0.016433
0.000000
0.009519
0.000000
0.019697
0.000000
0.000000
0.000000
0.034876
0.00000
0.00000
0.00000
Akiyoshi, Y.
Hamada, D.
Goda, N.
Tenno, T.
Narita, H.
Nakagawa, A.
Furuse, M.
Suzuki, M.
Hiroaki, H.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
120.08
90.00
60.852
50.768
33.136
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
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
O4 S -2
96.063
SULFATE ION
non-polymer
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
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
S
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
C
N
80
N
C
N
81
N
O
N
82
N
N
N
83
N
O
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
N
N
95
S
C
N
96
N
C
N
97
N
O
N
98
N
C
N
99
N
C
N
100
N
C
N
101
N
O
N
102
N
O
N
103
N
O
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
N
N
114
N
C
N
115
N
C
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
N
N
124
S
C
N
125
N
C
N
126
N
O
N
127
N
C
Y
128
N
C
Y
129
N
N
Y
130
N
C
Y
131
N
C
Y
132
N
N
N
133
N
O
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
O
N
145
N
H
N
146
N
H
N
147
N
N
N
148
S
C
N
149
N
C
N
150
N
O
N
151
S
C
N
152
N
C
N
153
N
C
N
154
N
C
N
155
N
O
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
N
N
170
S
C
N
171
N
C
N
172
N
O
N
173
N
C
N
174
N
C
N
175
N
C
N
176
N
C
N
177
N
O
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
N
N
192
S
C
N
193
N
C
N
194
N
O
N
195
N
C
N
196
N
C
N
197
N
C
N
198
N
C
N
199
N
N
N
200
N
O
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
N
N
217
S
C
N
218
N
C
N
219
N
O
N
220
N
C
Y
221
N
C
Y
222
N
C
Y
223
N
C
Y
224
N
C
Y
225
N
C
Y
226
N
C
N
227
N
O
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
N
N
240
S
C
N
241
N
C
N
242
N
O
N
243
N
C
N
244
N
C
N
245
N
C
N
246
N
O
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
N
N
257
S
C
N
258
N
C
N
259
N
O
N
260
N
C
N
261
N
O
N
262
N
O
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
S
N
271
N
O
N
272
N
O
N
273
N
O
N
274
N
O
N
275
N
N
N
276
S
C
N
277
N
C
N
278
N
O
N
279
R
C
N
280
N
O
N
281
N
C
N
282
N
O
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
H
N
291
N
H
N
292
N
N
N
293
S
C
N
294
N
C
N
295
N
O
N
296
N
C
Y
297
N
C
Y
298
N
C
Y
299
N
C
Y
300
N
C
Y
301
N
C
Y
302
N
C
N
303
N
O
N
304
N
O
N
305
N
H
N
306
N
H
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
H
N
315
N
H
N
316
N
N
N
317
S
C
N
318
N
C
N
319
N
O
N
320
N
C
N
321
N
C
N
322
N
C
N
323
N
O
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
H
N
332
N
H
N
333
N
H
N
334
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
doub
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
doub
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
doub
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
doub
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
Y
127
N
sing
Y
128
N
doub
Y
129
N
doub
N
130
N
sing
Y
131
N
sing
N
132
N
sing
Y
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
doub
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
doub
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
doub
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
doub
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
Y
216
N
doub
Y
217
N
sing
Y
218
N
sing
N
219
N
sing
Y
220
N
doub
N
221
N
sing
Y
222
N
doub
N
223
N
sing
Y
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
doub
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
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
doub
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
doub
N
259
N
doub
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
sing
N
267
N
sing
N
268
N
doub
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
sing
N
284
N
doub
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
Y
289
N
doub
Y
290
N
sing
Y
291
N
sing
N
292
N
sing
Y
293
N
doub
N
294
N
sing
Y
295
N
doub
N
296
N
sing
Y
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
doub
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
To be Published
0353
Structural basis for down regulation of tight junction by PDZ-domain containing E3-Ubiquitin ligase
10.2210/pdb3vqg/pdb
pdb_00003vqg
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
CCD
2011-03-13
ADSC QUANTUM 270
Si 111 CHANNEL
SINGLE WAVELENGTH
M
x-ray
1
1.0
1.0
BL-1A
Photon Factory
1.0
SYNCHROTRON
PHOTON FACTORY BEAMLINE BL-1A
10386.552
E3 ubiquitin-protein ligase LNX
second PDZ domain
1
man
polymer
1093.319
C-terminal peptide from Immunoglobulin superfamily member 5
1
syn
polymer
96.063
SULFATE ION
1
syn
non-polymer
18.015
water
117
nat
water
JAM-4
no
no
GPLGSDHDDSFHVILNKSSPEEQLGIKLVRRVDEPGVFIFNVLNGGVADRHGQLEENDRVLAINGHDLRFGSPESAAHLI
QASERRVHLVVSRQ
GPLGSDHDDSFHVILNKSSPEEQLGIKLVRRVDEPGVFIFNVLNGGVADRHGQLEENDRVLAINGHDLRFGSPESAAHLI
QASERRVHLVVSRQ
A
polypeptide(L)
no
no
YKVRNVTLV
YKVRNVTLV
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
mouse
sample
Lnx1
10090
Mus musculus
562
Escherichia coli
BL21(DE3)
PLASMID
pGEX-6P3-PRESAT
1
1.93
36.24
VAPOR DIFFUSION, SITTING DROP
6.5
30% polyethlene glycol monomethyl ether 5000, 0.2M ammonium sulfate, 0.1M MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
277
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_ref_seq_dif
struct_site
repository
Initial release
Data collection
Database references
Derived calculations
Refinement description
1
0
2013-03-27
1
1
2023-11-08
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Apo form of the same protein.
PDBJ
Y
PDBJ
2012-03-23
REL
REL
SO4
SULFATE ION
HOH
water
This sequence occurs naturally in Mus musculus
10090
mouse
Mus musculus
sample
2VWR
PDB
experimental model
SO4
1
3
SO4
SO4
101
A
HOH
1
4
HOH
HOH
201
A
HOH
2
4
HOH
HOH
202
A
HOH
3
4
HOH
HOH
203
A
HOH
4
4
HOH
HOH
204
A
HOH
5
4
HOH
HOH
205
A
HOH
6
4
HOH
HOH
206
A
HOH
7
4
HOH
HOH
207
A
HOH
8
4
HOH
HOH
208
A
HOH
9
4
HOH
HOH
209
A
HOH
10
4
HOH
HOH
210
A
HOH
11
4
HOH
HOH
211
A
HOH
12
4
HOH
HOH
212
A
HOH
13
4
HOH
HOH
213
A
HOH
14
4
HOH
HOH
214
A
HOH
16
4
HOH
HOH
215
A
HOH
17
4
HOH
HOH
216
A
HOH
18
4
HOH
HOH
217
A
HOH
20
4
HOH
HOH
218
A
HOH
21
4
HOH
HOH
219
A
HOH
22
4
HOH
HOH
220
A
HOH
23
4
HOH
HOH
221
A
HOH
24
4
HOH
HOH
222
A
HOH
25
4
HOH
HOH
223
A
HOH
26
4
HOH
HOH
224
A
HOH
28
4
HOH
HOH
225
A
HOH
29
4
HOH
HOH
226
A
HOH
30
4
HOH
HOH
227
A
HOH
31
4
HOH
HOH
228
A
HOH
32
4
HOH
HOH
229
A
HOH
33
4
HOH
HOH
230
A
HOH
34
4
HOH
HOH
231
A
HOH
35
4
HOH
HOH
232
A
HOH
36
4
HOH
HOH
233
A
HOH
37
4
HOH
HOH
234
A
HOH
38
4
HOH
HOH
235
A
HOH
39
4
HOH
HOH
236
A
HOH
40
4
HOH
HOH
237
A
HOH
41
4
HOH
HOH
238
A
HOH
43
4
HOH
HOH
239
A
HOH
44
4
HOH
HOH
240
A
HOH
46
4
HOH
HOH
241
A
HOH
47
4
HOH
HOH
242
A
HOH
48
4
HOH
HOH
243
A
HOH
49
4
HOH
HOH
244
A
HOH
50
4
HOH
HOH
245
A
HOH
51
4
HOH
HOH
246
A
HOH
52
4
HOH
HOH
247
A
HOH
53
4
HOH
HOH
248
A
HOH
54
4
HOH
HOH
249
A
HOH
55
4
HOH
HOH
250
A
HOH
56
4
HOH
HOH
251
A
HOH
57
4
HOH
HOH
252
A
HOH
58
4
HOH
HOH
253
A
HOH
59
4
HOH
HOH
254
A
HOH
61
4
HOH
HOH
255
A
HOH
62
4
HOH
HOH
256
A
HOH
63
4
HOH
HOH
257
A
HOH
64
4
HOH
HOH
258
A
HOH
65
4
HOH
HOH
259
A
HOH
66
4
HOH
HOH
260
A
HOH
67
4
HOH
HOH
261
A
HOH
68
4
HOH
HOH
262
A
HOH
69
4
HOH
HOH
263
A
HOH
70
4
HOH
HOH
264
A
HOH
71
4
HOH
HOH
265
A
HOH
72
4
HOH
HOH
266
A
HOH
73
4
HOH
HOH
267
A
HOH
74
4
HOH
HOH
268
A
HOH
75
4
HOH
HOH
269
A
HOH
76
4
HOH
HOH
270
A
HOH
77
4
HOH
HOH
271
A
HOH
78
4
HOH
HOH
272
A
HOH
79
4
HOH
HOH
273
A
HOH
80
4
HOH
HOH
274
A
HOH
81
4
HOH
HOH
275
A
HOH
82
4
HOH
HOH
276
A
HOH
83
4
HOH
HOH
277
A
HOH
84
4
HOH
HOH
278
A
HOH
85
4
HOH
HOH
279
A
HOH
86
4
HOH
HOH
280
A
HOH
87
4
HOH
HOH
281
A
HOH
88
4
HOH
HOH
282
A
HOH
89
4
HOH
HOH
283
A
HOH
90
4
HOH
HOH
284
A
HOH
91
4
HOH
HOH
285
A
HOH
92
4
HOH
HOH
286
A
HOH
93
4
HOH
HOH
287
A
HOH
94
4
HOH
HOH
288
A
HOH
95
4
HOH
HOH
289
A
HOH
96
4
HOH
HOH
290
A
HOH
97
4
HOH
HOH
291
A
HOH
98
4
HOH
HOH
292
A
HOH
99
4
HOH
HOH
293
A
HOH
100
4
HOH
HOH
294
A
HOH
101
4
HOH
HOH
295
A
HOH
102
4
HOH
HOH
296
A
HOH
103
4
HOH
HOH
297
A
HOH
104
4
HOH
HOH
298
A
HOH
105
4
HOH
HOH
299
A
HOH
106
4
HOH
HOH
300
A
HOH
107
4
HOH
HOH
301
A
HOH
108
4
HOH
HOH
302
A
HOH
109
4
HOH
HOH
303
A
HOH
110
4
HOH
HOH
304
A
HOH
111
4
HOH
HOH
305
A
HOH
112
4
HOH
HOH
306
A
HOH
113
4
HOH
HOH
307
A
HOH
114
4
HOH
HOH
308
A
HOH
115
4
HOH
HOH
309
A
HOH
116
4
HOH
HOH
310
A
HOH
117
4
HOH
HOH
311
A
HOH
15
4
HOH
HOH
201
B
HOH
19
4
HOH
HOH
202
B
HOH
27
4
HOH
HOH
203
B
HOH
42
4
HOH
HOH
204
B
HOH
45
4
HOH
HOH
205
B
HOH
60
4
HOH
HOH
206
B
n
1
-6
A
n
2
-5
A
n
3
-4
A
n
4
-3
A
n
5
-2
A
n
6
-1
A
n
7
0
A
n
8
1
A
n
9
2
A
SER
3
n
10
SER
3
A
PHE
4
n
11
PHE
4
A
HIS
5
n
12
HIS
5
A
VAL
6
n
13
VAL
6
A
ILE
7
n
14
ILE
7
A
LEU
8
n
15
LEU
8
A
ASN
9
n
16
ASN
9
A
LYS
10
n
17
LYS
10
A
SER
11
n
18
SER
11
A
SER
12
n
19
SER
12
A
PRO
13
n
20
PRO
13
A
GLU
14
n
21
GLU
14
A
GLU
15
n
22
GLU
15
A
GLN
16
n
23
GLN
16
A
LEU
17
n
24
LEU
17
A
GLY
18
n
25
GLY
18
A
ILE
19
n
26
ILE
19
A
LYS
20
n
27
LYS
20
A
LEU
21
n
28
LEU
21
A
VAL
22
n
29
VAL
22
A
ARG
23
n
30
ARG
23
A
ARG
24
n
31
ARG
24
A
VAL
25
n
32
VAL
25
A
ASP
26
n
33
ASP
26
A
GLU
27
n
34
GLU
27
A
PRO
28
n
35
PRO
28
A
GLY
29
n
36
GLY
29
A
VAL
30
n
37
VAL
30
A
PHE
31
n
38
PHE
31
A
ILE
32
n
39
ILE
32
A
PHE
33
n
40
PHE
33
A
ASN
34
n
41
ASN
34
A
VAL
35
n
42
VAL
35
A
LEU
36
n
43
LEU
36
A
ASN
37
n
44
ASN
37
A
GLY
38
n
45
GLY
38
A
GLY
39
n
46
GLY
39
A
VAL
40
n
47
VAL
40
A
ALA
41
n
48
ALA
41
A
ASP
42
n
49
ASP
42
A
ARG
43
n
50
ARG
43
A
HIS
44
n
51
HIS
44
A
GLY
45
n
52
GLY
45
A
GLN
46
n
53
GLN
46
A
LEU
47
n
54
LEU
47
A
GLU
48
n
55
GLU
48
A
GLU
49
n
56
GLU
49
A
ASN
50
n
57
ASN
50
A
ASP
51
n
58
ASP
51
A
ARG
52
n
59
ARG
52
A
VAL
53
n
60
VAL
53
A
LEU
54
n
61
LEU
54
A
ALA
55
n
62
ALA
55
A
ILE
56
n
63
ILE
56
A
ASN
57
n
64
ASN
57
A
GLY
58
n
65
GLY
58
A
HIS
59
n
66
HIS
59
A
ASP
60
n
67
ASP
60
A
LEU
61
n
68
LEU
61
A
ARG
62
n
69
ARG
62
A
PHE
63
n
70
PHE
63
A
GLY
64
n
71
GLY
64
A
SER
65
n
72
SER
65
A
PRO
66
n
73
PRO
66
A
GLU
67
n
74
GLU
67
A
SER
68
n
75
SER
68
A
ALA
69
n
76
ALA
69
A
ALA
70
n
77
ALA
70
A
HIS
71
n
78
HIS
71
A
LEU
72
n
79
LEU
72
A
ILE
73
n
80
ILE
73
A
GLN
74
n
81
GLN
74
A
ALA
75
n
82
ALA
75
A
SER
76
n
83
SER
76
A
GLU
77
n
84
GLU
77
A
ARG
78
n
85
ARG
78
A
ARG
79
n
86
ARG
79
A
VAL
80
n
87
VAL
80
A
HIS
81
n
88
HIS
81
A
LEU
82
n
89
LEU
82
A
VAL
83
n
90
VAL
83
A
VAL
84
n
91
VAL
84
A
SER
85
n
92
SER
85
A
ARG
86
n
93
ARG
86
A
GLN
87
n
94
GLN
87
A
n
1
97
B
n
2
98
B
n
3
99
B
n
4
100
B
n
5
101
B
VAL
102
n
6
VAL
102
B
THR
103
n
7
THR
103
B
LEU
104
n
8
LEU
104
B
VAL
105
n
9
VAL
105
B
author_and_software_defined_assembly
PISA
2
dimeric
910
-17
5060
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
VAL
6
A
N
VAL
13
A
O
LEU
82
A
O
LEU
89
A
O
SER
85
A
O
SER
92
A
N
ARG
52
A
N
ARG
59
A
N
ILE
56
A
N
ILE
63
A
O
HIS
59
A
O
HIS
66
A
N
VAL
6
A
N
VAL
13
A
O
LEU
82
A
O
LEU
89
A
O
SER
85
A
O
SER
92
A
N
ARG
52
A
N
ARG
59
A
O
VAL
53
A
O
VAL
60
A
N
VAL
30
A
N
VAL
37
A
O
PHE
33
A
O
PHE
40
A
N
LYS
20
A
N
LYS
27
A
N
LEU
21
A
N
LEU
28
B
O
THR
103
B
O
THR
7
1
A
HOH
201
D
HOH
1
A
HOH
227
D
HOH
1
A
HOH
238
D
HOH
1
A
GLY
-6
A
GLY
1
1
Y
1
A
PRO
-5
A
PRO
2
1
Y
1
A
LEU
-4
A
LEU
3
1
Y
1
A
GLY
-3
A
GLY
4
1
Y
1
A
SER
-2
A
SER
5
1
Y
1
A
ASP
-1
A
ASP
6
1
Y
1
A
HIS
0
A
HIS
7
1
Y
1
A
ASP
1
A
ASP
8
1
Y
1
A
ASP
2
A
ASP
9
1
Y
1
B
TYR
97
B
TYR
1
1
Y
1
B
LYS
98
B
LYS
2
1
Y
1
B
VAL
99
B
VAL
3
1
Y
1
B
ARG
100
B
ARG
4
1
Y
1
B
ASN
101
B
ASN
5
1
Y
1
A
A
NH2
OD1
ARG
ASN
24
50
2.16
1
A
ASN
50
80.40
-5.71
1
A
ARG
78
-145.12
-57.15
42.270
9.5138
1.080
9.3562
-0.0000
5.2577
6.1693
-0.0000
10.3533
0.2067
0.1699
0.1718
1.350
26.328
974
18907
18904
5.15
98.32
1.000
0.300
0.8871
0.19
RANDOM
1
1.39
MOLECULAR REPLACEMENT
18.5900
0.60
0.90
2vwr
ML
FLAT BULK SOLVENT MODEL
35.734
0.385
1.350
26.328
117
822
5
0
700
0.005
748
1.032
1023
0.066
119
0.005
137
11.993
288
0.2600
0.2363
1.4213
138
2506
2644
7
97.0000
0.2558
0.2026
1.5104
137
2598
2735
7
100.0000
0.2054
0.1633
1.6270
129
2606
2735
7
100.0000
0.1972
0.1507
1.7906
135
2608
2743
7
100.0000
0.1759
0.1459
2.0497
133
2592
2725
7
100.0000
0.1943
0.1503
2.5820
166
2573
2739
7
100.0000
0.2166
0.1852
26.3329
136
2447
2583
7
92.0000
14.670
1.35
30.0
3VQG
18907
18907
-3
0.091
1
3.5
98.7
0.991
1.35
1.37
43.8
952
1
3.5
99.7
1.147
1.37
1.40
43.5
950
1
3.6
99.8
1.351
1.40
1.43
43.7
934
1
3.6
99.8
1.534
1.43
1.45
44.0
969
1
3.5
99.8
1.923
1.45
1.49
43.9
930
1
3.6
99.9
2.077
1.49
1.52
43.9
982
1
3.6
100.0
2.684
1.52
1.56
45.5
945
1
3.6
100.0
3.102
1.56
1.60
46.8
944
1
3.5
99.8
3.968
1.60
1.65
49.1
971
1
3.6
100.0
4.684
1.65
1.70
51.6
938
1
3.6
100.0
5.827
1.70
1.76
55.4
950
1
3.6
100.0
8.459
1.76
1.83
66.9
960
1
3.6
99.8
11.525
1.83
1.92
81.3
946
1
3.6
99.8
17.80
1.92
2.02
109.3
967
1
3.6
99.8
25.469
2.02
2.14
144.4
952
1
3.6
99.5
35.141
2.14
2.31
192.2
955
1
3.5
99.8
38.680
2.31
2.54
203.5
971
1
3.5
99.9
63.083
2.54
2.91
321.9
946
1
3.5
99.3
126.946
2.91
3.66
664.7
924
1
3.3
94.9
129.460
3.66
30.00
732.8
821
1
3.0
82.9
data collection
HKL-2000
phasing
MOLREP
refinement
PHENIX
(phenix.refine: 1.7.3_928)
data reduction
HKL-2000
data scaling
SCALEPACK
Crystal Structure Analysis of the PDZ Domain Derived from the Tight Junction Regulating Protein
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
A
GLY
39
A
GLY
46
HELX_P
A
GLY
45
A
GLY
52
1
1
7
A
SER
65
A
SER
72
HELX_P
A
SER
76
A
SER
83
1
2
12
PEPTIDE BINDING PROTEIN
PDZ domain, peptide binding, JAM4 (junctional adhesion molecule-4) C-terminal peptide, Cytoplasm(LNX1), Membrane(JAM4), PEPTIDE BINDING PROTEIN
LNX1_MOUSE
UNP
1
381
O70263
DDSFHVILNKSSPEEQLGIKLVRRVDEPGVFIFNVLNGGVADRHGQLEENDRVLAINGHDLRFGSPESAAHLIQASERRV
HLVVSRQ
IGSF5_MOUSE
UNP
2
363
Q7TSN7
KVRNVTLV
381
467
3VQG
1
87
O70263
A
1
8
94
363
370
3VQG
98
105
Q7TSN7
B
2
2
9
1
expression tag
GLY
-6
3VQG
A
O70263
UNP
1
1
expression tag
PRO
-5
3VQG
A
O70263
UNP
2
1
expression tag
LEU
-4
3VQG
A
O70263
UNP
3
1
expression tag
GLY
-3
3VQG
A
O70263
UNP
4
1
expression tag
SER
-2
3VQG
A
O70263
UNP
5
1
expression tag
ASP
-1
3VQG
A
O70263
UNP
6
1
expression tag
HIS
0
3VQG
A
O70263
UNP
7
2
expression tag
TYR
97
3VQG
B
Q7TSN7
UNP
1
4
6
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
PHE
4
A
PHE
11
A
ASN
9
A
ASN
16
A
ARG
79
A
ARG
86
A
SER
85
A
SER
92
A
ARG
52
A
ARG
59
A
ILE
56
A
ILE
63
A
HIS
59
A
HIS
66
A
ASP
60
A
ASP
67
A
PHE
4
A
PHE
11
A
ASN
9
A
ASN
16
A
ARG
79
A
ARG
86
A
SER
85
A
SER
92
A
ARG
52
A
ARG
59
A
ILE
56
A
ILE
63
A
VAL
30
A
VAL
37
A
VAL
35
A
VAL
42
A
ILE
19
A
ILE
26
A
VAL
22
A
VAL
29
B
THR
103
B
THR
7
B
VAL
105
B
VAL
9
BINDING SITE FOR RESIDUE SO4 A 101
A
SO4
101
Software
6
A
ILE
7
A
ILE
14
6
1_555
A
ARG
24
A
ARG
31
6
4_445
A
ARG
79
A
ARG
86
6
1_555
A
HOH
250
D
HOH
6
4_445
A
HOH
295
D
HOH
6
1_555
A
HOH
296
D
HOH
6
1_555
5
C 1 2 1