0.018076
0.000000
0.000000
0.000000
0.016231
0.000000
0.000000
0.000000
0.013036
0.00000
0.00000
0.00000
Lee, J.
Botuyan, M.V.
Nomine, Y.
Ohh, M.
Thompson, J.R.
Mer, G.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
55.321
61.610
76.711
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
C5 H11 N O2 Se
196.106
n
SELENOMETHIONINE
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
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
To be Published
0353
Crystal Structure and Binding Properties of ARNT PAS-B Heterodimerization Domain
10.2210/pdb2b02/pdb
pdb_00002b02
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
CCD
CUSTOM-MADE
MAD
M
x-ray
1
0.96209
1.0
0.97932
1.0
0.97942
1.0
0.99503
1.0
19-BM
APS
0.96209, 0.97932, 0.97942, 0.99503
SYNCHROTRON
APS BEAMLINE 19-BM
14120.381
Aryl hydrocarbon receptor nuclear translocator
PAS-B Domain
C358S
1
man
polymer
18.015
water
111
nat
water
ARNT protein, Dioxin receptor, nuclear translocator, Hypoxia-inducible factor 1 beta, HIF-1 beta
no
yes
GH(MSE)SNVSQPTEFISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSV
(MSE)FRFRSKNQEWLW(MSE)RTSSFTFQNPYSDEIEYIICTNTNVKNSSQE
GHMSNVSQPTEFISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRS
KNQEWLWMRTSSFTFQNPYSDEIEYIICTNTNVKNSSQE
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
human
Homo
Escherichia
sample
ARNT
9606
Homo sapiens
562
Escherichia coli
B834(DE3)
PLASMID
1
2.3
47
8.65
Ammonium sulfate, PEG 400, HEPES, pH 8.65, VAPOR DIFFUSION, HANGING DROP, temperature 295K
295
database_2
struct_conn
struct_ref_seq_dif
repository
Initial release
Version format compliance
Advisory
Version format compliance
Database references
Derived calculations
1
0
2006-10-24
1
1
2008-05-01
1
2
2011-07-13
1
3
2021-10-20
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
RCSB
Y
RCSB
2005-09-12
REL
REL
HOH
water
HOH
1
2
HOH
HOH
1
A
HOH
2
2
HOH
HOH
2
A
HOH
3
2
HOH
HOH
3
A
HOH
4
2
HOH
HOH
4
A
HOH
5
2
HOH
HOH
5
A
HOH
6
2
HOH
HOH
6
A
HOH
7
2
HOH
HOH
7
A
HOH
8
2
HOH
HOH
8
A
HOH
9
2
HOH
HOH
9
A
HOH
10
2
HOH
HOH
10
A
HOH
11
2
HOH
HOH
11
A
HOH
12
2
HOH
HOH
12
A
HOH
13
2
HOH
HOH
13
A
HOH
14
2
HOH
HOH
14
A
HOH
15
2
HOH
HOH
15
A
HOH
16
2
HOH
HOH
16
A
HOH
17
2
HOH
HOH
17
A
HOH
18
2
HOH
HOH
18
A
HOH
19
2
HOH
HOH
19
A
HOH
20
2
HOH
HOH
20
A
HOH
21
2
HOH
HOH
21
A
HOH
22
2
HOH
HOH
22
A
HOH
23
2
HOH
HOH
23
A
HOH
24
2
HOH
HOH
24
A
HOH
25
2
HOH
HOH
25
A
HOH
26
2
HOH
HOH
26
A
HOH
27
2
HOH
HOH
27
A
HOH
28
2
HOH
HOH
28
A
HOH
29
2
HOH
HOH
29
A
HOH
30
2
HOH
HOH
30
A
HOH
31
2
HOH
HOH
31
A
HOH
32
2
HOH
HOH
32
A
HOH
33
2
HOH
HOH
33
A
HOH
34
2
HOH
HOH
34
A
HOH
35
2
HOH
HOH
35
A
HOH
36
2
HOH
HOH
36
A
HOH
37
2
HOH
HOH
37
A
HOH
38
2
HOH
HOH
38
A
HOH
39
2
HOH
HOH
39
A
HOH
40
2
HOH
HOH
40
A
HOH
41
2
HOH
HOH
41
A
HOH
42
2
HOH
HOH
42
A
HOH
43
2
HOH
HOH
43
A
HOH
44
2
HOH
HOH
44
A
HOH
45
2
HOH
HOH
45
A
HOH
46
2
HOH
HOH
46
A
HOH
47
2
HOH
HOH
47
A
HOH
48
2
HOH
HOH
48
A
HOH
49
2
HOH
HOH
49
A
HOH
50
2
HOH
HOH
50
A
HOH
51
2
HOH
HOH
51
A
HOH
52
2
HOH
HOH
52
A
HOH
53
2
HOH
HOH
53
A
HOH
54
2
HOH
HOH
54
A
HOH
55
2
HOH
HOH
55
A
HOH
56
2
HOH
HOH
56
A
HOH
57
2
HOH
HOH
57
A
HOH
58
2
HOH
HOH
58
A
HOH
59
2
HOH
HOH
59
A
HOH
60
2
HOH
HOH
60
A
HOH
61
2
HOH
HOH
61
A
HOH
62
2
HOH
HOH
62
A
HOH
63
2
HOH
HOH
63
A
HOH
64
2
HOH
HOH
64
A
HOH
65
2
HOH
HOH
65
A
HOH
66
2
HOH
HOH
66
A
HOH
67
2
HOH
HOH
67
A
HOH
68
2
HOH
HOH
68
A
HOH
69
2
HOH
HOH
69
A
HOH
70
2
HOH
HOH
70
A
HOH
71
2
HOH
HOH
71
A
HOH
72
2
HOH
HOH
72
A
HOH
73
2
HOH
HOH
73
A
HOH
74
2
HOH
HOH
74
A
HOH
75
2
HOH
HOH
75
A
HOH
76
2
HOH
HOH
76
A
HOH
77
2
HOH
HOH
77
A
HOH
78
2
HOH
HOH
78
A
HOH
79
2
HOH
HOH
79
A
HOH
80
2
HOH
HOH
80
A
HOH
81
2
HOH
HOH
81
A
HOH
82
2
HOH
HOH
82
A
HOH
83
2
HOH
HOH
83
A
HOH
84
2
HOH
HOH
84
A
HOH
85
2
HOH
HOH
85
A
HOH
86
2
HOH
HOH
86
A
HOH
87
2
HOH
HOH
87
A
HOH
88
2
HOH
HOH
88
A
HOH
89
2
HOH
HOH
89
A
HOH
90
2
HOH
HOH
90
A
HOH
91
2
HOH
HOH
91
A
HOH
92
2
HOH
HOH
92
A
HOH
93
2
HOH
HOH
93
A
HOH
94
2
HOH
HOH
94
A
HOH
95
2
HOH
HOH
95
A
HOH
96
2
HOH
HOH
96
A
HOH
97
2
HOH
HOH
97
A
HOH
98
2
HOH
HOH
98
A
HOH
99
2
HOH
HOH
99
A
HOH
100
2
HOH
HOH
100
A
HOH
101
2
HOH
HOH
101
A
HOH
102
2
HOH
HOH
102
A
HOH
103
2
HOH
HOH
103
A
HOH
104
2
HOH
HOH
104
A
HOH
105
2
HOH
HOH
105
A
HOH
106
2
HOH
HOH
106
A
HOH
107
2
HOH
HOH
107
A
HOH
108
2
HOH
HOH
108
A
HOH
109
2
HOH
HOH
109
A
HOH
110
2
HOH
HOH
110
A
HOH
111
2
HOH
HOH
111
A
n
1
352
A
n
2
353
A
MSE
354
n
3
MSE
354
A
SER
355
n
4
SER
355
A
ASN
356
n
5
ASN
356
A
VAL
357
n
6
VAL
357
A
SER
358
n
7
SER
358
A
GLN
359
n
8
GLN
359
A
PRO
360
n
9
PRO
360
A
THR
361
n
10
THR
361
A
GLU
362
n
11
GLU
362
A
PHE
363
n
12
PHE
363
A
ILE
364
n
13
ILE
364
A
SER
365
n
14
SER
365
A
ARG
366
n
15
ARG
366
A
HIS
367
n
16
HIS
367
A
ASN
368
n
17
ASN
368
A
ILE
369
n
18
ILE
369
A
GLU
370
n
19
GLU
370
A
GLY
371
n
20
GLY
371
A
ILE
372
n
21
ILE
372
A
PHE
373
n
22
PHE
373
A
THR
374
n
23
THR
374
A
PHE
375
n
24
PHE
375
A
VAL
376
n
25
VAL
376
A
ASP
377
n
26
ASP
377
A
HIS
378
n
27
HIS
378
A
ARG
379
n
28
ARG
379
A
CYS
380
n
29
CYS
380
A
VAL
381
n
30
VAL
381
A
ALA
382
n
31
ALA
382
A
THR
383
n
32
THR
383
A
VAL
384
n
33
VAL
384
A
GLY
385
n
34
GLY
385
A
TYR
386
n
35
TYR
386
A
GLN
387
n
36
GLN
387
A
PRO
388
n
37
PRO
388
A
GLN
389
n
38
GLN
389
A
GLU
390
n
39
GLU
390
A
LEU
391
n
40
LEU
391
A
LEU
392
n
41
LEU
392
A
GLY
393
n
42
GLY
393
A
LYS
394
n
43
LYS
394
A
ASN
395
n
44
ASN
395
A
ILE
396
n
45
ILE
396
A
VAL
397
n
46
VAL
397
A
GLU
398
n
47
GLU
398
A
PHE
399
n
48
PHE
399
A
CYS
400
n
49
CYS
400
A
HIS
401
n
50
HIS
401
A
PRO
402
n
51
PRO
402
A
GLU
403
n
52
GLU
403
A
ASP
404
n
53
ASP
404
A
GLN
405
n
54
GLN
405
A
GLN
406
n
55
GLN
406
A
LEU
407
n
56
LEU
407
A
LEU
408
n
57
LEU
408
A
ARG
409
n
58
ARG
409
A
ASP
410
n
59
ASP
410
A
SER
411
n
60
SER
411
A
PHE
412
n
61
PHE
412
A
GLN
413
n
62
GLN
413
A
GLN
414
n
63
GLN
414
A
VAL
415
n
64
VAL
415
A
VAL
416
n
65
VAL
416
A
LYS
417
n
66
LYS
417
A
LEU
418
n
67
LEU
418
A
LYS
419
n
68
LYS
419
A
GLY
420
n
69
GLY
420
A
GLN
421
n
70
GLN
421
A
VAL
422
n
71
VAL
422
A
LEU
423
n
72
LEU
423
A
SER
424
n
73
SER
424
A
VAL
425
n
74
VAL
425
A
MSE
426
n
75
MSE
426
A
PHE
427
n
76
PHE
427
A
ARG
428
n
77
ARG
428
A
PHE
429
n
78
PHE
429
A
ARG
430
n
79
ARG
430
A
SER
431
n
80
SER
431
A
LYS
432
n
81
LYS
432
A
ASN
433
n
82
ASN
433
A
GLN
434
n
83
GLN
434
A
GLU
435
n
84
GLU
435
A
TRP
436
n
85
TRP
436
A
LEU
437
n
86
LEU
437
A
TRP
438
n
87
TRP
438
A
MSE
439
n
88
MSE
439
A
ARG
440
n
89
ARG
440
A
THR
441
n
90
THR
441
A
SER
442
n
91
SER
442
A
SER
443
n
92
SER
443
A
PHE
444
n
93
PHE
444
A
THR
445
n
94
THR
445
A
PHE
446
n
95
PHE
446
A
GLN
447
n
96
GLN
447
A
ASN
448
n
97
ASN
448
A
PRO
449
n
98
PRO
449
A
TYR
450
n
99
TYR
450
A
SER
451
n
100
SER
451
A
ASP
452
n
101
ASP
452
A
GLU
453
n
102
GLU
453
A
ILE
454
n
103
ILE
454
A
GLU
455
n
104
GLU
455
A
TYR
456
n
105
TYR
456
A
ILE
457
n
106
ILE
457
A
ILE
458
n
107
ILE
458
A
CYS
459
n
108
CYS
459
A
THR
460
n
109
THR
460
A
ASN
461
n
110
ASN
461
A
THR
462
n
111
THR
462
A
ASN
463
n
112
ASN
463
A
VAL
464
n
113
VAL
464
A
n
114
465
A
n
115
466
A
n
116
467
A
n
117
468
A
n
118
469
A
n
119
470
A
0.6535
-0.0597
0.0348
1.6424
-0.1742
0.6748
0.0504
0.0328
0.0857
0.0128
-0.0234
0.0708
0.0085
-0.0447
-0.0270
-0.0261
0.0064
0.0060
-0.0182
0.0162
-0.0313
refined
20.5425
38.2812
22.8709
X-RAY DIFFRACTION
A
354
A
3
A
464
A
113
X-RAY DIFFRACTION
1
author_defined_assembly
1
monomeric
A
MSE
354
SELENOMETHIONINE
A
MSE
3
MET
A
MSE
426
SELENOMETHIONINE
A
MSE
75
MET
A
MSE
439
SELENOMETHIONINE
A
MSE
88
MET
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
O
THR
374
A
O
THR
23
A
N
ARG
366
A
N
ARG
15
A
N
SER
365
A
N
SER
14
A
O
CYS
459
A
O
CYS
108
A
O
GLU
455
A
O
GLU
104
A
N
PHE
446
A
N
PHE
95
A
O
MSE
439
A
O
MSE
88
A
N
PHE
427
A
N
PHE
76
1
A
HOH
43
B
HOH
1
A
GLY
352
A
GLY
1
1
Y
1
A
HIS
353
A
HIS
2
1
Y
1
A
LYS
465
A
LYS
114
1
Y
1
A
ASN
466
A
ASN
115
1
Y
1
A
SER
467
A
SER
116
1
Y
1
A
SER
468
A
SER
117
1
Y
1
A
GLN
469
A
GLN
118
1
Y
1
A
GLU
470
A
GLU
119
1
Y
1
A
A
OE2
O
GLU
HOH
403
37
2.19
B
21.71
-0.28000
0.00000
0.00000
-0.55000
0.00000
0.83000
0.963
0.952
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.208
0.187
0.188
1.50
48.06
1093
20229
5.100
99.5
2.327
0.043
RANDOM
LIKELY RESIDUAL
1
THROUGHOUT
MAD
0.076
0.075
0.80
0.80
1.20
MAXIMUM LIKELIHOOD WITH PHASES
MASK
1.50
48.06
111
1032
0
0
921
0.009
0.022
1029
1.187
1.923
1406
5.561
5.000
129
40.109
24.259
54
11.978
15.000
182
24.580
15.000
7
0.086
0.200
152
0.005
0.020
812
0.211
0.200
464
0.300
0.200
737
0.145
0.200
100
0.178
0.200
55
0.137
0.200
16
0.921
1.500
634
1.216
2.000
1018
2.062
3.000
449
3.073
4.500
388
0.272
0.237
1.54
83
1452
20
99.03
1.50
48.06
2B02
4398
0
0.04
1
396.7
4.6
99.6
0.473
1.50
1.55
13.2
1
4.4
99.3
refinement
REFMAC
5.2.0005
data reduction
HKL-2000
data scaling
HKL-2000
phasing
SOLVE
Crystal Structure of ARNT PAS-B Domain
1
N
N
2
N
N
A
ARG
379
A
ARG
28
HELX_P
A
GLY
385
A
GLY
34
1
1
7
A
GLN
387
A
GLN
36
HELX_P
A
LEU
391
A
LEU
40
5
2
5
A
ASN
395
A
ASN
44
HELX_P
A
CYS
400
A
CYS
49
5
3
6
A
HIS
401
A
HIS
50
HELX_P
A
GLU
403
A
GLU
52
5
4
3
A
ASP
404
A
ASP
53
HELX_P
A
LEU
418
A
LEU
67
1
5
15
covale
1.329
both
A
MSE
354
A
C
MSE
3
1_555
A
SER
355
A
N
SER
4
1_555
covale
1.328
both
B
A
VAL
425
A
C
VAL
74
1_555
A
MSE
426
A
N
MSE
75
1_555
covale
1.333
both
A
A
VAL
425
A
C
VAL
74
1_555
A
MSE
426
A
N
MSE
75
1_555
covale
1.323
both
B
A
MSE
426
A
C
MSE
75
1_555
A
PHE
427
A
N
PHE
76
1_555
covale
1.338
both
A
A
MSE
426
A
C
MSE
75
1_555
A
PHE
427
A
N
PHE
76
1_555
covale
1.329
both
B
A
TRP
438
A
C
TRP
87
1_555
A
MSE
439
A
N
MSE
88
1_555
covale
1.327
both
A
A
TRP
438
A
C
TRP
87
1_555
A
MSE
439
A
N
MSE
88
1_555
covale
1.338
both
B
A
MSE
439
A
C
MSE
88
1_555
A
ARG
440
A
N
ARG
89
1_555
covale
1.323
both
A
A
MSE
439
A
C
MSE
88
1_555
A
ARG
440
A
N
ARG
89
1_555
TRANSCRIPTION
PAS DOMAIN, ARNT, HIF, AHR, TRANSCRIPTION
ARNT_HUMAN
UNP
1
354
P27540
354
470
2B02
354
470
P27540
A
1
3
119
1
cloning artifact
GLY
352
2B02
A
P27540
UNP
1
1
cloning artifact
HIS
353
2B02
A
P27540
UNP
2
1
MET
modified residue
MSE
354
2B02
A
P27540
UNP
354
3
1
CYS
engineered mutation
SER
358
2B02
A
P27540
UNP
358
7
1
MET
modified residue
MSE
426
2B02
A
P27540
UNP
426
75
1
MET
modified residue
MSE
439
2B02
A
P27540
UNP
439
88
5
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
PHE
373
A
PHE
22
A
VAL
376
A
VAL
25
A
GLU
362
A
GLU
11
A
HIS
367
A
HIS
16
A
ILE
454
A
ILE
103
A
ASN
463
A
ASN
112
A
TRP
436
A
TRP
85
A
GLN
447
A
GLN
96
A
LEU
423
A
LEU
72
A
ARG
430
A
ARG
79
23
I 2 2 2