GLY
346
n
214
GLY
346
B
GLU
347
n
215
GLU
347
B
GLU
348
n
216
GLU
348
B
LEU
349
n
217
LEU
349
B
ALA
350
n
218
ALA
350
B
LYS
351
n
219
LYS
351
B
HIS
352
n
220
HIS
352
B
PHE
353
n
221
PHE
353
B
PRO
354
n
222
PRO
354
B
SER
356
n
223
SER
356
B
LYS
357
n
224
LYS
357
B
THR
358
n
225
THR
358
B
ILE
359
n
226
ILE
359
B
LYS
360
n
227
LYS
360
B
PHE
361
n
228
PHE
361
B
GLU
362
n
229
GLU
362
B
PRO
363
n
230
PRO
363
B
SER
364
n
231
SER
364
B
SER
365
n
232
SER
365
B
GLY
366
n
233
GLY
366
B
GLY
367
n
234
GLY
367
B
ASP
368
n
235
ASP
368
B
LEU
369
n
236
LEU
369
B
GLU
370
n
237
GLU
370
B
ILE
371
n
238
ILE
371
B
THR
372
n
239
THR
372
B
THR
373
n
240
THR
373
B
HIS
374
n
241
HIS
374
B
SER
375
n
242
SER
375
B
PHE
376
n
243
PHE
376
B
ASN
377
n
244
ASN
377
B
CYS
378
n
245
CYS
378
B
ARG
379
n
246
ARG
379
B
GLY
380
n
247
GLY
380
B
GLU
381
n
248
GLU
381
B
PHE
382
n
249
PHE
382
B
PHE
383
n
250
PHE
383
B
TYR
384
n
251
TYR
384
B
CYS
385
n
252
CYS
385
B
ASN
386
n
253
ASN
386
B
THR
387
n
254
THR
387
B
SER
388
n
255
SER
388
B
ASP
389
n
256
ASP
389
B
LEU
390
n
257
LEU
390
B
PHE
391
n
258
PHE
391
B
ASN
392
n
259
ASN
392
B
GLY
393
n
260
GLY
393
B
THR
394
n
261
THR
394
B
TYR
395
n
262
TYR
395
B
ARG
396
n
263
ARG
396
B
ASN
397
n
264
ASN
397
B
GLY
398
n
265
GLY
398
B
THR
399
n
266
THR
399
B
TYR
403
n
267
TYR
403
B
ASN
404
n
268
ASN
404
B
HIS
405
n
269
HIS
405
B
THR
406
n
270
THR
406
B
GLY
407
n
271
GLY
407
B
ARG
408
n
272
ARG
408
B
SER
409
n
273
SER
409
B
SER
410
n
274
SER
410
B
ASN
411
n
275
ASN
411
B
GLY
412
n
276
GLY
412
B
THR
413
n
277
THR
413
B
ILE
414
n
278
ILE
414
B
THR
415
n
279
THR
415
B
LEU
416
n
280
LEU
416
B
GLN
417
n
281
GLN
417
B
CYS
418
n
282
CYS
418
B
LYS
419
n
283
LYS
419
B
ILE
420
n
284
ILE
420
B
LYS
421
n
285
LYS
421
B
GLN
422
n
286
GLN
422
B
ILE
423
n
287
ILE
423
B
ILE
424
n
288
ILE
424
B
ASN
425
n
289
ASN
425
B
MET
426
n
290
MET
426
B
TRP
427
n
291
TRP
427
B
GLN
428
n
292
GLN
428
B
GLU
429
n
293
GLU
429
B
VAL
430
n
294
VAL
430
B
GLY
431
n
295
GLY
431
B
ARG
432
n
296
ARG
432
B
ALA
433
n
297
ALA
433
B
ILE
434
n
298
ILE
434
B
TYR
435
n
299
TYR
435
B
ALA
436
n
300
ALA
436
B
PRO
437
n
301
PRO
437
B
PRO
438
n
302
PRO
438
B
ILE
439
n
303
ILE
439
B
GLU
440
n
304
GLU
440
B
GLY
441
n
305
GLY
441
B
GLU
442
n
306
GLU
442
B
ILE
443
n
307
ILE
443
B
THR
444
n
308
THR
444
B
CYS
445
n
309
CYS
445
B
ASN
446
n
310
ASN
446
B
SER
447
n
311
SER
447
B
ASN
448
n
312
ASN
448
B
ILE
449
n
313
ILE
449
B
THR
450
n
314
THR
450
B
GLY
451
n
315
GLY
451
B
LEU
452
n
316
LEU
452
B
LEU
453
n
317
LEU
453
B
LEU
454
n
318
LEU
454
B
LEU
455
n
319
LEU
455
B
ARG
456
n
320
ARG
456
B
ASP
457
n
321
ASP
457
B
GLY
458
n
322
GLY
458
B
GLY
459
n
323
GLY
459
B
n
324
A
459
B
n
325
B
459
B
n
326
C
459
B
n
327
D
459
B
n
328
E
459
B
ASN
463
n
329
ASN
463
B
ASP
464
n
330
ASP
464
B
THR
465
n
331
THR
465
B
GLU
466
n
332
GLU
466
B
THR
467
n
333
THR
467
B
PHE
468
n
334
PHE
468
B
ARG
469
n
335
ARG
469
B
PRO
470
n
336
PRO
470
B
GLY
471
n
337
GLY
471
B
GLY
472
n
338
GLY
472
B
GLY
473
n
339
GLY
473
B
ASP
474
n
340
ASP
474
B
MET
475
n
341
MET
475
B
ARG
476
n
342
ARG
476
B
ASP
477
n
343
ASP
477
B
ASN
478
n
344
ASN
478
B
TRP
479
n
345
TRP
479
B
ARG
480
n
346
ARG
480
B
SER
481
n
347
SER
481
B
GLU
482
n
348
GLU
482
B
LEU
483
n
349
LEU
483
B
TYR
484
n
350
TYR
484
B
LYS
485
n
351
LYS
485
B
TYR
486
n
352
TYR
486
B
LYS
487
n
353
LYS
487
B
VAL
488
n
354
VAL
488
B
VAL
489
n
355
VAL
489
B
GLU
490
n
356
GLU
490
B
ILE
491
n
357
ILE
491
B
LYS
492
n
358
LYS
492
B
0.2534
-0.4571
0.0676
0.8178
-0.0069
1.8258
-0.0591
0.3220
-0.4139
0.0788
0.1271
-0.2373
0.1554
0.6606
0.1807
0.6252
0.0785
0.1254
0.4908
-0.0105
0.3678
refined
-3.4264
-21.0186
15.9902
X-RAY DIFFRACTION
0.7367
0.4576
-0.6224
3.1911
0.3564
3.9861
0.0802
0.1189
0.1491
-0.3247
-0.2455
-1.2860
-0.1686
0.8808
0.0729
0.1962
0.0089
0.2068
0.2981
0.1019
0.0158
refined
-8.8785
-12.3600
19.3471
X-RAY DIFFRACTION
1.9585
0.4254
0.8096
2.7002
-0.2870
2.2049
-0.0397
-0.2925
0.0386
0.4175
-0.1763
-0.0311
-0.2854
-0.1856
0.0366
0.2380
-0.0176
0.0003
0.1489
-0.0014
-0.0215
refined
-24.0527
-9.4899
33.1623
X-RAY DIFFRACTION
0.3476
0.6224
0.5710
1.1227
1.0660
1.3292
0.1869
-0.3703
-0.6337
0.1230
0.3006
-0.3217
-0.1249
0.7444
-0.5121
-0.0216
0.0127
0.0878
0.6545
-0.0644
0.4944
refined
-4.1492
-10.4032
23.8999
X-RAY DIFFRACTION
0.9880
0.1907
0.4541
1.1092
0.1617
0.2121
-0.3359
0.5726
0.2465
-0.8102
0.0173
0.2423
-0.5938
-0.0111
0.3451
0.9790
-0.1067
-0.3542
0.5594
0.1261
0.4045
refined
-26.2647
-39.5909
2.5853
X-RAY DIFFRACTION
1.5806
0.6377
0.3479
1.4574
-0.4249
1.4900
-0.2131
0.1252
0.4187
-0.8968
0.3854
0.6599
0.3223
-0.2913
-0.0590
0.4525
-0.0726
-0.5179
0.1881
0.1900
0.4126
refined
-23.6067
-46.9869
9.9730
X-RAY DIFFRACTION
4.8021
1.0237
-2.3830
2.2641
-1.3877
2.1443
-0.1949
-1.1125
0.5320
-0.2061
0.2812
0.3581
0.3472
0.3894
0.0012
0.1760
0.0976
-0.1655
0.2814
-0.1706
0.1704
refined
-13.7273
-46.3817
28.2304
X-RAY DIFFRACTION
0.1905
0.2166
-0.7354
1.2924
0.5040
4.5615
-0.2633
0.4914
0.4418
-0.5338
0.0943
0.7226
0.2832
-0.8275
-0.2369
0.2055
-0.1404
-0.4969
0.3869
0.2671
0.6727
refined
-29.6768
-47.0172
13.1459
X-RAY DIFFRACTION
X-RAY DIFFRACTION
1
chain A and resi 44:89
X-RAY DIFFRACTION
2
chain A and resi 90:254
X-RAY DIFFRACTION
3
chain A and resi 255:472
X-RAY DIFFRACTION
4
chain A and resi 473:492
X-RAY DIFFRACTION
5
chain B and resi 44:89
X-RAY DIFFRACTION
6
chain B and resi 90:254
X-RAY DIFFRACTION
7
chain B and resi 255:472
X-RAY DIFFRACTION
8
chain B and resi 473:492
author_and_software_defined_assembly
PISA
2
dimeric
author_and_software_defined_assembly
PISA
2
dimeric
B
ASN
262
GLYCOSYLATION SITE
B
ASN
146
ASN
A
ASN
289
GLYCOSYLATION SITE
A
ASN
173
ASN
A
ASN
339
GLYCOSYLATION SITE
A
ASN
207
ASN
B
ASN
289
GLYCOSYLATION SITE
B
ASN
173
ASN
A
ASN
392
GLYCOSYLATION SITE
A
ASN
259
ASN
B
ASN
392
GLYCOSYLATION SITE
B
ASN
259
ASN
A
ASN
262
GLYCOSYLATION SITE
A
ASN
146
ASN
A
ASN
448
GLYCOSYLATION SITE
A
ASN
312
ASN
A
ASN
276
GLYCOSYLATION SITE
A
ASN
160
ASN
A
ASN
386
GLYCOSYLATION SITE
A
ASN
253
ASN
B
ASN
234
GLYCOSYLATION SITE
B
ASN
118
ASN
B
ASN
386
GLYCOSYLATION SITE
B
ASN
253
ASN
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
VAL
75
A
O
VAL
32
A
N
CYS
54
A
N
CYS
11
A
N
PHE
53
A
N
PHE
10
A
O
CYS
218
A
O
CYS
102
A
N
PHE
93
A
N
PHE
50
A
O
GLY
237
A
O
GLY
121
A
O
ILE
201
A
O
ILE
85
A
N
LYS
121
A
N
LYS
78
A
N
VAL
120
A
N
VAL
77
A
O
ILE
434
A
O
ILE
298
A
O
ALA
433
A
O
ALA
297
A
N
ILE
424
A
N
ILE
288
A
O
VAL
245
A
O
VAL
129
A
N
ILE
225
A
N
ILE
109
A
N
LEU
226
A
N
LEU
110
A
O
LYS
487
A
O
LYS
353
A
N
LEU
260
A
N
LEU
144
A
O
GLY
451
A
O
GLY
315
A
O
CYS
445
A
O
CYS
309
A
N
CYS
296
A
N
CYS
180
A
N
THR
297
A
N
THR
181
A
O
HIS
330
A
O
HIS
198
A
N
ILE
333
A
N
ILE
201
A
O
ILE
414
A
O
ILE
278
A
O
LYS
419
A
O
LYS
283
A
N
TYR
384
A
N
TYR
251
A
O
GLU
381
A
O
GLU
248
A
N
CYS
378
A
N
CYS
245
A
N
ARG
273
A
N
ARG
157
A
O
ILE
285
A
O
ILE
169
A
N
CYS
296
A
N
CYS
180
A
O
CYS
445
A
O
CYS
309
A
N
LEU
455
A
N
LEU
319
A
O
ARG
469
A
O
ARG
335
A
O
PHE
468
A
O
PHE
334
A
N
LYS
360
A
N
LYS
227
A
N
PHE
361
A
N
PHE
228
A
O
GLY
393
A
O
GLY
260
B
O
VAL
75
B
O
VAL
32
B
N
SER
56
B
N
SER
13
B
N
PHE
53
B
N
PHE
10
B
O
CYS
218
B
O
CYS
102
B
N
PHE
93
B
N
PHE
50
B
O
GLY
237
B
O
GLY
121
B
O
ILE
201
B
O
ILE
85
B
N
LYS
121
B
N
LYS
78
B
N
VAL
120
B
N
VAL
77
B
O
ILE
434
B
O
ILE
298
B
O
ALA
433
B
O
ALA
297
B
N
ILE
424
B
N
ILE
288
B
O
VAL
245
B
O
VAL
129
B
N
ILE
225
B
N
ILE
109
B
N
LEU
226
B
N
LEU
110
B
O
LYS
487
B
O
LYS
353
B
N
LEU
260
B
N
LEU
144
B
O
GLY
451
B
O
GLY
315
B
O
SER
447
B
O
SER
311
B
N
ILE
294
B
N
ILE
178
B
N
THR
297
B
N
THR
181
B
O
HIS
330
B
O
HIS
198
B
N
ILE
333
B
N
ILE
201
B
O
ILE
414
B
O
ILE
278
B
O
LYS
419
B
O
LYS
283
B
N
TYR
384
B
N
TYR
251
B
O
GLU
381
B
O
GLU
248
B
N
CYS
378
B
N
CYS
245
B
N
ILE
271
B
N
ILE
155
B
O
HIS
287
B
O
HIS
171
B
N
ILE
294
B
N
ILE
178
B
O
SER
447
B
O
SER
311
B
N
LEU
455
B
N
LEU
319
B
O
ARG
469
B
O
ARG
335
B
O
PHE
468
B
O
PHE
334
B
N
LYS
360
B
N
LYS
227
B
N
ILE
359
B
N
ILE
226
B
O
TYR
395
B
O
TYR
262
1
B
HOH
620
S
HOH
1
A
O1
NAG
501
C
O1
NAG
1
1
N
1
A
ASN
317
A
ASN
185
1
Y
1
A
GLY
318
A
GLY
186
1
Y
1
A
GLY
319
A
GLY
187
1
Y
1
A
SER
320
A
SER
188
1
Y
1
A
GLY
321
A
GLY
189
1
Y
1
A
SER
322
A
SER
190
1
Y
1
A
GLY
323
A
GLY
191
1
Y
1
A
GLY
324
A
GLY
192
1
Y
A
1
A
GLN
459
A
GLN
324
1
Y
B
1
A
SER
459
A
SER
325
1
Y
C
1
A
ASN
459
A
ASN
326
1
Y
D
1
A
GLU
459
A
GLU
327
1
Y
E
1
A
THR
459
A
THR
328
1
Y
1
B
ASN
317
B
ASN
185
1
Y
1
B
GLY
318
B
GLY
186
1
Y
1
B
GLY
319
B
GLY
187
1
Y
1
B
SER
320
B
SER
188
1
Y
1
B
GLY
321
B
GLY
189
1
Y
1
B
SER
322
B
SER
190
1
Y
1
B
GLY
323
B
GLY
191
1
Y
1
B
GLY
324
B
GLY
192
1
Y
A
1
B
GLN
459
B
GLN
324
1
Y
B
1
B
SER
459
B
SER
325
1
Y
C
1
B
ASN
459
B
ASN
326
1
Y
D
1
B
GLU
459
B
GLU
327
1
Y
E
1
B
THR
459
B
THR
328
1
Y
1
A
A
ND2
C1
ASN
NAG
234
501
1.11
1
A
A
ND2
O5
ASN
NAG
339
505
2.06
1
A
A
ND2
O5
ASN
NAG
234
501
2.10
1
A
A
CG
C1
ASN
NAG
234
501
2.18
1
A
A
CG
ND1
HIS
HIS
287
287
-0.105
0.015
1.369
1.264
N
1
A
A
NE2
CD2
HIS
HIS
287
287
-0.081
0.011
1.373
1.292
N
1
A
LYS
46
-164.64
-167.37
1
A
ASP
57
-93.52
48.78
1
A
SER
115
-61.80
-78.71
1
A
ASP
211
-172.25
102.30
1
A
PRO
220
-59.63
171.91
1
A
LYS
231
-78.15
30.31
1
A
THR
232
-151.27
6.59
1
A
CYS
239
-160.94
102.66
1
A
THR
248
-100.95
-167.65
1
A
GLN
258
76.84
-48.03
1
A
GLU
268
-87.38
-100.95
1
A
THR
341
-55.02
-74.71
1
A
SER
356
-176.79
83.50
1
A
SER
365
-36.38
-70.22
1
A
HIS
405
-109.99
-153.71
1
A
THR
406
-175.11
135.87
1
A
LYS
487
-168.42
118.05
1
B
LYS
46
-166.28
-169.55
1
B
LEU
52
-76.42
-167.26
1
B
ASN
80
-150.02
80.80
1
B
PRO
212
-47.10
154.96
1
B
PRO
220
-57.86
173.91
1
B
THR
248
-110.13
-163.33
1
B
GLN
258
70.75
-71.61
1
B
GLU
268
-99.29
-103.70
1
B
ASN
276
-166.64
99.25
1
B
THR
341
-57.45
-72.02
1
B
SER
356
-161.63
93.47
1
B
HIS
405
-107.81
-148.79
1
B
THR
465
-161.41
97.06
1
B
LYS
487
-171.00
111.51
-18.1429
-0.0000
-0.0000
-15.7200
-0.0000
-16.8220
0.2954
0.2394
0.2422
2.7
44.837
861
23335
17156
5.02
73.52
1.000
1.000
0.44
1
0.00
MOLECULAR REPLACEMENT
30.59
0.72
1.00
ML
FLAT BULK SOLVENT MODEL
25.118
0.292
2.7
44.837
104
5742
228
0
5410
0.010
5964
0.699
8098
16.654
2240
0.044
934
0.003
1014
0.4612
0.3690
2.8422
43
770
21.00
0.3915
0.3271
3.0616
95
1712
47.00
0.4142
0.2725
3.3696
134
2764
75.00
0.2626
0.2199
3.8570
190
3538
97.00
0.2474
0.2022
4.8584
210
3684
100.00
0.2778
0.2414
44.8434
189
3827
99.00
2.7
50
3TGS
23729
17560
0.0
0.0
0.116
0.096
1
26.2
5.2
74.0
0.222
2.70
2.80
0.217
1
3.6
26.3
0.217
2.80
2.91
0.172
1
3.4
33.5
0.195
2.91
3.04
0.174
1
3.4
44.6
0.188
3.04
3.20
0.172
1
3.7
60.1
0.192
3.20
3.40
0.187
1
4.5
79.3
0.227
3.40
3.66
0.246
1
5.7
94.5
0.204
3.66
4.03
0.170
1
6.6
99.1
0.144
4.03
4.62
0.122
1
6.5
99.8
0.111
4.62
5.81
0.113
1
6.1
99.7
0.066
5.81
50.0
0.070
1
5.5
98.9
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
June 10, 2010
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.10
data reduction
DENZO
data scaling
SCALEPACK
HIV-1 clade C1086 gp120 core
Crystal structure of HIV-1 clade C strain C1086 gp120 core in complex with NBD-556
1
N
N
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
2
N
N
2
N
N
2
N
N
3
N
N
2
N
N
2
N
N
2
N
N
2
N
N
4
N
N
4
N
N
A
GLU
64
A
GLU
21
HELX_P
A
CYS
74
A
CYS
31
1
1
11
A
ASN
98
A
ASN
55
HELX_P
A
SER
115
A
SER
72
1
2
18
A
GLU
335
A
GLU
203
HELX_P
A
PHE
353
A
PHE
221
1
3
19
A
ASP
368
A
ASP
235
HELX_P
A
THR
373
A
THR
240
1
4
6
A
MET
475
A
MET
341
HELX_P
A
TYR
484
A
TYR
350
1
5
10
B
GLU
64
B
GLU
21
HELX_P
B
CYS
74
B
CYS
31
1
6
11
B
ASN
98
B
ASN
55
HELX_P
B
LEU
116
B
LEU
73
1
7
19
B
GLU
335
B
GLU
203
HELX_P
B
HIS
352
B
HIS
220
1
8
18
B
ASP
368
B
ASP
235
HELX_P
B
THR
373
B
THR
240
1
9
6
B
ASP
474
B
ASP
340
HELX_P
B
TYR
484
B
TYR
350
1
10
11
disulf
2.033
A
CYS
54
A
SG
CYS
11
1_555
A
CYS
74
A
SG
CYS
31
1_555
disulf
2.035
A
CYS
119
A
SG
CYS
76
1_555
A
CYS
205
A
SG
CYS
89
1_555
disulf
2.031
A
CYS
218
A
SG
CYS
102
1_555
A
CYS
247
A
SG
CYS
131
1_555
disulf
2.032
A
CYS
228
A
SG
CYS
112
1_555
A
CYS
239
A
SG
CYS
123
1_555
disulf
2.035
A
CYS
296
A
SG
CYS
180
1_555
A
CYS
331
A
SG
CYS
199
1_555
disulf
2.028
A
CYS
378
A
SG
CYS
245
1_555
A
CYS
445
A
SG
CYS
309
1_555
disulf
2.025
A
CYS
385
A
SG
CYS
252
1_555
A
CYS
418
A
SG
CYS
282
1_555
disulf
2.034
B
CYS
54
B
SG
CYS
11
1_555
B
CYS
74
B
SG
CYS
31
1_555
disulf
2.030
B
CYS
119
B
SG
CYS
76
1_555
B
CYS
205
B
SG
CYS
89
1_555
disulf
2.033
B
CYS
218
B
SG
CYS
102
1_555
B
CYS
247
B
SG
CYS
131
1_555
disulf
2.031
B
CYS
228
B
SG
CYS
112
1_555
B
CYS
239
B
SG
CYS
123
1_555
disulf
2.035
B
CYS
296
B
SG
CYS
180
1_555
B
CYS
331
B
SG
CYS
199
1_555
disulf
2.033
B
CYS
378
B
SG
CYS
245
1_555
B
CYS
445
B
SG
CYS
309
1_555
disulf
2.030
B
CYS
385
B
SG
CYS
252
1_555
B
CYS
418
B
SG
CYS
282
1_555
covale
1.438
one
N-Glycosylation
A
ASN
262
A
ND2
ASN
146
1_555
A
NAG
502
D
C1
NAG
1_555
covale
1.443
one
N-Glycosylation
A
ASN
276
A
ND2
ASN
160
1_555
A
NAG
503
E
C1
NAG
1_555
covale
1.407
one
N-Glycosylation
A
ASN
289
A
ND2
ASN
173
1_555
A
NAG
504
F
C1
NAG
1_555
covale
1.415
one
N-Glycosylation
A
ASN
339
A
ND2
ASN
207
1_555
A
NAG
505
G
C1
NAG
1_555
covale
1.443
one
N-Glycosylation
A
ASN
386
A
ND2
ASN
253
1_555
A
NAG
506
H
C1
NAG
1_555
covale
1.436
one
N-Glycosylation
A
ASN
392
A
ND2
ASN
259
1_555
A
NAG
508
J
C1
NAG
1_555
covale
1.439
one
N-Glycosylation
A
ASN
448
A
ND2
ASN
312
1_555
A
NAG
509
K
C1
NAG
1_555
covale
1.443
one
N-Glycosylation
B
ASN
234
B
ND2
ASN
118
1_555
B
NAG
501
L
C1
NAG
1_555
covale
1.390
one
N-Glycosylation
B
ASN
262
B
ND2
ASN
146
1_555
B
NAG
503
N
C1
NAG
1_555
covale
1.436
one
N-Glycosylation
B
ASN
289
B
ND2
ASN
173
1_555
B
NAG
504
O
C1
NAG
1_555
covale
1.498
one
N-Glycosylation
B
ASN
386
B
ND2
ASN
253
1_555
B
NAG
505
P
C1
NAG
1_555
covale
1.437
one
N-Glycosylation
B
ASN
392
B
ND2
ASN
259
1_555
B
NAG
506
Q
C1
NAG
1_555
VIRAL PROTEIN
HIV-1 gp120, clade C1086, complex, NBD-556, VIRAL PROTEIN
A
ASP
78
A
ASP
35
1
A
PRO
79
A
PRO
36
-1.32
B
ASP
78
B
ASP
35
1
B
PRO
79
B
PRO
36
-6.76
3TGS
PDB
1
3TGS
44
492
3TGS
44
492
3TGS
A
1
1
358
44
492
3TGS
44
492
3TGS
B
1
1
358
3
2
4
3
7
6
3
2
4
3
7
6
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
parallel
anti-parallel
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
parallel
anti-parallel
A
VAL
75
A
VAL
32
A
PRO
76
A
PRO
33
A
PHE
53
A
PHE
10
A
SER
56
A
SER
13
A
LEU
215
A
LEU
99
A
CYS
218
A
CYS
102
A
PHE
93
A
PHE
50
A
ASN
94
A
ASN
51
A
THR
236
A
THR
120
A
GLY
237
A
GLY
121
A
ALA
200
A
ALA
84
A
THR
202
A
THR
86
A
VAL
120
A
VAL
77
A
LEU
122
A
LEU
79
A
ARG
432
A
ARG
296
A
ILE
434
A
ILE
298
A
ILE
423
A
ILE
287
A
ASN
425
A
ASN
289
A
THR
244
A
THR
128
A
VAL
245
A
VAL
129
A
PHE
223
A
PHE
107
A
LYS
227
A
LYS
111
A
TYR
486
A
TYR
352
A
GLU
490
A
GLU
356
A
LEU
259
A
LEU
143
A
LEU
261
A
LEU
145
A
ILE
443
A
ILE
307
A
ARG
456
A
ARG
320
A
ILE
284
A
ILE
168
A
ARG
298
A
ARG
182
A
GLN
328
A
GLN
196
A
ASN
334
A
ASN
202
A
THR
413
A
THR
277
A
ILE
420
A
ILE
284
A
GLU
381
A
GLU
248
A
CYS
385
A
CYS
252
A
HIS
374
A
HIS
241
A
CYS
378
A
CYS
245
A
ILE
271
A
ILE
155
A
ARG
273
A
ARG
157
A
ILE
284
A
ILE
168
A
ARG
298
A
ARG
182
A
ILE
443
A
ILE
307
A
ARG
456
A
ARG
320
A
THR
465
A
THR
331
A
PRO
470
A
PRO
336
A
THR
358
A
THR
225
A
PHE
361
A
PHE
228
A
GLY
393
A
GLY
260
A
THR
394
A
THR
261
B
VAL
75
B
VAL
32
B
PRO
76
B
PRO
33
B
PHE
53
B
PHE
10
B
SER
56
B
SER
13
B
HIS
216
B
HIS
100
B
CYS
218
B
CYS
102
B
GLU
91
B
GLU
48
B
ASN
94
B
ASN
51
B
THR
236
B
THR
120
B
CYS
239
B
CYS
123
B
SER
199
B
SER
83
B
THR
202
B
THR
86
B
VAL
120
B
VAL
77
B
THR
123
B
THR
80
B
ARG
432
B
ARG
296
B
ILE
434
B
ILE
298
B
ILE
423
B
ILE
287
B
ASN
425
B
ASN
289
B
VAL
242
B
VAL
126
B
VAL
245
B
VAL
129
B
PHE
223
B
PHE
107
B
CYS
228
B
CYS
112
B
TYR
486
B
TYR
352
B
GLU
490
B
GLU
356
B
LEU
259
B
LEU
143
B
LEU
261
B
LEU
145
B
ILE
443
B
ILE
307
B
ARG
456
B
ARG
320
B
ILE
284
B
ILE
168
B
ARG
298
B
ARG
182
B
GLN
328
B
GLN
196
B
ASN
334
B
ASN
202
B
THR
413
B
THR
277
B
LYS
421
B
LYS
285
B
GLU
381
B
GLU
248
B
CYS
385
B
CYS
252
B
HIS
374
B
HIS
241
B
CYS
378
B
CYS
245
B
ILE
271
B
ILE
155
B
ARG
273
B
ARG
157
B
ILE
284
B
ILE
168
B
ARG
298
B
ARG
182
B
ILE
443
B
ILE
307
B
ARG
456
B
ARG
320
B
THR
465
B
THR
331
B
PRO
470
B
PRO
336
B
THR
358
B
THR
225
B
PHE
361
B
PHE
228
B
GLY
393
B
GLY
260
B
TYR
395
B
TYR
262
20
C 2 2 21