0.006727
0.000000
0.000982
0.000000
0.011885
0.000000
0.000000
0.000000
0.019057
0.000000
0.000000
0.000000
Joint Center for Structural Genomics (JCSG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.000
98.310
90.000
148.653
84.139
53.031
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
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 of a hypothetical protein (RUMGNA_01148) from Ruminococcus gnavus ATCC 29149 at 2.55 A resolution
10.2210/pdb4gl6/pdb
pdb_00004gl6
100
1
double crystal monochromator
CCD
2012-05-03
MARMOSAIC 325 mm CCD
double crystal
MAD
M
x-ray
1
0.91162
1.0
0.97922
1.0
BL9-2
SSRL
0.91162,0.97922
SYNCHROTRON
SSRL BEAMLINE BL9-2
28976.992
hypothetical protein
2
man
polymer
92.094
GLYCEROL
3
syn
non-polymer
18.015
water
26
nat
water
no
yes
GHENEISIKIETYLQEEYGEEFEVLSWNQPKLLPSDNGAIYATCISKNDPKHPFEGSYFNPEEPNSEIEIIYDGYGQRLL
AKQ(MSE)ES(MSE)IEEAISQAAENYYIQGDIIIPEEWQDIPVEEISQWKNYVDLCNQSNSDYKTLGSAWVYIDAST
(MSE)KGKTDEEEYQ(MSE)YEEVYRDKLGGQALLYVYYLDHKSFEKAEKILEIFTSGDEGSNFEDIIEGQPYFGTI
(MSE)RYGSDKFDDNLEIFKAAKQGKEQEKYQ
GHENEISIKIETYLQEEYGEEFEVLSWNQPKLLPSDNGAIYATCISKNDPKHPFEGSYFNPEEPNSEIEIIYDGYGQRLL
AKQMESMIEEAISQAAENYYIQGDIIIPEEWQDIPVEEISQWKNYVDLCNQSNSDYKTLGSAWVYIDASTMKGKTDEEEY
QMYEEVYRDKLGGQALLYVYYLDHKSFEKAEKILEIFTSGDEGSNFEDIIEGQPYFGTIMRYGSDKFDDNLEIFKAAKQG
KEQEKYQ
A,B
JCSG-417402
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
ATCC 29149
sample
RUMGNA_01148
411470
Ruminococcus gnavus
562
Escherichia Coli
PB1
Plasmid
SpeedET
1
2.83
56.56
VAPOR DIFFUSION, SITTING DROP
6.5
0.08M sodium cacodylate pH 6.5, 20% glycerol, 16% polyethylene glycol 8000, 0.16M magnesium acetate, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
293
Joint Center for Structural Genomics
JCSG
PSI:Biology
reflns_shell
software
citation_author
database_2
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Structure summary
Data collection
Refinement description
Database references
Database references
Derived calculations
1
0
2012-10-03
1
1
2014-12-24
1
2
2017-10-11
1
3
2018-01-24
1
4
2023-02-01
_reflns_shell.percent_possible_all
_software.classification
_software.name
_citation_author.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_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
2012-08-13
REL
REL
GOL
GLYCEROL
HOH
water
THIS CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY RESIDUES 25-270 OF THE TARGET SEQUENCE.
GOL
301
2
GOL
GOL
301
A
GOL
302
2
GOL
GOL
302
A
GOL
300
2
GOL
GOL
300
B
HOH
305
3
HOH
HOH
401
A
HOH
308
3
HOH
HOH
402
A
HOH
309
3
HOH
HOH
403
A
HOH
310
3
HOH
HOH
404
A
HOH
315
3
HOH
HOH
405
A
HOH
318
3
HOH
HOH
406
A
HOH
319
3
HOH
HOH
407
A
HOH
321
3
HOH
HOH
408
A
HOH
325
3
HOH
HOH
409
A
HOH
326
3
HOH
HOH
410
A
HOH
327
3
HOH
HOH
411
A
HOH
328
3
HOH
HOH
412
A
HOH
303
3
HOH
HOH
401
B
HOH
304
3
HOH
HOH
402
B
HOH
306
3
HOH
HOH
403
B
HOH
307
3
HOH
HOH
404
B
HOH
311
3
HOH
HOH
405
B
HOH
312
3
HOH
HOH
406
B
HOH
313
3
HOH
HOH
407
B
HOH
314
3
HOH
HOH
408
B
HOH
316
3
HOH
HOH
409
B
HOH
317
3
HOH
HOH
410
B
HOH
320
3
HOH
HOH
411
B
HOH
322
3
HOH
HOH
412
B
HOH
323
3
HOH
HOH
413
B
HOH
324
3
HOH
HOH
414
B
n
1
0
A
n
2
25
A
n
3
26
A
n
4
27
A
GLU
28
n
5
GLU
28
A
ILE
29
n
6
ILE
29
A
SER
30
n
7
SER
30
A
ILE
31
n
8
ILE
31
A
LYS
32
n
9
LYS
32
A
ILE
33
n
10
ILE
33
A
GLU
34
n
11
GLU
34
A
THR
35
n
12
THR
35
A
TYR
36
n
13
TYR
36
A
LEU
37
n
14
LEU
37
A
GLN
38
n
15
GLN
38
A
GLU
39
n
16
GLU
39
A
GLU
40
n
17
GLU
40
A
TYR
41
n
18
TYR
41
A
GLY
42
n
19
GLY
42
A
GLU
43
n
20
GLU
43
A
GLU
44
n
21
GLU
44
A
PHE
45
n
22
PHE
45
A
GLU
46
n
23
GLU
46
A
VAL
47
n
24
VAL
47
A
LEU
48
n
25
LEU
48
A
SER
49
n
26
SER
49
A
TRP
50
n
27
TRP
50
A
ASN
51
n
28
ASN
51
A
GLN
52
n
29
GLN
52
A
PRO
53
n
30
PRO
53
A
LYS
54
n
31
LYS
54
A
LEU
55
n
32
LEU
55
A
LEU
56
n
33
LEU
56
A
PRO
57
n
34
PRO
57
A
SER
58
n
35
SER
58
A
ASP
59
n
36
ASP
59
A
ASN
60
n
37
ASN
60
A
GLY
61
n
38
GLY
61
A
ALA
62
n
39
ALA
62
A
ILE
63
n
40
ILE
63
A
TYR
64
n
41
TYR
64
A
ALA
65
n
42
ALA
65
A
THR
66
n
43
THR
66
A
CYS
67
n
44
CYS
67
A
ILE
68
n
45
ILE
68
A
SER
69
n
46
SER
69
A
LYS
70
n
47
LYS
70
A
ASN
71
n
48
ASN
71
A
ASP
72
n
49
ASP
72
A
PRO
73
n
50
PRO
73
A
LYS
74
n
51
LYS
74
A
HIS
75
n
52
HIS
75
A
PRO
76
n
53
PRO
76
A
PHE
77
n
54
PHE
77
A
GLU
78
n
55
GLU
78
A
GLY
79
n
56
GLY
79
A
SER
80
n
57
SER
80
A
TYR
81
n
58
TYR
81
A
PHE
82
n
59
PHE
82
A
ASN
83
n
60
ASN
83
A
PRO
84
n
61
PRO
84
A
GLU
85
n
62
GLU
85
A
GLU
86
n
63
GLU
86
A
PRO
87
n
64
PRO
87
A
ASN
88
n
65
ASN
88
A
SER
89
n
66
SER
89
A
GLU
90
n
67
GLU
90
A
ILE
91
n
68
ILE
91
A
GLU
92
n
69
GLU
92
A
ILE
93
n
70
ILE
93
A
ILE
94
n
71
ILE
94
A
TYR
95
n
72
TYR
95
A
ASP
96
n
73
ASP
96
A
GLY
97
n
74
GLY
97
A
TYR
98
n
75
TYR
98
A
GLY
99
n
76
GLY
99
A
GLN
100
n
77
GLN
100
A
ARG
101
n
78
ARG
101
A
LEU
102
n
79
LEU
102
A
LEU
103
n
80
LEU
103
A
ALA
104
n
81
ALA
104
A
LYS
105
n
82
LYS
105
A
GLN
106
n
83
GLN
106
A
MSE
107
n
84
MSE
107
A
GLU
108
n
85
GLU
108
A
SER
109
n
86
SER
109
A
MSE
110
n
87
MSE
110
A
ILE
111
n
88
ILE
111
A
GLU
112
n
89
GLU
112
A
GLU
113
n
90
GLU
113
A
ALA
114
n
91
ALA
114
A
ILE
115
n
92
ILE
115
A
SER
116
n
93
SER
116
A
GLN
117
n
94
GLN
117
A
ALA
118
n
95
ALA
118
A
ALA
119
n
96
ALA
119
A
GLU
120
n
97
GLU
120
A
ASN
121
n
98
ASN
121
A
TYR
122
n
99
TYR
122
A
TYR
123
n
100
TYR
123
A
ILE
124
n
101
ILE
124
A
GLN
125
n
102
GLN
125
A
GLY
126
n
103
GLY
126
A
ASP
127
n
104
ASP
127
A
ILE
128
n
105
ILE
128
A
ILE
129
n
106
ILE
129
A
ILE
130
n
107
ILE
130
A
PRO
131
n
108
PRO
131
A
GLU
132
n
109
GLU
132
A
GLU
133
n
110
GLU
133
A
TRP
134
n
111
TRP
134
A
GLN
135
n
112
GLN
135
A
ASP
136
n
113
ASP
136
A
ILE
137
n
114
ILE
137
A
PRO
138
n
115
PRO
138
A
VAL
139
n
116
VAL
139
A
GLU
140
n
117
GLU
140
A
GLU
141
n
118
GLU
141
A
ILE
142
n
119
ILE
142
A
SER
143
n
120
SER
143
A
GLN
144
n
121
GLN
144
A
TRP
145
n
122
TRP
145
A
LYS
146
n
123
LYS
146
A
ASN
147
n
124
ASN
147
A
TYR
148
n
125
TYR
148
A
VAL
149
n
126
VAL
149
A
ASP
150
n
127
ASP
150
A
LEU
151
n
128
LEU
151
A
CYS
152
n
129
CYS
152
A
ASN
153
n
130
ASN
153
A
GLN
154
n
131
GLN
154
A
SER
155
n
132
SER
155
A
ASN
156
n
133
ASN
156
A
SER
157
n
134
SER
157
A
ASP
158
n
135
ASP
158
A
TYR
159
n
136
TYR
159
A
LYS
160
n
137
LYS
160
A
THR
161
n
138
THR
161
A
LEU
162
n
139
LEU
162
A
GLY
163
n
140
GLY
163
A
SER
164
n
141
SER
164
A
ALA
165
n
142
ALA
165
A
TRP
166
n
143
TRP
166
A
VAL
167
n
144
VAL
167
A
TYR
168
n
145
TYR
168
A
ILE
169
n
146
ILE
169
A
ASP
170
n
147
ASP
170
A
ALA
171
n
148
ALA
171
A
SER
172
n
149
SER
172
A
THR
173
n
150
THR
173
A
MSE
174
n
151
MSE
174
A
LYS
175
n
152
LYS
175
A
GLY
176
n
153
GLY
176
A
LYS
177
n
154
LYS
177
A
THR
178
n
155
THR
178
A
ASP
179
n
156
ASP
179
A
GLU
180
n
157
GLU
180
A
GLU
181
n
158
GLU
181
A
GLU
182
n
159
GLU
182
A
TYR
183
n
160
TYR
183
A
GLN
184
n
161
GLN
184
A
MSE
185
n
162
MSE
185
A
TYR
186
n
163
TYR
186
A
GLU
187
n
164
GLU
187
A
GLU
188
n
165
GLU
188
A
VAL
189
n
166
VAL
189
A
TYR
190
n
167
TYR
190
A
ARG
191
n
168
ARG
191
A
ASP
192
n
169
ASP
192
A
LYS
193
n
170
LYS
193
A
LEU
194
n
171
LEU
194
A
GLY
195
n
172
GLY
195
A
GLY
196
n
173
GLY
196
A
GLN
197
n
174
GLN
197
A
ALA
198
n
175
ALA
198
A
LEU
199
n
176
LEU
199
A
LEU
200
n
177
LEU
200
A
TYR
201
n
178
TYR
201
A
VAL
202
n
179
VAL
202
A
TYR
203
n
180
TYR
203
A
TYR
204
n
181
TYR
204
A
LEU
205
n
182
LEU
205
A
ASP
206
n
183
ASP
206
A
HIS
207
n
184
HIS
207
A
LYS
208
n
185
LYS
208
A
SER
209
n
186
SER
209
A
PHE
210
n
187
PHE
210
A
GLU
211
n
188
GLU
211
A
LYS
212
n
189
LYS
212
A
ALA
213
n
190
ALA
213
A
GLU
214
n
191
GLU
214
A
LYS
215
n
192
LYS
215
A
ILE
216
n
193
ILE
216
A
LEU
217
n
194
LEU
217
A
GLU
218
n
195
GLU
218
A
ILE
219
n
196
ILE
219
A
PHE
220
n
197
PHE
220
A
THR
221
n
198
THR
221
A
SER
222
n
199
SER
222
A
GLY
223
n
200
GLY
223
A
ASP
224
n
201
ASP
224
A
GLU
225
n
202
GLU
225
A
GLY
226
n
203
GLY
226
A
SER
227
n
204
SER
227
A
ASN
228
n
205
ASN
228
A
PHE
229
n
206
PHE
229
A
GLU
230
n
207
GLU
230
A
ASP
231
n
208
ASP
231
A
ILE
232
n
209
ILE
232
A
ILE
233
n
210
ILE
233
A
GLU
234
n
211
GLU
234
A
GLY
235
n
212
GLY
235
A
GLN
236
n
213
GLN
236
A
PRO
237
n
214
PRO
237
A
TYR
238
n
215
TYR
238
A
PHE
239
n
216
PHE
239
A
GLY
240
n
217
GLY
240
A
THR
241
n
218
THR
241
A
ILE
242
n
219
ILE
242
A
MSE
243
n
220
MSE
243
A
ARG
244
n
221
ARG
244
A
TYR
245
n
222
TYR
245
A
GLY
246
n
223
GLY
246
A
SER
247
n
224
SER
247
A
ASP
248
n
225
ASP
248
A
LYS
249
n
226
LYS
249
A
PHE
250
n
227
PHE
250
A
ASP
251
n
228
ASP
251
A
ASP
252
n
229
ASP
252
A
ASN
253
n
230
ASN
253
A
LEU
254
n
231
LEU
254
A
GLU
255
n
232
GLU
255
A
ILE
256
n
233
ILE
256
A
PHE
257
n
234
PHE
257
A
LYS
258
n
235
LYS
258
A
ALA
259
n
236
ALA
259
A
ALA
260
n
237
ALA
260
A
LYS
261
n
238
LYS
261
A
GLN
262
n
239
GLN
262
A
GLY
263
n
240
GLY
263
A
LYS
264
n
241
LYS
264
A
n
242
265
A
n
243
266
A
n
244
267
A
n
245
268
A
n
246
269
A
n
247
270
A
GLY
0
n
1
GLY
0
B
HIS
25
n
2
HIS
25
B
GLU
26
n
3
GLU
26
B
ASN
27
n
4
ASN
27
B
GLU
28
n
5
GLU
28
B
ILE
29
n
6
ILE
29
B
SER
30
n
7
SER
30
B
ILE
31
n
8
ILE
31
B
LYS
32
n
9
LYS
32
B
ILE
33
n
10
ILE
33
B
GLU
34
n
11
GLU
34
B
THR
35
n
12
THR
35
B
TYR
36
n
13
TYR
36
B
LEU
37
n
14
LEU
37
B
GLN
38
n
15
GLN
38
B
GLU
39
n
16
GLU
39
B
GLU
40
n
17
GLU
40
B
TYR
41
n
18
TYR
41
B
GLY
42
n
19
GLY
42
B
GLU
43
n
20
GLU
43
B
GLU
44
n
21
GLU
44
B
PHE
45
n
22
PHE
45
B
GLU
46
n
23
GLU
46
B
VAL
47
n
24
VAL
47
B
LEU
48
n
25
LEU
48
B
SER
49
n
26
SER
49
B
TRP
50
n
27
TRP
50
B
ASN
51
n
28
ASN
51
B
GLN
52
n
29
GLN
52
B
PRO
53
n
30
PRO
53
B
LYS
54
n
31
LYS
54
B
LEU
55
n
32
LEU
55
B
LEU
56
n
33
LEU
56
B
PRO
57
n
34
PRO
57
B
SER
58
n
35
SER
58
B
ASP
59
n
36
ASP
59
B
ASN
60
n
37
ASN
60
B
GLY
61
n
38
GLY
61
B
ALA
62
n
39
ALA
62
B
ILE
63
n
40
ILE
63
B
TYR
64
n
41
TYR
64
B
ALA
65
n
42
ALA
65
B
THR
66
n
43
THR
66
B
CYS
67
n
44
CYS
67
B
ILE
68
n
45
ILE
68
B
SER
69
n
46
SER
69
B
LYS
70
n
47
LYS
70
B
ASN
71
n
48
ASN
71
B
ASP
72
n
49
ASP
72
B
PRO
73
n
50
PRO
73
B
LYS
74
n
51
LYS
74
B
HIS
75
n
52
HIS
75
B
PRO
76
n
53
PRO
76
B
PHE
77
n
54
PHE
77
B
GLU
78
n
55
GLU
78
B
GLY
79
n
56
GLY
79
B
SER
80
n
57
SER
80
B
TYR
81
n
58
TYR
81
B
PHE
82
n
59
PHE
82
B
ASN
83
n
60
ASN
83
B
PRO
84
n
61
PRO
84
B
GLU
85
n
62
GLU
85
B
GLU
86
n
63
GLU
86
B
PRO
87
n
64
PRO
87
B
ASN
88
n
65
ASN
88
B
SER
89
n
66
SER
89
B
GLU
90
n
67
GLU
90
B
ILE
91
n
68
ILE
91
B
GLU
92
n
69
GLU
92
B
ILE
93
n
70
ILE
93
B
ILE
94
n
71
ILE
94
B
TYR
95
n
72
TYR
95
B
ASP
96
n
73
ASP
96
B
GLY
97
n
74
GLY
97
B
TYR
98
n
75
TYR
98
B
GLY
99
n
76
GLY
99
B
GLN
100
n
77
GLN
100
B
ARG
101
n
78
ARG
101
B
LEU
102
n
79
LEU
102
B
LEU
103
n
80
LEU
103
B
ALA
104
n
81
ALA
104
B
LYS
105
n
82
LYS
105
B
GLN
106
n
83
GLN
106
B
MSE
107
n
84
MSE
107
B
GLU
108
n
85
GLU
108
B
SER
109
n
86
SER
109
B
MSE
110
n
87
MSE
110
B
ILE
111
n
88
ILE
111
B
GLU
112
n
89
GLU
112
B
GLU
113
n
90
GLU
113
B
ALA
114
n
91
ALA
114
B
ILE
115
n
92
ILE
115
B
SER
116
n
93
SER
116
B
GLN
117
n
94
GLN
117
B
ALA
118
n
95
ALA
118
B
ALA
119
n
96
ALA
119
B
GLU
120
n
97
GLU
120
B
ASN
121
n
98
ASN
121
B
TYR
122
n
99
TYR
122
B
TYR
123
n
100
TYR
123
B
ILE
124
n
101
ILE
124
B
GLN
125
n
102
GLN
125
B
GLY
126
n
103
GLY
126
B
ASP
127
n
104
ASP
127
B
ILE
128
n
105
ILE
128
B
ILE
129
n
106
ILE
129
B
ILE
130
n
107
ILE
130
B
PRO
131
n
108
PRO
131
B
GLU
132
n
109
GLU
132
B
GLU
133
n
110
GLU
133
B
TRP
134
n
111
TRP
134
B
GLN
135
n
112
GLN
135
B
ASP
136
n
113
ASP
136
B
ILE
137
n
114
ILE
137
B
PRO
138
n
115
PRO
138
B
VAL
139
n
116
VAL
139
B
GLU
140
n
117
GLU
140
B
GLU
141
n
118
GLU
141
B
ILE
142
n
119
ILE
142
B
SER
143
n
120
SER
143
B
GLN
144
n
121
GLN
144
B
TRP
145
n
122
TRP
145
B
LYS
146
n
123
LYS
146
B
ASN
147
n
124
ASN
147
B
TYR
148
n
125
TYR
148
B
VAL
149
n
126
VAL
149
B
ASP
150
n
127
ASP
150
B
LEU
151
n
128
LEU
151
B
CYS
152
n
129
CYS
152
B
ASN
153
n
130
ASN
153
B
GLN
154
n
131
GLN
154
B
SER
155
n
132
SER
155
B
ASN
156
n
133
ASN
156
B
SER
157
n
134
SER
157
B
ASP
158
n
135
ASP
158
B
TYR
159
n
136
TYR
159
B
LYS
160
n
137
LYS
160
B
THR
161
n
138
THR
161
B
LEU
162
n
139
LEU
162
B
GLY
163
n
140
GLY
163
B
SER
164
n
141
SER
164
B
ALA
165
n
142
ALA
165
B
TRP
166
n
143
TRP
166
B
VAL
167
n
144
VAL
167
B
TYR
168
n
145
TYR
168
B
ILE
169
n
146
ILE
169
B
ASP
170
n
147
ASP
170
B
ALA
171
n
148
ALA
171
B
SER
172
n
149
SER
172
B
THR
173
n
150
THR
173
B
MSE
174
n
151
MSE
174
B
LYS
175
n
152
LYS
175
B
GLY
176
n
153
GLY
176
B
LYS
177
n
154
LYS
177
B
THR
178
n
155
THR
178
B
ASP
179
n
156
ASP
179
B
GLU
180
n
157
GLU
180
B
GLU
181
n
158
GLU
181
B
GLU
182
n
159
GLU
182
B
TYR
183
n
160
TYR
183
B
GLN
184
n
161
GLN
184
B
MSE
185
n
162
MSE
185
B
TYR
186
n
163
TYR
186
B
GLU
187
n
164
GLU
187
B
GLU
188
n
165
GLU
188
B
VAL
189
n
166
VAL
189
B
TYR
190
n
167
TYR
190
B
ARG
191
n
168
ARG
191
B
ASP
192
n
169
ASP
192
B
LYS
193
n
170
LYS
193
B
LEU
194
n
171
LEU
194
B
GLY
195
n
172
GLY
195
B
GLY
196
n
173
GLY
196
B
GLN
197
n
174
GLN
197
B
ALA
198
n
175
ALA
198
B
LEU
199
n
176
LEU
199
B
LEU
200
n
177
LEU
200
B
TYR
201
n
178
TYR
201
B
VAL
202
n
179
VAL
202
B
TYR
203
n
180
TYR
203
B
TYR
204
n
181
TYR
204
B
LEU
205
n
182
LEU
205
B
ASP
206
n
183
ASP
206
B
HIS
207
n
184
HIS
207
B
LYS
208
n
185
LYS
208
B
SER
209
n
186
SER
209
B
PHE
210
n
187
PHE
210
B
GLU
211
n
188
GLU
211
B
LYS
212
n
189
LYS
212
B
ALA
213
n
190
ALA
213
B
GLU
214
n
191
GLU
214
B
LYS
215
n
192
LYS
215
B
ILE
216
n
193
ILE
216
B
LEU
217
n
194
LEU
217
B
GLU
218
n
195
GLU
218
B
ILE
219
n
196
ILE
219
B
PHE
220
n
197
PHE
220
B
THR
221
n
198
THR
221
B
SER
222
n
199
SER
222
B
GLY
223
n
200
GLY
223
B
ASP
224
n
201
ASP
224
B
GLU
225
n
202
GLU
225
B
GLY
226
n
203
GLY
226
B
SER
227
n
204
SER
227
B
ASN
228
n
205
ASN
228
B
PHE
229
n
206
PHE
229
B
GLU
230
n
207
GLU
230
B
ASP
231
n
208
ASP
231
B
ILE
232
n
209
ILE
232
B
ILE
233
n
210
ILE
233
B
GLU
234
n
211
GLU
234
B
GLY
235
n
212
GLY
235
B
GLN
236
n
213
GLN
236
B
PRO
237
n
214
PRO
237
B
TYR
238
n
215
TYR
238
B
PHE
239
n
216
PHE
239
B
GLY
240
n
217
GLY
240
B
THR
241
n
218
THR
241
B
ILE
242
n
219
ILE
242
B
MSE
243
n
220
MSE
243
B
ARG
244
n
221
ARG
244
B
TYR
245
n
222
TYR
245
B
GLY
246
n
223
GLY
246
B
SER
247
n
224
SER
247
B
ASP
248
n
225
ASP
248
B
LYS
249
n
226
LYS
249
B
PHE
250
n
227
PHE
250
B
ASP
251
n
228
ASP
251
B
ASP
252
n
229
ASP
252
B
ASN
253
n
230
ASN
253
B
LEU
254
n
231
LEU
254
B
GLU
255
n
232
GLU
255
B
ILE
256
n
233
ILE
256
B
PHE
257
n
234
PHE
257
B
LYS
258
n
235
LYS
258
B
ALA
259
n
236
ALA
259
B
ALA
260
n
237
ALA
260
B
LYS
261
n
238
LYS
261
B
GLN
262
n
239
GLN
262
B
GLY
263
n
240
GLY
263
B
LYS
264
n
241
LYS
264
B
n
242
265
B
n
243
266
B
n
244
267
B
n
245
268
B
n
246
269
B
n
247
270
B
2.8428
-0.0154
-0.5930
1.8870
0.4604
2.4383
-0.0564
-0.2568
-0.2560
0.1769
-0.1189
-0.1694
0.2136
0.2090
0.1753
0.2003
0.0169
-0.1395
0.3097
0.0732
0.1700
refined
48.7710
3.9660
8.4630
X-RAY DIFFRACTION
3.9948
0.9939
0.0306
2.3568
0.2430
1.6133
0.2021
0.0403
0.5524
-0.0804
-0.0898
-0.1025
-0.1229
0.0814
-0.1123
0.1836
0.0602
-0.0551
0.2296
0.0006
0.2444
refined
53.6630
32.9430
0.5700
X-RAY DIFFRACTION
A
28
A
264
X-RAY DIFFRACTION
1
B
0
B
264
X-RAY DIFFRACTION
2
author_and_software_defined_assembly
PISA
1
monomeric
author_and_software_defined_assembly
PISA
1
monomeric
A
MSE
107
SELENOMETHIONINE
A
MSE
84
MET
A
MSE
110
SELENOMETHIONINE
A
MSE
87
MET
A
MSE
174
SELENOMETHIONINE
A
MSE
151
MET
A
MSE
185
SELENOMETHIONINE
A
MSE
162
MET
A
MSE
243
SELENOMETHIONINE
A
MSE
220
MET
B
MSE
107
SELENOMETHIONINE
B
MSE
84
MET
B
MSE
110
SELENOMETHIONINE
B
MSE
87
MET
B
MSE
174
SELENOMETHIONINE
B
MSE
151
MET
B
MSE
185
SELENOMETHIONINE
B
MSE
162
MET
B
MSE
243
SELENOMETHIONINE
B
MSE
220
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
ASN
51
A
N
ASN
28
A
O
TYR
64
A
O
TYR
41
A
N
CYS
67
A
N
CYS
44
A
O
PHE
77
A
O
PHE
54
A
N
PHE
82
A
N
PHE
59
A
O
GLU
92
A
O
GLU
69
A
N
TYR
123
A
N
TYR
100
A
O
TYR
168
A
O
TYR
145
A
N
ILE
169
A
N
ILE
146
A
O
TYR
203
A
O
TYR
180
A
N
LEU
200
A
N
LEU
177
A
O
THR
241
A
O
THR
218
B
N
ASN
51
B
N
ASN
28
B
O
TYR
64
B
O
TYR
41
B
N
ILE
63
B
N
ILE
40
B
O
TYR
81
B
O
TYR
58
B
N
PHE
82
B
N
PHE
59
B
O
GLU
92
B
O
GLU
69
B
N
TYR
123
B
N
TYR
100
B
O
TYR
168
B
O
TYR
145
B
N
LEU
162
B
N
LEU
139
B
O
GLN
197
B
O
GLN
174
B
N
LEU
200
B
N
LEU
177
B
O
THR
241
B
O
THR
218
1
A
CG
GLU
140
A
CG
GLU
117
1
Y
1
A
CD
GLU
140
A
CD
GLU
117
1
Y
1
A
OE1
GLU
140
A
OE1
GLU
117
1
Y
1
A
OE2
GLU
140
A
OE2
GLU
117
1
Y
1
B
CG
LEU
55
B
CG
LEU
32
1
Y
1
B
CD1
LEU
55
B
CD1
LEU
32
1
Y
1
B
CD2
LEU
55
B
CD2
LEU
32
1
Y
1
B
CG
LEU
56
B
CG
LEU
33
1
Y
1
B
CD1
LEU
56
B
CD1
LEU
33
1
Y
1
B
CD2
LEU
56
B
CD2
LEU
33
1
Y
1
B
CG
GLU
85
B
CG
GLU
62
1
Y
1
B
CD
GLU
85
B
CD
GLU
62
1
Y
1
B
OE1
GLU
85
B
OE1
GLU
62
1
Y
1
B
OE2
GLU
85
B
OE2
GLU
62
1
Y
1
A
GLY
0
A
GLY
1
1
Y
1
A
HIS
25
A
HIS
2
1
Y
1
A
GLU
26
A
GLU
3
1
Y
1
A
ASN
27
A
ASN
4
1
Y
1
A
GLU
265
A
GLU
242
1
Y
1
A
GLN
266
A
GLN
243
1
Y
1
A
GLU
267
A
GLU
244
1
Y
1
A
LYS
268
A
LYS
245
1
Y
1
A
TYR
269
A
TYR
246
1
Y
1
A
GLN
270
A
GLN
247
1
Y
1
B
GLU
265
B
GLU
242
1
Y
1
B
GLN
266
B
GLN
243
1
Y
1
B
GLU
267
B
GLU
244
1
Y
1
B
LYS
268
B
LYS
245
1
Y
1
B
TYR
269
B
TYR
246
1
Y
1
B
GLN
270
B
GLN
247
1
Y
1
A
LYS
54
174.84
141.39
187.750
61.0088
30.270
3.9100
0.0000
3.5300
-4.8100
0.0000
1.9300
0.9550
0.9390
1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B FACTORS. 3. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. 4. WATERS WERE EXCLUDED FROM AUTOMATIC TLS ASSIGNMENT. 5. 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. 6. GLYCEROL (GOL) MOLECULES FROM THE CRYSTALLIZATION SOLUTION ARE MODELED.
0.2180
0.1883
0.1899
2.5500
45.971
1088
21159
5.1000
99.7200
1.000
0.500
22.8940
0.2120
RANDOM
1
THROUGHOUT
0.000
MAD
0.4690
0.2510
0.8000
0.8000
1.2000
MAXIMUM LIKELIHOOD WITH PHASES
BABINET MODEL WITH MASK
2.5500
45.971
26
3937
18
0
3893
0.012
0.020
4008
0.004
0.020
2700
1.646
1.957
5415
1.404
3.000
6614
3.608
5.000
478
34.916
26.318
220
11.245
15.000
696
19.905
15.000
6
0.098
0.200
547
0.006
0.020
4507
0.004
0.020
783
0.3530
0.3330
2.6160
79
1421
1500
20
99.8700
62.923
2.55
45.971
4GL6
21164
-3.000
0.076
1
12.840
99.800
0.739
2.550
2.640
2.1
7942
2080
1
100.000
0.561
2.640
2.750
2.7
8286
2176
1
100.000
0.365
2.750
2.870
4.0
7721
2019
1
99.600
0.263
2.870
3.020
5.2
7971
2095
1
100.0
0.174
3.020
3.210
7.6
8076
2122
1
99.800
0.104
3.210
3.460
11.5
8050
2134
1
99.700
0.069
3.460
3.800
16.5
7893
2092
1
99.900
0.044
3.800
4.350
22.7
8034
2122
1
99.900
0.039
4.350
5.460
26.0
7913
2116
1
99.700
0.039
5.460
29.0
8067
2208
1
99.300
model building
D.C. & J.S. Richardson lab
molprobity@kinemage.biochem.duke.edu
http://kinemage.biochem.duke.edu/molprobity/
MolProbity
package
3beta29
data extraction
PDB
deposit@deposit.rcsb.org
June 10, 2010
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.10
phasing
George M. Sheldrick
gsheldr@shelx.uni-ac.gwdg.de
Fortran_77
http://shelx.uni-ac.gwdg.de/SHELX/
SHELX
package
phasing
Eric de La Fortelle
sharp-develop@globalphasing.com
http://www.globalphasing.com/sharp/
SHARP
package
data scaling
Wolfgang Kabsch
http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html
XSCALE
package
December 29, 2011
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
5.6.0117
data reduction
XDS
phasing
SHELXD
Y
Crystal structure of a DUF5037 family protein (RUMGNA_01148) from Ruminococcus gnavus ATCC 29149 at 2.55 A resolution
1
N
N
1
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A
MONOMER AS THE SIGNIFICANT OLIGOMERIZATION STATE.
A
GLU
28
A
GLU
5
HELX_P
A
GLY
42
A
GLY
19
1
1
15
A
GLY
97
A
GLY
74
HELX_P
A
ALA
119
A
ALA
96
1
2
23
A
PRO
131
A
PRO
108
HELX_P
A
GLN
135
A
GLN
112
5
3
5
A
PRO
138
A
PRO
115
HELX_P
A
SER
143
A
SER
120
1
4
6
A
GLN
144
A
GLN
121
HELX_P
A
ASN
153
A
ASN
130
1
5
10
A
SER
172
A
SER
149
HELX_P
A
MSE
174
A
MSE
151
5
6
3
A
THR
178
A
THR
155
HELX_P
A
LYS
193
A
LYS
170
1
7
16
A
ASP
206
A
ASP
183
HELX_P
A
GLU
218
A
GLU
195
1
8
13
A
GLY
226
A
GLY
203
HELX_P
A
GLU
234
A
GLU
211
1
9
9
A
ASN
253
A
ASN
230
HELX_P
A
GLY
263
A
GLY
240
1
10
11
B
GLY
0
B
GLY
1
HELX_P
B
ASN
27
B
ASN
4
5
11
4
B
GLU
28
B
GLU
5
HELX_P
B
GLY
42
B
GLY
19
1
12
15
B
GLY
97
B
GLY
74
HELX_P
B
ALA
119
B
ALA
96
1
13
23
B
PRO
131
B
PRO
108
HELX_P
B
GLN
135
B
GLN
112
5
14
5
B
PRO
138
B
PRO
115
HELX_P
B
SER
143
B
SER
120
1
15
6
B
GLN
144
B
GLN
121
HELX_P
B
SER
155
B
SER
132
1
16
12
B
ASN
156
B
ASN
133
HELX_P
B
TYR
159
B
TYR
136
5
17
4
B
SER
172
B
SER
149
HELX_P
B
MSE
174
B
MSE
151
5
18
3
B
THR
178
B
THR
155
HELX_P
B
LYS
193
B
LYS
170
1
19
16
B
ASP
206
B
ASP
183
HELX_P
B
GLU
218
B
GLU
195
1
20
13
B
GLY
226
B
GLY
203
HELX_P
B
GLU
234
B
GLU
211
1
21
9
B
ASN
253
B
ASN
230
HELX_P
B
GLY
263
B
GLY
240
1
22
11
covale
1.329
both
A
GLN
106
A
C
GLN
83
1_555
A
MSE
107
A
N
MSE
84
1_555
covale
1.328
both
A
MSE
107
A
C
MSE
84
1_555
A
GLU
108
A
N
GLU
85
1_555
covale
1.331
both
A
SER
109
A
C
SER
86
1_555
A
MSE
110
A
N
MSE
87
1_555
covale
1.326
both
A
MSE
110
A
C
MSE
87
1_555
A
ILE
111
A
N
ILE
88
1_555
covale
1.345
both
A
THR
173
A
C
THR
150
1_555
A
MSE
174
A
N
MSE
151
1_555
covale
1.336
both
A
MSE
174
A
C
MSE
151
1_555
A
LYS
175
A
N
LYS
152
1_555
covale
1.327
both
A
GLN
184
A
C
GLN
161
1_555
A
MSE
185
A
N
MSE
162
1_555
covale
1.332
both
A
MSE
185
A
C
MSE
162
1_555
A
TYR
186
A
N
TYR
163
1_555
covale
1.329
both
A
ILE
242
A
C
ILE
219
1_555
A
MSE
243
A
N
MSE
220
1_555
covale
1.330
both
A
MSE
243
A
C
MSE
220
1_555
A
ARG
244
A
N
ARG
221
1_555
covale
1.334
both
B
GLN
106
B
C
GLN
83
1_555
B
MSE
107
B
N
MSE
84
1_555
covale
1.333
both
B
MSE
107
B
C
MSE
84
1_555
B
GLU
108
B
N
GLU
85
1_555
covale
1.325
both
B
SER
109
B
C
SER
86
1_555
B
MSE
110
B
N
MSE
87
1_555
covale
1.333
both
B
MSE
110
B
C
MSE
87
1_555
B
ILE
111
B
N
ILE
88
1_555
covale
1.340
both
B
THR
173
B
C
THR
150
1_555
B
MSE
174
B
N
MSE
151
1_555
covale
1.337
both
B
MSE
174
B
C
MSE
151
1_555
B
LYS
175
B
N
LYS
152
1_555
covale
1.341
both
B
GLN
184
B
C
GLN
161
1_555
B
MSE
185
B
N
MSE
162
1_555
covale
1.333
both
B
MSE
185
B
C
MSE
162
1_555
B
TYR
186
B
N
TYR
163
1_555
covale
1.331
both
B
ILE
242
B
C
ILE
219
1_555
B
MSE
243
B
N
MSE
220
1_555
covale
1.328
both
B
MSE
243
B
C
MSE
220
1_555
B
ARG
244
B
N
ARG
221
1_555
STRUCTURAL GENOMICS, UNKNOWN FUNCTION
HYPOTHETICAL PROTEIN, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-BIOLOGY, UNKNOWN FUNCTION
A7B0S2_RUMGN
UNP
1
25
A7B0S2
HENEISIKIETYLQEEYGEEFEVLSWNQPKLLPSDNGAIYATCISKNDPKHPFEGSYFNPEEPNSEIEIIYDGYGQRLLA
KQMESMIEEAISQAAENYYIQGDIIIPEEWQDIPVEEISQWKNYVDLCNQSNSDYKTLGSAWVYIDASTMKGKTDEEEYQ
MYEEVYRDKLGGQALLYVYYLDHKSFEKAEKILEIFTSGDEGSNFEDIIEGQPYFGTIMRYGSDKFDDNLEIFKAAKQGK
EQEKYQ
25
270
4GL6
25
270
A7B0S2
A
1
2
247
25
270
4GL6
25
270
A7B0S2
B
1
2
247
1
expression tag
GLY
0
4GL6
A
A7B0S2
UNP
1
2
expression tag
GLY
0
4GL6
B
A7B0S2
UNP
1
4
4
4
4
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
A
PHE
45
A
PHE
22
A
ASN
51
A
ASN
28
A
ILE
63
A
ILE
40
A
SER
69
A
SER
46
A
PHE
77
A
PHE
54
A
PHE
82
A
PHE
59
A
GLU
92
A
GLU
69
A
TYR
95
A
TYR
72
A
TYR
122
A
TYR
99
A
ASP
127
A
ASP
104
A
GLY
163
A
GLY
140
A
ASP
170
A
ASP
147
A
ALA
198
A
ALA
175
A
LEU
205
A
LEU
182
A
TYR
238
A
TYR
215
A
MSE
243
A
MSE
220
B
PHE
45
B
PHE
22
B
ASN
51
B
ASN
28
B
ILE
63
B
ILE
40
B
SER
69
B
SER
46
B
PHE
77
B
PHE
54
B
PHE
82
B
PHE
59
B
GLU
92
B
GLU
69
B
TYR
95
B
TYR
72
B
TYR
122
B
TYR
99
B
ASP
127
B
ASP
104
B
THR
161
B
THR
138
B
ASP
170
B
ASP
147
B
GLN
197
B
GLN
174
B
LEU
205
B
LEU
182
B
TYR
238
B
TYR
215
B
MSE
243
B
MSE
220
BINDING SITE FOR RESIDUE GOL A 301
A
GOL
301
Software
4
BINDING SITE FOR RESIDUE GOL A 302
A
GOL
302
Software
7
BINDING SITE FOR RESIDUE GOL B 300
B
GOL
300
Software
6
A
HIS
75
A
HIS
52
4
1_555
A
GLU
112
A
GLU
89
4
1_555
A
TYR
122
A
TYR
99
4
1_555
A
HOH
401
F
HOH
4
1_555
A
ASN
51
A
ASN
28
7
1_555
A
GLU
78
A
GLU
55
7
1_555
A
ASP
224
A
ASP
201
7
1_555
B
LYS
175
B
LYS
152
7
1_555
B
GLY
176
B
GLY
153
7
1_555
B
LYS
177
B
LYS
154
7
1_555
B
GLU
181
B
GLU
158
7
1_555
B
HIS
75
B
HIS
52
6
1_555
B
GLU
112
B
GLU
89
6
1_555
B
TYR
122
B
TYR
99
6
1_555
B
TYR
123
B
TYR
100
6
1_555
B
ILE
124
B
ILE
101
6
1_555
B
HOH
410
G
HOH
6
1_555
5
C 1 2 1