0.019320
0.000000
0.000000
0.000000
0.019320
0.000000
0.000000
0.000000
0.010922
0.000000
0.000000
0.000000
Lazareno-Saez, C.
Arutyunova, E.
Coquelle, N.
Lemieux, M.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.000
90.000
90.000
51.760
51.760
91.560
C2 H3 O2 -1
59.044
ACETATE ION
non-polymer
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
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
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
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
425
1127
1142
10.1016/j.jmb.2013.01.019
23353827
Domain swapping in the cytoplasmic domain of the Escherichia coli rhomboid protease.
2013
100
1
100
2
CCD
2011-09-08
ADSC QUANTUM 315r
CCD
2011-10-06
RAYONIX MX-300
Si(111)
MAD
M
x-ray
1
Si(111)
SINGLE WAVELENGTH
M
x-ray
1
0.9793
1.0
1.116
1.0
0.9795
1.0
12.3.1
ALS
0.9793, 1.116
SYNCHROTRON
ALS BEAMLINE 12.3.1
08ID-1
CLSI
0.9795
SYNCHROTRON
CLSI BEAMLINE 08ID-1
9112.795
Rhomboid protease GlpG
3.4.21.105
N-terminal cytoplasmic domain (UNP residues 2-74)
1
man
polymer
59.044
ACETATE ION
1
syn
non-polymer
18.015
water
66
nat
water
Intramembrane serine protease
no
yes
L(MSE)ITSFANPRVAQAFVDY(MSE)ATQGVILTIQQHNQSDVWLADESQAERVRAELARFLENPADPRYLAASWQAGH
TENLYFQ
LMITSFANPRVAQAFVDYMATQGVILTIQQHNQSDVWLADESQAERVRAELARFLENPADPRYLAASWQAGHTENLYFQ
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
TOP10
sample
b3424, glpG, JW5687
562
Escherichia coli
562
Escherichia coli
TOP10
plasmid
pBad Myc/HisA
1
1.68
26.89
VAPOR DIFFUSION, HANGING DROP
6.9
0.49M sodium phosphate monobasic monohydrate - 0.91M potassium phosphate dibasic, pH 6.9, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
VAPOR DIFFUSION, HANGING DROP
4.6
100mM sodium acetate trihydrate, 0.2M ammonium sulfate, 25% PEG 4000, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
repository
Initial release
Database references
1
0
2013-02-06
1
1
2013-05-22
RCSB
Y
RCSB
2012-10-02
REL
REL
ACT
ACETATE ION
HOH
water
ACT
1
2
ACT
ACT
101
A
HOH
1
3
HOH
HOH
201
A
HOH
2
3
HOH
HOH
202
A
HOH
3
3
HOH
HOH
203
A
HOH
4
3
HOH
HOH
204
A
HOH
5
3
HOH
HOH
205
A
HOH
6
3
HOH
HOH
206
A
HOH
7
3
HOH
HOH
207
A
HOH
8
3
HOH
HOH
208
A
HOH
9
3
HOH
HOH
209
A
HOH
10
3
HOH
HOH
210
A
HOH
11
3
HOH
HOH
211
A
HOH
12
3
HOH
HOH
212
A
HOH
13
3
HOH
HOH
213
A
HOH
14
3
HOH
HOH
214
A
HOH
15
3
HOH
HOH
215
A
HOH
16
3
HOH
HOH
216
A
HOH
17
3
HOH
HOH
217
A
HOH
18
3
HOH
HOH
218
A
HOH
19
3
HOH
HOH
219
A
HOH
20
3
HOH
HOH
220
A
HOH
21
3
HOH
HOH
221
A
HOH
22
3
HOH
HOH
222
A
HOH
24
3
HOH
HOH
223
A
HOH
25
3
HOH
HOH
224
A
HOH
26
3
HOH
HOH
225
A
HOH
27
3
HOH
HOH
226
A
HOH
28
3
HOH
HOH
227
A
HOH
29
3
HOH
HOH
228
A
HOH
30
3
HOH
HOH
229
A
HOH
31
3
HOH
HOH
230
A
HOH
32
3
HOH
HOH
231
A
HOH
33
3
HOH
HOH
232
A
HOH
34
3
HOH
HOH
233
A
HOH
35
3
HOH
HOH
234
A
HOH
36
3
HOH
HOH
235
A
HOH
37
3
HOH
HOH
236
A
HOH
38
3
HOH
HOH
237
A
HOH
39
3
HOH
HOH
238
A
HOH
40
3
HOH
HOH
239
A
HOH
41
3
HOH
HOH
240
A
HOH
42
3
HOH
HOH
241
A
HOH
43
3
HOH
HOH
242
A
HOH
44
3
HOH
HOH
243
A
HOH
45
3
HOH
HOH
244
A
HOH
46
3
HOH
HOH
245
A
HOH
49
3
HOH
HOH
246
A
HOH
50
3
HOH
HOH
247
A
HOH
51
3
HOH
HOH
248
A
HOH
52
3
HOH
HOH
249
A
HOH
53
3
HOH
HOH
250
A
HOH
54
3
HOH
HOH
251
A
HOH
57
3
HOH
HOH
252
A
HOH
59
3
HOH
HOH
253
A
HOH
61
3
HOH
HOH
254
A
HOH
62
3
HOH
HOH
255
A
HOH
63
3
HOH
HOH
256
A
HOH
64
3
HOH
HOH
257
A
HOH
65
3
HOH
HOH
258
A
HOH
66
3
HOH
HOH
259
A
HOH
67
3
HOH
HOH
260
A
HOH
68
3
HOH
HOH
261
A
HOH
69
3
HOH
HOH
262
A
HOH
70
3
HOH
HOH
263
A
HOH
72
3
HOH
HOH
264
A
HOH
73
3
HOH
HOH
265
A
HOH
74
3
HOH
HOH
266
A
LEU
2
n
1
LEU
2
A
MSE
3
n
2
MSE
3
A
ILE
4
n
3
ILE
4
A
THR
5
n
4
THR
5
A
SER
6
n
5
SER
6
A
PHE
7
n
6
PHE
7
A
ALA
8
n
7
ALA
8
A
ASN
9
n
8
ASN
9
A
PRO
10
n
9
PRO
10
A
ARG
11
n
10
ARG
11
A
VAL
12
n
11
VAL
12
A
ALA
13
n
12
ALA
13
A
GLN
14
n
13
GLN
14
A
ALA
15
n
14
ALA
15
A
PHE
16
n
15
PHE
16
A
VAL
17
n
16
VAL
17
A
ASP
18
n
17
ASP
18
A
TYR
19
n
18
TYR
19
A
MSE
20
n
19
MSE
20
A
ALA
21
n
20
ALA
21
A
THR
22
n
21
THR
22
A
GLN
23
n
22
GLN
23
A
GLY
24
n
23
GLY
24
A
VAL
25
n
24
VAL
25
A
ILE
26
n
25
ILE
26
A
LEU
27
n
26
LEU
27
A
THR
28
n
27
THR
28
A
ILE
29
n
28
ILE
29
A
GLN
30
n
29
GLN
30
A
GLN
31
n
30
GLN
31
A
HIS
32
n
31
HIS
32
A
ASN
33
n
32
ASN
33
A
GLN
34
n
33
GLN
34
A
SER
35
n
34
SER
35
A
ASP
36
n
35
ASP
36
A
VAL
37
n
36
VAL
37
A
TRP
38
n
37
TRP
38
A
LEU
39
n
38
LEU
39
A
ALA
40
n
39
ALA
40
A
ASP
41
n
40
ASP
41
A
GLU
42
n
41
GLU
42
A
SER
43
n
42
SER
43
A
GLN
44
n
43
GLN
44
A
ALA
45
n
44
ALA
45
A
GLU
46
n
45
GLU
46
A
ARG
47
n
46
ARG
47
A
VAL
48
n
47
VAL
48
A
ARG
49
n
48
ARG
49
A
ALA
50
n
49
ALA
50
A
GLU
51
n
50
GLU
51
A
LEU
52
n
51
LEU
52
A
ALA
53
n
52
ALA
53
A
ARG
54
n
53
ARG
54
A
PHE
55
n
54
PHE
55
A
LEU
56
n
55
LEU
56
A
GLU
57
n
56
GLU
57
A
ASN
58
n
57
ASN
58
A
PRO
59
n
58
PRO
59
A
ALA
60
n
59
ALA
60
A
ASP
61
n
60
ASP
61
A
PRO
62
n
61
PRO
62
A
ARG
63
n
62
ARG
63
A
TYR
64
n
63
TYR
64
A
LEU
65
n
64
LEU
65
A
ALA
66
n
65
ALA
66
A
ALA
67
n
66
ALA
67
A
n
67
68
A
n
68
69
A
n
69
70
A
n
70
71
A
n
71
72
A
n
72
73
A
n
73
74
A
n
74
75
A
n
75
76
A
n
76
77
A
n
77
78
A
n
78
79
A
n
79
80
A
author_and_software_defined_assembly
PISA
2
dimeric
software_defined_assembly
PISA
8
octameric
5100
-29
7910
29320
-173
22700
A
MSE
3
SELENOMETHIONINE
A
MSE
2
MET
A
MSE
20
SELENOMETHIONINE
A
MSE
19
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
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
5_556
-x,y,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
91.5600000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_555
-x,-y,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
3_555
-y,x,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
4_555
y,-x,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
6_556
x,-y,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
91.5600000000
0.0000000000
1.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
7_556
y,x,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
91.5600000000
0.0000000000
-1.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
8_556
-y,-x,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
91.5600000000
1
A
OE1
GLU
46
A
OE1
GLU
45
1
Y
1
A
OE2
GLU
46
A
OE2
GLU
45
1
Y
1
A
SER
68
A
SER
67
1
Y
1
A
TRP
69
A
TRP
68
1
Y
1
A
GLN
70
A
GLN
69
1
Y
1
A
ALA
71
A
ALA
70
1
Y
1
A
GLY
72
A
GLY
71
1
Y
1
A
HIS
73
A
HIS
72
1
Y
1
A
THR
74
A
THR
73
1
Y
1
A
GLU
75
A
GLU
74
1
Y
1
A
ASN
76
A
ASN
75
1
Y
1
A
LEU
77
A
LEU
76
1
Y
1
A
TYR
78
A
TYR
77
1
Y
1
A
PHE
79
A
PHE
78
1
Y
1
A
GLN
80
A
GLN
79
1
Y
1
A
A
O
O
HOH
HOH
258
259
2.08
1
A
A
O
O
HOH
HOH
226
258
2.10
1
A
A
NE2
O
GLN
HOH
30
237
2.12
1
A
A
O
O
HOH
HOH
210
231
2.19
1
3.10
0.50
120.30
123.40
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
49
49
49
N
1
A
A
O
O
HOH
HOH
260
262
2.11
1_555
5_556
1
A
THR
5
-170.15
-176.28
1
A
ASN
58
-163.24
85.75
74.930
21.7243
8.590
-1.1799
-0.0000
0.0000
-1.1799
0.0000
2.3598
0.1820
0.1618
0.1629
1.3500
45.0580
704
14001
14001
5.0300
99.4100
1.000
0.420
0.8858
0.1800
RANDOM
1,2
-3.000
MAD
17.6100
0.9000
1.1100
phased maximum-likelihood
FLAT BULK SOLVENT MODEL
48.6680
0.4340
1.3500
45.0580
66
592
4
0
522
0.014
553
1.437
756
0.091
86
0.007
102
16.056
204
0.3067
0.2032
1.4543
137
2600
2737
5
100.0000
0.2135
0.1529
1.6007
138
2625
2763
5
100.0000
0.1880
0.1452
1.8323
141
2662
2803
5
100.0000
0.1654
0.1355
2.3085
140
2657
2797
5
100.0000
0.1697
0.1735
45.0836
148
2753
2901
5
98.0000
21.595
1.350
45.058
4HDD
25782
25782
-3.000
-3.000
0.032
1,2
14.830
98.600
0.481
1.350
1.390
2.070
3748
1882
1,2
98.500
0.379
1.390
1.420
2.510
3796
1887
1,2
99.000
0.274
1.420
1.460
3.310
3752
1846
1,2
99.200
0.183
1.460
1.510
4.710
3563
1743
1,2
99.100
0.154
1.510
1.560
5.840
3501
1697
1,2
99.200
0.122
1.560
1.610
7.340
3467
1659
1,2
99.200
0.092
1.610
1.670
9.220
3423
1616
1,2
99.300
0.071
1.670
1.740
11.170
3204
1519
1,2
99.500
0.057
1.740
1.820
13.720
3103
1474
1,2
99.100
0.045
1.820
1.910
16.380
2976
1405
1,2
99.100
0.038
1.910
2.010
19.940
2843
1336
1,2
99.500
0.030
2.010
2.130
23.490
2683
1262
1,2
98.700
0.027
2.130
2.280
26.250
2494
1175
1,2
97.700
0.024
2.280
2.460
28.480
2395
1129
1,2
99.300
0.024
2.460
2.700
31.600
2181
1007
1,2
98.700
0.022
2.700
3.020
32.320
1979
918
1,2
99.000
0.021
3.020
3.490
35.280
1742
800
1,2
96.900
0.023
3.490
4.270
36.920
1450
666
1,2
96.200
0.026
4.270
6.040
37.500
1085
490
1,2
92.800
0.029
6.040
37.570
595
271
1,2
87.700
data scaling
Wolfgang Kabsch
http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html
XSCALE
package
refinement
Paul D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
1.7.3_928
data extraction
PDB
deposit@deposit.rcsb.org
April 22, 2011
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.11
data collection
MxDC
data reduction
XDS
phasing
PHENIX
(1.7.3_928)
Rhomboid protease GlpG (E.C.3.4.21.105)
Domain swapping in the cytoplasmic domain of the Escherichia coli rhomboid protease
1
N
N
2
N
N
3
N
N
A
ASN
9
A
ASN
8
HELX_P
A
GLN
23
A
GLN
22
1
1
15
A
ASP
41
A
ASP
40
HELX_P
A
SER
43
A
SER
42
5
2
3
A
GLN
44
A
GLN
43
HELX_P
A
ASN
58
A
ASN
57
1
3
15
A
ASP
61
A
ASP
60
HELX_P
A
ALA
66
A
ALA
65
1
4
6
covale
1.319
A
LEU
2
A
C
LEU
1
1_555
A
MSE
3
A
N
MSE
2
1_555
covale
1.308
A
MSE
3
A
C
MSE
2
1_555
A
ILE
4
A
N
ILE
3
1_555
covale
1.326
A
TYR
19
A
C
TYR
18
1_555
A
MSE
20
A
N
MSE
19
1_555
covale
1.334
A
MSE
20
A
C
MSE
19
1_555
A
ALA
21
A
N
ALA
20
1_555
HYDROLASE
domain swapping, peptidase, rhomboid protease, intramembrane protease, membrane, HYDROLASE
GLPG_ECOLI
UNP
1
2
P09391
LMITSFANPRVAQAFVDYMATQGVILTIQQHNQSDVWLADESQAERVRAELARFLENPADPRYLAASWQAGHT
2
74
4HDD
2
74
P09391
A
1
1
73
1
EXPRESSION TAG
GLU
75
4HDD
A
P09391
UNP
74
1
EXPRESSION TAG
ASN
76
4HDD
A
P09391
UNP
75
1
EXPRESSION TAG
LEU
77
4HDD
A
P09391
UNP
76
1
EXPRESSION TAG
TYR
78
4HDD
A
P09391
UNP
77
1
EXPRESSION TAG
PHE
79
4HDD
A
P09391
UNP
78
1
EXPRESSION TAG
GLN
80
4HDD
A
P09391
UNP
79
BINDING SITE FOR RESIDUE ACT A 101
Software
4
A
TYR
19
A
TYR
18
4
5_556
A
ARG
54
A
ARG
53
4
15_456
A
ARG
54
A
ARG
53
4
1_555
A
HOH
225
C
HOH
4
5_556
97
I 4 2 2