0.009532
0.000000
0.001478
0.000000
0.013447
0.000000
0.000000
0.000000
0.025700
0.00000
0.00000
0.00000
Kim, Y.
Skarina, T.
Beasley, S.
Laskowski, R.
Arrowsmith, C.H.
Joachimiak, A.
Edwards, A.M.
Savchenko, A.
Midwest Center for Structural Genomics (MCSG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
98.81
90.00
104.907
74.368
39.376
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
C H2 O2
46.025
FORMIC ACID
non-polymer
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
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
non-polymer
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
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
US
Proteins
PSFGEY
0867
0887-3585
48
427
430
10.1002/prot.10160
12112708
Crystal structure of Escherichia coli EC1530, a glyoxylate induced protein YgbM.
2002
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
150
1
mirror
CCD
2001-05-18
SBC-2
double crystal monochromater Si-111
MAD
M
x-ray
1
0.97946
1.0
0.97957
1.0
0.93927
1.0
19-ID
APS
0.97946, 0.97957, 0.93927
SYNCHROTRON
APS BEAMLINE 19-ID
29580.629
Hypothetical protein ygbM
1
man
polymer
24.305
MAGNESIUM ION
2
syn
non-polymer
92.094
GLYCEROL
2
syn
non-polymer
46.025
FORMIC ACID
1
syn
non-polymer
18.015
water
272
nat
water
EC1530
no
yes
(MSE)PRFAANLS(MSE)(MSE)FTEVPFIERFAAARKAGFDAVEFLFPYNYSTLQIQKQLEQNHLTLALFNTAPGDINA
GEWGLSALPGREHEAHADIDLALEYALALNCEQVHV(MSE)AGVVPAGEDAERYRAVFIDNIRYAADRFAPHGKRILVEA
LSPGVKPHYLFSSQYQALAIVEEVARDNVFIQLDTFHAQKVDGNLTHLIRDYAGKYAHVQIAGLPDRHEPDDGEINYPWL
FRLFDEVGYQGWIGCEYKPRGLTEEGLGWFDAWRGS
MPRFAANLSMMFTEVPFIERFAAARKAGFDAVEFLFPYNYSTLQIQKQLEQNHLTLALFNTAPGDINAGEWGLSALPGRE
HEAHADIDLALEYALALNCEQVHVMAGVVPAGEDAERYRAVFIDNIRYAADRFAPHGKRILVEALSPGVKPHYLFSSQYQ
ALAIVEEVARDNVFIQLDTFHAQKVDGNLTHLIRDYAGKYAHVQIAGLPDRHEPDDGEINYPWLFRLFDEVGYQGWIGCE
YKPRGLTEEGLGWFDAWRGS
A
APC066
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
Escherichia
Escherichia
sample
562
Escherichia coli
562
Escherichia coli
1
2.56
52.04
VAPOR DIFFUSION, HANGING DROP
7.5
magnesium formate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
Midwest Center for Structural Genomics
MCSG
PSI, Protein Structure Initiative
repository
Initial release
Version format compliance
Non-polymer description
Version format compliance
1
0
2002-03-13
1
1
2008-04-27
1
2
2011-07-13
Y
RCSB
Y
RCSB
2001-10-18
REL
REL
MG
MAGNESIUM ION
GOL
GLYCEROL
FMT
FORMIC ACID
HOH
water
MG
300
2
MG
MG
300
A
MG
301
2
MG
MG
301
A
GOL
302
3
GOL
GOL
302
A
GOL
303
3
GOL
GOL
303
A
FMT
304
4
FMT
FMT
304
A
HOH
1
5
HOH
HOH
305
A
HOH
2
5
HOH
HOH
306
A
HOH
3
5
HOH
HOH
307
A
HOH
4
5
HOH
HOH
308
A
HOH
5
5
HOH
HOH
309
A
HOH
6
5
HOH
HOH
310
A
HOH
7
5
HOH
HOH
311
A
HOH
8
5
HOH
HOH
312
A
HOH
9
5
HOH
HOH
313
A
HOH
10
5
HOH
HOH
314
A
HOH
11
5
HOH
HOH
315
A
HOH
12
5
HOH
HOH
316
A
HOH
13
5
HOH
HOH
317
A
HOH
14
5
HOH
HOH
318
A
HOH
15
5
HOH
HOH
319
A
HOH
16
5
HOH
HOH
320
A
HOH
17
5
HOH
HOH
321
A
HOH
18
5
HOH
HOH
322
A
HOH
19
5
HOH
HOH
323
A
HOH
20
5
HOH
HOH
324
A
HOH
21
5
HOH
HOH
325
A
HOH
22
5
HOH
HOH
326
A
HOH
23
5
HOH
HOH
327
A
HOH
24
5
HOH
HOH
328
A
HOH
25
5
HOH
HOH
329
A
HOH
26
5
HOH
HOH
330
A
HOH
27
5
HOH
HOH
331
A
HOH
28
5
HOH
HOH
332
A
HOH
29
5
HOH
HOH
333
A
HOH
30
5
HOH
HOH
334
A
HOH
31
5
HOH
HOH
335
A
HOH
32
5
HOH
HOH
336
A
HOH
33
5
HOH
HOH
337
A
HOH
34
5
HOH
HOH
338
A
HOH
35
5
HOH
HOH
339
A
HOH
36
5
HOH
HOH
340
A
HOH
37
5
HOH
HOH
341
A
HOH
38
5
HOH
HOH
342
A
HOH
39
5
HOH
HOH
343
A
HOH
40
5
HOH
HOH
344
A
HOH
41
5
HOH
HOH
345
A
HOH
42
5
HOH
HOH
346
A
HOH
43
5
HOH
HOH
347
A
HOH
44
5
HOH
HOH
348
A
HOH
45
5
HOH
HOH
349
A
HOH
46
5
HOH
HOH
350
A
HOH
47
5
HOH
HOH
351
A
HOH
48
5
HOH
HOH
352
A
HOH
49
5
HOH
HOH
353
A
HOH
50
5
HOH
HOH
354
A
HOH
51
5
HOH
HOH
355
A
HOH
52
5
HOH
HOH
356
A
HOH
53
5
HOH
HOH
357
A
HOH
54
5
HOH
HOH
358
A
HOH
55
5
HOH
HOH
359
A
HOH
56
5
HOH
HOH
360
A
HOH
57
5
HOH
HOH
361
A
HOH
58
5
HOH
HOH
362
A
HOH
59
5
HOH
HOH
363
A
HOH
60
5
HOH
HOH
364
A
HOH
61
5
HOH
HOH
365
A
HOH
62
5
HOH
HOH
366
A
HOH
63
5
HOH
HOH
367
A
HOH
64
5
HOH
HOH
368
A
HOH
65
5
HOH
HOH
369
A
HOH
66
5
HOH
HOH
370
A
HOH
67
5
HOH
HOH
371
A
HOH
68
5
HOH
HOH
372
A
HOH
69
5
HOH
HOH
373
A
HOH
70
5
HOH
HOH
374
A
HOH
71
5
HOH
HOH
375
A
HOH
72
5
HOH
HOH
376
A
HOH
73
5
HOH
HOH
377
A
HOH
74
5
HOH
HOH
378
A
HOH
75
5
HOH
HOH
379
A
HOH
76
5
HOH
HOH
380
A
HOH
77
5
HOH
HOH
381
A
HOH
78
5
HOH
HOH
382
A
HOH
79
5
HOH
HOH
383
A
HOH
80
5
HOH
HOH
384
A
HOH
81
5
HOH
HOH
385
A
HOH
82
5
HOH
HOH
386
A
HOH
83
5
HOH
HOH
387
A
HOH
84
5
HOH
HOH
388
A
HOH
85
5
HOH
HOH
389
A
HOH
86
5
HOH
HOH
390
A
HOH
87
5
HOH
HOH
391
A
HOH
88
5
HOH
HOH
392
A
HOH
89
5
HOH
HOH
393
A
HOH
90
5
HOH
HOH
394
A
HOH
91
5
HOH
HOH
395
A
HOH
92
5
HOH
HOH
396
A
HOH
93
5
HOH
HOH
397
A
HOH
94
5
HOH
HOH
398
A
HOH
95
5
HOH
HOH
399
A
HOH
96
5
HOH
HOH
400
A
HOH
97
5
HOH
HOH
401
A
HOH
98
5
HOH
HOH
402
A
HOH
99
5
HOH
HOH
403
A
HOH
100
5
HOH
HOH
404
A
HOH
101
5
HOH
HOH
405
A
HOH
102
5
HOH
HOH
406
A
HOH
103
5
HOH
HOH
407
A
HOH
104
5
HOH
HOH
408
A
HOH
105
5
HOH
HOH
409
A
HOH
106
5
HOH
HOH
410
A
HOH
107
5
HOH
HOH
411
A
HOH
108
5
HOH
HOH
412
A
HOH
109
5
HOH
HOH
413
A
HOH
110
5
HOH
HOH
414
A
HOH
111
5
HOH
HOH
415
A
HOH
112
5
HOH
HOH
416
A
HOH
113
5
HOH
HOH
417
A
HOH
114
5
HOH
HOH
418
A
HOH
115
5
HOH
HOH
419
A
HOH
116
5
HOH
HOH
420
A
HOH
117
5
HOH
HOH
421
A
HOH
118
5
HOH
HOH
422
A
HOH
119
5
HOH
HOH
423
A
HOH
120
5
HOH
HOH
424
A
HOH
121
5
HOH
HOH
425
A
HOH
122
5
HOH
HOH
426
A
HOH
123
5
HOH
HOH
427
A
HOH
124
5
HOH
HOH
428
A
HOH
125
5
HOH
HOH
429
A
HOH
126
5
HOH
HOH
430
A
HOH
127
5
HOH
HOH
431
A
HOH
128
5
HOH
HOH
432
A
HOH
129
5
HOH
HOH
433
A
HOH
130
5
HOH
HOH
434
A
HOH
131
5
HOH
HOH
435
A
HOH
132
5
HOH
HOH
436
A
HOH
133
5
HOH
HOH
437
A
HOH
134
5
HOH
HOH
438
A
HOH
135
5
HOH
HOH
439
A
HOH
136
5
HOH
HOH
440
A
HOH
137
5
HOH
HOH
441
A
HOH
138
5
HOH
HOH
442
A
HOH
139
5
HOH
HOH
443
A
HOH
140
5
HOH
HOH
444
A
HOH
141
5
HOH
HOH
445
A
HOH
142
5
HOH
HOH
446
A
HOH
143
5
HOH
HOH
447
A
HOH
144
5
HOH
HOH
448
A
HOH
145
5
HOH
HOH
449
A
HOH
146
5
HOH
HOH
450
A
HOH
147
5
HOH
HOH
451
A
HOH
148
5
HOH
HOH
452
A
HOH
149
5
HOH
HOH
453
A
HOH
150
5
HOH
HOH
454
A
HOH
151
5
HOH
HOH
455
A
HOH
152
5
HOH
HOH
456
A
HOH
153
5
HOH
HOH
457
A
HOH
154
5
HOH
HOH
458
A
HOH
155
5
HOH
HOH
459
A
HOH
156
5
HOH
HOH
460
A
HOH
157
5
HOH
HOH
461
A
HOH
158
5
HOH
HOH
462
A
HOH
159
5
HOH
HOH
463
A
HOH
160
5
HOH
HOH
464
A
HOH
161
5
HOH
HOH
465
A
HOH
162
5
HOH
HOH
466
A
HOH
163
5
HOH
HOH
467
A
HOH
164
5
HOH
HOH
468
A
HOH
165
5
HOH
HOH
469
A
HOH
166
5
HOH
HOH
470
A
HOH
167
5
HOH
HOH
471
A
HOH
168
5
HOH
HOH
472
A
HOH
169
5
HOH
HOH
473
A
HOH
170
5
HOH
HOH
474
A
HOH
171
5
HOH
HOH
475
A
HOH
172
5
HOH
HOH
476
A
HOH
173
5
HOH
HOH
477
A
HOH
174
5
HOH
HOH
478
A
HOH
175
5
HOH
HOH
479
A
HOH
176
5
HOH
HOH
480
A
HOH
177
5
HOH
HOH
481
A
HOH
178
5
HOH
HOH
482
A
HOH
179
5
HOH
HOH
483
A
HOH
180
5
HOH
HOH
484
A
HOH
181
5
HOH
HOH
485
A
HOH
182
5
HOH
HOH
486
A
HOH
183
5
HOH
HOH
487
A
HOH
184
5
HOH
HOH
488
A
HOH
185
5
HOH
HOH
489
A
HOH
186
5
HOH
HOH
490
A
HOH
187
5
HOH
HOH
491
A
HOH
189
5
HOH
HOH
492
A
HOH
190
5
HOH
HOH
493
A
HOH
191
5
HOH
HOH
494
A
HOH
192
5
HOH
HOH
495
A
HOH
193
5
HOH
HOH
496
A
HOH
194
5
HOH
HOH
497
A
HOH
195
5
HOH
HOH
498
A
HOH
196
5
HOH
HOH
499
A
HOH
197
5
HOH
HOH
500
A
HOH
198
5
HOH
HOH
501
A
HOH
199
5
HOH
HOH
502
A
HOH
200
5
HOH
HOH
503
A
HOH
201
5
HOH
HOH
504
A
HOH
202
5
HOH
HOH
505
A
HOH
203
5
HOH
HOH
506
A
HOH
204
5
HOH
HOH
507
A
HOH
205
5
HOH
HOH
508
A
HOH
206
5
HOH
HOH
509
A
HOH
207
5
HOH
HOH
510
A
HOH
208
5
HOH
HOH
511
A
HOH
209
5
HOH
HOH
512
A
HOH
210
5
HOH
HOH
513
A
HOH
211
5
HOH
HOH
514
A
HOH
212
5
HOH
HOH
515
A
HOH
213
5
HOH
HOH
516
A
HOH
214
5
HOH
HOH
517
A
HOH
215
5
HOH
HOH
518
A
HOH
216
5
HOH
HOH
519
A
HOH
217
5
HOH
HOH
520
A
HOH
218
5
HOH
HOH
521
A
HOH
219
5
HOH
HOH
522
A
HOH
220
5
HOH
HOH
523
A
HOH
221
5
HOH
HOH
524
A
HOH
222
5
HOH
HOH
525
A
HOH
223
5
HOH
HOH
526
A
HOH
224
5
HOH
HOH
527
A
HOH
225
5
HOH
HOH
528
A
HOH
226
5
HOH
HOH
529
A
HOH
227
5
HOH
HOH
530
A
HOH
228
5
HOH
HOH
531
A
HOH
229
5
HOH
HOH
532
A
HOH
230
5
HOH
HOH
533
A
HOH
231
5
HOH
HOH
534
A
HOH
232
5
HOH
HOH
535
A
HOH
233
5
HOH
HOH
536
A
HOH
234
5
HOH
HOH
537
A
HOH
235
5
HOH
HOH
538
A
HOH
236
5
HOH
HOH
539
A
HOH
237
5
HOH
HOH
540
A
HOH
238
5
HOH
HOH
541
A
HOH
239
5
HOH
HOH
542
A
HOH
240
5
HOH
HOH
543
A
HOH
241
5
HOH
HOH
544
A
HOH
242
5
HOH
HOH
545
A
HOH
243
5
HOH
HOH
546
A
HOH
244
5
HOH
HOH
547
A
HOH
245
5
HOH
HOH
548
A
HOH
246
5
HOH
HOH
549
A
HOH
247
5
HOH
HOH
550
A
HOH
248
5
HOH
HOH
551
A
HOH
249
5
HOH
HOH
552
A
HOH
250
5
HOH
HOH
553
A
HOH
251
5
HOH
HOH
554
A
HOH
252
5
HOH
HOH
555
A
HOH
253
5
HOH
HOH
556
A
HOH
254
5
HOH
HOH
557
A
HOH
255
5
HOH
HOH
558
A
HOH
256
5
HOH
HOH
559
A
HOH
257
5
HOH
HOH
560
A
HOH
258
5
HOH
HOH
561
A
HOH
259
5
HOH
HOH
562
A
HOH
260
5
HOH
HOH
563
A
HOH
261
5
HOH
HOH
564
A
HOH
262
5
HOH
HOH
565
A
HOH
263
5
HOH
HOH
566
A
HOH
264
5
HOH
HOH
567
A
HOH
265
5
HOH
HOH
568
A
HOH
266
5
HOH
HOH
569
A
HOH
267
5
HOH
HOH
570
A
HOH
268
5
HOH
HOH
571
A
HOH
269
5
HOH
HOH
572
A
HOH
270
5
HOH
HOH
573
A
HOH
271
5
HOH
HOH
574
A
HOH
272
5
HOH
HOH
575
A
HOH
273
5
HOH
HOH
576
A
MSE
1
n
1
MSE
1
A
PRO
2
n
2
PRO
2
A
ARG
3
n
3
ARG
3
A
PHE
4
n
4
PHE
4
A
ALA
5
n
5
ALA
5
A
ALA
6
n
6
ALA
6
A
ASN
7
n
7
ASN
7
A
LEU
8
n
8
LEU
8
A
SER
9
n
9
SER
9
A
MSE
10
n
10
MSE
10
A
MSE
11
n
11
MSE
11
A
PHE
12
n
12
PHE
12
A
THR
13
n
13
THR
13
A
GLU
14
n
14
GLU
14
A
VAL
15
n
15
VAL
15
A
PRO
16
n
16
PRO
16
A
PHE
17
n
17
PHE
17
A
ILE
18
n
18
ILE
18
A
GLU
19
n
19
GLU
19
A
ARG
20
n
20
ARG
20
A
PHE
21
n
21
PHE
21
A
ALA
22
n
22
ALA
22
A
ALA
23
n
23
ALA
23
A
ALA
24
n
24
ALA
24
A
ARG
25
n
25
ARG
25
A
LYS
26
n
26
LYS
26
A
ALA
27
n
27
ALA
27
A
GLY
28
n
28
GLY
28
A
PHE
29
n
29
PHE
29
A
ASP
30
n
30
ASP
30
A
ALA
31
n
31
ALA
31
A
VAL
32
n
32
VAL
32
A
GLU
33
n
33
GLU
33
A
PHE
34
n
34
PHE
34
A
LEU
35
n
35
LEU
35
A
PHE
36
n
36
PHE
36
A
PRO
37
n
37
PRO
37
A
TYR
38
n
38
TYR
38
A
ASN
39
n
39
ASN
39
A
TYR
40
n
40
TYR
40
A
SER
41
n
41
SER
41
A
THR
42
n
42
THR
42
A
LEU
43
n
43
LEU
43
A
GLN
44
n
44
GLN
44
A
ILE
45
n
45
ILE
45
A
GLN
46
n
46
GLN
46
A
LYS
47
n
47
LYS
47
A
GLN
48
n
48
GLN
48
A
LEU
49
n
49
LEU
49
A
GLU
50
n
50
GLU
50
A
GLN
51
n
51
GLN
51
A
ASN
52
n
52
ASN
52
A
HIS
53
n
53
HIS
53
A
LEU
54
n
54
LEU
54
A
THR
55
n
55
THR
55
A
LEU
56
n
56
LEU
56
A
ALA
57
n
57
ALA
57
A
LEU
58
n
58
LEU
58
A
PHE
59
n
59
PHE
59
A
ASN
60
n
60
ASN
60
A
THR
61
n
61
THR
61
A
ALA
62
n
62
ALA
62
A
PRO
63
n
63
PRO
63
A
GLY
64
n
64
GLY
64
A
ASP
65
n
65
ASP
65
A
ILE
66
n
66
ILE
66
A
ASN
67
n
67
ASN
67
A
ALA
68
n
68
ALA
68
A
GLY
69
n
69
GLY
69
A
GLU
70
n
70
GLU
70
A
TRP
71
n
71
TRP
71
A
GLY
72
n
72
GLY
72
A
LEU
73
n
73
LEU
73
A
SER
74
n
74
SER
74
A
ALA
75
n
75
ALA
75
A
LEU
76
n
76
LEU
76
A
PRO
77
n
77
PRO
77
A
GLY
78
n
78
GLY
78
A
ARG
79
n
79
ARG
79
A
GLU
80
n
80
GLU
80
A
HIS
81
n
81
HIS
81
A
GLU
82
n
82
GLU
82
A
ALA
83
n
83
ALA
83
A
HIS
84
n
84
HIS
84
A
ALA
85
n
85
ALA
85
A
ASP
86
n
86
ASP
86
A
ILE
87
n
87
ILE
87
A
ASP
88
n
88
ASP
88
A
LEU
89
n
89
LEU
89
A
ALA
90
n
90
ALA
90
A
LEU
91
n
91
LEU
91
A
GLU
92
n
92
GLU
92
A
TYR
93
n
93
TYR
93
A
ALA
94
n
94
ALA
94
A
LEU
95
n
95
LEU
95
A
ALA
96
n
96
ALA
96
A
LEU
97
n
97
LEU
97
A
ASN
98
n
98
ASN
98
A
CYS
99
n
99
CYS
99
A
GLU
100
n
100
GLU
100
A
GLN
101
n
101
GLN
101
A
VAL
102
n
102
VAL
102
A
HIS
103
n
103
HIS
103
A
VAL
104
n
104
VAL
104
A
MSE
105
n
105
MSE
105
A
ALA
106
n
106
ALA
106
A
GLY
107
n
107
GLY
107
A
VAL
108
n
108
VAL
108
A
VAL
109
n
109
VAL
109
A
PRO
110
n
110
PRO
110
A
ALA
111
n
111
ALA
111
A
GLY
112
n
112
GLY
112
A
GLU
113
n
113
GLU
113
A
ASP
114
n
114
ASP
114
A
ALA
115
n
115
ALA
115
A
GLU
116
n
116
GLU
116
A
ARG
117
n
117
ARG
117
A
TYR
118
n
118
TYR
118
A
ARG
119
n
119
ARG
119
A
ALA
120
n
120
ALA
120
A
VAL
121
n
121
VAL
121
A
PHE
122
n
122
PHE
122
A
ILE
123
n
123
ILE
123
A
ASP
124
n
124
ASP
124
A
ASN
125
n
125
ASN
125
A
ILE
126
n
126
ILE
126
A
ARG
127
n
127
ARG
127
A
TYR
128
n
128
TYR
128
A
ALA
129
n
129
ALA
129
A
ALA
130
n
130
ALA
130
A
ASP
131
n
131
ASP
131
A
ARG
132
n
132
ARG
132
A
PHE
133
n
133
PHE
133
A
ALA
134
n
134
ALA
134
A
PRO
135
n
135
PRO
135
A
HIS
136
n
136
HIS
136
A
GLY
137
n
137
GLY
137
A
LYS
138
n
138
LYS
138
A
ARG
139
n
139
ARG
139
A
ILE
140
n
140
ILE
140
A
LEU
141
n
141
LEU
141
A
VAL
142
n
142
VAL
142
A
GLU
143
n
143
GLU
143
A
ALA
144
n
144
ALA
144
A
LEU
145
n
145
LEU
145
A
SER
146
n
146
SER
146
A
PRO
147
n
147
PRO
147
A
GLY
148
n
148
GLY
148
A
VAL
149
n
149
VAL
149
A
LYS
150
n
150
LYS
150
A
PRO
151
n
151
PRO
151
A
HIS
152
n
152
HIS
152
A
TYR
153
n
153
TYR
153
A
LEU
154
n
154
LEU
154
A
PHE
155
n
155
PHE
155
A
SER
156
n
156
SER
156
A
SER
157
n
157
SER
157
A
GLN
158
n
158
GLN
158
A
TYR
159
n
159
TYR
159
A
GLN
160
n
160
GLN
160
A
ALA
161
n
161
ALA
161
A
LEU
162
n
162
LEU
162
A
ALA
163
n
163
ALA
163
A
ILE
164
n
164
ILE
164
A
VAL
165
n
165
VAL
165
A
GLU
166
n
166
GLU
166
A
GLU
167
n
167
GLU
167
A
VAL
168
n
168
VAL
168
A
ALA
169
n
169
ALA
169
A
ARG
170
n
170
ARG
170
A
ASP
171
n
171
ASP
171
A
ASN
172
n
172
ASN
172
A
VAL
173
n
173
VAL
173
A
PHE
174
n
174
PHE
174
A
ILE
175
n
175
ILE
175
A
GLN
176
n
176
GLN
176
A
LEU
177
n
177
LEU
177
A
ASP
178
n
178
ASP
178
A
THR
179
n
179
THR
179
A
PHE
180
n
180
PHE
180
A
HIS
181
n
181
HIS
181
A
ALA
182
n
182
ALA
182
A
GLN
183
n
183
GLN
183
A
LYS
184
n
184
LYS
184
A
VAL
185
n
185
VAL
185
A
ASP
186
n
186
ASP
186
A
GLY
187
n
187
GLY
187
A
ASN
188
n
188
ASN
188
A
LEU
189
n
189
LEU
189
A
THR
190
n
190
THR
190
A
HIS
191
n
191
HIS
191
A
LEU
192
n
192
LEU
192
A
ILE
193
n
193
ILE
193
A
ARG
194
n
194
ARG
194
A
ASP
195
n
195
ASP
195
A
TYR
196
n
196
TYR
196
A
ALA
197
n
197
ALA
197
A
GLY
198
n
198
GLY
198
A
LYS
199
n
199
LYS
199
A
TYR
200
n
200
TYR
200
A
ALA
201
n
201
ALA
201
A
HIS
202
n
202
HIS
202
A
VAL
203
n
203
VAL
203
A
GLN
204
n
204
GLN
204
A
ILE
205
n
205
ILE
205
A
ALA
206
n
206
ALA
206
A
GLY
207
n
207
GLY
207
A
LEU
208
n
208
LEU
208
A
PRO
209
n
209
PRO
209
A
ASP
210
n
210
ASP
210
A
ARG
211
n
211
ARG
211
A
HIS
212
n
212
HIS
212
A
GLU
213
n
213
GLU
213
A
PRO
214
n
214
PRO
214
A
ASP
215
n
215
ASP
215
A
ASP
216
n
216
ASP
216
A
GLY
217
n
217
GLY
217
A
GLU
218
n
218
GLU
218
A
ILE
219
n
219
ILE
219
A
ASN
220
n
220
ASN
220
A
TYR
221
n
221
TYR
221
A
PRO
222
n
222
PRO
222
A
TRP
223
n
223
TRP
223
A
LEU
224
n
224
LEU
224
A
PHE
225
n
225
PHE
225
A
ARG
226
n
226
ARG
226
A
LEU
227
n
227
LEU
227
A
PHE
228
n
228
PHE
228
A
ASP
229
n
229
ASP
229
A
GLU
230
n
230
GLU
230
A
VAL
231
n
231
VAL
231
A
GLY
232
n
232
GLY
232
A
TYR
233
n
233
TYR
233
A
GLN
234
n
234
GLN
234
A
GLY
235
n
235
GLY
235
A
TRP
236
n
236
TRP
236
A
ILE
237
n
237
ILE
237
A
GLY
238
n
238
GLY
238
A
CYS
239
n
239
CYS
239
A
GLU
240
n
240
GLU
240
A
TYR
241
n
241
TYR
241
A
LYS
242
n
242
LYS
242
A
PRO
243
n
243
PRO
243
A
ARG
244
n
244
ARG
244
A
GLY
245
n
245
GLY
245
A
LEU
246
n
246
LEU
246
A
THR
247
n
247
THR
247
A
GLU
248
n
248
GLU
248
A
GLU
249
n
249
GLU
249
A
GLY
250
n
250
GLY
250
A
LEU
251
n
251
LEU
251
A
GLY
252
n
252
GLY
252
A
TRP
253
n
253
TRP
253
A
PHE
254
n
254
PHE
254
A
ASP
255
n
255
ASP
255
A
ALA
256
n
256
ALA
256
A
TRP
257
n
257
TRP
257
A
ARG
258
n
258
ARG
258
A
GLY
259
n
259
GLY
259
A
SER
260
n
260
SER
260
A
author_defined_assembly
1
monomeric
A
GLU
240
A
OE1
GLU
240
1_555
A
MG
300
B
MG
MG
1_555
A
FMT
304
F
O2
FMT
1_555
92.1
A
GLU
240
A
OE1
GLU
240
1_555
A
MG
300
B
MG
MG
1_555
A
ASP
178
A
OD2
ASP
178
1_555
88.8
A
FMT
304
F
O2
FMT
1_555
A
MG
300
B
MG
MG
1_555
A
ASP
178
A
OD2
ASP
178
1_555
89.1
A
GLU
240
A
OE1
GLU
240
1_555
A
MG
300
B
MG
MG
1_555
A
GLN
204
A
OE1
GLN
204
1_555
89.4
A
FMT
304
F
O2
FMT
1_555
A
MG
300
B
MG
MG
1_555
A
GLN
204
A
OE1
GLN
204
1_555
178.2
A
ASP
178
A
OD2
ASP
178
1_555
A
MG
300
B
MG
MG
1_555
A
GLN
204
A
OE1
GLN
204
1_555
92.0
A
GLU
240
A
OE1
GLU
240
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
469
G
O
HOH
1_555
84.2
A
FMT
304
F
O2
FMT
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
469
G
O
HOH
1_555
90.0
A
ASP
178
A
OD2
ASP
178
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
469
G
O
HOH
1_555
172.9
A
GLN
204
A
OE1
GLN
204
1_555
A
MG
300
B
MG
MG
1_555
A
HOH
469
G
O
HOH
1_555
89.1
A
GLU
240
A
OE1
GLU
240
1_555
A
MG
300
B
MG
MG
1_555
A
GLU
143
A
OE2
GLU
143
1_555
171.1
A
FMT
304
F
O2
FMT
1_555
A
MG
300
B
MG
MG
1_555
A
GLU
143
A
OE2
GLU
143
1_555
93.9
A
ASP
178
A
OD2
ASP
178
1_555
A
MG
300
B
MG
MG
1_555
A
GLU
143
A
OE2
GLU
143
1_555
97.9
A
GLN
204
A
OE1
GLN
204
1_555
A
MG
300
B
MG
MG
1_555
A
GLU
143
A
OE2
GLU
143
1_555
84.5
A
HOH
469
G
O
HOH
1_555
A
MG
300
B
MG
MG
1_555
A
GLU
143
A
OE2
GLU
143
1_555
89.2
A
HOH
326
G
O
HOH
1_555
A
MG
301
C
MG
MG
1_555
A
VAL
185
A
O
VAL
185
1_555
88.9
A
HOH
326
G
O
HOH
1_555
A
MG
301
C
MG
MG
1_555
A
VAL
185
A
O
VAL
185
2_556
104.3
A
VAL
185
A
O
VAL
185
1_555
A
MG
301
C
MG
MG
1_555
A
VAL
185
A
O
VAL
185
2_556
146.5
A
HOH
326
G
O
HOH
1_555
A
MG
301
C
MG
MG
1_555
A
HOH
326
G
O
HOH
2_556
133.4
A
VAL
185
A
O
VAL
185
1_555
A
MG
301
C
MG
MG
1_555
A
HOH
326
G
O
HOH
2_556
104.1
A
VAL
185
A
O
VAL
185
2_556
A
MG
301
C
MG
MG
1_555
A
HOH
326
G
O
HOH
2_556
89.2
A
MSE
1
SELENOMETHIONINE
A
MSE
1
MET
A
MSE
10
SELENOMETHIONINE
A
MSE
10
MET
A
MSE
11
SELENOMETHIONINE
A
MSE
11
MET
A
MSE
105
SELENOMETHIONINE
A
MSE
105
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
N
ALA
6
A
N
ALA
6
A
O
ALA
31
A
O
ALA
31
A
N
VAL
32
A
N
VAL
32
A
O
ALA
57
A
O
ALA
57
A
N
PHE
59
A
N
PHE
59
A
O
HIS
103
A
O
HIS
103
A
N
VAL
102
A
N
VAL
102
A
O
LEU
141
A
O
LEU
141
A
N
VAL
142
A
N
VAL
142
A
O
GLN
176
A
O
GLN
176
A
N
LEU
177
A
N
LEU
177
A
O
HIS
202
A
O
HIS
202
A
N
VAL
203
A
N
VAL
203
A
O
GLY
238
A
O
GLY
238
A
O
CYS
239
A
O
CYS
239
A
N
ALA
5
A
N
ALA
5
1
A
MG
301
C
MG
1
A
TRP
71
-150.16
57.47
1
A
ALA
106
-87.28
-87.84
1
A
HIS
212
-106.13
-155.40
PROTEIN_REP.PARAM
PROTEIN.TOP
GOL.PARAM
WATER.TOP
WATER_REP.PARAM
GOL.TOP
ION.PARAM
FOM.TOP
18.7
-1.85
0.00
-0.80
-1.21
0.00
3.06
0.2140000
0.004
0.1940000
0.1957000
0.1957000
1.63
38.91
3439
35189
35189
9.8
94.1
RANDOM
432306.02
0.000000
1
RESTRAINED
THROUGHOUT
0.0
MAD
Engh & Huber
FLAT MODEL
57.5044
0.388004
0.20
0.18
5.00
0.10
0.09
1.63
38.91
272
2370
17
0
2081
0.005
1.2
21.9
0.84
1.15
1.50
1.84
2.00
2.02
2.00
2.72
2.50
0.2680000
0.013
0.2630000
1.73
409
4024
6
9.2
71.2
17.3
1.63
39
1K77
35621
35621
0.0
0.0
0.0720000
1
7.1
7.5
95.7
0.2660000
1.63
1.69
2.7
1
70.8
data collection
d*treck/HKL2000
data reduction
HKL-2000
refinement
CNS
data reduction
d*TREK
data scaling
HKL-2000
phasing
CNS
Hypothetical protein ygbM
Crystal Structure of EC1530, a Putative Oxygenase from Escherichia coli
1
N
N
2
N
N
2
N
N
3
N
N
3
N
N
4
N
N
5
N
N
A
PRO
16
A
PRO
16
HELX_P
A
ILE
18
A
ILE
18
5
1
3
A
GLU
19
A
GLU
19
HELX_P
A
GLY
28
A
GLY
28
1
2
10
A
SER
41
A
SER
41
HELX_P
A
ASN
52
A
ASN
52
1
3
12
A
ASP
65
A
ASP
65
HELX_P
A
GLY
69
A
GLY
69
5
4
5
A
ARG
79
A
ARG
79
HELX_P
A
LEU
97
A
LEU
97
1
5
19
A
ASP
114
A
ASP
114
HELX_P
A
ALA
134
A
ALA
134
1
6
21
A
PRO
135
A
PRO
135
HELX_P
A
GLY
137
A
GLY
137
5
7
3
A
SER
157
A
SER
157
HELX_P
A
ALA
169
A
ALA
169
1
8
13
A
THR
179
A
THR
179
HELX_P
A
ASP
186
A
ASP
186
1
9
8
A
ASN
188
A
ASN
188
HELX_P
A
TYR
196
A
TYR
196
1
10
9
A
ASN
220
A
ASN
220
HELX_P
A
VAL
231
A
VAL
231
1
11
12
A
THR
247
A
THR
247
HELX_P
A
GLY
250
A
GLY
250
5
12
4
A
LEU
251
A
LEU
251
HELX_P
A
SER
260
A
SER
260
1
13
10
covale
1.347
A
MSE
1
A
C
MSE
1
1_555
A
PRO
2
A
N
PRO
2
1_555
covale
1.331
A
SER
9
A
C
SER
9
1_555
A
MSE
10
A
N
MSE
10
1_555
covale
1.328
A
MSE
10
A
C
MSE
10
1_555
A
MSE
11
A
N
MSE
11
1_555
covale
1.332
A
MSE
11
A
C
MSE
11
1_555
A
PHE
12
A
N
PHE
12
1_555
covale
1.330
A
VAL
104
A
C
VAL
104
1_555
A
MSE
105
A
N
MSE
105
1_555
covale
1.328
A
MSE
105
A
C
MSE
105
1_555
A
ALA
106
A
N
ALA
106
1_555
metalc
2.152
A
MG
300
B
MG
MG
1_555
A
GLU
240
A
OE1
GLU
240
1_555
metalc
2.158
A
MG
300
B
MG
MG
1_555
A
FMT
304
F
O2
FMT
1_555
metalc
2.145
A
MG
300
B
MG
MG
1_555
A
ASP
178
A
OD2
ASP
178
1_555
metalc
2.203
A
MG
300
B
MG
MG
1_555
A
GLN
204
A
OE1
GLN
204
1_555
metalc
2.269
A
MG
300
B
MG
MG
1_555
A
HOH
469
G
O
HOH
1_555
metalc
2.112
A
MG
300
B
MG
MG
1_555
A
GLU
143
A
OE2
GLU
143
1_555
metalc
3.007
A
MG
301
C
MG
MG
1_555
A
HOH
326
G
O
HOH
1_555
metalc
2.815
A
MG
301
C
MG
MG
1_555
A
VAL
185
A
O
VAL
185
1_555
metalc
2.803
A
MG
301
C
MG
MG
1_555
A
VAL
185
A
O
VAL
185
2_556
metalc
3.002
A
MG
301
C
MG
MG
1_555
A
HOH
326
G
O
HOH
2_556
STRUCTURAL GENOMICS, UNKNOWN FUNCTION
TIM Barrel, Hypothetical Protein, STRUCTURAL GENOMICS, PSI, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, UNKNOWN FUNCTION
A
MSE
1
A
MSE
1
1
A
PRO
2
A
PRO
2
-0.06
A
LEU
208
A
LEU
208
1
A
PRO
209
A
PRO
209
0.45
YGBM_ECOLI
UNP
1
1
Q46891
MPRFAANLSMMFTEVPFIERFAAARKAGFDAVEFLFPYNYSTLQIQKQLEQNHLTLALFNTAPGDINAGEWGLSALPGRE
HEAHADIDLALEYALALNCEQVHVMAGVVPAGEDAERYRAVFIDNIRYAADRFAPHGKRILVEALSPGVKPHYLFSSQYQ
ALAIVEEVARDNVFIQLDTFHAQKVDGNLTHLIRDYAGKYAHVQIAGLPDRHEPDDGEINYPWLFRLFDEVGYQGWIGCE
YKPRGLTEEGLGWFDAWR
1
258
1K77
1
258
Q46891
A
1
1
258
1
MET
MODIFIED RESIDUE
MSE
1
1K77
A
Q46891
UNP
1
1
1
MET
MODIFIED RESIDUE
MSE
10
1K77
A
Q46891
UNP
10
10
1
MET
MODIFIED RESIDUE
MSE
11
1K77
A
Q46891
UNP
11
11
1
MET
MODIFIED RESIDUE
MSE
105
1K77
A
Q46891
UNP
105
105
1
CLONING ARTIFACT
GLY
259
1K77
A
Q46891
UNP
259
1
CLONING ARTIFACT
SER
260
1K77
A
Q46891
UNP
260
9
parallel
parallel
parallel
parallel
parallel
parallel
parallel
parallel
A
PHE
4
A
PHE
4
A
ASN
7
A
ASN
7
A
ALA
31
A
ALA
31
A
GLU
33
A
GLU
33
A
THR
55
A
THR
55
A
ASN
60
A
ASN
60
A
GLN
101
A
GLN
101
A
HIS
103
A
HIS
103
A
ARG
139
A
ARG
139
A
VAL
142
A
VAL
142
A
VAL
173
A
VAL
173
A
ASP
178
A
ASP
178
A
TYR
200
A
TYR
200
A
ILE
205
A
ILE
205
A
ILE
237
A
ILE
237
A
CYS
239
A
CYS
239
A
PHE
4
A
PHE
4
A
ASN
7
A
ASN
7
BINDING SITE FOR RESIDUE MG A 300
Software
6
BINDING SITE FOR RESIDUE MG A 301
Software
6
BINDING SITE FOR RESIDUE GOL A 302
Software
5
BINDING SITE FOR RESIDUE GOL A 303
Software
10
BINDING SITE FOR RESIDUE FMT A 304
Software
8
A
GLU
143
A
GLU
143
6
1_555
A
ASP
178
A
ASP
178
6
1_555
A
GLN
204
A
GLN
204
6
1_555
A
GLU
240
A
GLU
240
6
1_555
A
FMT
304
F
FMT
6
1_555
A
HOH
469
G
HOH
6
1_555
A
VAL
185
A
VAL
185
6
1_555
A
VAL
185
A
VAL
185
6
2_556
A
ASP
186
A
ASP
186
6
2_556
A
ASP
186
A
ASP
186
6
1_555
A
HOH
326
G
HOH
6
1_555
A
HOH
326
G
HOH
6
2_556
A
PRO
2
A
PRO
2
5
1_555
A
PHE
4
A
PHE
4
5
1_555
A
PHE
29
A
PHE
29
5
1_555
A
ASP
30
A
ASP
30
5
1_555
A
HOH
433
G
HOH
5
1_555
A
SER
9
A
SER
9
10
1_555
A
PHE
17
A
PHE
17
10
1_555
A
ARG
20
A
ARG
20
10
1_555
A
LEU
35
A
LEU
35
10
1_555
A
PHE
36
A
PHE
36
10
1_555
A
TYR
40
A
TYR
40
10
1_555
A
HOH
407
G
HOH
10
1_555
A
HOH
454
G
HOH
10
1_555
A
HOH
529
G
HOH
10
1_555
A
HOH
560
G
HOH
10
1_555
A
GLU
143
A
GLU
143
8
1_555
A
VAL
149
A
VAL
149
8
1_555
A
ASP
178
A
ASP
178
8
1_555
A
HIS
181
A
HIS
181
8
1_555
A
ARG
211
A
ARG
211
8
1_555
A
GLU
240
A
GLU
240
8
1_555
A
MG
300
B
MG
8
1_555
A
HOH
446
G
HOH
8
1_555
5
C 1 2 1