0.009292
0.005365
0.000000
0.000000
0.010729
0.000000
0.000000
0.000000
0.011199
0.000000
0.000000
0.000000
Joint Center for Structural Genomics (JCSG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.000
90.000
120.000
107.621
107.621
89.296
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
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 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
O4 S -2
96.063
SULFATE ION
non-polymer
C4 H9 N O3
119.119
y
THREONINE
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 of putative membrane-associated protein of unknown function (YP_211325.1) from Bacteroides fragilis NCTC 9343 at 2.20 A resolution
10.2210/pdb3g3l/pdb
pdb_00003g3l
100
1
Flat collimating mirror, toroid focusing mirror
CCD
2008-12-07
MARMOSAIC 325 mm CCD
Double crystal monochromator
SINGLE WAVELENGTH
M
x-ray
1
0.97966
1.0
BL9-2
SSRL
0.97966
SYNCHROTRON
SSRL BEAMLINE BL9-2
34886.867
Putative uncharacterized membrane-associated protein
1
man
polymer
96.063
SULFATE ION
1
syn
non-polymer
92.094
GLYCEROL
9
syn
non-polymer
18.015
water
207
nat
water
no
yes
GAEVDQATKPAEAKYYIAGTITDATTGQELTTAKVTLGDKSVTSSFNEQVNYKAEGYALVVSADGYYPVKRQVYLNQVSD
GQTSVATVNVALVSVEAAVIPPVVPPTDPETDINEGEATKVADKAVEVAKPSESTVTD(MSE)LAGTTATPEEKKALDET
LE(MSE)AGG(MSE)KVGETTPEVLADGSILAITPVKFTNPIQDAPA(MSE)VPYFYNEGCELTGDVKEVAAPVTRADGA
VAADIQKAFLSNAAKALN(MSE)NAGFVQKIGYTRISVLNGYSILGYTIKGQLVSKKLTFLISGKYYEGIVSYQKSV
(MSE)IYPNYYSHDSHDSHDSHGFNPNAGGGSND
GAEVDQATKPAEAKYYIAGTITDATTGQELTTAKVTLGDKSVTSSFNEQVNYKAEGYALVVSADGYYPVKRQVYLNQVSD
GQTSVATVNVALVSVEAAVIPPVVPPTDPETDINEGEATKVADKAVEVAKPSESTVTDMLAGTTATPEEKKALDETLEMA
GGMKVGETTPEVLADGSILAITPVKFTNPIQDAPAMVPYFYNEGCELTGDVKEVAAPVTRADGAVAADIQKAFLSNAAKA
LNMNAGFVQKIGYTRISVLNGYSILGYTIKGQLVSKKLTFLISGKYYEGIVSYQKSVMIYPNYYSHDSHDSHDSHGFNPN
AGGGSND
A
393243
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
sample
BF1687, YP_211325.1
272559
Bacteroides fragilis NCTC 9343
562
Escherichia Coli
HK100
Plasmid
SpeedET
1
4.28
71.25
VAPOR DIFFUSION, SITTING DROP
5.0
1.6000M (NH4)2SO4, 0.1M Citrate pH 5.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
277
Joint Center for Structural Genomics
JCSG
PSI, Protein Structure Initiative
software
software
struct_conn
database_2
struct_ref_seq_dif
struct_site
repository
Initial release
Advisory
Version format compliance
Refinement description
Data collection
Derived calculations
Refinement description
Database references
Derived calculations
1
0
2009-02-24
1
1
2011-07-13
1
2
2017-11-01
1
3
2019-07-24
1
4
2023-02-01
_software.classification
_software.name
_software.classification
_software.contact_author
_software.contact_author_email
_software.language
_software.location
_software.name
_software.type
_software.version
_struct_conn.pdbx_leaving_atom_flag
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
RCSB
Y
RCSB
2009-02-02
REL
REL
SO4
SULFATE ION
GOL
GLYCEROL
HOH
water
SEQUENCE THIS CONSTRUCT (RESIDUE 33-358) WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE.
SO4
1
2
SO4
SO4
1
A
GOL
2
3
GOL
GOL
2
A
GOL
3
3
GOL
GOL
3
A
GOL
4
3
GOL
GOL
4
A
GOL
5
3
GOL
GOL
5
A
GOL
6
3
GOL
GOL
6
A
GOL
7
3
GOL
GOL
7
A
GOL
8
3
GOL
GOL
8
A
GOL
9
3
GOL
GOL
9
A
GOL
10
3
GOL
GOL
10
A
HOH
11
4
HOH
HOH
11
A
HOH
12
4
HOH
HOH
12
A
HOH
13
4
HOH
HOH
13
A
HOH
14
4
HOH
HOH
14
A
HOH
15
4
HOH
HOH
15
A
HOH
16
4
HOH
HOH
16
A
HOH
17
4
HOH
HOH
17
A
HOH
18
4
HOH
HOH
18
A
HOH
19
4
HOH
HOH
19
A
HOH
20
4
HOH
HOH
20
A
HOH
21
4
HOH
HOH
21
A
HOH
22
4
HOH
HOH
22
A
HOH
23
4
HOH
HOH
23
A
HOH
24
4
HOH
HOH
24
A
HOH
25
4
HOH
HOH
25
A
HOH
26
4
HOH
HOH
26
A
HOH
27
4
HOH
HOH
27
A
HOH
28
4
HOH
HOH
28
A
HOH
29
4
HOH
HOH
29
A
HOH
30
4
HOH
HOH
30
A
HOH
31
4
HOH
HOH
31
A
HOH
32
4
HOH
HOH
359
A
HOH
33
4
HOH
HOH
360
A
HOH
34
4
HOH
HOH
361
A
HOH
35
4
HOH
HOH
362
A
HOH
36
4
HOH
HOH
363
A
HOH
37
4
HOH
HOH
364
A
HOH
38
4
HOH
HOH
365
A
HOH
39
4
HOH
HOH
366
A
HOH
40
4
HOH
HOH
367
A
HOH
41
4
HOH
HOH
368
A
HOH
42
4
HOH
HOH
369
A
HOH
43
4
HOH
HOH
370
A
HOH
44
4
HOH
HOH
371
A
HOH
45
4
HOH
HOH
372
A
HOH
46
4
HOH
HOH
373
A
HOH
47
4
HOH
HOH
374
A
HOH
48
4
HOH
HOH
375
A
HOH
49
4
HOH
HOH
376
A
HOH
50
4
HOH
HOH
377
A
HOH
51
4
HOH
HOH
378
A
HOH
52
4
HOH
HOH
379
A
HOH
53
4
HOH
HOH
380
A
HOH
54
4
HOH
HOH
381
A
HOH
55
4
HOH
HOH
382
A
HOH
56
4
HOH
HOH
383
A
HOH
57
4
HOH
HOH
384
A
HOH
58
4
HOH
HOH
385
A
HOH
59
4
HOH
HOH
386
A
HOH
60
4
HOH
HOH
387
A
HOH
61
4
HOH
HOH
388
A
HOH
62
4
HOH
HOH
389
A
HOH
63
4
HOH
HOH
390
A
HOH
64
4
HOH
HOH
391
A
HOH
65
4
HOH
HOH
392
A
HOH
66
4
HOH
HOH
393
A
HOH
67
4
HOH
HOH
394
A
HOH
68
4
HOH
HOH
395
A
HOH
69
4
HOH
HOH
396
A
HOH
70
4
HOH
HOH
397
A
HOH
71
4
HOH
HOH
398
A
HOH
72
4
HOH
HOH
399
A
HOH
73
4
HOH
HOH
400
A
HOH
74
4
HOH
HOH
401
A
HOH
75
4
HOH
HOH
402
A
HOH
76
4
HOH
HOH
403
A
HOH
77
4
HOH
HOH
404
A
HOH
78
4
HOH
HOH
405
A
HOH
79
4
HOH
HOH
406
A
HOH
80
4
HOH
HOH
407
A
HOH
81
4
HOH
HOH
408
A
HOH
82
4
HOH
HOH
409
A
HOH
83
4
HOH
HOH
410
A
HOH
84
4
HOH
HOH
411
A
HOH
85
4
HOH
HOH
412
A
HOH
86
4
HOH
HOH
413
A
HOH
87
4
HOH
HOH
414
A
HOH
88
4
HOH
HOH
415
A
HOH
89
4
HOH
HOH
416
A
HOH
90
4
HOH
HOH
417
A
HOH
91
4
HOH
HOH
418
A
HOH
92
4
HOH
HOH
419
A
HOH
93
4
HOH
HOH
420
A
HOH
94
4
HOH
HOH
421
A
HOH
95
4
HOH
HOH
422
A
HOH
96
4
HOH
HOH
423
A
HOH
97
4
HOH
HOH
424
A
HOH
98
4
HOH
HOH
425
A
HOH
99
4
HOH
HOH
426
A
HOH
100
4
HOH
HOH
427
A
HOH
101
4
HOH
HOH
428
A
HOH
102
4
HOH
HOH
429
A
HOH
103
4
HOH
HOH
430
A
HOH
104
4
HOH
HOH
431
A
HOH
105
4
HOH
HOH
432
A
HOH
106
4
HOH
HOH
433
A
HOH
107
4
HOH
HOH
434
A
HOH
108
4
HOH
HOH
435
A
HOH
109
4
HOH
HOH
436
A
HOH
110
4
HOH
HOH
437
A
HOH
111
4
HOH
HOH
438
A
HOH
112
4
HOH
HOH
439
A
HOH
113
4
HOH
HOH
440
A
HOH
114
4
HOH
HOH
441
A
HOH
115
4
HOH
HOH
442
A
HOH
116
4
HOH
HOH
443
A
HOH
117
4
HOH
HOH
444
A
HOH
118
4
HOH
HOH
445
A
HOH
119
4
HOH
HOH
446
A
HOH
120
4
HOH
HOH
447
A
HOH
121
4
HOH
HOH
448
A
HOH
122
4
HOH
HOH
449
A
HOH
123
4
HOH
HOH
450
A
HOH
124
4
HOH
HOH
451
A
HOH
125
4
HOH
HOH
452
A
HOH
126
4
HOH
HOH
453
A
HOH
127
4
HOH
HOH
454
A
HOH
128
4
HOH
HOH
455
A
HOH
129
4
HOH
HOH
456
A
HOH
130
4
HOH
HOH
457
A
HOH
131
4
HOH
HOH
458
A
HOH
132
4
HOH
HOH
459
A
HOH
133
4
HOH
HOH
460
A
HOH
134
4
HOH
HOH
461
A
HOH
135
4
HOH
HOH
462
A
HOH
136
4
HOH
HOH
463
A
HOH
137
4
HOH
HOH
464
A
HOH
138
4
HOH
HOH
465
A
HOH
139
4
HOH
HOH
466
A
HOH
140
4
HOH
HOH
467
A
HOH
141
4
HOH
HOH
468
A
HOH
142
4
HOH
HOH
469
A
HOH
143
4
HOH
HOH
470
A
HOH
144
4
HOH
HOH
471
A
HOH
145
4
HOH
HOH
472
A
HOH
146
4
HOH
HOH
473
A
HOH
147
4
HOH
HOH
474
A
HOH
148
4
HOH
HOH
475
A
HOH
149
4
HOH
HOH
476
A
HOH
150
4
HOH
HOH
477
A
HOH
151
4
HOH
HOH
478
A
HOH
152
4
HOH
HOH
479
A
HOH
153
4
HOH
HOH
480
A
HOH
154
4
HOH
HOH
481
A
HOH
155
4
HOH
HOH
482
A
HOH
156
4
HOH
HOH
483
A
HOH
157
4
HOH
HOH
484
A
HOH
158
4
HOH
HOH
485
A
HOH
159
4
HOH
HOH
486
A
HOH
160
4
HOH
HOH
487
A
HOH
161
4
HOH
HOH
488
A
HOH
162
4
HOH
HOH
489
A
HOH
163
4
HOH
HOH
490
A
HOH
164
4
HOH
HOH
491
A
HOH
165
4
HOH
HOH
492
A
HOH
166
4
HOH
HOH
493
A
HOH
167
4
HOH
HOH
494
A
HOH
168
4
HOH
HOH
495
A
HOH
169
4
HOH
HOH
496
A
HOH
170
4
HOH
HOH
497
A
HOH
171
4
HOH
HOH
498
A
HOH
172
4
HOH
HOH
499
A
HOH
173
4
HOH
HOH
500
A
HOH
174
4
HOH
HOH
501
A
HOH
175
4
HOH
HOH
502
A
HOH
176
4
HOH
HOH
503
A
HOH
177
4
HOH
HOH
504
A
HOH
178
4
HOH
HOH
505
A
HOH
179
4
HOH
HOH
506
A
HOH
180
4
HOH
HOH
507
A
HOH
181
4
HOH
HOH
508
A
HOH
182
4
HOH
HOH
509
A
HOH
183
4
HOH
HOH
510
A
HOH
184
4
HOH
HOH
511
A
HOH
185
4
HOH
HOH
512
A
HOH
186
4
HOH
HOH
513
A
HOH
187
4
HOH
HOH
514
A
HOH
188
4
HOH
HOH
515
A
HOH
189
4
HOH
HOH
516
A
HOH
190
4
HOH
HOH
517
A
HOH
191
4
HOH
HOH
518
A
HOH
192
4
HOH
HOH
519
A
HOH
193
4
HOH
HOH
520
A
HOH
194
4
HOH
HOH
521
A
HOH
195
4
HOH
HOH
522
A
HOH
196
4
HOH
HOH
523
A
HOH
197
4
HOH
HOH
524
A
HOH
198
4
HOH
HOH
525
A
HOH
199
4
HOH
HOH
526
A
HOH
200
4
HOH
HOH
527
A
HOH
201
4
HOH
HOH
528
A
HOH
202
4
HOH
HOH
529
A
HOH
203
4
HOH
HOH
530
A
HOH
204
4
HOH
HOH
531
A
HOH
205
4
HOH
HOH
532
A
HOH
206
4
HOH
HOH
533
A
HOH
207
4
HOH
HOH
534
A
HOH
208
4
HOH
HOH
535
A
HOH
209
4
HOH
HOH
536
A
HOH
210
4
HOH
HOH
537
A
HOH
211
4
HOH
HOH
538
A
HOH
212
4
HOH
HOH
539
A
HOH
213
4
HOH
HOH
540
A
HOH
214
4
HOH
HOH
541
A
HOH
215
4
HOH
HOH
542
A
HOH
216
4
HOH
HOH
543
A
HOH
217
4
HOH
HOH
544
A
n
1
32
A
n
2
33
A
n
3
34
A
n
4
35
A
n
5
36
A
n
6
37
A
n
7
38
A
n
8
39
A
n
9
40
A
PRO
41
n
10
PRO
41
A
ALA
42
n
11
ALA
42
A
GLU
43
n
12
GLU
43
A
ALA
44
n
13
ALA
44
A
LYS
45
n
14
LYS
45
A
TYR
46
n
15
TYR
46
A
TYR
47
n
16
TYR
47
A
ILE
48
n
17
ILE
48
A
ALA
49
n
18
ALA
49
A
GLY
50
n
19
GLY
50
A
THR
51
n
20
THR
51
A
ILE
52
n
21
ILE
52
A
THR
53
n
22
THR
53
A
ASP
54
n
23
ASP
54
A
ALA
55
n
24
ALA
55
A
THR
56
n
25
THR
56
A
THR
57
n
26
THR
57
A
GLY
58
n
27
GLY
58
A
GLN
59
n
28
GLN
59
A
GLU
60
n
29
GLU
60
A
LEU
61
n
30
LEU
61
A
THR
62
n
31
THR
62
A
THR
63
n
32
THR
63
A
ALA
64
n
33
ALA
64
A
LYS
65
n
34
LYS
65
A
VAL
66
n
35
VAL
66
A
THR
67
n
36
THR
67
A
LEU
68
n
37
LEU
68
A
GLY
69
n
38
GLY
69
A
ASP
70
n
39
ASP
70
A
LYS
71
n
40
LYS
71
A
SER
72
n
41
SER
72
A
VAL
73
n
42
VAL
73
A
THR
74
n
43
THR
74
A
SER
75
n
44
SER
75
A
SER
76
n
45
SER
76
A
PHE
77
n
46
PHE
77
A
ASN
78
n
47
ASN
78
A
GLU
79
n
48
GLU
79
A
GLN
80
n
49
GLN
80
A
VAL
81
n
50
VAL
81
A
ASN
82
n
51
ASN
82
A
TYR
83
n
52
TYR
83
A
LYS
84
n
53
LYS
84
A
ALA
85
n
54
ALA
85
A
GLU
86
n
55
GLU
86
A
GLY
87
n
56
GLY
87
A
TYR
88
n
57
TYR
88
A
ALA
89
n
58
ALA
89
A
LEU
90
n
59
LEU
90
A
VAL
91
n
60
VAL
91
A
VAL
92
n
61
VAL
92
A
SER
93
n
62
SER
93
A
ALA
94
n
63
ALA
94
A
ASP
95
n
64
ASP
95
A
GLY
96
n
65
GLY
96
A
TYR
97
n
66
TYR
97
A
TYR
98
n
67
TYR
98
A
PRO
99
n
68
PRO
99
A
VAL
100
n
69
VAL
100
A
LYS
101
n
70
LYS
101
A
ARG
102
n
71
ARG
102
A
GLN
103
n
72
GLN
103
A
VAL
104
n
73
VAL
104
A
TYR
105
n
74
TYR
105
A
LEU
106
n
75
LEU
106
A
ASN
107
n
76
ASN
107
A
GLN
108
n
77
GLN
108
A
VAL
109
n
78
VAL
109
A
SER
110
n
79
SER
110
A
ASP
111
n
80
ASP
111
A
GLY
112
n
81
GLY
112
A
GLN
113
n
82
GLN
113
A
THR
114
n
83
THR
114
A
SER
115
n
84
SER
115
A
VAL
116
n
85
VAL
116
A
ALA
117
n
86
ALA
117
A
THR
118
n
87
THR
118
A
VAL
119
n
88
VAL
119
A
ASN
120
n
89
ASN
120
A
VAL
121
n
90
VAL
121
A
ALA
122
n
91
ALA
122
A
LEU
123
n
92
LEU
123
A
VAL
124
n
93
VAL
124
A
SER
125
n
94
SER
125
A
VAL
126
n
95
VAL
126
A
GLU
127
n
96
GLU
127
A
ALA
128
n
97
ALA
128
A
ALA
129
n
98
ALA
129
A
VAL
130
n
99
VAL
130
A
ILE
131
n
100
ILE
131
A
PRO
132
n
101
PRO
132
A
PRO
133
n
102
PRO
133
A
VAL
134
n
103
VAL
134
A
VAL
135
n
104
VAL
135
A
PRO
136
n
105
PRO
136
A
PRO
137
n
106
PRO
137
A
THR
138
n
107
THR
138
A
ASP
139
n
108
ASP
139
A
PRO
140
n
109
PRO
140
A
GLU
141
n
110
GLU
141
A
THR
142
n
111
THR
142
A
ASP
143
n
112
ASP
143
A
ILE
144
n
113
ILE
144
A
ASN
145
n
114
ASN
145
A
GLU
146
n
115
GLU
146
A
GLY
147
n
116
GLY
147
A
GLU
148
n
117
GLU
148
A
ALA
149
n
118
ALA
149
A
THR
150
n
119
THR
150
A
LYS
151
n
120
LYS
151
A
VAL
152
n
121
VAL
152
A
ALA
153
n
122
ALA
153
A
ASP
154
n
123
ASP
154
A
LYS
155
n
124
LYS
155
A
ALA
156
n
125
ALA
156
A
VAL
157
n
126
VAL
157
A
GLU
158
n
127
GLU
158
A
VAL
159
n
128
VAL
159
A
ALA
160
n
129
ALA
160
A
LYS
161
n
130
LYS
161
A
PRO
162
n
131
PRO
162
A
SER
163
n
132
SER
163
A
GLU
164
n
133
GLU
164
A
SER
165
n
134
SER
165
A
THR
166
n
135
THR
166
A
VAL
167
n
136
VAL
167
A
THR
168
n
137
THR
168
A
ASP
169
n
138
ASP
169
A
MSE
170
n
139
MSE
170
A
LEU
171
n
140
LEU
171
A
ALA
172
n
141
ALA
172
A
GLY
173
n
142
GLY
173
A
THR
174
n
143
THR
174
A
THR
175
n
144
THR
175
A
ALA
176
n
145
ALA
176
A
THR
177
n
146
THR
177
A
PRO
178
n
147
PRO
178
A
GLU
179
n
148
GLU
179
A
GLU
180
n
149
GLU
180
A
LYS
181
n
150
LYS
181
A
LYS
182
n
151
LYS
182
A
ALA
183
n
152
ALA
183
A
LEU
184
n
153
LEU
184
A
ASP
185
n
154
ASP
185
A
GLU
186
n
155
GLU
186
A
THR
187
n
156
THR
187
A
LEU
188
n
157
LEU
188
A
GLU
189
n
158
GLU
189
A
MSE
190
n
159
MSE
190
A
ALA
191
n
160
ALA
191
A
GLY
192
n
161
GLY
192
A
GLY
193
n
162
GLY
193
A
MSE
194
n
163
MSE
194
A
LYS
195
n
164
LYS
195
A
VAL
196
n
165
VAL
196
A
GLY
197
n
166
GLY
197
A
GLU
198
n
167
GLU
198
A
THR
199
n
168
THR
199
A
THR
200
n
169
THR
200
A
PRO
201
n
170
PRO
201
A
GLU
202
n
171
GLU
202
A
VAL
203
n
172
VAL
203
A
LEU
204
n
173
LEU
204
A
ALA
205
n
174
ALA
205
A
ASP
206
n
175
ASP
206
A
GLY
207
n
176
GLY
207
A
SER
208
n
177
SER
208
A
ILE
209
n
178
ILE
209
A
LEU
210
n
179
LEU
210
A
ALA
211
n
180
ALA
211
A
ILE
212
n
181
ILE
212
A
THR
213
n
182
THR
213
A
PRO
214
n
183
PRO
214
A
VAL
215
n
184
VAL
215
A
LYS
216
n
185
LYS
216
A
PHE
217
n
186
PHE
217
A
THR
218
n
187
THR
218
A
ASN
219
n
188
ASN
219
A
PRO
220
n
189
PRO
220
A
ILE
221
n
190
ILE
221
A
GLN
222
n
191
GLN
222
A
ASP
223
n
192
ASP
223
A
ALA
224
n
193
ALA
224
A
PRO
225
n
194
PRO
225
A
ALA
226
n
195
ALA
226
A
MSE
227
n
196
MSE
227
A
VAL
228
n
197
VAL
228
A
PRO
229
n
198
PRO
229
A
TYR
230
n
199
TYR
230
A
PHE
231
n
200
PHE
231
A
TYR
232
n
201
TYR
232
A
ASN
233
n
202
ASN
233
A
GLU
234
n
203
GLU
234
A
GLY
235
n
204
GLY
235
A
CYS
236
n
205
CYS
236
A
GLU
237
n
206
GLU
237
A
LEU
238
n
207
LEU
238
A
THR
239
n
208
THR
239
A
GLY
240
n
209
GLY
240
A
ASP
241
n
210
ASP
241
A
VAL
242
n
211
VAL
242
A
LYS
243
n
212
LYS
243
A
GLU
244
n
213
GLU
244
A
VAL
245
n
214
VAL
245
A
ALA
246
n
215
ALA
246
A
ALA
247
n
216
ALA
247
A
PRO
248
n
217
PRO
248
A
VAL
249
n
218
VAL
249
A
n
219
250
A
n
220
251
A
n
221
252
A
n
222
253
A
n
223
254
A
ALA
255
n
224
ALA
255
A
VAL
256
n
225
VAL
256
A
ALA
257
n
226
ALA
257
A
ALA
258
n
227
ALA
258
A
ASP
259
n
228
ASP
259
A
ILE
260
n
229
ILE
260
A
GLN
261
n
230
GLN
261
A
LYS
262
n
231
LYS
262
A
ALA
263
n
232
ALA
263
A
PHE
264
n
233
PHE
264
A
LEU
265
n
234
LEU
265
A
SER
266
n
235
SER
266
A
ASN
267
n
236
ASN
267
A
ALA
268
n
237
ALA
268
A
ALA
269
n
238
ALA
269
A
LYS
270
n
239
LYS
270
A
ALA
271
n
240
ALA
271
A
LEU
272
n
241
LEU
272
A
ASN
273
n
242
ASN
273
A
MSE
274
n
243
MSE
274
A
ASN
275
n
244
ASN
275
A
ALA
276
n
245
ALA
276
A
GLY
277
n
246
GLY
277
A
PHE
278
n
247
PHE
278
A
VAL
279
n
248
VAL
279
A
GLN
280
n
249
GLN
280
A
LYS
281
n
250
LYS
281
A
ILE
282
n
251
ILE
282
A
GLY
283
n
252
GLY
283
A
TYR
284
n
253
TYR
284
A
THR
285
n
254
THR
285
A
ARG
286
n
255
ARG
286
A
ILE
287
n
256
ILE
287
A
SER
288
n
257
SER
288
A
VAL
289
n
258
VAL
289
A
LEU
290
n
259
LEU
290
A
ASN
291
n
260
ASN
291
A
GLY
292
n
261
GLY
292
A
TYR
293
n
262
TYR
293
A
SER
294
n
263
SER
294
A
ILE
295
n
264
ILE
295
A
LEU
296
n
265
LEU
296
A
GLY
297
n
266
GLY
297
A
TYR
298
n
267
TYR
298
A
THR
299
n
268
THR
299
A
ILE
300
n
269
ILE
300
A
LYS
301
n
270
LYS
301
A
GLY
302
n
271
GLY
302
A
GLN
303
n
272
GLN
303
A
LEU
304
n
273
LEU
304
A
VAL
305
n
274
VAL
305
A
SER
306
n
275
SER
306
A
LYS
307
n
276
LYS
307
A
LYS
308
n
277
LYS
308
A
LEU
309
n
278
LEU
309
A
THR
310
n
279
THR
310
A
PHE
311
n
280
PHE
311
A
LEU
312
n
281
LEU
312
A
ILE
313
n
282
ILE
313
A
SER
314
n
283
SER
314
A
GLY
315
n
284
GLY
315
A
LYS
316
n
285
LYS
316
A
TYR
317
n
286
TYR
317
A
TYR
318
n
287
TYR
318
A
GLU
319
n
288
GLU
319
A
GLY
320
n
289
GLY
320
A
ILE
321
n
290
ILE
321
A
VAL
322
n
291
VAL
322
A
SER
323
n
292
SER
323
A
TYR
324
n
293
TYR
324
A
GLN
325
n
294
GLN
325
A
LYS
326
n
295
LYS
326
A
SER
327
n
296
SER
327
A
VAL
328
n
297
VAL
328
A
MSE
329
n
298
MSE
329
A
ILE
330
n
299
ILE
330
A
TYR
331
n
300
TYR
331
A
PRO
332
n
301
PRO
332
A
ASN
333
n
302
ASN
333
A
TYR
334
n
303
TYR
334
A
TYR
335
n
304
TYR
335
A
SER
336
n
305
SER
336
A
n
306
337
A
n
307
338
A
n
308
339
A
n
309
340
A
n
310
341
A
n
311
342
A
n
312
343
A
n
313
344
A
n
314
345
A
n
315
346
A
n
316
347
A
n
317
348
A
n
318
349
A
n
319
350
A
n
320
351
A
n
321
352
A
n
322
353
A
n
323
354
A
n
324
355
A
n
325
356
A
n
326
357
A
n
327
358
A
1.4293
0.1002
0.5113
0.6958
0.1650
1.3668
-0.0369
0.0492
-0.1218
0.0687
0.0488
-0.0310
0.0831
0.1321
-0.0119
0.0382
0.0268
0.0238
0.0333
0.0048
0.0340
refined
9.5350
50.6490
12.0620
X-RAY DIFFRACTION
A
41
A
249
X-RAY DIFFRACTION
1
A
255
A
336
X-RAY DIFFRACTION
1
author_and_software_defined_assembly
PISA
1
monomeric
A
MSE
170
SELENOMETHIONINE
A
MSE
139
MET
A
MSE
190
SELENOMETHIONINE
A
MSE
159
MET
A
MSE
194
SELENOMETHIONINE
A
MSE
163
MET
A
MSE
227
SELENOMETHIONINE
A
MSE
196
MET
A
MSE
274
SELENOMETHIONINE
A
MSE
243
MET
A
MSE
329
SELENOMETHIONINE
A
MSE
298
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
1
A
CD
ARG
286
A
CD
ARG
255
1
Y
1
A
NE
ARG
286
A
NE
ARG
255
1
Y
1
A
CZ
ARG
286
A
CZ
ARG
255
1
Y
1
A
NH1
ARG
286
A
NH1
ARG
255
1
Y
1
A
NH2
ARG
286
A
NH2
ARG
255
1
Y
1
A
GLY
32
A
GLY
1
1
Y
1
A
ALA
33
A
ALA
2
1
Y
1
A
GLU
34
A
GLU
3
1
Y
1
A
VAL
35
A
VAL
4
1
Y
1
A
ASP
36
A
ASP
5
1
Y
1
A
GLN
37
A
GLN
6
1
Y
1
A
ALA
38
A
ALA
7
1
Y
1
A
THR
39
A
THR
8
1
Y
1
A
LYS
40
A
LYS
9
1
Y
1
A
THR
250
A
THR
219
1
Y
1
A
ARG
251
A
ARG
220
1
Y
1
A
ALA
252
A
ALA
221
1
Y
1
A
ASP
253
A
ASP
222
1
Y
1
A
GLY
254
A
GLY
223
1
Y
1
A
HIS
337
A
HIS
306
1
Y
1
A
ASP
338
A
ASP
307
1
Y
1
A
SER
339
A
SER
308
1
Y
1
A
HIS
340
A
HIS
309
1
Y
1
A
ASP
341
A
ASP
310
1
Y
1
A
SER
342
A
SER
311
1
Y
1
A
HIS
343
A
HIS
312
1
Y
1
A
ASP
344
A
ASP
313
1
Y
1
A
SER
345
A
SER
314
1
Y
1
A
HIS
346
A
HIS
315
1
Y
1
A
GLY
347
A
GLY
316
1
Y
1
A
PHE
348
A
PHE
317
1
Y
1
A
ASN
349
A
ASN
318
1
Y
1
A
PRO
350
A
PRO
319
1
Y
1
A
ASN
351
A
ASN
320
1
Y
1
A
ALA
352
A
ALA
321
1
Y
1
A
GLY
353
A
GLY
322
1
Y
1
A
GLY
354
A
GLY
323
1
Y
1
A
GLY
355
A
GLY
324
1
Y
1
A
SER
356
A
SER
325
1
Y
1
A
ASN
357
A
ASN
326
1
Y
1
A
ASP
358
A
ASP
327
1
Y
1
A
A
CB
SG
CYS
CYS
236
236
-0.100
0.016
1.812
1.712
N
101.42
45.235
22.91
1.400
0.700
0.000
1.400
0.000
-2.100
0.964
0.946
1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. GLYCEROL AND SULFATE HAVE BEEN MODELED FROM CRYO/CRYSTALLIZATION CONDITIONS.
0.206
0.170
0.172
2.200
29.761
1548
30702
5.000
99.940
1.00
0.50
8.219
0.092
RANDOM
LIKELY RESIDUAL
1
THROUGHOUT
0.00
SAD
0.136
0.134
0.800
0.800
1.400
MAXIMUM LIKELIHOOD WITH PHASES
BABINET MODEL WITH MASK
2.200
29.761
207
2436
59
0
2170
0.016
0.022
2281
0.004
0.020
1477
1.745
1.995
3101
1.217
3.000
3675
4.112
5.000
297
34.656
26.867
83
10.069
15.000
366
5.727
15.000
1
0.102
0.200
367
0.007
0.021
2489
0.002
0.020
384
1.148
2.000
1460
0.198
2.000
593
2.348
4.000
2371
4.528
6.000
821
6.790
8.000
726
0.286
0.256
2.257
116
2118
2234
20
100.000
37.005
2.20
29.761
3G3L
30727
0.134
0.134
1
11.8
7.400
100.000
0.931
2.20
2.26
2.2
16668
2235
0.931
1
7.50
100.00
0.862
2.26
2.32
2.4
16293
2186
0.862
1
7.50
100.00
0.725
2.32
2.39
2.8
16003
2145
0.725
1
7.50
100.00
0.632
2.39
2.46
3.2
15506
2071
0.632
1
7.50
100.00
0.507
2.46
2.54
4.0
14984
2002
0.507
1
7.50
100.00
0.427
2.54
2.63
4.7
14424
1933
0.427
1
7.50
100.00
0.344
2.63
2.73
5.8
14058
1878
0.344
1
7.50
100.00
0.266
2.73
2.84
7.1
13627
1826
0.266
1
7.50
100.00
0.206
2.84
2.97
9.2
13060
1747
0.206
1
7.50
100.00
0.170
2.97
3.11
11.3
12368
1660
0.170
1
7.50
100.00
0.138
3.11
3.28
13.9
11833
1586
0.138
1
7.50
100.00
0.104
3.28
3.48
18.0
11138
1497
0.104
1
7.40
100.00
0.085
3.48
3.72
21.3
10538
1420
0.085
1
7.40
100.00
0.074
3.72
4.02
23.8
9721
1311
0.074
1
7.40
100.00
0.067
4.02
4.40
26.8
9061
1229
0.067
1
7.40
100.00
0.060
4.40
4.92
29.3
8198
1116
0.060
1
7.30
100.00
0.069
4.92
5.68
28.4
7151
985
0.069
1
7.30
100.00
0.075
5.68
6.96
27.9
6067
848
0.075
1
7.20
100.00
0.056
6.96
9.84
33.7
4700
673
0.056
1
7.00
100.00
0.055
9.84
29.76
33.8
2377
379
0.055
1
6.30
96.50
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
5.5.0053
refinement
P.D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
phasing
George M. Sheldrick
gsheldr@shelx.uni-ac.gwdg.de
Fortran_77
http://shelx.uni-ac.gwdg.de/SHELX/
SHELX
package
model building
D.C. & J.S. Richardson lab
molprobity@kinemage.biochem.duke.edu
http://kinemage.biochem.duke.edu/molprobity/
MolProbity
package
3beta29
data scaling
Phil R. Evans
pre@mrc-lmb.cam.ac.uk
5/04/2004
Fortran_77
http://www.ccp4.ac.uk/dist/html/scala.html
SCALA
other
3.2.5
data extraction
PDB
help@deposit.rcsb.org
June 11, 2008
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.006
data reduction
MOSFLM
phasing
SHELXD
phasing
autoSHARP
Crystal structure of putative membrane-associated protein of unknown function (YP_211325.1) from Bacteroides fragilis NCTC 9343 at 2.20 A resolution
1
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
4
N
N
CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A
MONOMER AS THE SIGNIFICANT OLIGOMERIZATION STATE.
A
ASP
139
A
ASP
108
HELX_P
A
ASP
143
A
ASP
112
5
1
5
A
ASN
145
A
ASN
114
HELX_P
A
LYS
161
A
LYS
130
1
2
17
A
SER
163
A
SER
132
HELX_P
A
GLY
173
A
GLY
142
1
3
11
A
THR
177
A
THR
146
HELX_P
A
GLY
192
A
GLY
161
1
4
16
A
ALA
257
A
ALA
226
HELX_P
A
ASN
273
A
ASN
242
1
5
17
covale
1.340
both
A
ASP
169
A
C
ASP
138
1_555
A
MSE
170
A
N
MSE
139
1_555
covale
1.330
both
A
MSE
170
A
C
MSE
139
1_555
A
LEU
171
A
N
LEU
140
1_555
covale
1.333
both
A
GLU
189
A
C
GLU
158
1_555
A
MSE
190
A
N
MSE
159
1_555
covale
1.325
both
A
MSE
190
A
C
MSE
159
1_555
A
ALA
191
A
N
ALA
160
1_555
covale
1.330
both
A
GLY
193
A
C
GLY
162
1_555
A
MSE
194
A
N
MSE
163
1_555
covale
1.324
both
A
MSE
194
A
C
MSE
163
1_555
A
LYS
195
A
N
LYS
164
1_555
covale
1.329
both
A
ALA
226
A
C
ALA
195
1_555
A
MSE
227
A
N
MSE
196
1_555
covale
1.338
both
A
MSE
227
A
C
MSE
196
1_555
A
VAL
228
A
N
VAL
197
1_555
covale
1.319
both
A
ASN
273
A
C
ASN
242
1_555
A
MSE
274
A
N
MSE
243
1_555
covale
1.334
both
A
MSE
274
A
C
MSE
243
1_555
A
ASN
275
A
N
ASN
244
1_555
covale
1.330
both
A
VAL
328
A
C
VAL
297
1_555
A
MSE
329
A
N
MSE
298
1_555
covale
1.336
both
A
MSE
329
A
C
MSE
298
1_555
A
ILE
330
A
N
ILE
299
1_555
structural genomics, unknown function
YP_211325.1, putative membrane-associated protein of unknown function, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, unknown function
Q5LER3_BACFN
UNP
1
33
Q5LER3
AEVDQATKPAEAKYYIAGTITDATTGQELTTAKVTLGDKSVTSSFNEQVNYKAEGYALVVSADGYYPVKRQVYLNQVSDG
QTSVATVNVALVSVEAAVIPPVVPPTDPETDINEGEATKVADKAVEVAKPSESTVTDMLAGTTATPEEKKALDETLEMAG
GMKVGETTPEVLADGSILAITPVKFTNPIQDAPAMVPYFYNEGCELTGDVKEVAAPVTRADGAVAADIQKAFLSNAAKAL
NMNAGFVQKIGYTRISVLNGYSILGYTIKGQLVSKKLTFLISGKYYEGIVSYQKSVMIYPNYYSHDSHDSHDSHGFNPNA
GGGSND
33
358
3G3L
33
358
Q5LER3
A
1
2
327
1
expression tag
GLY
32
3G3L
A
Q5LER3
UNP
1
BINDING SITE FOR RESIDUE SO4 A 1
A
SO4
1
Software
3
BINDING SITE FOR RESIDUE GOL A 2
A
GOL
2
Software
3
BINDING SITE FOR RESIDUE GOL A 3
A
GOL
3
Software
3
BINDING SITE FOR RESIDUE GOL A 4
A
GOL
4
Software
5
BINDING SITE FOR RESIDUE GOL A 5
A
GOL
5
Software
3
BINDING SITE FOR RESIDUE GOL A 6
A
GOL
6
Software
6
BINDING SITE FOR RESIDUE GOL A 7
A
GOL
7
Software
6
BINDING SITE FOR RESIDUE GOL A 8
A
GOL
8
Software
7
BINDING SITE FOR RESIDUE GOL A 9
A
GOL
9
Software
8
BINDING SITE FOR RESIDUE GOL A 10
A
GOL
10
Software
7
A
SER
163
A
SER
132
3
1_555
A
GLU
164
A
GLU
133
3
1_555
A
HOH
511
L
HOH
3
1_555
A
GLN
80
A
GLN
49
3
1_555
A
VAL
81
A
VAL
50
3
1_555
A
ASN
82
A
ASN
51
3
1_555
A
LEU
68
A
LEU
37
3
1_555
A
ASP
70
A
ASP
39
3
1_555
A
LYS
71
A
LYS
40
3
1_555
A
GLY
96
A
GLY
65
5
1_555
A
TYR
97
A
TYR
66
5
1_555
A
SER
125
A
SER
94
5
1_555
A
GLU
127
A
GLU
96
5
1_555
A
HOH
397
L
HOH
5
1_555
A
VAL
159
A
VAL
128
3
1_555
A
LYS
161
A
LYS
130
3
1_555
A
GLU
237
A
GLU
206
3
1_555
A
LYS
155
A
LYS
124
6
1_555
A
LEU
238
A
LEU
207
6
1_555
A
GLY
240
A
GLY
209
6
1_555
A
ASP
241
A
ASP
210
6
1_555
A
GLN
261
A
GLN
230
6
1_555
A
HOH
541
L
HOH
6
1_555
A
VAL
215
A
VAL
184
6
1_555
A
GLY
297
A
GLY
266
6
1_555
A
TYR
298
A
TYR
267
6
1_555
A
THR
299
A
THR
268
6
1_555
A
ASN
333
A
ASN
302
6
1_555
A
HOH
527
L
HOH
6
1_555
A
ASP
143
A
ASP
112
7
1_555
A
ILE
144
A
ILE
113
7
1_555
A
ASP
206
A
ASP
175
7
1_555
A
GLY
207
A
GLY
176
7
1_555
A
SER
208
A
SER
177
7
1_555
A
VAL
305
A
VAL
274
7
1_555
A
SER
306
A
SER
275
7
1_555
A
ASP
223
A
ASP
192
8
5_565
A
ALA
224
A
ALA
193
8
5_565
A
GLU
244
A
GLU
213
8
1_555
A
VAL
245
A
VAL
214
8
1_555
A
ALA
246
A
ALA
215
8
1_555
A
ALA
247
A
ALA
216
8
1_555
A
TYR
317
A
TYR
286
8
1_555
A
HOH
461
L
HOH
8
1_555
A
ALA
55
A
ALA
24
7
1_555
A
THR
57
A
THR
26
7
1_555
A
GLY
58
A
GLY
27
7
1_555
A
ASN
275
A
ASN
244
7
1_555
A
ALA
276
A
ALA
245
7
1_555
A
HOH
439
L
HOH
7
1_555
A
HOH
542
L
HOH
7
1_555
154
P 32 2 1