0.018220
0.000000
0.000000
-0.000000
0.014577
0.000000
0.000000
-0.000000
0.010675
0.00000
0.00000
0.00000
Kolenko, P.
Zahradnik, J.
Zuskova, I.
Cerny, J.
Palyzova, A.
Kyslikova, E.
Schneider, B.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
54.885
68.599
93.677
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
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
PLoS ONE
1932-6203
13
e0195299
e0195299
10.1371/journal.pone.0195299
29630677
The crystal structure of XdpB, the bacterial old yellow enzyme, in an FMN-free form.
2018
0000-0001-7855-3690
100
1
PIXEL
2014-08-20
DECTRIS PILATUS 6M
SINGLE WAVELENGTH
M
x-ray
1
0.91841
1.0
14.2
BESSY
0.91841
SYNCHROTRON
BESSY BEAMLINE 14.2
C-terminal pentapeptide region tightly interact with the crystal symmetry mate. FMN site is not occupied.
41141.840
Glycerol trinitrate reductase
1
man
polymer
18.015
water
221
nat
water
no
no
MGSSHHHHHHSSGLVPRGSHMTKTTLFQPTSLGAITLANRIVMAPLTRNRAGAGFVPGELTAGYYAQRASAGLIISEATQ
ISQQGQGYQDTPGIYTQAQIDGWKKVTAAVHKKGGRIVLQLWHVGRISHVNLQPNGGAPVAPSAIRAEVKTFVNNGFVDV
SEPRALELEELAGIVDDFRKAAANSIEAGFDGVEVHGANGYLLEQFAKDGANMRTDTYGGSVENRARLMLEVTAAVAQEI
GPERTGIRISPVSPANGISCSDPQTQYDYIVDKLDALGIAYIHVVEGATGGPRDVAPFDYGSLRRRFSRTYIANNGFDLE
LATSHLADGRADLIAFGRPFIANPDLVERLQSGAPLAEVNAAKIFGGSAAGYTDYPRFSETTSDN
MGSSHHHHHHSSGLVPRGSHMTKTTLFQPTSLGAITLANRIVMAPLTRNRAGAGFVPGELTAGYYAQRASAGLIISEATQ
ISQQGQGYQDTPGIYTQAQIDGWKKVTAAVHKKGGRIVLQLWHVGRISHVNLQPNGGAPVAPSAIRAEVKTFVNNGFVDV
SEPRALELEELAGIVDDFRKAAANSIEAGFDGVEVHGANGYLLEQFAKDGANMRTDTYGGSVENRARLMLEVTAAVAQEI
GPERTGIRISPVSPANGISCSDPQTQYDYIVDKLDALGIAYIHVVEGATGGPRDVAPFDYGSLRRRFSRTYIANNGFDLE
LATSHLADGRADLIAFGRPFIANPDLVERLQSGAPLAEVNAAKIFGGSAAGYTDYPRFSETTSDN
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
1
385
xdpB
358
Agrobacterium tumefaciens
469008
Escherichia coli BL21(DE3)
ArcticExpress
Biological sequence
2.14
42.61
VAPOR DIFFUSION, HANGING DROP
8.02
50 mM tri-Lithium citrate, 32 % (w/v) PEG 3350, not buffered
281
citation
citation_author
pdbx_database_proc
repository
Initial release
Data collection
Database references
1
0
2016-11-23
1
1
2019-02-27
_citation.country
_citation.journal_abbrev
_citation.journal_id_CSD
_citation.journal_id_ISSN
_citation.journal_volume
_citation.page_first
_citation.page_last
_citation.pdbx_database_id_DOI
_citation.pdbx_database_id_PubMed
_citation.title
_citation.year
Czech Republic
Charles University
720414
4JIC contains close homolog (57%) of glycerol trinitrate reductase with bound FMN.
N
RCSB
Y
PDBE
2015-11-11
REL
REL
HOH
water
HOH
1189
2
HOH
HOH
401
A
HOH
1804
2
HOH
HOH
402
A
HOH
1044
2
HOH
HOH
403
A
HOH
1028
2
HOH
HOH
404
A
HOH
1011
2
HOH
HOH
405
A
HOH
1065
2
HOH
HOH
406
A
HOH
1807
2
HOH
HOH
407
A
HOH
1527
2
HOH
HOH
408
A
HOH
1809
2
HOH
HOH
409
A
HOH
1819
2
HOH
HOH
410
A
HOH
1181
2
HOH
HOH
411
A
HOH
1184
2
HOH
HOH
412
A
HOH
1008
2
HOH
HOH
413
A
HOH
1803
2
HOH
HOH
414
A
HOH
1518
2
HOH
HOH
415
A
HOH
1510
2
HOH
HOH
416
A
HOH
1523
2
HOH
HOH
417
A
HOH
1035
2
HOH
HOH
418
A
HOH
1812
2
HOH
HOH
419
A
HOH
1185
2
HOH
HOH
420
A
HOH
1022
2
HOH
HOH
421
A
HOH
1069
2
HOH
HOH
422
A
HOH
1529
2
HOH
HOH
423
A
HOH
1003
2
HOH
HOH
424
A
HOH
1188
2
HOH
HOH
425
A
HOH
1068
2
HOH
HOH
426
A
HOH
1592
2
HOH
HOH
427
A
HOH
1179
2
HOH
HOH
428
A
HOH
1161
2
HOH
HOH
429
A
HOH
1005
2
HOH
HOH
430
A
HOH
1017
2
HOH
HOH
431
A
HOH
1525
2
HOH
HOH
432
A
HOH
1140
2
HOH
HOH
433
A
HOH
1521
2
HOH
HOH
434
A
HOH
2813
2
HOH
HOH
435
A
HOH
1041
2
HOH
HOH
436
A
HOH
1552
2
HOH
HOH
437
A
HOH
1070
2
HOH
HOH
438
A
HOH
1502
2
HOH
HOH
439
A
HOH
1007
2
HOH
HOH
440
A
HOH
1064
2
HOH
HOH
441
A
HOH
1190
2
HOH
HOH
442
A
HOH
1515
2
HOH
HOH
443
A
HOH
1053
2
HOH
HOH
444
A
HOH
1573
2
HOH
HOH
445
A
HOH
1006
2
HOH
HOH
446
A
HOH
1061
2
HOH
HOH
447
A
HOH
3873
2
HOH
HOH
448
A
HOH
1024
2
HOH
HOH
449
A
HOH
1826
2
HOH
HOH
450
A
HOH
1152
2
HOH
HOH
451
A
HOH
1539
2
HOH
HOH
452
A
HOH
1162
2
HOH
HOH
453
A
HOH
1520
2
HOH
HOH
454
A
HOH
1596
2
HOH
HOH
455
A
HOH
1080
2
HOH
HOH
456
A
HOH
1010
2
HOH
HOH
457
A
HOH
1088
2
HOH
HOH
458
A
HOH
1514
2
HOH
HOH
459
A
HOH
1048
2
HOH
HOH
460
A
HOH
1875
2
HOH
HOH
461
A
HOH
2816
2
HOH
HOH
462
A
HOH
1506
2
HOH
HOH
463
A
HOH
2853
2
HOH
HOH
464
A
HOH
1207
2
HOH
HOH
465
A
HOH
1038
2
HOH
HOH
466
A
HOH
1532
2
HOH
HOH
467
A
HOH
1019
2
HOH
HOH
468
A
HOH
1081
2
HOH
HOH
469
A
HOH
1503
2
HOH
HOH
470
A
HOH
1501
2
HOH
HOH
471
A
HOH
1037
2
HOH
HOH
472
A
HOH
1046
2
HOH
HOH
473
A
HOH
1042
2
HOH
HOH
474
A
HOH
1084
2
HOH
HOH
475
A
HOH
1104
2
HOH
HOH
476
A
HOH
1027
2
HOH
HOH
477
A
HOH
2878
2
HOH
HOH
478
A
HOH
1094
2
HOH
HOH
479
A
HOH
1509
2
HOH
HOH
480
A
HOH
1120
2
HOH
HOH
481
A
HOH
2885
2
HOH
HOH
482
A
HOH
1052
2
HOH
HOH
483
A
HOH
1585
2
HOH
HOH
484
A
HOH
2818
2
HOH
HOH
485
A
HOH
1032
2
HOH
HOH
486
A
HOH
1002
2
HOH
HOH
487
A
HOH
1001
2
HOH
HOH
488
A
HOH
1623
2
HOH
HOH
489
A
HOH
1197
2
HOH
HOH
490
A
HOH
1086
2
HOH
HOH
491
A
HOH
3890
2
HOH
HOH
492
A
HOH
1059
2
HOH
HOH
493
A
HOH
1050
2
HOH
HOH
494
A
HOH
1013
2
HOH
HOH
495
A
HOH
1012
2
HOH
HOH
496
A
HOH
1020
2
HOH
HOH
497
A
HOH
1095
2
HOH
HOH
498
A
HOH
1014
2
HOH
HOH
499
A
HOH
1029
2
HOH
HOH
500
A
HOH
1547
2
HOH
HOH
501
A
HOH
1040
2
HOH
HOH
502
A
HOH
1101
2
HOH
HOH
503
A
HOH
1163
2
HOH
HOH
504
A
HOH
1047
2
HOH
HOH
505
A
HOH
1139
2
HOH
HOH
506
A
HOH
1066
2
HOH
HOH
507
A
HOH
1194
2
HOH
HOH
508
A
HOH
1211
2
HOH
HOH
509
A
HOH
1090
2
HOH
HOH
510
A
HOH
1508
2
HOH
HOH
511
A
HOH
1056
2
HOH
HOH
512
A
HOH
1107
2
HOH
HOH
513
A
HOH
1083
2
HOH
HOH
514
A
HOH
1196
2
HOH
HOH
515
A
HOH
1074
2
HOH
HOH
516
A
HOH
3809
2
HOH
HOH
517
A
HOH
1847
2
HOH
HOH
518
A
HOH
1096
2
HOH
HOH
519
A
HOH
1159
2
HOH
HOH
520
A
HOH
1025
2
HOH
HOH
521
A
HOH
1009
2
HOH
HOH
522
A
HOH
1036
2
HOH
HOH
523
A
HOH
1167
2
HOH
HOH
524
A
HOH
1063
2
HOH
HOH
525
A
HOH
1883
2
HOH
HOH
526
A
HOH
3865
2
HOH
HOH
527
A
HOH
1129
2
HOH
HOH
528
A
HOH
1112
2
HOH
HOH
529
A
HOH
1018
2
HOH
HOH
530
A
HOH
1505
2
HOH
HOH
531
A
HOH
1537
2
HOH
HOH
532
A
HOH
1097
2
HOH
HOH
533
A
HOH
1183
2
HOH
HOH
534
A
HOH
1856
2
HOH
HOH
535
A
HOH
1030
2
HOH
HOH
536
A
HOH
1597
2
HOH
HOH
537
A
HOH
1049
2
HOH
HOH
538
A
HOH
1198
2
HOH
HOH
539
A
HOH
1519
2
HOH
HOH
540
A
HOH
2862
2
HOH
HOH
541
A
HOH
1528
2
HOH
HOH
542
A
HOH
1526
2
HOH
HOH
543
A
HOH
1191
2
HOH
HOH
544
A
HOH
1079
2
HOH
HOH
545
A
HOH
1571
2
HOH
HOH
546
A
HOH
1124
2
HOH
HOH
547
A
HOH
1524
2
HOH
HOH
548
A
HOH
1015
2
HOH
HOH
549
A
HOH
1151
2
HOH
HOH
550
A
HOH
1880
2
HOH
HOH
551
A
HOH
1085
2
HOH
HOH
552
A
HOH
1067
2
HOH
HOH
553
A
HOH
1147
2
HOH
HOH
554
A
HOH
1210
2
HOH
HOH
555
A
HOH
1121
2
HOH
HOH
556
A
HOH
3894
2
HOH
HOH
557
A
HOH
1106
2
HOH
HOH
558
A
HOH
2894
2
HOH
HOH
559
A
HOH
1593
2
HOH
HOH
560
A
HOH
1625
2
HOH
HOH
561
A
HOH
1534
2
HOH
HOH
562
A
HOH
1536
2
HOH
HOH
563
A
HOH
1130
2
HOH
HOH
564
A
HOH
1568
2
HOH
HOH
565
A
HOH
1075
2
HOH
HOH
566
A
HOH
1100
2
HOH
HOH
567
A
HOH
1200
2
HOH
HOH
568
A
HOH
1601
2
HOH
HOH
569
A
HOH
1906
2
HOH
HOH
570
A
HOH
1110
2
HOH
HOH
571
A
HOH
2851
2
HOH
HOH
572
A
HOH
1055
2
HOH
HOH
573
A
HOH
1535
2
HOH
HOH
574
A
HOH
1186
2
HOH
HOH
575
A
HOH
1157
2
HOH
HOH
576
A
HOH
2884
2
HOH
HOH
577
A
HOH
1867
2
HOH
HOH
578
A
HOH
1099
2
HOH
HOH
579
A
HOH
1182
2
HOH
HOH
580
A
HOH
1887
2
HOH
HOH
581
A
HOH
1168
2
HOH
HOH
582
A
HOH
1051
2
HOH
HOH
583
A
HOH
1138
2
HOH
HOH
584
A
HOH
2837
2
HOH
HOH
585
A
HOH
1204
2
HOH
HOH
586
A
HOH
1576
2
HOH
HOH
587
A
HOH
1558
2
HOH
HOH
588
A
HOH
1889
2
HOH
HOH
589
A
HOH
1815
2
HOH
HOH
590
A
HOH
1180
2
HOH
HOH
591
A
HOH
1203
2
HOH
HOH
592
A
HOH
1146
2
HOH
HOH
593
A
HOH
2829
2
HOH
HOH
594
A
HOH
1202
2
HOH
HOH
595
A
HOH
2865
2
HOH
HOH
596
A
HOH
1587
2
HOH
HOH
597
A
HOH
1057
2
HOH
HOH
598
A
HOH
1565
2
HOH
HOH
599
A
HOH
1206
2
HOH
HOH
600
A
HOH
1187
2
HOH
HOH
601
A
HOH
3895
2
HOH
HOH
602
A
HOH
1054
2
HOH
HOH
603
A
HOH
1193
2
HOH
HOH
604
A
HOH
1862
2
HOH
HOH
605
A
HOH
1866
2
HOH
HOH
606
A
HOH
1205
2
HOH
HOH
607
A
HOH
1123
2
HOH
HOH
608
A
HOH
1548
2
HOH
HOH
609
A
HOH
1192
2
HOH
HOH
610
A
HOH
1209
2
HOH
HOH
611
A
HOH
1136
2
HOH
HOH
612
A
HOH
1195
2
HOH
HOH
613
A
HOH
1624
2
HOH
HOH
614
A
HOH
1199
2
HOH
HOH
615
A
HOH
1627
2
HOH
HOH
616
A
HOH
1895
2
HOH
HOH
617
A
HOH
1614
2
HOH
HOH
618
A
HOH
2909
2
HOH
HOH
619
A
HOH
1208
2
HOH
HOH
620
A
HOH
1062
2
HOH
HOH
621
A
n
1
-19
A
n
2
-18
A
n
3
-17
A
n
4
-16
A
n
5
-15
A
n
6
-14
A
n
7
-13
A
n
8
-12
A
n
9
-11
A
n
10
-10
A
n
11
-9
A
n
12
-8
A
n
13
-7
A
n
14
-6
A
n
15
-5
A
n
16
-4
A
n
17
-3
A
n
18
-2
A
n
19
-1
A
n
20
0
A
n
21
1
A
n
22
2
A
n
23
3
A
n
24
4
A
THR
5
n
25
THR
5
A
LEU
6
n
26
LEU
6
A
PHE
7
n
27
PHE
7
A
GLN
8
n
28
GLN
8
A
PRO
9
n
29
PRO
9
A
THR
10
n
30
THR
10
A
SER
11
n
31
SER
11
A
LEU
12
n
32
LEU
12
A
GLY
13
n
33
GLY
13
A
ALA
14
n
34
ALA
14
A
ILE
15
n
35
ILE
15
A
THR
16
n
36
THR
16
A
LEU
17
n
37
LEU
17
A
ALA
18
n
38
ALA
18
A
ASN
19
n
39
ASN
19
A
ARG
20
n
40
ARG
20
A
ILE
21
n
41
ILE
21
A
VAL
22
n
42
VAL
22
A
MET
23
n
43
MET
23
A
ALA
24
n
44
ALA
24
A
PRO
25
n
45
PRO
25
A
LEU
26
n
46
LEU
26
A
THR
27
n
47
THR
27
A
ARG
28
n
48
ARG
28
A
ASN
29
n
49
ASN
29
A
ARG
30
n
50
ARG
30
A
ALA
31
n
51
ALA
31
A
GLY
32
n
52
GLY
32
A
ALA
33
n
53
ALA
33
A
GLY
34
n
54
GLY
34
A
PHE
35
n
55
PHE
35
A
VAL
36
n
56
VAL
36
A
PRO
37
n
57
PRO
37
A
GLY
38
n
58
GLY
38
A
GLU
39
n
59
GLU
39
A
LEU
40
n
60
LEU
40
A
THR
41
n
61
THR
41
A
ALA
42
n
62
ALA
42
A
GLY
43
n
63
GLY
43
A
TYR
44
n
64
TYR
44
A
TYR
45
n
65
TYR
45
A
ALA
46
n
66
ALA
46
A
GLN
47
n
67
GLN
47
A
ARG
48
n
68
ARG
48
A
ALA
49
n
69
ALA
49
A
SER
50
n
70
SER
50
A
ALA
51
n
71
ALA
51
A
GLY
52
n
72
GLY
52
A
LEU
53
n
73
LEU
53
A
ILE
54
n
74
ILE
54
A
ILE
55
n
75
ILE
55
A
SER
56
n
76
SER
56
A
GLU
57
n
77
GLU
57
A
ALA
58
n
78
ALA
58
A
THR
59
n
79
THR
59
A
GLN
60
n
80
GLN
60
A
ILE
61
n
81
ILE
61
A
SER
62
n
82
SER
62
A
GLN
63
n
83
GLN
63
A
GLN
64
n
84
GLN
64
A
GLY
65
n
85
GLY
65
A
GLN
66
n
86
GLN
66
A
GLY
67
n
87
GLY
67
A
TYR
68
n
88
TYR
68
A
GLN
69
n
89
GLN
69
A
ASP
70
n
90
ASP
70
A
THR
71
n
91
THR
71
A
PRO
72
n
92
PRO
72
A
GLY
73
n
93
GLY
73
A
ILE
74
n
94
ILE
74
A
TYR
75
n
95
TYR
75
A
THR
76
n
96
THR
76
A
GLN
77
n
97
GLN
77
A
ALA
78
n
98
ALA
78
A
GLN
79
n
99
GLN
79
A
ILE
80
n
100
ILE
80
A
ASP
81
n
101
ASP
81
A
GLY
82
n
102
GLY
82
A
TRP
83
n
103
TRP
83
A
LYS
84
n
104
LYS
84
A
LYS
85
n
105
LYS
85
A
VAL
86
n
106
VAL
86
A
THR
87
n
107
THR
87
A
ALA
88
n
108
ALA
88
A
ALA
89
n
109
ALA
89
A
VAL
90
n
110
VAL
90
A
HIS
91
n
111
HIS
91
A
LYS
92
n
112
LYS
92
A
LYS
93
n
113
LYS
93
A
GLY
94
n
114
GLY
94
A
GLY
95
n
115
GLY
95
A
ARG
96
n
116
ARG
96
A
ILE
97
n
117
ILE
97
A
VAL
98
n
118
VAL
98
A
LEU
99
n
119
LEU
99
A
GLN
100
n
120
GLN
100
A
LEU
101
n
121
LEU
101
A
TRP
102
n
122
TRP
102
A
HIS
103
n
123
HIS
103
A
VAL
104
n
124
VAL
104
A
GLY
105
n
125
GLY
105
A
ARG
106
n
126
ARG
106
A
ILE
107
n
127
ILE
107
A
SER
108
n
128
SER
108
A
HIS
109
n
129
HIS
109
A
VAL
110
n
130
VAL
110
A
ASN
111
n
131
ASN
111
A
LEU
112
n
132
LEU
112
A
GLN
113
n
133
GLN
113
A
PRO
114
n
134
PRO
114
A
ASN
115
n
135
ASN
115
A
GLY
116
n
136
GLY
116
A
GLY
117
n
137
GLY
117
A
ALA
118
n
138
ALA
118
A
PRO
119
n
139
PRO
119
A
VAL
120
n
140
VAL
120
A
ALA
121
n
141
ALA
121
A
PRO
122
n
142
PRO
122
A
SER
123
n
143
SER
123
A
ALA
124
n
144
ALA
124
A
ILE
125
n
145
ILE
125
A
ARG
126
n
146
ARG
126
A
ALA
127
n
147
ALA
127
A
GLU
128
n
148
GLU
128
A
VAL
129
n
149
VAL
129
A
LYS
130
n
150
LYS
130
A
THR
131
n
151
THR
131
A
PHE
132
n
152
PHE
132
A
VAL
133
n
153
VAL
133
A
ASN
134
n
154
ASN
134
A
ASN
135
n
155
ASN
135
A
GLY
136
n
156
GLY
136
A
PHE
137
n
157
PHE
137
A
VAL
138
n
158
VAL
138
A
ASP
139
n
159
ASP
139
A
VAL
140
n
160
VAL
140
A
SER
141
n
161
SER
141
A
GLU
142
n
162
GLU
142
A
PRO
143
n
163
PRO
143
A
ARG
144
n
164
ARG
144
A
ALA
145
n
165
ALA
145
A
LEU
146
n
166
LEU
146
A
GLU
147
n
167
GLU
147
A
LEU
148
n
168
LEU
148
A
GLU
149
n
169
GLU
149
A
GLU
150
n
170
GLU
150
A
LEU
151
n
171
LEU
151
A
ALA
152
n
172
ALA
152
A
GLY
153
n
173
GLY
153
A
ILE
154
n
174
ILE
154
A
VAL
155
n
175
VAL
155
A
ASP
156
n
176
ASP
156
A
ASP
157
n
177
ASP
157
A
PHE
158
n
178
PHE
158
A
ARG
159
n
179
ARG
159
A
LYS
160
n
180
LYS
160
A
ALA
161
n
181
ALA
161
A
ALA
162
n
182
ALA
162
A
ALA
163
n
183
ALA
163
A
ASN
164
n
184
ASN
164
A
SER
165
n
185
SER
165
A
ILE
166
n
186
ILE
166
A
GLU
167
n
187
GLU
167
A
ALA
168
n
188
ALA
168
A
GLY
169
n
189
GLY
169
A
PHE
170
n
190
PHE
170
A
ASP
171
n
191
ASP
171
A
GLY
172
n
192
GLY
172
A
VAL
173
n
193
VAL
173
A
GLU
174
n
194
GLU
174
A
VAL
175
n
195
VAL
175
A
HIS
176
n
196
HIS
176
A
GLY
177
n
197
GLY
177
A
ALA
178
n
198
ALA
178
A
ASN
179
n
199
ASN
179
A
GLY
180
n
200
GLY
180
A
TYR
181
n
201
TYR
181
A
LEU
182
n
202
LEU
182
A
LEU
183
n
203
LEU
183
A
GLU
184
n
204
GLU
184
A
GLN
185
n
205
GLN
185
A
PHE
186
n
206
PHE
186
A
ALA
187
n
207
ALA
187
A
LYS
188
n
208
LYS
188
A
ASP
189
n
209
ASP
189
A
GLY
190
n
210
GLY
190
A
ALA
191
n
211
ALA
191
A
ASN
192
n
212
ASN
192
A
MET
193
n
213
MET
193
A
ARG
194
n
214
ARG
194
A
THR
195
n
215
THR
195
A
ASP
196
n
216
ASP
196
A
THR
197
n
217
THR
197
A
TYR
198
n
218
TYR
198
A
GLY
199
n
219
GLY
199
A
GLY
200
n
220
GLY
200
A
SER
201
n
221
SER
201
A
VAL
202
n
222
VAL
202
A
GLU
203
n
223
GLU
203
A
ASN
204
n
224
ASN
204
A
ARG
205
n
225
ARG
205
A
ALA
206
n
226
ALA
206
A
ARG
207
n
227
ARG
207
A
LEU
208
n
228
LEU
208
A
MET
209
n
229
MET
209
A
LEU
210
n
230
LEU
210
A
GLU
211
n
231
GLU
211
A
VAL
212
n
232
VAL
212
A
THR
213
n
233
THR
213
A
ALA
214
n
234
ALA
214
A
ALA
215
n
235
ALA
215
A
VAL
216
n
236
VAL
216
A
ALA
217
n
237
ALA
217
A
GLN
218
n
238
GLN
218
A
GLU
219
n
239
GLU
219
A
ILE
220
n
240
ILE
220
A
GLY
221
n
241
GLY
221
A
PRO
222
n
242
PRO
222
A
GLU
223
n
243
GLU
223
A
ARG
224
n
244
ARG
224
A
THR
225
n
245
THR
225
A
GLY
226
n
246
GLY
226
A
ILE
227
n
247
ILE
227
A
ARG
228
n
248
ARG
228
A
ILE
229
n
249
ILE
229
A
SER
230
n
250
SER
230
A
PRO
231
n
251
PRO
231
A
VAL
232
n
252
VAL
232
A
SER
233
n
253
SER
233
A
PRO
234
n
254
PRO
234
A
ALA
235
n
255
ALA
235
A
ASN
236
n
256
ASN
236
A
GLY
237
n
257
GLY
237
A
ILE
238
n
258
ILE
238
A
SER
239
n
259
SER
239
A
CYS
240
n
260
CYS
240
A
SER
241
n
261
SER
241
A
ASP
242
n
262
ASP
242
A
PRO
243
n
263
PRO
243
A
GLN
244
n
264
GLN
244
A
THR
245
n
265
THR
245
A
GLN
246
n
266
GLN
246
A
TYR
247
n
267
TYR
247
A
ASP
248
n
268
ASP
248
A
TYR
249
n
269
TYR
249
A
ILE
250
n
270
ILE
250
A
VAL
251
n
271
VAL
251
A
ASP
252
n
272
ASP
252
A
LYS
253
n
273
LYS
253
A
LEU
254
n
274
LEU
254
A
ASP
255
n
275
ASP
255
A
ALA
256
n
276
ALA
256
A
LEU
257
n
277
LEU
257
A
GLY
258
n
278
GLY
258
A
ILE
259
n
279
ILE
259
A
ALA
260
n
280
ALA
260
A
TYR
261
n
281
TYR
261
A
ILE
262
n
282
ILE
262
A
HIS
263
n
283
HIS
263
A
VAL
264
n
284
VAL
264
A
VAL
265
n
285
VAL
265
A
GLU
266
n
286
GLU
266
A
n
287
267
A
n
288
268
A
n
289
269
A
n
290
270
A
n
291
271
A
n
292
272
A
n
293
273
A
n
294
274
A
n
295
275
A
n
296
276
A
PRO
277
n
297
PRO
277
A
PHE
278
n
298
PHE
278
A
ASP
279
n
299
ASP
279
A
TYR
280
n
300
TYR
280
A
GLY
281
n
301
GLY
281
A
SER
282
n
302
SER
282
A
LEU
283
n
303
LEU
283
A
ARG
284
n
304
ARG
284
A
ARG
285
n
305
ARG
285
A
ARG
286
n
306
ARG
286
A
PHE
287
n
307
PHE
287
A
SER
288
n
308
SER
288
A
ARG
289
n
309
ARG
289
A
THR
290
n
310
THR
290
A
TYR
291
n
311
TYR
291
A
ILE
292
n
312
ILE
292
A
ALA
293
n
313
ALA
293
A
ASN
294
n
314
ASN
294
A
n
315
295
A
n
316
296
A
n
317
297
A
ASP
298
n
318
ASP
298
A
LEU
299
n
319
LEU
299
A
GLU
300
n
320
GLU
300
A
LEU
301
n
321
LEU
301
A
ALA
302
n
322
ALA
302
A
THR
303
n
323
THR
303
A
SER
304
n
324
SER
304
A
HIS
305
n
325
HIS
305
A
LEU
306
n
326
LEU
306
A
ALA
307
n
327
ALA
307
A
ASP
308
n
328
ASP
308
A
GLY
309
n
329
GLY
309
A
ARG
310
n
330
ARG
310
A
ALA
311
n
331
ALA
311
A
ASP
312
n
332
ASP
312
A
LEU
313
n
333
LEU
313
A
ILE
314
n
334
ILE
314
A
ALA
315
n
335
ALA
315
A
PHE
316
n
336
PHE
316
A
GLY
317
n
337
GLY
317
A
ARG
318
n
338
ARG
318
A
PRO
319
n
339
PRO
319
A
PHE
320
n
340
PHE
320
A
ILE
321
n
341
ILE
321
A
ALA
322
n
342
ALA
322
A
ASN
323
n
343
ASN
323
A
PRO
324
n
344
PRO
324
A
ASP
325
n
345
ASP
325
A
LEU
326
n
346
LEU
326
A
VAL
327
n
347
VAL
327
A
GLU
328
n
348
GLU
328
A
ARG
329
n
349
ARG
329
A
LEU
330
n
350
LEU
330
A
GLN
331
n
351
GLN
331
A
SER
332
n
352
SER
332
A
GLY
333
n
353
GLY
333
A
ALA
334
n
354
ALA
334
A
PRO
335
n
355
PRO
335
A
LEU
336
n
356
LEU
336
A
ALA
337
n
357
ALA
337
A
GLU
338
n
358
GLU
338
A
VAL
339
n
359
VAL
339
A
ASN
340
n
360
ASN
340
A
ALA
341
n
361
ALA
341
A
ALA
342
n
362
ALA
342
A
LYS
343
n
363
LYS
343
A
ILE
344
n
364
ILE
344
A
PHE
345
n
365
PHE
345
A
GLY
346
n
366
GLY
346
A
GLY
347
n
367
GLY
347
A
SER
348
n
368
SER
348
A
ALA
349
n
369
ALA
349
A
ALA
350
n
370
ALA
350
A
GLY
351
n
371
GLY
351
A
TYR
352
n
372
TYR
352
A
THR
353
n
373
THR
353
A
ASP
354
n
374
ASP
354
A
TYR
355
n
375
TYR
355
A
PRO
356
n
376
PRO
356
A
ARG
357
n
377
ARG
357
A
PHE
358
n
378
PHE
358
A
SER
359
n
379
SER
359
A
GLU
360
n
380
GLU
360
A
THR
361
n
381
THR
361
A
THR
362
n
382
THR
362
A
SER
363
n
383
SER
363
A
ASP
364
n
384
ASP
364
A
ASN
365
n
385
ASN
365
A
author_and_software_defined_assembly
PISA
1
monomeric
0
0
13850
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
THR
10
A
N
THR
30
A
O
LEU
17
A
O
LEU
37
A
N
THR
59
A
N
THR
79
A
O
TRP
102
A
O
TRP
122
A
N
LEU
99
A
N
LEU
119
A
O
GLU
174
A
O
GLU
194
A
N
VAL
175
A
N
VAL
195
A
O
GLY
226
A
O
GLY
246
A
N
ILE
229
A
N
ILE
249
A
O
HIS
263
A
O
HIS
283
A
N
ILE
262
A
N
ILE
282
A
O
ILE
292
A
O
ILE
312
A
N
ALA
293
A
N
ALA
313
A
O
ALA
315
A
O
ALA
335
A
O
ILE
314
A
O
ILE
334
A
N
VAL
22
A
N
VAL
42
A
N
MET
23
A
N
MET
43
A
O
ILE
55
A
O
ILE
75
A
N
ILE
54
A
N
ILE
74
A
O
VAL
98
A
O
VAL
118
A
N
GLY
32
A
N
GLY
52
A
O
VAL
36
A
O
VAL
56
A
N
ALA
121
A
N
ALA
141
A
O
ARG
144
A
O
ARG
164
A
N
THR
131
A
N
THR
151
A
O
VAL
138
A
O
VAL
158
1
A
MET
-19
A
MET
1
1
Y
1
A
GLY
-18
A
GLY
2
1
Y
1
A
SER
-17
A
SER
3
1
Y
1
A
SER
-16
A
SER
4
1
Y
1
A
HIS
-15
A
HIS
5
1
Y
1
A
HIS
-14
A
HIS
6
1
Y
1
A
HIS
-13
A
HIS
7
1
Y
1
A
HIS
-12
A
HIS
8
1
Y
1
A
HIS
-11
A
HIS
9
1
Y
1
A
HIS
-10
A
HIS
10
1
Y
1
A
SER
-9
A
SER
11
1
Y
1
A
SER
-8
A
SER
12
1
Y
1
A
GLY
-7
A
GLY
13
1
Y
1
A
LEU
-6
A
LEU
14
1
Y
1
A
VAL
-5
A
VAL
15
1
Y
1
A
PRO
-4
A
PRO
16
1
Y
1
A
ARG
-3
A
ARG
17
1
Y
1
A
GLY
-2
A
GLY
18
1
Y
1
A
SER
-1
A
SER
19
1
Y
1
A
HIS
0
A
HIS
20
1
Y
1
A
MET
1
A
MET
21
1
Y
1
A
THR
2
A
THR
22
1
Y
1
A
LYS
3
A
LYS
23
1
Y
1
A
THR
4
A
THR
24
1
Y
1
A
GLY
267
A
GLY
287
1
Y
1
A
ALA
268
A
ALA
288
1
Y
1
A
THR
269
A
THR
289
1
Y
1
A
GLY
270
A
GLY
290
1
Y
1
A
GLY
271
A
GLY
291
1
Y
1
A
PRO
272
A
PRO
292
1
Y
1
A
ARG
273
A
ARG
293
1
Y
1
A
ASP
274
A
ASP
294
1
Y
1
A
VAL
275
A
VAL
295
1
Y
1
A
ALA
276
A
ALA
296
1
Y
1
A
ASN
295
A
ASN
315
1
Y
1
A
GLY
296
A
GLY
316
1
Y
1
A
PHE
297
A
PHE
317
1
Y
1
A
ALA
33
-31.54
134.07
1
A
ILE
74
-144.08
34.80
1
A
ASP
242
-151.70
83.49
1
A
ARG
289
-107.03
-153.52
1
A
ASP
325
-95.90
30.17
1
A
SER
348
-118.52
-165.44
1
A
TYR
352
-131.50
-75.28
1
A
GLU
360
-104.42
44.79
37
-2.16
0.00
-0.00
4.62
-0.00
-2.45
0.951
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.262
0.198
0.20091
2.10
47.36
20126
5.0
94.01
5.784
0.136
Random selection
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.246
0.80
0.80
1.20
MAXIMUM LIKELIHOOD
MASK
2.10
47.36
221
2853
0
0
2632
0.011
0.019
2682
0.001
0.020
2537
1.417
1.952
3642
0.810
3.000
5806
6.388
5.000
345
37.922
23.760
125
15.685
15.000
412
17.458
15.000
22
0.076
0.200
406
0.006
0.021
3134
0.001
0.020
632
2.077
3.555
1389
2.077
3.555
1388
3.307
5.316
1731
3.306
5.316
1732
2.178
3.741
1293
2.176
3.741
1293
3.578
5.527
1911
5.605
28.679
3264
5.508
28.535
3204
0.326
0.312
2.150
64
1243
4.9
83.78
20
2.10
47.36
5EPD
21254
20170
0.068
1
13.0
3.7
94
0.358
2.10
2.16
2.1
1
3.4
86.6
refinement
REFMAC
5.8.0073
data reduction
XDS
data scaling
Aimless
phasing
BALBES
Glycerol trinitrate reductase
Crystal structure of Glycerol Trinitrate Reductase XdpB from Agrobacterium sp. R89-1 (Apo form)
1
N
N
2
N
N
A
ALA
33
A
ALA
53
HELX_P
A
PHE
35
A
PHE
55
5
AA1
3
A
LEU
40
A
LEU
60
HELX_P
A
GLN
47
A
GLN
67
1
AA2
8
A
THR
76
A
THR
96
HELX_P
A
LYS
93
A
LYS
113
1
AA3
18
A
HIS
109
A
HIS
129
HELX_P
A
GLY
117
A
GLY
137
5
AA4
9
A
GLU
147
A
GLU
167
HELX_P
A
GLU
149
A
GLU
169
5
AA5
3
A
GLU
150
A
GLU
170
HELX_P
A
ALA
168
A
ALA
188
1
AA6
19
A
TYR
181
A
TYR
201
HELX_P
A
LYS
188
A
LYS
208
1
AA7
8
A
SER
201
A
SER
221
HELX_P
A
ALA
206
A
ALA
226
1
AA8
6
A
ALA
206
A
ALA
226
HELX_P
A
GLY
221
A
GLY
241
1
AA9
16
A
ASP
242
A
ASP
262
HELX_P
A
LEU
257
A
LEU
277
1
AB1
16
A
ASP
279
A
ASP
299
HELX_P
A
PHE
287
A
PHE
307
1
AB2
9
A
LEU
299
A
LEU
319
HELX_P
A
ASP
308
A
ASP
328
1
AB3
10
A
GLY
317
A
GLY
337
HELX_P
A
ASN
323
A
ASN
343
1
AB4
7
A
ASP
325
A
ASP
345
HELX_P
A
GLY
333
A
GLY
353
1
AB5
9
A
ASN
340
A
ASN
360
HELX_P
A
ILE
344
A
ILE
364
5
AB6
5
A
ARG
357
A
ARG
377
HELX_P
A
THR
361
A
THR
381
5
AB7
5
OXIDORECCTASE
Old Yellow Enzyme family TIM barrel fold GTN Reductase Xenobiotic degradation, OXIDORECCTASE
A0A0A0VDJ9_RHIRD
UNP
1
1
A0A0A0VDJ9
MTKTTLFQPTSLGAITLANRIVMAPLTRNRAGAGFVPGELTAGYYAQRASAGLIISEATQISQQGQGYQDTPGIYTQAQI
DGWKKVTAAVHKKGGRIVLQLWHVGRISHVNLQPNGGAPVAPSAIRAEVKTFVNNGFVDVSEPRALELEELAGIVDDFRK
AAANSIEAGFDGVEVHGANGYLLEQFAKDGANMRTDTYGGSVENRARLMLEVTAAVAQEIGPERTGIRISPVSPANGISC
SDPQTQYDYIVDKLDALGIAYIHVVEGATGGPRDVAPFDYGSLRRRFSRTYIANNGFDLELATSHLADGRADLIAFGRPF
IANPDLVERLQSGAPLAEVNAAKIFGGSAAGYTDYPRFSETTSDN
1
365
5EPD
1
365
A0A0A0VDJ9
A
1
21
385
1
initiating methionine
MET
-19
5EPD
A
A0A0A0VDJ9
UNP
1
1
expression tag
GLY
-18
5EPD
A
A0A0A0VDJ9
UNP
2
1
expression tag
SER
-17
5EPD
A
A0A0A0VDJ9
UNP
3
1
expression tag
SER
-16
5EPD
A
A0A0A0VDJ9
UNP
4
1
expression tag
HIS
-15
5EPD
A
A0A0A0VDJ9
UNP
5
1
expression tag
HIS
-14
5EPD
A
A0A0A0VDJ9
UNP
6
1
expression tag
HIS
-13
5EPD
A
A0A0A0VDJ9
UNP
7
1
expression tag
HIS
-12
5EPD
A
A0A0A0VDJ9
UNP
8
1
expression tag
HIS
-11
5EPD
A
A0A0A0VDJ9
UNP
9
1
expression tag
HIS
-10
5EPD
A
A0A0A0VDJ9
UNP
10
1
expression tag
SER
-9
5EPD
A
A0A0A0VDJ9
UNP
11
1
expression tag
SER
-8
5EPD
A
A0A0A0VDJ9
UNP
12
1
expression tag
GLY
-7
5EPD
A
A0A0A0VDJ9
UNP
13
1
expression tag
LEU
-6
5EPD
A
A0A0A0VDJ9
UNP
14
1
expression tag
VAL
-5
5EPD
A
A0A0A0VDJ9
UNP
15
1
expression tag
PRO
-4
5EPD
A
A0A0A0VDJ9
UNP
16
1
expression tag
ARG
-3
5EPD
A
A0A0A0VDJ9
UNP
17
1
expression tag
GLY
-2
5EPD
A
A0A0A0VDJ9
UNP
18
1
expression tag
SER
-1
5EPD
A
A0A0A0VDJ9
UNP
19
1
expression tag
HIS
0
5EPD
A
A0A0A0VDJ9
UNP
20
2
10
2
2
2
anti-parallel
parallel
parallel
parallel
parallel
parallel
parallel
parallel
parallel
parallel
anti-parallel
parallel
anti-parallel
A
THR
10
A
THR
30
A
SER
11
A
SER
31
A
THR
16
A
THR
36
A
LEU
17
A
LEU
37
A
THR
59
A
THR
79
A
GLN
60
A
GLN
80
A
ILE
97
A
ILE
117
A
TRP
102
A
TRP
122
A
VAL
173
A
VAL
193
A
HIS
176
A
HIS
196
A
THR
225
A
THR
245
A
ILE
229
A
ILE
249
A
TYR
261
A
TYR
281
A
VAL
265
A
VAL
285
A
THR
290
A
THR
310
A
ASN
294
A
ASN
314
A
LEU
313
A
LEU
333
A
PHE
316
A
PHE
336
A
ILE
21
A
ILE
41
A
MET
23
A
MET
43
A
LEU
53
A
LEU
73
A
ILE
55
A
ILE
75
A
ILE
97
A
ILE
117
A
TRP
102
A
TRP
122
A
ALA
31
A
ALA
51
A
GLY
32
A
GLY
52
A
VAL
36
A
VAL
56
A
PRO
37
A
PRO
57
A
VAL
120
A
VAL
140
A
ALA
121
A
ALA
141
A
ARG
144
A
ARG
164
A
ALA
145
A
ALA
165
A
LYS
130
A
LYS
150
A
VAL
133
A
VAL
153
A
GLY
136
A
GLY
156
A
ASP
139
A
ASP
159
19
P 21 21 21