0.014273
0.008241
0.000000
-0.000000
0.016482
0.000000
0.000000
-0.000000
0.009832
0.00000
0.00000
0.00000
Skalova, T.
Blaha, J.
Duskova, J.
Koval, T.
Stransky, J.
Hasek, J.
Vanek, O.
Dohnalek, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
70.060
70.060
101.710
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
C8 H15 N O6
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE
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
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
R
C
N
231
R
C
N
232
R
C
N
233
S
C
N
234
R
C
N
235
N
C
N
236
N
C
N
237
N
C
N
238
N
N
N
239
N
O
N
240
N
O
N
241
N
O
N
242
N
O
N
243
N
O
N
244
N
O
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
N
N
261
S
C
N
262
N
C
N
263
N
O
N
264
N
C
Y
265
N
C
Y
266
N
C
Y
267
N
C
Y
268
N
C
Y
269
N
C
Y
270
N
C
N
271
N
O
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
H
N
283
N
N
N
284
S
C
N
285
N
C
N
286
N
O
N
287
N
C
N
288
N
C
N
289
N
C
N
290
N
O
N
291
N
H
N
292
N
H
N
293
N
H
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
N
N
301
S
C
N
302
N
C
N
303
N
O
N
304
N
C
N
305
N
O
N
306
N
O
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
N
N
315
S
C
N
316
N
C
N
317
N
O
N
318
R
C
N
319
N
O
N
320
N
C
N
321
N
O
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
N
N
332
S
C
N
333
N
C
N
334
N
O
N
335
N
C
Y
336
N
C
Y
337
N
C
Y
338
N
C
Y
339
N
N
Y
340
N
C
Y
341
N
C
Y
342
N
C
Y
343
N
C
Y
344
N
C
N
345
N
O
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
H
N
350
N
H
N
351
N
H
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
N
N
359
S
C
N
360
N
C
N
361
N
O
N
362
N
C
Y
363
N
C
Y
364
N
C
Y
365
N
C
Y
366
N
C
Y
367
N
C
Y
368
N
C
N
369
N
O
N
370
N
O
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
N
N
383
S
C
N
384
N
C
N
385
N
O
N
386
N
C
N
387
N
C
N
388
N
C
N
389
N
O
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
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
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
doub
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
doub
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
Y
259
N
doub
Y
260
N
sing
Y
261
N
sing
N
262
N
sing
Y
263
N
doub
N
264
N
sing
Y
265
N
doub
N
266
N
sing
Y
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
doub
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
doub
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
doub
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
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
doub
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
Y
328
N
doub
Y
329
N
sing
Y
330
N
sing
N
331
N
sing
Y
332
N
doub
Y
333
N
sing
Y
334
N
sing
N
335
N
sing
Y
336
N
sing
Y
337
N
doub
N
338
N
sing
Y
339
N
doub
N
340
N
sing
Y
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
doub
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
Y
356
N
doub
Y
357
N
sing
Y
358
N
sing
N
359
N
sing
Y
360
N
doub
N
361
N
sing
Y
362
N
doub
N
363
N
sing
Y
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
sing
N
375
N
doub
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
71
578
591
10.1107/S1399004714027928
25760607
Four crystal structures of human LLT1, a ligand of human NKR-P1, in varied glycosylation and oligomerization states
2015
10.2210/pdb4qkj/pdb
pdb_00004qkj
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
Si Mirror, double crystal Si monochromator, Rh mirror
CCD
2011-11-24
MARMOSAIC 225 mm CCD
Si(111) double crystal
SINGLE WAVELENGTH
M
x-ray
1
0.9184
1.0
14.1
BESSY
0.9184
SYNCHROTRON
BESSY BEAMLINE 14.1
15692.363
C-type lectin domain family 2 member D
extracellular part, UNP residues 72-191
H176C
1
man
polymer
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
1
man
non-polymer
18.015
water
15
nat
water
Lectin-like NK cell receptor, Lectin-like transcript 1, LLT-1, Osteoclast inhibitory lectin
no
no
ITGQAACPESWIGFQRKCFYFSDDTKNWTSSQRFCDSQDADLAQVESFQELNFLLRYKGPSDHWIGLSREQGQPWKWING
TEWTRQFPILGAGECAYLNDKGASSARCYTERKWICSKSDIHVGTKHHHHHHHHG
ITGQAACPESWIGFQRKCFYFSDDTKNWTSSQRFCDSQDADLAQVESFQELNFLLRYKGPSDHWIGLSREQGQPWKWING
TEWTRQFPILGAGECAYLNDKGASSARCYTERKWICSKSDIHVGTKHHHHHHHHG
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
human
protein secreted into medium
human
sample
CLAX, CLEC2B, CLEC2D, LLT1, OCIL
9606
Homo sapiens
HEK293S GnTI-
9606
HOMO SAPIENS
plasmid
pTT28
1
2.30
46.43
VAPOR DIFFUSION, HANGING DROP
4.2
40%(v/v) PEG300 and 0.1M citrate phosphate buffer, pH 4.2, VAPOR DIFFUSION, HANGING DROP, temperature 288K
288
software
citation_author
chem_comp
entity
pdbx_chem_comp_identifier
pdbx_entity_nonpoly
struct_conn
struct_ref_seq_dif
struct_site
struct_site_gen
chem_comp
entity_src_gen
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
repository
Initial release
Carbohydrate remediation
repository
Remediation
Database references
Refinement description
Data collection
Database references
Data collection
Database references
Derived calculations
Structure summary
Source and taxonomy
Structure summary
Data collection
Database references
Refinement description
1
0
2015-03-11
1
1
2016-01-27
1
2
2017-11-22
1
3
2018-06-20
1
4
2020-07-29
1
5
2021-06-02
1
6
2023-11-08
_citation_author.name
_chem_comp.name
_chem_comp.type
_entity.pdbx_description
_pdbx_entity_nonpoly.name
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_role
_struct_ref_seq_dif.details
_chem_comp.pdbx_synonyms
_entity_src_gen.pdbx_host_org_cell_line
_entity_src_gen.pdbx_host_org_strain
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
DGlcpNAcb
N-acetyl-b-D-glucopyranosamine
b-D-GlcpNAc
GlcNAc
RCSB
Y
PDBJ
2014-06-06
REL
REL
NAG
2-acetamido-2-deoxy-beta-D-glucopyranose
HOH
water
3HUP
PDB
experimental model
NAG
511
2
NAG
NAG
301
A
HOH
1
3
HOH
HOH
401
A
HOH
2
3
HOH
HOH
402
A
HOH
3
3
HOH
HOH
403
A
HOH
4
3
HOH
HOH
404
A
HOH
5
3
HOH
HOH
405
A
HOH
6
3
HOH
HOH
406
A
HOH
7
3
HOH
HOH
407
A
HOH
8
3
HOH
HOH
408
A
HOH
9
3
HOH
HOH
409
A
HOH
10
3
HOH
HOH
410
A
HOH
11
3
HOH
HOH
411
A
HOH
12
3
HOH
HOH
412
A
HOH
13
3
HOH
HOH
413
A
HOH
14
3
HOH
HOH
414
A
HOH
15
3
HOH
HOH
415
A
n
1
69
A
n
2
70
A
n
3
71
A
n
4
72
A
n
5
73
A
ALA
74
n
6
ALA
74
A
CYS
75
n
7
CYS
75
A
PRO
76
n
8
PRO
76
A
GLU
77
n
9
GLU
77
A
SER
78
n
10
SER
78
A
TRP
79
n
11
TRP
79
A
ILE
80
n
12
ILE
80
A
GLY
81
n
13
GLY
81
A
PHE
82
n
14
PHE
82
A
GLN
83
n
15
GLN
83
A
ARG
84
n
16
ARG
84
A
LYS
85
n
17
LYS
85
A
CYS
86
n
18
CYS
86
A
PHE
87
n
19
PHE
87
A
TYR
88
n
20
TYR
88
A
PHE
89
n
21
PHE
89
A
SER
90
n
22
SER
90
A
ASP
91
n
23
ASP
91
A
ASP
92
n
24
ASP
92
A
THR
93
n
25
THR
93
A
LYS
94
n
26
LYS
94
A
ASN
95
n
27
ASN
95
A
TRP
96
n
28
TRP
96
A
THR
97
n
29
THR
97
A
SER
98
n
30
SER
98
A
SER
99
n
31
SER
99
A
GLN
100
n
32
GLN
100
A
ARG
101
n
33
ARG
101
A
PHE
102
n
34
PHE
102
A
CYS
103
n
35
CYS
103
A
ASP
104
n
36
ASP
104
A
SER
105
n
37
SER
105
A
GLN
106
n
38
GLN
106
A
ASP
107
n
39
ASP
107
A
ALA
108
n
40
ALA
108
A
ASP
109
n
41
ASP
109
A
LEU
110
n
42
LEU
110
A
ALA
111
n
43
ALA
111
A
GLN
112
n
44
GLN
112
A
VAL
113
n
45
VAL
113
A
GLU
114
n
46
GLU
114
A
SER
115
n
47
SER
115
A
PHE
116
n
48
PHE
116
A
GLN
117
n
49
GLN
117
A
GLU
118
n
50
GLU
118
A
LEU
119
n
51
LEU
119
A
ASN
120
n
52
ASN
120
A
PHE
121
n
53
PHE
121
A
LEU
122
n
54
LEU
122
A
LEU
123
n
55
LEU
123
A
ARG
124
n
56
ARG
124
A
TYR
125
n
57
TYR
125
A
LYS
126
n
58
LYS
126
A
GLY
127
n
59
GLY
127
A
PRO
128
n
60
PRO
128
A
SER
129
n
61
SER
129
A
ASP
130
n
62
ASP
130
A
HIS
131
n
63
HIS
131
A
TRP
132
n
64
TRP
132
A
ILE
133
n
65
ILE
133
A
GLY
134
n
66
GLY
134
A
LEU
135
n
67
LEU
135
A
SER
136
n
68
SER
136
A
ARG
137
n
69
ARG
137
A
GLU
138
n
70
GLU
138
A
GLN
139
n
71
GLN
139
A
GLY
140
n
72
GLY
140
A
GLN
141
n
73
GLN
141
A
PRO
142
n
74
PRO
142
A
TRP
143
n
75
TRP
143
A
LYS
144
n
76
LYS
144
A
TRP
145
n
77
TRP
145
A
ILE
146
n
78
ILE
146
A
ASN
147
n
79
ASN
147
A
GLY
148
n
80
GLY
148
A
THR
149
n
81
THR
149
A
GLU
150
n
82
GLU
150
A
TRP
151
n
83
TRP
151
A
THR
152
n
84
THR
152
A
ARG
153
n
85
ARG
153
A
GLN
154
n
86
GLN
154
A
PHE
155
n
87
PHE
155
A
PRO
156
n
88
PRO
156
A
ILE
157
n
89
ILE
157
A
LEU
158
n
90
LEU
158
A
GLY
159
n
91
GLY
159
A
ALA
160
n
92
ALA
160
A
GLY
161
n
93
GLY
161
A
GLU
162
n
94
GLU
162
A
CYS
163
n
95
CYS
163
A
ALA
164
n
96
ALA
164
A
TYR
165
n
97
TYR
165
A
LEU
166
n
98
LEU
166
A
ASN
167
n
99
ASN
167
A
ASP
168
n
100
ASP
168
A
LYS
169
n
101
LYS
169
A
GLY
170
n
102
GLY
170
A
ALA
171
n
103
ALA
171
A
SER
172
n
104
SER
172
A
SER
173
n
105
SER
173
A
ALA
174
n
106
ALA
174
A
ARG
175
n
107
ARG
175
A
CYS
176
n
108
CYS
176
A
TYR
177
n
109
TYR
177
A
THR
178
n
110
THR
178
A
GLU
179
n
111
GLU
179
A
ARG
180
n
112
ARG
180
A
LYS
181
n
113
LYS
181
A
TRP
182
n
114
TRP
182
A
ILE
183
n
115
ILE
183
A
CYS
184
n
116
CYS
184
A
SER
185
n
117
SER
185
A
LYS
186
n
118
LYS
186
A
SER
187
n
119
SER
187
A
ASP
188
n
120
ASP
188
A
n
121
189
A
n
122
190
A
n
123
191
A
n
124
192
A
n
125
193
A
n
126
194
A
n
127
195
A
n
128
196
A
n
129
197
A
n
130
198
A
n
131
199
A
n
132
200
A
n
133
201
A
n
134
202
A
n
135
203
A
author_defined_assembly
2
dimeric
software_defined_assembly
PISA
1
monomeric
A
ASN
95
GLYCOSYLATION SITE
A
ASN
27
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
0.5000000000
0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
12_555
x,x-y,-z+1/2
crystal symmetry operation
0.0000000000
0.0000000000
50.8550000000
A
N
ILE
80
A
N
ILE
12
A
O
PHE
87
A
O
PHE
19
A
N
TYR
88
A
N
TYR
20
A
O
CYS
184
A
O
CYS
116
A
O
LYS
181
A
O
LYS
113
A
N
TRP
132
A
N
TRP
64
A
N
SER
136
A
N
SER
68
A
O
LYS
144
A
O
LYS
76
A
N
ASP
109
A
N
ASP
41
A
O
SER
185
A
O
SER
117
A
O
LYS
181
A
O
LYS
113
A
N
TRP
132
A
N
TRP
64
A
N
HIS
131
A
N
HIS
63
A
O
LEU
166
A
O
LEU
98
A
N
TYR
165
A
N
TYR
97
A
O
SER
172
A
O
SER
104
1
A
ILE
69
A
ILE
1
1
Y
1
A
THR
70
A
THR
2
1
Y
1
A
GLY
71
A
GLY
3
1
Y
1
A
GLN
72
A
GLN
4
1
Y
1
A
ALA
73
A
ALA
5
1
Y
1
A
ILE
189
A
ILE
121
1
Y
1
A
HIS
190
A
HIS
122
1
Y
1
A
VAL
191
A
VAL
123
1
Y
1
A
GLY
192
A
GLY
124
1
Y
1
A
THR
193
A
THR
125
1
Y
1
A
LYS
194
A
LYS
126
1
Y
1
A
HIS
195
A
HIS
127
1
Y
1
A
HIS
196
A
HIS
128
1
Y
1
A
HIS
197
A
HIS
129
1
Y
1
A
HIS
198
A
HIS
130
1
Y
1
A
HIS
199
A
HIS
131
1
Y
1
A
HIS
200
A
HIS
132
1
Y
1
A
HIS
201
A
HIS
133
1
Y
1
A
HIS
202
A
HIS
134
1
Y
1
A
GLY
203
A
GLY
135
1
Y
1
A
A
O
OE1
GLU
GLN
114
154
2.08
1
A
A
O
NE2
LEU
GLN
110
112
2.19
1
A
A
GLY
GLN
140
141
-149.50
1
8.58
0.90
118.30
126.88
A
A
A
CB
CG
OD1
ASP
ASP
ASP
130
130
130
N
1
-5.62
0.90
118.30
112.68
A
A
A
CB
CG
OD2
ASP
ASP
ASP
130
130
130
N
1
A
SER
78
72.21
-12.40
1
A
SER
105
-36.38
-24.87
1
A
ALA
111
-33.60
133.97
1
A
ARG
153
-69.86
53.06
1
A
ASN
167
-90.02
-149.72
1
A
LYS
186
-160.53
-158.34
40.052
-0.16
-0.08
0.00
-0.16
0.00
0.53
0.894
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.2978
0.22133
0.23022
0.23022
2.75
39.0
223
4186
4186
99.52
11.069
0.220
RANDOM
1
throughout (except for the last cycle)
0
MOLECULAR REPLACEMENT
1.171
0.80
0.80
1.20
3HUP
CCP4 STEREOCHEMISTRY LIBRARY, VERSION 6.4.0
MASK
2.75
39.0
15
974
14
0
945
0.018
0.020
993
0.006
0.020
860
1.967
1.919
1344
0.971
3.000
1977
9.828
5.000
114
40.451
23.774
53
21.562
15.000
158
14.554
15.000
7
0.108
0.200
129
0.008
0.020
1134
0.001
0.020
259
3.959
3.878
459
3.957
3.868
458
6.515
5.788
572
6.510
5.799
573
3.780
4.165
534
3.777
4.165
534
6.070
6.131
773
10.195
31.200
1222
10.192
31.241
1223
0.314
0.293
2.822
12
293
281
20
99.66
66.1
2.7
39.0
4QKJ
4431
4431
0
-3.0
0.093
1
16.2
4.3
99.5
0.757
2.70
2.76
2.0
273
1
4.4
99.3
data collection
MxCuBE
phasing
BALBES
refinement
REFMAC
5.8.0049
data reduction
HKL-2000
data scaling
HKL-2000
data scaling
Sawaya
et al.
Glycosylated form of human LLT1, a ligand for NKR-P1, in this structure forming hexamers
1
N
N
2
N
N
3
N
N
A
ASN
95
A
ASN
27
HELX_P
A
GLN
106
A
GLN
38
1
1
12
A
SER
115
A
SER
47
HELX_P
A
GLY
127
A
GLY
59
1
2
13
disulf
2.002
A
CYS
75
A
SG
CYS
7
1_555
A
CYS
86
A
SG
CYS
18
1_555
disulf
2.015
A
CYS
103
A
SG
CYS
35
1_555
A
CYS
184
A
SG
CYS
116
1_555
disulf
2.016
A
CYS
163
A
SG
CYS
95
1_555
A
CYS
176
A
SG
CYS
108
1_555
covale
1.458
one
N-Glycosylation
A
ASN
95
A
ND2
ASN
27
1_555
A
NAG
301
B
C1
NAG
1_555
IMMUNE SYSTEM
C-type lectin like fold, ligand for human receptor NKR-P1, GlcNAc2Man5 glycosylation, anchored in membrane on cell surface, IMMUNE SYSTEM
CLC2D_HUMAN
UNP
1
72
Q9UHP7
QAACPESWIGFQRKCFYFSDDTKNWTSSQRFCDSQDADLAQVESFQELNFLLRYKGPSDHWIGLSREQGQPWKWINGTEW
TRQFPILGAGECAYLNDKGASSARHYTERKWICSKSDIHV
72
191
4QKJ
72
191
Q9UHP7
A
1
4
123
1
expression tag
ILE
69
4QKJ
A
Q9UHP7
UNP
1
1
expression tag
THR
70
4QKJ
A
Q9UHP7
UNP
2
1
expression tag
GLY
71
4QKJ
A
Q9UHP7
UNP
3
1
HIS
engineered mutation
CYS
176
4QKJ
A
Q9UHP7
UNP
176
108
1
expression tag
GLY
192
4QKJ
A
Q9UHP7
UNP
124
1
expression tag
THR
193
4QKJ
A
Q9UHP7
UNP
125
1
expression tag
LYS
194
4QKJ
A
Q9UHP7
UNP
126
1
expression tag
HIS
195
4QKJ
A
Q9UHP7
UNP
127
1
expression tag
HIS
196
4QKJ
A
Q9UHP7
UNP
128
1
expression tag
HIS
197
4QKJ
A
Q9UHP7
UNP
129
1
expression tag
HIS
198
4QKJ
A
Q9UHP7
UNP
130
1
expression tag
HIS
199
4QKJ
A
Q9UHP7
UNP
131
1
expression tag
HIS
200
4QKJ
A
Q9UHP7
UNP
132
1
expression tag
HIS
201
4QKJ
A
Q9UHP7
UNP
133
1
expression tag
HIS
202
4QKJ
A
Q9UHP7
UNP
134
1
expression tag
GLY
203
4QKJ
A
Q9UHP7
UNP
135
5
5
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
A
ILE
80
A
ILE
12
A
GLY
81
A
GLY
13
A
CYS
86
A
CYS
18
A
PHE
89
A
PHE
21
A
LYS
181
A
LYS
113
A
LYS
186
A
LYS
118
A
HIS
131
A
HIS
63
A
SER
136
A
SER
68
A
LYS
144
A
LYS
76
A
TRP
145
A
TRP
77
A
ASP
109
A
ASP
41
A
LEU
110
A
LEU
42
A
LYS
181
A
LYS
113
A
LYS
186
A
LYS
118
A
HIS
131
A
HIS
63
A
SER
136
A
SER
68
A
CYS
163
A
CYS
95
A
LEU
166
A
LEU
98
A
ALA
171
A
ALA
103
A
ALA
174
A
ALA
106
182
P 63 2 2