0.022458
0.012966
0.000000
0.000000
0.025933
0.000000
0.000000
0.000000
0.016050
0.00000
0.00000
0.00000
Yu, Y.
Ulbrich, M.H.
Li, M.-H.
Dobbins, S.
Zhang, W.K.
Tong, L.
Isacoff, E.Y.
Yang, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
44.527
44.527
62.306
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
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
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
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
O
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
N
N
58
S
C
N
59
N
C
N
60
N
O
N
61
N
C
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
N
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
H
N
75
N
H
N
76
N
H
N
77
N
N
N
78
S
C
N
79
N
C
N
80
N
O
N
81
N
C
N
82
N
C
N
83
N
C
N
84
N
O
N
85
N
O
N
86
N
O
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
H
N
95
N
H
N
96
N
N
N
97
N
C
N
98
N
C
N
99
N
O
N
100
N
O
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
O
N
107
N
H
N
108
N
H
N
109
N
N
N
110
S
C
N
111
N
C
N
112
N
O
N
113
S
C
N
114
N
C
N
115
N
C
N
116
N
C
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
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
N
N
132
S
C
N
133
N
C
N
134
N
O
N
135
N
C
N
136
N
C
N
137
N
C
N
138
N
C
N
139
N
O
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
N
N
154
S
C
N
155
N
C
N
156
N
O
N
157
N
C
N
158
N
C
N
159
N
C
N
160
N
C
N
161
N
N
N
162
N
O
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
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
N
N
179
S
C
N
180
N
C
N
181
N
O
N
182
N
C
N
183
N
C
N
184
N
S
N
185
N
C
N
186
N
O
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
N
N
199
S
C
N
200
N
C
N
201
N
O
N
202
N
C
Y
203
N
C
Y
204
N
C
Y
205
N
C
Y
206
N
C
Y
207
N
C
Y
208
N
C
N
209
N
O
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
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
N
N
222
S
C
N
223
N
C
N
224
N
O
N
225
N
C
N
226
N
O
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
N
N
236
S
C
N
237
N
C
N
238
N
O
N
239
R
C
N
240
N
O
N
241
N
C
N
242
N
O
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
H
N
251
N
H
N
252
N
N
N
253
S
C
N
254
N
C
N
255
N
O
N
256
N
C
Y
257
N
C
Y
258
N
C
Y
259
N
C
Y
260
N
N
Y
261
N
C
Y
262
N
C
Y
263
N
C
Y
264
N
C
Y
265
N
C
N
266
N
O
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
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
N
N
280
S
C
N
281
N
C
N
282
N
O
N
283
N
C
Y
284
N
C
Y
285
N
C
Y
286
N
C
Y
287
N
C
Y
288
N
C
Y
289
N
C
N
290
N
O
N
291
N
O
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
H
N
301
N
H
N
302
N
H
N
303
N
N
N
304
S
C
N
305
N
C
N
306
N
O
N
307
N
C
N
308
N
C
N
309
N
C
N
310
N
O
N
311
N
H
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
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
doub
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
doub
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
sing
N
77
N
sing
N
78
N
sing
N
79
N
doub
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
doub
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
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
sing
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
sing
N
127
N
sing
N
128
N
sing
N
129
N
doub
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
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
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
doub
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
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
doub
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
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
doub
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
Y
198
N
doub
Y
199
N
sing
Y
200
N
sing
N
201
N
sing
Y
202
N
doub
N
203
N
sing
Y
204
N
doub
N
205
N
sing
Y
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
doub
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
doub
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
sing
N
244
N
sing
N
245
N
doub
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
Y
250
N
doub
Y
251
N
sing
Y
252
N
sing
N
253
N
sing
Y
254
N
doub
Y
255
N
sing
Y
256
N
sing
N
257
N
sing
Y
258
N
sing
Y
259
N
doub
N
260
N
sing
Y
261
N
doub
N
262
N
sing
Y
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
doub
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
Y
278
N
doub
Y
279
N
sing
Y
280
N
sing
N
281
N
sing
Y
282
N
doub
N
283
N
sing
Y
284
N
doub
N
285
N
sing
Y
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
sing
N
297
N
doub
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
UK
Nat Commun
2041-1723
3
1252
1252
10.1038/ncomms2257
23212381
Molecular mechanism of the assembly of an acid-sensing receptor ion channel complex.
2012
10.2210/pdb4gif/pdb
pdb_00004gif
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
2005-02-05
MAR CCD 165 mm
Si 111 CHANNEL
SINGLE WAVELENGTH
M
x-ray
1
0.9792
1.0
X4C
NSLS
0.9792
SYNCHROTRON
NSLS BEAMLINE X4C
5102.927
Polycystic kidney disease 2-like 1 protein
UNP residues 699-743
1
man
polymer
18.015
water
44
nat
water
Polycystin-2 homolog, Polycystin-2L1, Polycystin-L, Polycystin-L1
no
no
GGWVSGEEFYMLTRRVLQLETVLEGVVSQIDAVGSKLKMLERKGW
GGWVSGEEFYMLTRRVLQLETVLEGVVSQIDAVGSKLKMLERKGW
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
human
sample
PKD2L1, PKD2L, PKDL
9606
Homo sapiens
562
Escherichia coli
1
3.49
64.80
EVAPORATION
7.5
18-20% PEG 8000, 100 mM HEPES, pH 7.5, 3.9 mM HEGA-9, EVAPORATION, temperature 293.0K
293.0
chem_comp_atom
chem_comp_bond
database_2
repository
Initial release
Database references
Data collection
Database references
1
0
2012-12-05
1
1
2012-12-26
1
2
2024-02-28
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
RCSB
Y
RCSB
2012-08-08
REL
REL
HOH
water
THE CRYSTALLIZED SEQUENCE IS: MGSSHHHHHHSQDPKEELAGQKDELQLSDLLKQGYNKTLLRLRLRKERVSDVQKVLQGGEQEIQFEDFTNTLRELGHAEHEITELTATFTKFDRDGNRILDEKEQEKMRQDLEEERVALNTEIEKLGRSIVSSPQGKSGPEAARA(GGWVSGEEFYMLTRRVLQLETVLEGVVSQIDAVGSKLKMLERKGW)LAPSPGVKEQAIWKHPQPAPAVTPDPWGVQGGQESEVPYKREEEALEERRLSRGEIPTLQRS OF WHICH THE SEGMENT LISTED IN SEQRES RECORD WAS OBSERVED IN THE ELECTRON DENSITY.
THE AUTHORS BELIEVE THAT THE PROTEIN WAS DEGRADED DURING THE PROCESS OF CRYSTALLIZATION AND ONLY THE COILED COIL DOMAIN WAS CRYSTALLIZATION. TO TEST THIS POSSIBILITY, THE AUTHORS COLLECTED SOME CRYSTALS AND RAN IT ON SDS-PAGE. ONLY A DEGRADED BAND WITH A MOLECULAR WEIGHT MATCH THE COILED COIL DOMAIN WAS SHOWN ON THE GEL. HOWEVER THE AUTHORS DO NOT KNOW HOW MANY AMINO ACIDS ARE MISSING FROM THE N- AND C-TERMINUS DUE TO DISORDER.
HOH
1
2
HOH
HOH
801
A
HOH
2
2
HOH
HOH
802
A
HOH
3
2
HOH
HOH
803
A
HOH
4
2
HOH
HOH
804
A
HOH
5
2
HOH
HOH
805
A
HOH
6
2
HOH
HOH
806
A
HOH
7
2
HOH
HOH
807
A
HOH
8
2
HOH
HOH
808
A
HOH
9
2
HOH
HOH
809
A
HOH
10
2
HOH
HOH
810
A
HOH
11
2
HOH
HOH
811
A
HOH
12
2
HOH
HOH
812
A
HOH
13
2
HOH
HOH
813
A
HOH
14
2
HOH
HOH
814
A
HOH
15
2
HOH
HOH
815
A
HOH
16
2
HOH
HOH
816
A
HOH
17
2
HOH
HOH
817
A
HOH
18
2
HOH
HOH
818
A
HOH
19
2
HOH
HOH
819
A
HOH
20
2
HOH
HOH
820
A
HOH
21
2
HOH
HOH
821
A
HOH
22
2
HOH
HOH
822
A
HOH
23
2
HOH
HOH
823
A
HOH
24
2
HOH
HOH
824
A
HOH
25
2
HOH
HOH
825
A
HOH
26
2
HOH
HOH
826
A
HOH
27
2
HOH
HOH
827
A
HOH
28
2
HOH
HOH
828
A
HOH
29
2
HOH
HOH
829
A
HOH
30
2
HOH
HOH
830
A
HOH
31
2
HOH
HOH
831
A
HOH
32
2
HOH
HOH
832
A
HOH
33
2
HOH
HOH
833
A
HOH
34
2
HOH
HOH
834
A
HOH
35
2
HOH
HOH
835
A
HOH
36
2
HOH
HOH
836
A
HOH
37
2
HOH
HOH
837
A
HOH
38
2
HOH
HOH
838
A
HOH
39
2
HOH
HOH
839
A
HOH
40
2
HOH
HOH
840
A
HOH
41
2
HOH
HOH
841
A
HOH
42
2
HOH
HOH
842
A
HOH
43
2
HOH
HOH
843
A
HOH
44
2
HOH
HOH
844
A
GLY
699
n
1
GLY
699
A
GLY
700
n
2
GLY
700
A
TRP
701
n
3
TRP
701
A
VAL
702
n
4
VAL
702
A
SER
703
n
5
SER
703
A
GLY
704
n
6
GLY
704
A
GLU
705
n
7
GLU
705
A
GLU
706
n
8
GLU
706
A
PHE
707
n
9
PHE
707
A
TYR
708
n
10
TYR
708
A
MET
709
n
11
MET
709
A
LEU
710
n
12
LEU
710
A
THR
711
n
13
THR
711
A
ARG
712
n
14
ARG
712
A
ARG
713
n
15
ARG
713
A
VAL
714
n
16
VAL
714
A
LEU
715
n
17
LEU
715
A
GLN
716
n
18
GLN
716
A
LEU
717
n
19
LEU
717
A
GLU
718
n
20
GLU
718
A
THR
719
n
21
THR
719
A
VAL
720
n
22
VAL
720
A
LEU
721
n
23
LEU
721
A
GLU
722
n
24
GLU
722
A
GLY
723
n
25
GLY
723
A
VAL
724
n
26
VAL
724
A
VAL
725
n
27
VAL
725
A
SER
726
n
28
SER
726
A
GLN
727
n
29
GLN
727
A
ILE
728
n
30
ILE
728
A
ASP
729
n
31
ASP
729
A
ALA
730
n
32
ALA
730
A
VAL
731
n
33
VAL
731
A
GLY
732
n
34
GLY
732
A
SER
733
n
35
SER
733
A
LYS
734
n
36
LYS
734
A
LEU
735
n
37
LEU
735
A
LYS
736
n
38
LYS
736
A
MET
737
n
39
MET
737
A
LEU
738
n
40
LEU
738
A
GLU
739
n
41
GLU
739
A
ARG
740
n
42
ARG
740
A
LYS
741
n
43
LYS
741
A
GLY
742
n
44
GLY
742
A
TRP
743
n
45
TRP
743
A
author_and_software_defined_assembly
PISA
3
trimeric
3830
-36
10040
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
2_655
-y+1,x-y,z
crystal symmetry operation
44.5270000000
0.0000000000
0.0000000000
-0.5000000000
0.8660254038
0.0000000000
-0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
3_665
-x+y+1,-x+1,z
crystal symmetry operation
22.2635000000
38.5615131543
0.0000000000
0.286
0.235
0.240
2.8
20
177
1928
1896
97.4
RANDOM
1
THROUGHOUT
0
MOLECULAR REPLACEMENT
Engh & Huber
2.8
20
44
401
0
0
357
0.013
1.6
0.307
0.267
2.9
14
177
2.8
20
4GIF
1938
1928
-3
-3
0.055
1
36.7
9.0
99.1
0.103
2.8
2.9
25.2
184
1
9.2
100
data collection
ADSC
Quantum
phasing
PHASER
refinement
CNS
data reduction
DENZO
data scaling
SCALEPACK
C-terminal coiled-coil domain of transient receptor potential channel TRPP3 (PKD2L1, Polycystin-L)
1
N
N
2
N
N
A
SER
703
A
SER
5
HELX_P
A
SER
733
A
SER
35
1
1
31
A
SER
733
A
SER
35
HELX_P
A
GLY
742
A
GLY
44
1
2
10
TRANSPORT PROTEIN
coiled-coil, trimer, TRP channel, transient receptor potential channel, polycystic kidney disease (PKD), membrane, TRANSPORT PROTEIN
PK2L1_HUMAN
UNP
1
699
Q9P0L9
GGWVSGEEFYMLTRRVLQLETVLEGVVSQIDAVGSKLKMLERKGW
699
743
4GIF
699
743
Q9P0L9
A
1
1
45
150
P 3 2 1