0.030989
0.000000
0.000000
0.000000
0.030989
0.000000
0.000000
0.000000
0.004748
0.000000
0.000000
0.000000
Padyana, A.K.
Vaidialingam, B.
Hayes, D.B.
Gupta, P.
Franti, M.
Farrow, N.A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.000
90.000
90.000
32.270
32.270
210.602
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 H18 O5
194.226
TETRAETHYLENE GLYCOL
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
US
Acta Crystallogr.,Sect.F
ACSFEN
2053-230X
72
160
164
10.1107/S2053230X16001588
26919518
Crystal structure of human GDF11.
2016
100
1
PIXEL
2015-02-06
DECTRIS PILATUS 6M
double crystal Si(111)
SINGLE WAVELENGTH
M
x-ray
1
1.00
1.0
X10SA
SLS
1.00
SYNCHROTRON
SLS BEAMLINE X10SA
12471.309
Growth/differentiation factor 11
UNP residues 299-407
1
man
polymer
194.226
TETRAETHYLENE GLYCOL
2
syn
non-polymer
18.015
water
142
nat
water
GDF-11, Bone morphogenetic protein 11, BMP-11
no
no
NLGLDCDEHSSESRCCRYPLTVDFEAFGWDWIIAPKRYKANYCSGQCEYMFMQKYPHTHLVQQANPRGSAGPCCTPTKMS
PINMLYFNDKQQIIYGKIPGMVVDRCGCS
NLGLDCDEHSSESRCCRYPLTVDFEAFGWDWIIAPKRYKANYCSGQCEYMFMQKYPHTHLVQQANPRGSAGPCCTPTKMS
PINMLYFNDKQQIIYGKIPGMVVDRCGCS
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
Human
sample
1
109
GDF11, BMP11
9606
Homo sapiens
562
Escherichia coli
Biological sequence
1
2.22
44.61
VAPOR DIFFUSION, SITTING DROP
7.5
0.18 M magnesium acetate, 0.1 M HEPES, pH 7.5, 22.5% PEG3350, 0.01 M strontium chloride
293
repository
Initial release
1
0
2016-03-09
N
RCSB
Y
RCSB
2015-10-06
REL
REL
PG4
TETRAETHYLENE GLYCOL
HOH
water
PG4
990
2
PG4
PG4
201
A
PG4
991
2
PG4
PG4
202
A
HOH
142
3
HOH
HOH
301
A
HOH
117
3
HOH
HOH
302
A
HOH
70
3
HOH
HOH
303
A
HOH
78
3
HOH
HOH
304
A
HOH
63
3
HOH
HOH
305
A
HOH
85
3
HOH
HOH
306
A
HOH
29
3
HOH
HOH
307
A
HOH
9
3
HOH
HOH
308
A
HOH
68
3
HOH
HOH
309
A
HOH
5
3
HOH
HOH
310
A
HOH
54
3
HOH
HOH
311
A
HOH
52
3
HOH
HOH
312
A
HOH
75
3
HOH
HOH
313
A
HOH
25
3
HOH
HOH
314
A
HOH
2
3
HOH
HOH
315
A
HOH
59
3
HOH
HOH
316
A
HOH
108
3
HOH
HOH
317
A
HOH
96
3
HOH
HOH
318
A
HOH
121
3
HOH
HOH
319
A
HOH
133
3
HOH
HOH
320
A
HOH
123
3
HOH
HOH
321
A
HOH
90
3
HOH
HOH
322
A
HOH
89
3
HOH
HOH
323
A
HOH
3
3
HOH
HOH
324
A
HOH
95
3
HOH
HOH
325
A
HOH
21
3
HOH
HOH
326
A
HOH
76
3
HOH
HOH
327
A
HOH
49
3
HOH
HOH
328
A
HOH
74
3
HOH
HOH
329
A
HOH
82
3
HOH
HOH
330
A
HOH
14
3
HOH
HOH
331
A
HOH
50
3
HOH
HOH
332
A
HOH
79
3
HOH
HOH
333
A
HOH
112
3
HOH
HOH
334
A
HOH
16
3
HOH
HOH
335
A
HOH
27
3
HOH
HOH
336
A
HOH
15
3
HOH
HOH
337
A
HOH
10
3
HOH
HOH
338
A
HOH
137
3
HOH
HOH
339
A
HOH
35
3
HOH
HOH
340
A
HOH
103
3
HOH
HOH
341
A
HOH
51
3
HOH
HOH
342
A
HOH
19
3
HOH
HOH
343
A
HOH
58
3
HOH
HOH
344
A
HOH
128
3
HOH
HOH
345
A
HOH
11
3
HOH
HOH
346
A
HOH
48
3
HOH
HOH
347
A
HOH
6
3
HOH
HOH
348
A
HOH
13
3
HOH
HOH
349
A
HOH
77
3
HOH
HOH
350
A
HOH
47
3
HOH
HOH
351
A
HOH
28
3
HOH
HOH
352
A
HOH
94
3
HOH
HOH
353
A
HOH
64
3
HOH
HOH
354
A
HOH
26
3
HOH
HOH
355
A
HOH
4
3
HOH
HOH
356
A
HOH
42
3
HOH
HOH
357
A
HOH
24
3
HOH
HOH
358
A
HOH
32
3
HOH
HOH
359
A
HOH
66
3
HOH
HOH
360
A
HOH
91
3
HOH
HOH
361
A
HOH
83
3
HOH
HOH
362
A
HOH
1
3
HOH
HOH
363
A
HOH
17
3
HOH
HOH
364
A
HOH
22
3
HOH
HOH
365
A
HOH
72
3
HOH
HOH
366
A
HOH
31
3
HOH
HOH
367
A
HOH
12
3
HOH
HOH
368
A
HOH
8
3
HOH
HOH
369
A
HOH
37
3
HOH
HOH
370
A
HOH
93
3
HOH
HOH
371
A
HOH
84
3
HOH
HOH
372
A
HOH
57
3
HOH
HOH
373
A
HOH
67
3
HOH
HOH
374
A
HOH
38
3
HOH
HOH
375
A
HOH
56
3
HOH
HOH
376
A
HOH
65
3
HOH
HOH
377
A
HOH
92
3
HOH
HOH
378
A
HOH
46
3
HOH
HOH
379
A
HOH
44
3
HOH
HOH
380
A
HOH
88
3
HOH
HOH
381
A
HOH
97
3
HOH
HOH
382
A
HOH
100
3
HOH
HOH
383
A
HOH
61
3
HOH
HOH
384
A
HOH
7
3
HOH
HOH
385
A
HOH
45
3
HOH
HOH
386
A
HOH
23
3
HOH
HOH
387
A
HOH
62
3
HOH
HOH
388
A
HOH
20
3
HOH
HOH
389
A
HOH
127
3
HOH
HOH
390
A
HOH
30
3
HOH
HOH
391
A
HOH
130
3
HOH
HOH
392
A
HOH
87
3
HOH
HOH
393
A
HOH
33
3
HOH
HOH
394
A
HOH
139
3
HOH
HOH
395
A
HOH
105
3
HOH
HOH
396
A
HOH
39
3
HOH
HOH
397
A
HOH
126
3
HOH
HOH
398
A
HOH
110
3
HOH
HOH
399
A
HOH
118
3
HOH
HOH
400
A
HOH
114
3
HOH
HOH
401
A
HOH
73
3
HOH
HOH
402
A
HOH
120
3
HOH
HOH
403
A
HOH
41
3
HOH
HOH
404
A
HOH
98
3
HOH
HOH
405
A
HOH
18
3
HOH
HOH
406
A
HOH
81
3
HOH
HOH
407
A
HOH
53
3
HOH
HOH
408
A
HOH
136
3
HOH
HOH
409
A
HOH
119
3
HOH
HOH
410
A
HOH
138
3
HOH
HOH
411
A
HOH
34
3
HOH
HOH
412
A
HOH
109
3
HOH
HOH
413
A
HOH
124
3
HOH
HOH
414
A
HOH
80
3
HOH
HOH
415
A
HOH
129
3
HOH
HOH
416
A
HOH
132
3
HOH
HOH
417
A
HOH
101
3
HOH
HOH
418
A
HOH
134
3
HOH
HOH
419
A
HOH
43
3
HOH
HOH
420
A
HOH
111
3
HOH
HOH
421
A
HOH
55
3
HOH
HOH
422
A
HOH
60
3
HOH
HOH
423
A
HOH
122
3
HOH
HOH
424
A
HOH
140
3
HOH
HOH
425
A
HOH
113
3
HOH
HOH
426
A
HOH
141
3
HOH
HOH
427
A
HOH
135
3
HOH
HOH
428
A
HOH
36
3
HOH
HOH
429
A
HOH
107
3
HOH
HOH
430
A
HOH
71
3
HOH
HOH
431
A
HOH
40
3
HOH
HOH
432
A
HOH
116
3
HOH
HOH
433
A
HOH
131
3
HOH
HOH
434
A
HOH
69
3
HOH
HOH
435
A
HOH
99
3
HOH
HOH
436
A
HOH
125
3
HOH
HOH
437
A
HOH
115
3
HOH
HOH
438
A
HOH
86
3
HOH
HOH
439
A
HOH
102
3
HOH
HOH
440
A
HOH
104
3
HOH
HOH
441
A
HOH
106
3
HOH
HOH
442
A
n
1
1
A
LEU
2
n
2
LEU
2
A
GLY
3
n
3
GLY
3
A
LEU
4
n
4
LEU
4
A
ASP
5
n
5
ASP
5
A
CYS
6
n
6
CYS
6
A
ASP
7
n
7
ASP
7
A
GLU
8
n
8
GLU
8
A
HIS
9
n
9
HIS
9
A
SER
10
n
10
SER
10
A
SER
11
n
11
SER
11
A
GLU
12
n
12
GLU
12
A
SER
13
n
13
SER
13
A
ARG
14
n
14
ARG
14
A
CYS
15
n
15
CYS
15
A
CYS
16
n
16
CYS
16
A
ARG
17
n
17
ARG
17
A
TYR
18
n
18
TYR
18
A
PRO
19
n
19
PRO
19
A
LEU
20
n
20
LEU
20
A
THR
21
n
21
THR
21
A
VAL
22
n
22
VAL
22
A
ASP
23
n
23
ASP
23
A
PHE
24
n
24
PHE
24
A
GLU
25
n
25
GLU
25
A
ALA
26
n
26
ALA
26
A
PHE
27
n
27
PHE
27
A
GLY
28
n
28
GLY
28
A
TRP
29
n
29
TRP
29
A
ASP
30
n
30
ASP
30
A
TRP
31
n
31
TRP
31
A
ILE
32
n
32
ILE
32
A
ILE
33
n
33
ILE
33
A
ALA
34
n
34
ALA
34
A
PRO
35
n
35
PRO
35
A
LYS
36
n
36
LYS
36
A
ARG
37
n
37
ARG
37
A
TYR
38
n
38
TYR
38
A
LYS
39
n
39
LYS
39
A
ALA
40
n
40
ALA
40
A
ASN
41
n
41
ASN
41
A
TYR
42
n
42
TYR
42
A
CYS
43
n
43
CYS
43
A
SER
44
n
44
SER
44
A
GLY
45
n
45
GLY
45
A
GLN
46
n
46
GLN
46
A
CYS
47
n
47
CYS
47
A
GLU
48
n
48
GLU
48
A
TYR
49
n
49
TYR
49
A
MET
50
n
50
MET
50
A
PHE
51
n
51
PHE
51
A
MET
52
n
52
MET
52
A
GLN
53
n
53
GLN
53
A
LYS
54
n
54
LYS
54
A
TYR
55
n
55
TYR
55
A
PRO
56
n
56
PRO
56
A
HIS
57
n
57
HIS
57
A
THR
58
n
58
THR
58
A
HIS
59
n
59
HIS
59
A
LEU
60
n
60
LEU
60
A
VAL
61
n
61
VAL
61
A
GLN
62
n
62
GLN
62
A
GLN
63
n
63
GLN
63
A
ALA
64
n
64
ALA
64
A
ASN
65
n
65
ASN
65
A
PRO
66
n
66
PRO
66
A
ARG
67
n
67
ARG
67
A
GLY
68
n
68
GLY
68
A
SER
69
n
69
SER
69
A
ALA
70
n
70
ALA
70
A
GLY
71
n
71
GLY
71
A
PRO
72
n
72
PRO
72
A
CYS
73
n
73
CYS
73
A
CYS
74
n
74
CYS
74
A
THR
75
n
75
THR
75
A
PRO
76
n
76
PRO
76
A
THR
77
n
77
THR
77
A
LYS
78
n
78
LYS
78
A
MET
79
n
79
MET
79
A
SER
80
n
80
SER
80
A
PRO
81
n
81
PRO
81
A
ILE
82
n
82
ILE
82
A
ASN
83
n
83
ASN
83
A
MET
84
n
84
MET
84
A
LEU
85
n
85
LEU
85
A
TYR
86
n
86
TYR
86
A
PHE
87
n
87
PHE
87
A
ASN
88
n
88
ASN
88
A
ASP
89
n
89
ASP
89
A
LYS
90
n
90
LYS
90
A
GLN
91
n
91
GLN
91
A
GLN
92
n
92
GLN
92
A
ILE
93
n
93
ILE
93
A
ILE
94
n
94
ILE
94
A
TYR
95
n
95
TYR
95
A
GLY
96
n
96
GLY
96
A
LYS
97
n
97
LYS
97
A
ILE
98
n
98
ILE
98
A
PRO
99
n
99
PRO
99
A
GLY
100
n
100
GLY
100
A
MET
101
n
101
MET
101
A
VAL
102
n
102
VAL
102
A
VAL
103
n
103
VAL
103
A
ASP
104
n
104
ASP
104
A
ARG
105
n
105
ARG
105
A
CYS
106
n
106
CYS
106
A
GLY
107
n
107
GLY
107
A
CYS
108
n
108
CYS
108
A
SER
109
n
109
SER
109
A
8.6683
0.3998
-1.1651
4.0924
2.4977
4.3231
-0.0871
-0.0722
0.2818
0.0964
0.0257
0.1562
-0.0531
-0.1571
0.0740
0.1597
-0.0088
-0.0088
0.2267
-0.0083
0.2010
refined
-12.5462
10.3126
0.1914
X-RAY DIFFRACTION
0.9798
0.1082
1.1947
0.8058
0.0546
2.3442
-0.0653
-0.0830
-0.0432
0.0851
0.0268
0.0342
-0.0754
-0.2483
0.0566
0.1721
0.0090
0.0088
0.1846
-0.0086
0.1711
refined
-2.8216
10.3041
17.2877
X-RAY DIFFRACTION
4.2064
-2.2203
-2.1194
1.8083
-0.7625
7.0763
0.1496
0.5172
0.2497
-0.1666
-0.0955
0.2121
0.3081
-0.6204
-0.0211
0.1940
-0.0166
0.0019
0.2418
-0.0245
0.2041
refined
-2.5747
5.4170
-8.9335
X-RAY DIFFRACTION
1.7741
-1.0187
-1.0599
0.8982
1.7247
5.1103
-0.0413
0.1065
-0.2618
0.1514
-0.0525
0.2177
0.4909
-0.2691
0.0609
0.1995
-0.0247
0.0011
0.1926
0.0017
0.2186
refined
1.6731
-0.0841
-8.5855
X-RAY DIFFRACTION
1.3122
0.7450
2.5274
0.8953
1.7525
6.3240
0.0150
0.0981
-0.0326
0.1068
0.0863
-0.1006
-0.0240
0.2953
-0.0882
0.1861
-0.0093
-0.0041
0.1783
-0.0154
0.1919
refined
8.3951
12.9746
17.0806
X-RAY DIFFRACTION
A
0
A
0
X-RAY DIFFRACTION
1
chain 'A' and (resid 2 through 15 )
A
0
A
0
X-RAY DIFFRACTION
2
chain 'A' and (resid 16 through 44 )
A
0
A
0
X-RAY DIFFRACTION
3
chain 'A' and (resid 45 through 55 )
A
0
A
0
X-RAY DIFFRACTION
4
chain 'A' and (resid 56 through 78 )
A
0
A
0
X-RAY DIFFRACTION
5
chain 'A' and (resid 79 through 109 )
author_defined_assembly
2
dimeric
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
0.0000000000
1.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
7_555
y,x,-z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
A
N
TYR
18
A
N
TYR
18
A
O
TYR
42
A
O
TYR
42
A
N
VAL
22
A
N
VAL
22
A
O
TYR
38
A
O
TYR
38
A
N
ALA
34
A
N
ALA
34
A
O
LEU
85
A
O
LEU
85
A
N
ILE
82
A
N
ILE
82
A
O
ILE
98
A
O
ILE
98
1
A
HOH
309
D
HOH
1
A
HOH
389
D
HOH
1
A
ASN
1
A
ASN
1
1
Y
1
A
ASN
41
71.05
170.68
1
A
MET
50
69.96
-4.00
94.260
28.5419
14.570
0.2071
0.1880
0.1890
1.5000
22.8180
880
16683
17563
5.0100
92.0500
0.1700
RANDOM
1
FREE R-VALUE
1.330
MOLECULAR REPLACEMENT
23.7200
0.9000
1.1100
homology model
ML
FLAT BULK SOLVENT MODEL
1.5000
22.8180
142
1027
46.73
38.56
26
0
859
108
0.006
961
1.058
1293
0.074
126
0.006
171
13.487
367
0.2968
0.2779
1.5937
141
2678
2819
6
91.0000
0.2678
0.2465
1.7167
144
2738
2882
6
93.0000
0.2400
0.2420
1.8894
144
2725
2869
6
92.0000
0.2414
0.2014
2.1627
150
2845
2995
6
95.0000
0.2267
0.1959
2.7240
151
2864
3015
6
94.0000
0.1670
0.1554
22.8208
150
2833
2983
6
87.0000
20.500
1.500
22.820
5E4G
17599
0.056
1.140
1
9.400
56267
3.110
1548
92.300
0.560
1.500
1.550
1.900
5275
1701
1.390
1
3.010
157
91.800
0.486
1.550
1.620
2.400
5755
1722
1.400
1
3.240
174
92.100
0.381
1.620
1.690
2.900
5718
1735
1.280
1
3.190
192
93.700
0.317
1.690
1.780
3.500
5450
1722
1.320
1
3.090
126
93.300
0.215
1.780
1.890
5.100
5407
1720
1.250
1
3.030
196
91.200
0.150
1.890
2.040
6.900
5804
1778
1.100
1
3.160
182
95.200
0.106
2.040
2.240
9.500
5682
1801
0.990
1
3.090
125
95.500
0.082
2.240
2.560
11.600
5721
1818
0.920
1
3.080
115
93.900
0.056
2.560
3.230
17.300
5779
1839
0.850
1
3.100
87
93.400
0.034
3.230
22.820
31.700
5676
1763
0.900
1
3.110
194
83.400
refinement
PHENIX
data extraction
PDB_EXTRACT
3.15
data reduction
d*TREK
data scaling
d*TREK
phasing
PHASER
Growth/differentiation factor 11
Crystal structure of human growth differentiation factor 11 (GDF-11)
1
N
N
2
N
N
2
N
N
3
N
N
A
PRO
56
A
PRO
56
HELX_P
A
ASN
65
A
ASN
65
1
AA1
10
disulf
2.045
B
A
CYS
6
A
SG
CYS
6
1_555
A
CYS
16
A
SG
CYS
16
1_555
disulf
2.022
A
A
CYS
6
A
SG
CYS
6
1_555
A
CYS
16
A
SG
CYS
16
1_555
disulf
2.049
A
CYS
15
A
SG
CYS
15
1_555
A
CYS
74
A
SG
CYS
74
1_555
disulf
2.004
A
CYS
43
A
SG
CYS
43
1_555
A
CYS
106
A
SG
CYS
106
1_555
disulf
2.045
A
CYS
47
A
SG
CYS
47
1_555
A
CYS
108
A
SG
CYS
108
1_555
disulf
2.156
B
B
A
CYS
73
A
SG
CYS
73
1_555
A
CYS
73
A
SG
CYS
73
7_555
HORMONE
Bone morphogenetic protein 11, BMP-11, GDF 11, HORMONE, growth factor
A
ALA
34
A
ALA
34
1
A
PRO
35
A
PRO
35
-4.63
GDF11_HUMAN
UNP
1
299
O95390
NLGLDCDEHSSESRCCRYPLTVDFEAFGWDWIIAPKRYKANYCSGQCEYMFMQKYPHTHLVQQANPRGSAGPCCTPTKMS
PINMLYFNDKQQIIYGKIPGMVVDRCGCS
299
407
5E4G
1
109
O95390
A
1
1
109
2
2
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
CYS
16
A
CYS
16
A
TYR
18
A
TYR
18
A
TYR
42
A
TYR
42
A
SER
44
A
SER
44
A
THR
21
A
THR
21
A
ASP
23
A
ASP
23
A
ARG
37
A
ARG
37
A
LYS
39
A
LYS
39
A
ILE
32
A
ILE
32
A
ALA
34
A
ALA
34
A
CYS
73
A
CYS
73
A
PHE
87
A
PHE
87
A
ILE
93
A
ILE
93
A
SER
109
A
SER
109
binding site for residue PG4 A 201
A
PG4
201
Software
4
binding site for residue PG4 A 202
A
PG4
202
Software
4
A
HIS
59
A
HIS
59
4
3_555
A
TYR
86
A
TYR
86
4
5_555
A
ILE
93
A
ILE
93
4
1_555
A
HOH
345
D
HOH
4
1_555
A
ASN
83
A
ASN
83
4
1_555
A
PHE
87
A
PHE
87
4
5_555
A
ASN
88
A
ASN
88
4
5_555
A
TYR
95
A
TYR
95
4
1_555
92
P 41 21 2