0.024826
0.000000
-0.000005
0.000000
0.016276
0.000000
0.000000
0.000000
0.015661
0.00000
0.00000
0.00000
Eathiraj, S.
Pan, X.
Ritacco, C.
Lambright, D.G.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
89.99
90.00
40.281
61.440
63.854
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
C10 H15 N5 O11 P2
443.201
n
GUANOSINE-5'-DIPHOSPHATE
RNA 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
Mg 2
24.305
MAGNESIUM ION
non-polymer
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
P
N
89
N
O
N
90
N
O
N
91
N
O
N
92
N
O
N
93
N
P
N
94
N
O
N
95
N
O
N
96
N
O
N
97
N
C
N
98
R
C
N
99
N
O
N
100
S
C
N
101
N
O
N
102
R
C
N
103
N
O
N
104
R
C
Y
105
N
N
Y
106
N
C
Y
107
N
N
Y
108
N
C
N
109
N
C
N
110
N
O
N
111
N
N
N
112
N
C
N
113
N
N
N
114
N
N
Y
115
N
C
N
116
N
H
N
117
N
H
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
O
N
139
N
N
N
140
N
O
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
N
N
152
S
C
N
153
N
C
N
154
N
O
N
155
N
C
N
156
N
C
N
157
N
C
N
158
N
O
N
159
N
O
N
160
N
O
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
H
N
170
N
N
N
171
N
C
N
172
N
C
N
173
N
O
N
174
N
O
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
N
N
181
S
C
N
182
N
C
N
183
N
O
N
184
N
C
Y
185
N
C
Y
186
N
N
Y
187
N
C
Y
188
N
C
Y
189
N
N
N
190
N
O
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
H
N
199
N
H
N
200
N
H
N
201
N
O
N
202
N
H
N
203
N
H
N
204
N
N
N
205
S
C
N
206
N
C
N
207
N
O
N
208
S
C
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
O
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
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
N
N
227
S
C
N
228
N
C
N
229
N
O
N
230
N
C
N
231
N
C
N
232
N
C
N
233
N
C
N
234
N
O
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
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
N
N
249
S
C
N
250
N
C
N
251
N
O
N
252
N
C
N
253
N
C
N
254
N
C
N
255
N
C
N
256
N
N
N
257
N
O
N
258
N
H
N
259
N
H
N
260
N
H
N
261
N
H
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
S
N
280
N
C
N
281
N
O
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
H
N
291
N
H
N
292
N
H
N
293
N
MG
N
294
N
N
N
295
S
C
N
296
N
C
N
297
N
O
N
298
N
C
Y
299
N
C
Y
300
N
C
Y
301
N
C
Y
302
N
C
Y
303
N
C
Y
304
N
C
N
305
N
O
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
H
N
317
N
N
N
318
S
C
N
319
N
C
N
320
N
O
N
321
N
C
N
322
N
C
N
323
N
C
N
324
N
O
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
N
N
335
S
C
N
336
N
C
N
337
N
O
N
338
N
C
N
339
N
O
N
340
N
O
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
R
C
N
353
N
O
N
354
N
C
N
355
N
O
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
N
N
366
S
C
N
367
N
C
N
368
N
O
N
369
N
C
Y
370
N
C
Y
371
N
C
Y
372
N
C
Y
373
N
N
Y
374
N
C
Y
375
N
C
Y
376
N
C
Y
377
N
C
Y
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
391
N
H
N
392
N
N
N
393
S
C
N
394
N
C
N
395
N
O
N
396
N
C
Y
397
N
C
Y
398
N
C
Y
399
N
C
Y
400
N
C
Y
401
N
C
Y
402
N
C
N
403
N
O
N
404
N
O
N
405
N
H
N
406
N
H
N
407
N
H
N
408
N
H
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
N
N
417
S
C
N
418
N
C
N
419
N
O
N
420
N
C
N
421
N
C
N
422
N
C
N
423
N
O
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
432
N
H
N
433
N
H
N
434
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
doub
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
doub
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
sing
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
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
Y
112
N
sing
Y
113
N
sing
Y
114
N
doub
N
115
N
sing
Y
116
N
sing
N
117
N
sing
Y
118
N
doub
N
119
N
doub
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
doub
N
125
N
sing
N
126
N
sing
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
doub
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
doub
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
sing
N
151
N
sing
N
152
N
sing
N
153
N
doub
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
doub
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
doub
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
doub
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
Y
185
N
sing
Y
186
N
doub
Y
187
N
doub
N
188
N
sing
Y
189
N
sing
N
190
N
sing
Y
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
doub
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
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
N
250
N
sing
N
251
N
sing
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
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
sing
N
267
N
sing
N
268
N
sing
N
269
N
doub
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
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
doub
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
Y
293
N
doub
Y
294
N
sing
Y
295
N
sing
N
296
N
sing
Y
297
N
doub
N
298
N
sing
Y
299
N
doub
N
300
N
sing
Y
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
doub
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
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
doub
N
329
N
sing
N
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
sing
N
341
N
doub
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
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
doub
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
Y
362
N
doub
Y
363
N
sing
Y
364
N
sing
N
365
N
sing
Y
366
N
doub
Y
367
N
sing
Y
368
N
sing
N
369
N
sing
Y
370
N
sing
Y
371
N
doub
N
372
N
sing
Y
373
N
doub
N
374
N
sing
Y
375
N
sing
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
doub
N
386
N
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
Y
390
N
doub
Y
391
N
sing
Y
392
N
sing
N
393
N
sing
Y
394
N
doub
N
395
N
sing
Y
396
N
doub
N
397
N
sing
Y
398
N
sing
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
doub
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
sing
N
420
N
sing
UK
Nature
NATUAS
0006
0028-0836
436
415
419
10.1038/nature03798
16034420
Structural basis of family-wide Rab GTPase recognition by rabenosyn-5.
2005
10.2210/pdb1z2a/pdb
pdb_00001z2a
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
IMAGE PLATE
2004-03-30
MAR scanner 300 mm plate
Osmic mirror
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH3R
19066.770
Ras-related protein Rab-23
1
man
polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
443.201
GUANOSINE-5'-DIPHOSPHATE
1
syn
non-polymer
18.015
water
94
nat
water
no
no
GSEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQA
CVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKY
LAEKHLQK
GSEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQA
CVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKY
LAEKHLQK
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
house mouse
Mus
Escherichia
sample
Rab23
10090
Mus musculus
562
Escherichia coli
BL21 (DE3) Codon Plus-RIL Cells
GST Fusion, pGEX
pGEX4T1
1
2.14
41.97
VAPOR DIFFUSION, HANGING DROP
5.0
15% PEG 6000, 50mM Na acetate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
277
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2005-07-26
1
1
2008-04-30
1
2
2011-07-13
1
3
2024-02-14
1
4
2024-04-03
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2005-03-07
REL
REL
MG
MAGNESIUM ION
GDP
GUANOSINE-5'-DIPHOSPHATE
HOH
water
Polyalanine Rab3a
Other
experimental model
MG
300
2
MG
MG
300
A
GDP
201
3
GDP
GDP
201
A
HOH
2
4
HOH
HOH
301
A
HOH
5
4
HOH
HOH
302
A
HOH
8
4
HOH
HOH
303
A
HOH
9
4
HOH
HOH
304
A
HOH
10
4
HOH
HOH
305
A
HOH
14
4
HOH
HOH
306
A
HOH
17
4
HOH
HOH
307
A
HOH
18
4
HOH
HOH
308
A
HOH
21
4
HOH
HOH
309
A
HOH
23
4
HOH
HOH
310
A
HOH
25
4
HOH
HOH
311
A
HOH
26
4
HOH
HOH
312
A
HOH
27
4
HOH
HOH
313
A
HOH
30
4
HOH
HOH
314
A
HOH
31
4
HOH
HOH
315
A
HOH
32
4
HOH
HOH
316
A
HOH
36
4
HOH
HOH
317
A
HOH
37
4
HOH
HOH
318
A
HOH
39
4
HOH
HOH
319
A
HOH
44
4
HOH
HOH
320
A
HOH
47
4
HOH
HOH
321
A
HOH
48
4
HOH
HOH
322
A
HOH
49
4
HOH
HOH
323
A
HOH
51
4
HOH
HOH
324
A
HOH
55
4
HOH
HOH
325
A
HOH
57
4
HOH
HOH
326
A
HOH
60
4
HOH
HOH
327
A
HOH
61
4
HOH
HOH
328
A
HOH
65
4
HOH
HOH
329
A
HOH
66
4
HOH
HOH
330
A
HOH
67
4
HOH
HOH
331
A
HOH
68
4
HOH
HOH
332
A
HOH
69
4
HOH
HOH
333
A
HOH
74
4
HOH
HOH
334
A
HOH
75
4
HOH
HOH
335
A
HOH
78
4
HOH
HOH
336
A
HOH
81
4
HOH
HOH
337
A
HOH
82
4
HOH
HOH
338
A
HOH
83
4
HOH
HOH
339
A
HOH
86
4
HOH
HOH
340
A
HOH
88
4
HOH
HOH
341
A
HOH
89
4
HOH
HOH
342
A
HOH
101
4
HOH
HOH
343
A
HOH
106
4
HOH
HOH
344
A
HOH
107
4
HOH
HOH
345
A
HOH
108
4
HOH
HOH
346
A
HOH
109
4
HOH
HOH
347
A
HOH
111
4
HOH
HOH
348
A
HOH
112
4
HOH
HOH
349
A
HOH
113
4
HOH
HOH
350
A
HOH
115
4
HOH
HOH
351
A
HOH
116
4
HOH
HOH
352
A
HOH
117
4
HOH
HOH
353
A
HOH
119
4
HOH
HOH
354
A
HOH
121
4
HOH
HOH
355
A
HOH
122
4
HOH
HOH
356
A
HOH
123
4
HOH
HOH
357
A
HOH
126
4
HOH
HOH
358
A
HOH
127
4
HOH
HOH
359
A
HOH
128
4
HOH
HOH
360
A
HOH
129
4
HOH
HOH
361
A
HOH
130
4
HOH
HOH
362
A
HOH
131
4
HOH
HOH
363
A
HOH
132
4
HOH
HOH
364
A
HOH
134
4
HOH
HOH
365
A
HOH
136
4
HOH
HOH
366
A
HOH
137
4
HOH
HOH
367
A
HOH
140
4
HOH
HOH
368
A
HOH
141
4
HOH
HOH
369
A
HOH
142
4
HOH
HOH
370
A
HOH
143
4
HOH
HOH
371
A
HOH
144
4
HOH
HOH
372
A
HOH
145
4
HOH
HOH
373
A
HOH
146
4
HOH
HOH
374
A
HOH
147
4
HOH
HOH
375
A
HOH
148
4
HOH
HOH
376
A
HOH
149
4
HOH
HOH
377
A
HOH
152
4
HOH
HOH
378
A
HOH
153
4
HOH
HOH
379
A
HOH
155
4
HOH
HOH
380
A
HOH
159
4
HOH
HOH
381
A
HOH
161
4
HOH
HOH
382
A
HOH
163
4
HOH
HOH
383
A
HOH
165
4
HOH
HOH
384
A
HOH
166
4
HOH
HOH
385
A
HOH
167
4
HOH
HOH
386
A
HOH
168
4
HOH
HOH
387
A
HOH
172
4
HOH
HOH
388
A
HOH
173
4
HOH
HOH
389
A
HOH
174
4
HOH
HOH
390
A
HOH
176
4
HOH
HOH
391
A
HOH
177
4
HOH
HOH
392
A
HOH
178
4
HOH
HOH
393
A
HOH
180
4
HOH
HOH
394
A
n
1
5
A
n
2
6
A
n
3
7
A
VAL
8
n
4
VAL
8
A
ALA
9
n
5
ALA
9
A
ILE
10
n
6
ILE
10
A
LYS
11
n
7
LYS
11
A
MET
12
n
8
MET
12
A
VAL
13
n
9
VAL
13
A
VAL
14
n
10
VAL
14
A
VAL
15
n
11
VAL
15
A
GLY
16
n
12
GLY
16
A
ASN
17
n
13
ASN
17
A
GLY
18
n
14
GLY
18
A
ALA
19
n
15
ALA
19
A
VAL
20
n
16
VAL
20
A
GLY
21
n
17
GLY
21
A
LYS
22
n
18
LYS
22
A
SER
23
n
19
SER
23
A
SER
24
n
20
SER
24
A
MET
25
n
21
MET
25
A
ILE
26
n
22
ILE
26
A
GLN
27
n
23
GLN
27
A
ARG
28
n
24
ARG
28
A
TYR
29
n
25
TYR
29
A
CYS
30
n
26
CYS
30
A
LYS
31
n
27
LYS
31
A
GLY
32
n
28
GLY
32
A
ILE
33
n
29
ILE
33
A
PHE
34
n
30
PHE
34
A
THR
35
n
31
THR
35
A
LYS
36
n
32
LYS
36
A
ASP
37
n
33
ASP
37
A
TYR
38
n
34
TYR
38
A
ALA
39
n
35
LYS
39
A
LYS
40
n
36
LYS
40
A
THR
41
n
37
THR
41
A
ILE
42
n
38
ILE
42
A
GLY
43
n
39
GLY
43
A
VAL
44
n
40
VAL
44
A
ASP
45
n
41
ASP
45
A
PHE
46
n
42
PHE
46
A
LEU
47
n
43
LEU
47
A
GLU
48
n
44
GLU
48
A
ARG
49
n
45
ARG
49
A
GLN
50
n
46
GLN
50
A
ILE
51
n
47
ILE
51
A
ALA
52
n
48
GLN
52
A
VAL
53
n
49
VAL
53
A
ASN
54
n
50
ASN
54
A
ASP
55
n
51
ASP
55
A
GLU
56
n
52
GLU
56
A
ASP
57
n
53
ASP
57
A
VAL
58
n
54
VAL
58
A
ARG
59
n
55
ARG
59
A
LEU
60
n
56
LEU
60
A
MET
61
n
57
MET
61
A
LEU
62
n
58
LEU
62
A
TRP
63
n
59
TRP
63
A
ASP
64
n
60
ASP
64
A
THR
65
n
61
THR
65
A
ALA
66
n
62
ALA
66
A
GLY
67
n
63
GLY
67
A
GLN
68
n
64
GLN
68
A
GLU
69
n
65
GLU
69
A
GLU
70
n
66
GLU
70
A
PHE
71
n
67
PHE
71
A
ASP
72
n
68
ASP
72
A
ALA
73
n
69
ALA
73
A
ILE
74
n
70
ILE
74
A
THR
75
n
71
THR
75
A
LYS
76
n
72
LYS
76
A
ALA
77
n
73
ALA
77
A
TYR
78
n
74
TYR
78
A
TYR
79
n
75
TYR
79
A
ARG
80
n
76
ARG
80
A
GLY
81
n
77
GLY
81
A
ALA
82
n
78
ALA
82
A
GLN
83
n
79
GLN
83
A
ALA
84
n
80
ALA
84
A
CYS
85
n
81
CYS
85
A
VAL
86
n
82
VAL
86
A
LEU
87
n
83
LEU
87
A
VAL
88
n
84
VAL
88
A
PHE
89
n
85
PHE
89
A
SER
90
n
86
SER
90
A
THR
91
n
87
THR
91
A
THR
92
n
88
THR
92
A
ASP
93
n
89
ASP
93
A
ARG
94
n
90
ARG
94
A
GLU
95
n
91
GLU
95
A
SER
96
n
92
SER
96
A
PHE
97
n
93
PHE
97
A
GLU
98
n
94
GLU
98
A
ALA
99
n
95
ALA
99
A
ILE
100
n
96
ILE
100
A
SER
101
n
97
SER
101
A
SER
102
n
98
SER
102
A
TRP
103
n
99
TRP
103
A
ARG
104
n
100
ARG
104
A
GLU
105
n
101
GLU
105
A
LYS
106
n
102
LYS
106
A
VAL
107
n
103
VAL
107
A
VAL
108
n
104
VAL
108
A
ALA
109
n
105
ALA
109
A
GLU
110
n
106
GLU
110
A
VAL
111
n
107
VAL
111
A
GLY
112
n
108
GLY
112
A
ASP
113
n
109
ASP
113
A
ILE
114
n
110
ILE
114
A
PRO
115
n
111
PRO
115
A
THR
116
n
112
THR
116
A
ALA
117
n
113
ALA
117
A
LEU
118
n
114
LEU
118
A
VAL
119
n
115
VAL
119
A
GLN
120
n
116
GLN
120
A
ASN
121
n
117
ASN
121
A
LYS
122
n
118
LYS
122
A
ILE
123
n
119
ILE
123
A
ASP
124
n
120
ASP
124
A
LEU
125
n
121
LEU
125
A
LEU
126
n
122
LEU
126
A
ASP
127
n
123
ASP
127
A
ASP
128
n
124
ASP
128
A
SER
129
n
125
SER
129
A
CYS
130
n
126
CYS
130
A
ILE
131
n
127
ILE
131
A
ALA
132
n
128
LYS
132
A
ASN
133
n
129
ASN
133
A
ALA
134
n
130
GLU
134
A
GLU
135
n
131
GLU
135
A
ALA
136
n
132
ALA
136
A
GLU
137
n
133
GLU
137
A
GLY
138
n
134
GLY
138
A
LEU
139
n
135
LEU
139
A
ALA
140
n
136
ALA
140
A
LYS
141
n
137
LYS
141
A
ARG
142
n
138
ARG
142
A
LEU
143
n
139
LEU
143
A
LYS
144
n
140
LYS
144
A
LEU
145
n
141
LEU
145
A
ARG
146
n
142
ARG
146
A
PHE
147
n
143
PHE
147
A
TYR
148
n
144
TYR
148
A
ARG
149
n
145
ARG
149
A
THR
150
n
146
THR
150
A
SER
151
n
147
SER
151
A
VAL
152
n
148
VAL
152
A
LYS
153
n
149
LYS
153
A
GLU
154
n
150
GLU
154
A
ASP
155
n
151
ASP
155
A
LEU
156
n
152
LEU
156
A
ASN
157
n
153
ASN
157
A
VAL
158
n
154
VAL
158
A
SER
159
n
155
SER
159
A
GLU
160
n
156
GLU
160
A
VAL
161
n
157
VAL
161
A
PHE
162
n
158
PHE
162
A
LYS
163
n
159
LYS
163
A
TYR
164
n
160
TYR
164
A
LEU
165
n
161
LEU
165
A
ALA
166
n
162
ALA
166
A
GLU
167
n
163
GLU
167
A
LYS
168
n
164
LYS
168
A
HIS
169
n
165
HIS
169
A
LEU
170
n
166
LEU
170
A
GLN
171
n
167
GLN
171
A
n
168
172
A
author_defined_assembly
1
monomeric
A
SER
23
A
OG
SER
19
1_555
A
MG
300
B
MG
MG
1_555
A
GDP
201
C
O3B
GDP
1_555
91.2
A
SER
23
A
OG
SER
19
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
310
D
O
HOH
1_555
91.7
A
GDP
201
C
O3B
GDP
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
310
D
O
HOH
1_555
90.3
A
SER
23
A
OG
SER
19
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
313
D
O
HOH
1_555
174.2
A
GDP
201
C
O3B
GDP
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
313
D
O
HOH
1_555
91.3
A
HOH
310
D
O
HOH
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
313
D
O
HOH
1_555
93.5
A
SER
23
A
OG
SER
19
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
314
D
O
HOH
1_555
84.3
A
GDP
201
C
O3B
GDP
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
314
D
O
HOH
1_555
87.8
A
HOH
310
D
O
HOH
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
314
D
O
HOH
1_555
175.5
A
HOH
313
D
O
HOH
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
314
D
O
HOH
1_555
90.6
A
SER
23
A
OG
SER
19
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
324
D
O
HOH
1_555
83.6
A
GDP
201
C
O3B
GDP
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
324
D
O
HOH
1_555
174.7
A
HOH
310
D
O
HOH
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
324
D
O
HOH
1_555
91.2
A
HOH
313
D
O
HOH
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
324
D
O
HOH
1_555
93.7
A
HOH
314
D
O
HOH
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
324
D
O
HOH
1_555
90.4
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
53
A
N
VAL
49
A
O
GLU
56
A
O
GLU
52
A
O
MET
61
A
O
MET
57
A
N
ILE
10
A
N
ILE
6
A
N
VAL
15
A
N
VAL
11
A
O
VAL
88
A
O
VAL
84
A
N
LEU
87
A
N
LEU
83
A
O
VAL
119
A
O
VAL
115
A
N
LEU
118
A
N
LEU
114
A
O
ARG
146
A
O
ARG
142
1
A
CG
LYS
39
A
CG
LYS
35
1
Y
1
A
CD
LYS
39
A
CD
LYS
35
1
Y
1
A
CE
LYS
39
A
CE
LYS
35
1
Y
1
A
NZ
LYS
39
A
NZ
LYS
35
1
Y
1
A
CG
GLN
52
A
CG
GLN
48
1
Y
1
A
CD
GLN
52
A
CD
GLN
48
1
Y
1
A
OE1
GLN
52
A
OE1
GLN
48
1
Y
1
A
NE2
GLN
52
A
NE2
GLN
48
1
Y
1
A
CG
LYS
132
A
CG
LYS
128
1
Y
1
A
CD
LYS
132
A
CD
LYS
128
1
Y
1
A
CE
LYS
132
A
CE
LYS
128
1
Y
1
A
NZ
LYS
132
A
NZ
LYS
128
1
Y
1
A
CG
GLU
134
A
CG
GLU
130
1
Y
1
A
CD
GLU
134
A
CD
GLU
130
1
Y
1
A
OE1
GLU
134
A
OE1
GLU
130
1
Y
1
A
OE2
GLU
134
A
OE2
GLU
130
1
Y
1
A
GLY
5
A
GLY
1
1
Y
1
A
SER
6
A
SER
2
1
Y
1
A
GLU
7
A
GLU
3
1
Y
1
A
LYS
172
A
LYS
168
1
Y
1
A
ALA
73
-147.63
27.74
1
A
LEU
125
-107.36
46.91
1
A
VAL
158
-107.11
-60.38
25.353
-0.76
0.00
0.00
1.44
0.00
-0.67
0.935
0.909
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.27761
0.22982
0.243
0.2322
1.90
8.00
600
12522
11684
4.9
96.21
RANDOM
1
THROUGHOUT
0
MOLECULAR REPLACEMENT
0.189
0.80
0.80
1.20
Polyalanine Rab3a
MAXIMUM LIKELIHOOD
MASK
1.90
8.00
94
1416
29
0
1293
0.009
0.022
1340
1.085
1.982
1813
5.276
5.000
163
33.267
24.426
61
14.512
15.000
241
15.147
15.000
9
0.062
0.200
207
0.003
0.020
980
0.177
0.200
529
0.294
0.200
905
0.129
0.200
73
0.174
0.200
25
0.169
0.200
12
0.462
1.500
844
0.807
2.000
1303
0.996
3.000
587
1.670
4.500
510
0.354
0.339
1.949
37
691
20
81.71
34.8
1.90
50.0
1Z2A
12482
12522
0
0
0.044
1
24.5
4
95.9
1.90
1.96
5.3
834
0.268
4
79.4
refinement
REFMAC
5.2.0005
data reduction
DENZO
data scaling
SCALEPACK
phasing
AMoRE
GDP-Bound Rab23 GTPase crystallized in P2(1)2(1)2(1) space group
1
N
N
2
N
N
3
N
N
4
N
N
A
GLY
21
A
GLY
17
HELX_P
A
GLY
32
A
GLY
28
1
1
12
A
GLY
67
A
GLY
63
HELX_P
A
PHE
71
A
PHE
67
5
2
5
A
THR
75
A
THR
71
HELX_P
A
ARG
80
A
ARG
76
1
3
6
A
ASP
93
A
ASP
89
HELX_P
A
ALA
99
A
ALA
95
1
4
7
A
ALA
99
A
ALA
95
HELX_P
A
GLY
112
A
GLY
108
1
5
14
A
LYS
122
A
LYS
118
HELX_P
A
SER
129
A
SER
125
5
6
8
A
LYS
132
A
LYS
128
HELX_P
A
LYS
144
A
LYS
140
1
7
13
A
VAL
158
A
VAL
154
HELX_P
A
GLN
171
A
GLN
167
1
8
14
metalc
2.133
A
SER
23
A
OG
SER
19
1_555
A
MG
300
B
MG
MG
1_555
metalc
2.079
A
GDP
201
C
O3B
GDP
1_555
A
MG
300
B
MG
MG
1_555
metalc
2.085
A
MG
300
B
MG
MG
1_555
A
HOH
310
D
O
HOH
1_555
metalc
2.198
A
MG
300
B
MG
MG
1_555
A
HOH
313
D
O
HOH
1_555
metalc
2.086
A
MG
300
B
MG
MG
1_555
A
HOH
314
D
O
HOH
1_555
metalc
2.296
A
MG
300
B
MG
MG
1_555
A
HOH
324
D
O
HOH
1_555
PROTEIN TRANSPORT
Rab GTPase, Rab23, Vesicular trafficking, Protein Transport
RAB23_MOUSE
UNP
1
7
P35288
EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV
LVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLA
EKHLQK
7
172
1Z2A
7
172
P35288
A
1
3
168
1
cloning artifact
GLY
5
1Z2A
A
P35288
UNP
1
1
cloning artifact
SER
6
1Z2A
A
P35288
UNP
2
6
anti-parallel
parallel
parallel
parallel
parallel
A
PHE
46
A
PHE
42
A
VAL
53
A
VAL
49
A
GLU
56
A
GLU
52
A
TRP
63
A
TRP
59
A
ALA
9
A
ALA
5
A
VAL
15
A
VAL
11
A
ALA
84
A
ALA
80
A
SER
90
A
SER
86
A
THR
116
A
THR
112
A
ASN
121
A
ASN
117
A
ARG
146
A
ARG
142
A
ARG
149
A
ARG
145
BINDING SITE FOR RESIDUE MG A 300
A
MG
300
Software
6
BINDING SITE FOR RESIDUE GDP A 201
A
GDP
201
Software
23
A
SER
23
A
SER
19
6
1_555
A
GDP
201
C
GDP
6
1_555
A
HOH
310
D
HOH
6
1_555
A
HOH
313
D
HOH
6
1_555
A
HOH
314
D
HOH
6
1_555
A
HOH
324
D
HOH
6
1_555
A
ALA
19
A
ALA
15
23
1_555
A
VAL
20
A
VAL
16
23
1_555
A
GLY
21
A
GLY
17
23
1_555
A
LYS
22
A
LYS
18
23
1_555
A
SER
23
A
SER
19
23
1_555
A
SER
24
A
SER
20
23
1_555
A
PHE
34
A
PHE
30
23
1_555
A
ASP
37
A
ASP
33
23
1_555
A
TYR
38
A
TYR
34
23
1_555
A
LYS
40
A
LYS
36
23
1_555
A
ASN
121
A
ASN
117
23
1_555
A
LYS
122
A
LYS
118
23
1_555
A
ASP
124
A
ASP
120
23
1_555
A
SER
151
A
SER
147
23
1_555
A
VAL
152
A
VAL
148
23
1_555
A
LYS
153
A
LYS
149
23
1_555
A
MG
300
B
MG
23
1_555
A
HOH
310
D
HOH
23
1_555
A
HOH
313
D
HOH
23
1_555
A
HOH
314
D
HOH
23
1_555
A
HOH
316
D
HOH
23
1_555
A
HOH
365
D
HOH
23
1_555
A
HOH
383
D
HOH
23
1_555
19
P 21 21 21