Model quality ?

For models with atomic structures, MolProbity analysis is performed. For models with coarse-grained or multi-scale structures, excluded volume analysis is performed.

Standard geometry: bond outliers ?

There are no bond length outliers.
Standard geometry: angle outliers ?

There are 240 bond angle outliers in this entry (0.52% of 46490 assessed bonds). A summary is provided below.

Chain Res Type Atoms |Z| Observed (Å) Ideal (Å) Model ID (Worst) Models (Total)
A
354
GLY
C-N-CA
8.75
137.45
121.70
1
2
A
194
LYS
C-N-CA
8.48
136.97
121.70
1
1
A
94
GLN
OE1-CD-NE2
7.26
115.34
122.60
1
6
A
275
ARG
NE-CZ-NH2
7.25
125.72
119.20
10
2
A
430
GLU
C-N-CA
6.80
133.95
121.70
5
1
A
322
PHE
CA-CB-CG
6.56
107.24
113.80
3
2
A
191
SER
C-N-CA
6.49
133.39
121.70
6
1
A
100
ASN
OD1-CG-ND2
6.14
116.46
122.60
5
3
A
271
GLN
OE1-CD-NE2
6.14
116.46
122.60
1
7
A
109
GLN
OE1-CD-NE2
6.14
116.46
122.60
8
6
A
188
GLN
OE1-CD-NE2
6.02
116.58
122.60
4
8
A
351
THR
N-CA-CB
6.02
121.73
111.50
8
1
A
351
THR
CA-CB-CG2
5.73
120.24
110.50
8
2
A
400
GLN
OE1-CD-NE2
5.50
117.10
122.60
4
8
A
79
GLN
OE1-CD-NE2
5.48
117.12
122.60
8
8
A
238
ALA
N-CA-CB
5.45
102.22
110.40
9
1
A
76
GLN
OE1-CD-NE2
5.43
117.17
122.60
6
1
A
167
ASN
OD1-CG-ND2
5.41
117.19
122.60
2
3
A
196
GLY
C-N-CA
5.36
131.35
121.70
1
1
A
207
GLN
OE1-CD-NE2
5.26
117.34
122.60
5
9
A
319
SER
CA-C-N
5.26
124.79
116.90
6
1
A
408
PHE
CA-CB-CG
5.25
108.55
113.80
1
1
A
396
PHE
CA-CB-CG
5.22
108.58
113.80
10
1
A
184
HIS
CB-CG-CD2
5.20
124.43
131.20
6
7
A
112
TYR
CA-C-N
5.19
124.69
116.90
6
1
A
299
ARG
CD-NE-CZ
5.16
131.62
124.40
3
1
A
194
LYS
CA-C-N
5.13
126.46
116.20
1
1
A
317
ASN
OD1-CG-ND2
5.12
117.48
122.60
1
1
A
326
LYS
CA-C-N
5.09
126.39
116.20
6
1
A
383
GLN
OE1-CD-NE2
5.08
117.52
122.60
9
2
A
324
TRP
CE2-CD2-CE3
5.03
113.77
118.80
8
1
A
433
GLN
OE1-CD-NE2
4.96
117.64
122.60
6
10
A
243
SER
C-N-CA
4.91
130.53
121.70
2
1
A
293
PRO
CA-N-CD
4.90
105.14
112.00
3
1
A
67
ASN
CA-CB-CG
4.88
117.48
112.60
6
2
A
371
GLN
OE1-CD-NE2
4.88
117.72
122.60
6
6
A
133
GLN
OE1-CD-NE2
4.87
117.73
122.60
8
6
A
19
ARG
NE-CZ-NH2
4.87
123.58
119.20
2
3
A
433
GLN
C-N-CA
4.87
130.46
121.70
5
1
A
7
GLN
OE1-CD-NE2
4.85
117.75
122.60
6
6
A
401
GLN
OE1-CD-NE2
4.81
117.79
122.60
3
10
A
267
ALA
N-CA-CB
4.80
103.20
110.40
10
1
A
384
GLN
OE1-CD-NE2
4.80
117.80
122.60
5
4
A
303
GLN
OE1-CD-NE2
4.78
117.82
122.60
6
10
A
326
LYS
CA-C-O
4.77
112.69
120.80
6
1
A
190
ALA
C-CA-CB
4.76
117.64
110.50
6
1
A
337
GLN
OE1-CD-NE2
4.75
117.85
122.60
3
3
A
232
ARG
NH1-CZ-NH2
4.73
113.15
119.30
5
2
A
187
ASP
CA-CB-CG
4.68
117.28
112.60
5
1
A
17
GLN
OE1-CD-NE2
4.66
117.94
122.60
8
2
A
159
GLU
C-N-CA
4.64
130.04
121.70
9
1
A
320
PRO
CA-N-CD
4.58
105.59
112.00
6
1
A
117
VAL
CA-CB-CG2
4.57
118.16
110.40
1
1
A
416
GLN
OE1-CD-NE2
4.55
118.05
122.60
8
9
A
429
THR
C-N-CA
4.55
129.89
121.70
1
1
A
12
GLN
OE1-CD-NE2
4.54
118.06
122.60
3
5
A
327
ASN
OD1-CG-ND2
4.54
118.06
122.60
5
4
A
275
ARG
NE-CZ-NH1
4.54
116.96
121.50
2
2
A
299
ARG
NE-CZ-NH2
4.52
123.27
119.20
8
1
A
47
GLN
OE1-CD-NE2
4.51
118.09
122.60
7
4
A
80
GLN
OE1-CD-NE2
4.50
118.10
122.60
8
4
A
67
ASN
OD1-CG-ND2
4.50
118.10
122.60
9
3
A
197
HIS
N-CA-C
4.44
123.43
111.00
1
1
A
194
LYS
O-C-N
4.43
115.91
123.00
1
1
A
211
GLN
OE1-CD-NE2
4.43
118.17
122.60
7
10
A
197
HIS
CB-CG-CD2
4.37
125.52
131.20
7
2
A
428
SER
CA-C-N
4.28
124.76
116.20
5
1
A
192
VAL
CA-CB-CG2
4.25
117.62
110.40
3
1
A
267
ALA
C-CA-CB
4.22
116.83
110.50
10
1
A
195
CYS
C-N-CA
4.21
129.28
121.70
5
1
A
221
ASP
CA-CB-CG
4.18
116.78
112.60
9
1
A
377
HIS
CB-CG-CD2
4.17
125.78
131.20
3
1
A
67
ASN
C-CA-CB
4.17
118.03
110.10
5
1
A
184
HIS
ND1-CG-CD2
4.17
110.27
106.10
2
1
A
167
ASN
CA-CB-CG
4.16
108.44
112.60
10
2
A
356
HIS
CB-CG-CD2
4.15
125.80
131.20
5
4
A
427
GLY
C-N-CA
4.15
129.17
121.70
9
1
A
325
GLN
OE1-CD-NE2
4.13
118.47
122.60
3
3
A
409
ASP
CA-CB-CG
4.11
108.49
112.60
4
1
A
320
PRO
N-CA-CB
4.11
107.52
103.00
4
1
A
387
PHE
CA-CB-CG
4.10
117.90
113.80
3
1
A
25
ARG
NE-CZ-NH2
4.09
115.52
119.20
7
1
A
329
ASP
CA-CB-CG
4.07
116.67
112.60
7
1
A
399
HIS
CB-CG-CD2
4.05
125.93
131.20
6
1
A
40
ASN
OD1-CG-ND2
4.04
118.56
122.60
9
1
A
333
ILE
CA-CB-CG2
4.02
103.66
110.50
6
1
A
73
THR
CA-CB-CG2
4.01
117.31
110.50
2
1
A
266
HIS
CB-CG-CD2
4.01
125.99
131.20
10
1

Too-close contacts ?

The following all-atom clashscore is based on a MolProbity analysis. All-atom clashscore is defined as the number of clashes found per 1000 atoms (including hydrogen atoms). The table below contains clashscores for all atomic models in this entry.

Model ID Clash score Number of clashes
1
4.24
28
2
5.30
35
3
1.36
9
4
3.03
20
5
1.97
13
6
5.61
37
7
2.42
16
8
5.45
36
9
3.64
24
10
3.94
26

There are 244 clashes. The table below contains the detailed list of all clashes based on a MolProbity analysis. Bad clashes are >= 0.4 Angstrom. The output is limited to 100 rows.

Atom 1 Atom 2 Clash(Å) Model ID (Worst) Models (Total)
A:95:VAL:HG21
A:117:VAL:HG22
0.90
1
2
A:53:MET:HE1
A:347:PHE:CE1
0.85
2
1
A:291:SER:HB3
A:429:THR:HG23
0.82
9
1
A:240:LEU:HD11
A:425:LEU:HD21
0.78
4
1
A:352:LEU:HD13
A:362:MET:HE1
0.78
8
3
A:267:ALA:HB1
A:271:GLN:HB2
0.78
10
1
A:195:CYS:H
A:198:MET:HE2
0.77
8
1
A:267:ALA:HB1
A:271:GLN:CB
0.76
10
1
A:349:PHE:CE2
A:351:THR:HG22
0.73
8
1
A:72:LEU:HD21
A:94:GLN:HB3
0.70
10
3
A:333:ILE:HD13
A:379:VAL:HG21
0.70
7
1
A:161:GLY:HA2
A:190:ALA:HB1
0.70
8
1
A:203:LEU:HD13
A:275:ARG:HH22
0.69
1
1
A:356:HIS:CD2
A:382:VAL:HG11
0.68
1
1
A:105:MET:HE1
A:403:VAL:O
0.67
4
1
A:196:GLY:HA2
A:201:LYS:HE3
0.66
2
1
A:352:LEU:CD1
A:362:MET:HE1
0.66
8
3
A:53:MET:HE1
A:347:PHE:CD1
0.66
2
2
A:362:MET:HA
A:362:MET:HE2
0.66
8
1
A:352:LEU:HD11
A:365:LEU:CD2
0.66
8
1
A:328:LEU:HD22
A:332:THR:HG21
0.65
6
2
A:199:GLY:HA2
A:424:ALA:HB2
0.65
9
1
A:333:ILE:HG21
A:375:MET:HB2
0.64
2
2
A:413:THR:HG23
A:418:GLY:O
0.64
7
1
A:357:SER:HA
A:362:MET:HE3
0.64
8
1
A:72:LEU:HD21
A:94:GLN:C
0.64
5
2
A:333:ILE:HG21
A:375:MET:CB
0.64
6
2
A:293:PRO:HD2
A:322:PHE:CZ
0.64
3
1
A:349:PHE:CZ
A:351:THR:HG22
0.63
8
1
A:320:PRO:CB
A:378:TYR:CE1
0.62
2
1
A:203:LEU:HD13
A:275:ARG:NH2
0.62
1
1
A:110:SER:HB2
A:162:PHE:CZ
0.61
1
1
A:352:LEU:HD11
A:365:LEU:HD22
0.61
8
1
A:324:TRP:CD1
A:328:LEU:HD12
0.61
3
1
A:245:CYS:SG
A:253:ILE:HD13
0.60
4
2
A:387:PHE:CD1
A:395:THR:HG21
0.60
2
1
A:293:PRO:HD2
A:322:PHE:CE2
0.60
3
1
A:199:GLY:CA
A:424:ALA:HB2
0.60
9
1
A:90:LEU:HD21
A:124:ILE:HD12
0.59
5
1
A:320:PRO:HB2
A:378:TYR:CE1
0.59
2
1
A:355:ILE:HD11
A:359:TRP:CZ2
0.59
7
1
A:320:PRO:HD3
A:350:ILE:HG23
0.59
1
1
A:293:PRO:HD3
A:322:PHE:HB3
0.59
4
2
A:162:PHE:CE2
A:190:ALA:HB1
0.58
6
1
A:114:ALA:HA
A:162:PHE:CE2
0.57
8
1
A:94:GLN:HE21
A:354:GLY:HA2
0.56
10
1
A:291:SER:C
A:322:PHE:CE2
0.56
6
1
A:291:SER:CB
A:429:THR:HG23
0.56
9
1
A:275:ARG:CG
A:275:ARG:HH11
0.56
10
1
A:97:ALA:HB1
A:408:PHE:CE2
0.55
7
1
A:158:ALA:HB1
A:171:LEU:HD21
0.55
6
1
A:72:LEU:HD21
A:94:GLN:CB
0.55
10
2
A:19:ARG:HA
A:54:TRP:CZ2
0.55
6
1
A:105:MET:HB2
A:408:PHE:CZ
0.55
1
1
A:352:LEU:HD21
A:365:LEU:HD21
0.54
2
1
A:275:ARG:HB3
A:275:ARG:HH11
0.54
10
1
A:105:MET:HE2
A:109:GLN:O
0.54
2
1
A:291:SER:HA
A:322:PHE:CE2
0.53
6
1
A:355:ILE:HG21
A:396:PHE:CE2
0.53
10
1
A:355:ILE:HG23
A:411:VAL:CG2
0.53
2
1
A:328:LEU:HD22
A:332:THR:CG2
0.53
6
2
A:157:ASP:HA
A:184:HIS:CD2
0.53
6
1
A:324:TRP:CZ3
A:333:ILE:HG12
0.53
6
1
A:324:TRP:CZ3
A:375:MET:HG3
0.53
1
1
A:159:GLU:OE2
A:193:LYS:HE2
0.52
2
1
A:355:ILE:HG23
A:359:TRP:HE1
0.52
10
1
A:232:ARG:HD2
A:287:TRP:CZ3
0.52
5
3
A:320:PRO:HG2
A:375:MET:HE2
0.52
8
1
A:109:GLN:HB2
A:160:ALA:HB1
0.52
4
1
A:165:VAL:HG13
A:215:ALA:HB2
0.51
1
1
A:319:SER:HB3
A:322:PHE:CD2
0.51
10
1
A:399:HIS:O
A:403:VAL:HG23
0.51
10
1
A:296:GLU:CD
A:299:ARG:HH12
0.51
1
3
A:355:ILE:HG21
A:396:PHE:CD2
0.51
10
1
A:394:TYR:HB3
A:396:PHE:CE2
0.51
9
1
A:114:ALA:HA
A:162:PHE:CZ
0.51
8
1
A:245:CYS:CB
A:253:ILE:HD11
0.50
1
1
A:337:GLN:HE22
A:350:ILE:HD11
0.50
8
1
A:198:MET:SD
A:404:GLY:HA2
0.50
8
1
A:117:VAL:HB
A:175:MET:HE1
0.50
4
4
A:14:GLU:CD
A:19:ARG:HH21
0.49
2
1
A:357:SER:CB
A:362:MET:HE2
0.49
9
1
A:241:ILE:CD1
A:263:PHE:HB2
0.49
10
1
A:203:LEU:HD11
A:238:ALA:CB
0.49
1
1
A:97:ALA:HB2
A:105:MET:HE3
0.49
8
1
A:54:TRP:CZ2
A:58:HIS:CE1
0.49
6
1
A:275:ARG:CB
A:275:ARG:HH11
0.49
10
1
A:325:GLN:HB2
A:379:VAL:HG11
0.49
1
1
A:293:PRO:HD2
A:322:PHE:CE1
0.49
3
1
A:196:GLY:HA2
A:201:LYS:CE
0.49
2
1
A:105:MET:CE
A:405:THR:HB
0.49
5
1
A:70:GLY:C
A:94:GLN:HE22
0.49
7
1
A:97:ALA:CB
A:105:MET:HE3
0.49
8
1
A:349:PHE:CE2
A:351:THR:CG2
0.48
8
1
A:357:SER:OG
A:362:MET:HE2
0.48
9
1
A:100:ASN:OD1
A:105:MET:HG2
0.48
4
1
A:355:ILE:HG23
A:411:VAL:HG22
0.48
2
1
A:161:GLY:CA
A:190:ALA:HB1
0.48
8
1
A:120:VAL:HG22
A:123:ARG:HH21
0.48
9
1
A:324:TRP:CE3
A:328:LEU:CD1
0.48
8
1

Torsion angles: Protein backbone ?

In the following table, Ramachandran outliers are listed. The Analysed column shows the number of residues for which the backbone conformation was analysed.

Model ID Analysed Favored Allowed Outliers
1
432
404
23
5
2
432
405
19
8
3
432
408
14
10
4
432
421
10
1
5
432
407
16
9
6
432
407
19
6
7
432
414
14
4
8
432
410
20
2
9
432
406
23
3
10
432
413
17
2

There are 36 unique backbone outliers. Detailed list of outliers are tabulated below.

Chain Res Type Models (Total)
A
161
GLY
3
A
323
ASN
3
A
103
ALA
2
A
105
MET
2
A
159
GLU
2
A
160
ALA
2
A
162
PHE
2
A
195
CYS
2
A
196
GLY
2
A
244
ASP
2
A
327
ASN
2
A
417
GLY
2
A
41
PRO
1
A
102
ALA
1
A
106
TYR
1
A
107
PRO
1
A
108
ASP
1
A
192
VAL
1
A
193
LYS
1
A
197
HIS
1
A
200
GLY
1
A
242
THR
1
A
245
CYS
1
A
293
PRO
1
A
322
PHE
1
A
325
GLN
1
A
352
LEU
1
A
354
GLY
1
A
355
ILE
1
A
356
HIS
1
A
358
MET
1
A
390
ALA
1
A
418
GLY
1
A
421
SER
1
A
428
SER
1
A
431
GLU
1

Torsion angles : Protein sidechains ?
In the following table, sidechain rotameric outliers are listed. The Analysed column shows the number of residues for which the sidechain conformation was analysed.

Model ID Analysed Favored Allowed Outliers
1
343
332
6
5
2
343
335
4
4
3
343
323
4
16
4
343
333
7
3
5
343
331
5
7
6
343
328
10
5
7
343
332
7
4
8
343
333
8
2
9
343
330
9
4
10
343
331
5
7

There are 30 unique sidechain outliers. Detailed list of outliers are tabulated below.

Chain Res Type Models (Total)
A
259
SER
9
A
419
THR
6
A
184
HIS
5
A
429
THR
4
A
192
VAL
3
A
423
THR
3
A
93
TRP
2
A
420
SER
2
A
422
VAL
2
A
72
LEU
1
A
73
THR
1
A
104
SER
1
A
110
SER
1
A
159
GLU
1
A
165
VAL
1
A
197
HIS
1
A
234
ASP
1
A
265
THR
1
A
266
HIS
1
A
275
ARG
1
A
287
TRP
1
A
299
ARG
1
A
321
SER
1
A
324
TRP
1
A
352
LEU
1
A
355
ILE
1
A
382
VAL
1
A
408
PHE
1
A
413
THR
1
A
428
SER
1