0.012658
0.000000
0.000000
0.000000
0.012658
0.000000
0.000000
0.000000
0.026316
0.00000
0.00000
0.00000
Sugahara, M.
Nango, E.
Suzuki, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
79.000
79.000
38.000
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
Cl -1
35.453
CHLORIDE ION
non-polymer
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
Na 1
22.990
SODIUM ION
non-polymer
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 hen egg-white lysozyme
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
293
1
CCD
2013-09-30
MPCCD octal
Si 111
SINGLE WAVELENGTH
M
x-ray
1
1.23
1.0
BL3
SACLA
1.23
FREE ELECTRON LASER
SACLA BEAMLINE BL3
14331.160
Lysozyme C
3.2.1.17
1
nat
polymer
22.990
SODIUM ION
1
syn
non-polymer
35.453
CHLORIDE ION
1
syn
non-polymer
18.015
water
32
nat
water
1,4-beta-N-acetylmuramidase C, Allergen Gal d IV
no
no
KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPC
SALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL
KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPC
SALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL
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
Chicken
sample
9031
Gallus gallus
3226
2.07
40.54
batch
3.0
sodium chloride, PEG 6000, pH 3.0, batch, temperature 293K
293
diffrn_source
software
repository
Initial release
Data collection
Refinement description
1
0
2015-05-27
1
1
2018-01-24
_diffrn_source.pdbx_synchrotron_beamline
_diffrn_source.pdbx_synchrotron_site
_software.version
PDBJ
Y
PDBJ
2014-04-28
REL
REL
NA
SODIUM ION
CL
CHLORIDE ION
HOH
water
NA
1001
2
NA
NA
1001
A
CL
2001
3
CL
CL
1002
A
HOH
1
4
HOH
HOH
1101
A
HOH
2
4
HOH
HOH
1102
A
HOH
3
4
HOH
HOH
1103
A
HOH
4
4
HOH
HOH
1104
A
HOH
5
4
HOH
HOH
1105
A
HOH
6
4
HOH
HOH
1106
A
HOH
7
4
HOH
HOH
1107
A
HOH
8
4
HOH
HOH
1108
A
HOH
9
4
HOH
HOH
1109
A
HOH
10
4
HOH
HOH
1110
A
HOH
11
4
HOH
HOH
1111
A
HOH
12
4
HOH
HOH
1112
A
HOH
13
4
HOH
HOH
1113
A
HOH
14
4
HOH
HOH
1114
A
HOH
15
4
HOH
HOH
1115
A
HOH
16
4
HOH
HOH
1116
A
HOH
17
4
HOH
HOH
1117
A
HOH
18
4
HOH
HOH
1118
A
HOH
19
4
HOH
HOH
1119
A
HOH
20
4
HOH
HOH
1120
A
HOH
21
4
HOH
HOH
1121
A
HOH
22
4
HOH
HOH
1122
A
HOH
23
4
HOH
HOH
1123
A
HOH
24
4
HOH
HOH
1124
A
HOH
25
4
HOH
HOH
1125
A
HOH
26
4
HOH
HOH
1126
A
HOH
27
4
HOH
HOH
1127
A
HOH
28
4
HOH
HOH
1128
A
HOH
29
4
HOH
HOH
1129
A
HOH
30
4
HOH
HOH
1130
A
HOH
31
4
HOH
HOH
1131
A
HOH
32
4
HOH
HOH
1132
A
LYS
1
n
1
LYS
1
A
VAL
2
n
2
VAL
2
A
PHE
3
n
3
PHE
3
A
GLY
4
n
4
GLY
4
A
ARG
5
n
5
ARG
5
A
CYS
6
n
6
CYS
6
A
GLU
7
n
7
GLU
7
A
LEU
8
n
8
LEU
8
A
ALA
9
n
9
ALA
9
A
ALA
10
n
10
ALA
10
A
ALA
11
n
11
ALA
11
A
MET
12
n
12
MET
12
A
LYS
13
n
13
LYS
13
A
ARG
14
n
14
ARG
14
A
HIS
15
n
15
HIS
15
A
GLY
16
n
16
GLY
16
A
LEU
17
n
17
LEU
17
A
ASP
18
n
18
ASP
18
A
ASN
19
n
19
ASN
19
A
TYR
20
n
20
TYR
20
A
ARG
21
n
21
ARG
21
A
GLY
22
n
22
GLY
22
A
TYR
23
n
23
TYR
23
A
SER
24
n
24
SER
24
A
LEU
25
n
25
LEU
25
A
GLY
26
n
26
GLY
26
A
ASN
27
n
27
ASN
27
A
TRP
28
n
28
TRP
28
A
VAL
29
n
29
VAL
29
A
CYS
30
n
30
CYS
30
A
ALA
31
n
31
ALA
31
A
ALA
32
n
32
ALA
32
A
LYS
33
n
33
LYS
33
A
PHE
34
n
34
PHE
34
A
GLU
35
n
35
GLU
35
A
SER
36
n
36
SER
36
A
ASN
37
n
37
ASN
37
A
PHE
38
n
38
PHE
38
A
ASN
39
n
39
ASN
39
A
THR
40
n
40
THR
40
A
GLN
41
n
41
GLN
41
A
ALA
42
n
42
ALA
42
A
THR
43
n
43
THR
43
A
ASN
44
n
44
ASN
44
A
ARG
45
n
45
ARG
45
A
ASN
46
n
46
ASN
46
A
THR
47
n
47
THR
47
A
ASP
48
n
48
ASP
48
A
GLY
49
n
49
GLY
49
A
SER
50
n
50
SER
50
A
THR
51
n
51
THR
51
A
ASP
52
n
52
ASP
52
A
TYR
53
n
53
TYR
53
A
GLY
54
n
54
GLY
54
A
ILE
55
n
55
ILE
55
A
LEU
56
n
56
LEU
56
A
GLN
57
n
57
GLN
57
A
ILE
58
n
58
ILE
58
A
ASN
59
n
59
ASN
59
A
SER
60
n
60
SER
60
A
ARG
61
n
61
ARG
61
A
TRP
62
n
62
TRP
62
A
TRP
63
n
63
TRP
63
A
CYS
64
n
64
CYS
64
A
ASN
65
n
65
ASN
65
A
ASP
66
n
66
ASP
66
A
GLY
67
n
67
GLY
67
A
ARG
68
n
68
ARG
68
A
THR
69
n
69
THR
69
A
PRO
70
n
70
PRO
70
A
GLY
71
n
71
GLY
71
A
SER
72
n
72
SER
72
A
ARG
73
n
73
ARG
73
A
ASN
74
n
74
ASN
74
A
LEU
75
n
75
LEU
75
A
CYS
76
n
76
CYS
76
A
ASN
77
n
77
ASN
77
A
ILE
78
n
78
ILE
78
A
PRO
79
n
79
PRO
79
A
CYS
80
n
80
CYS
80
A
SER
81
n
81
SER
81
A
ALA
82
n
82
ALA
82
A
LEU
83
n
83
LEU
83
A
LEU
84
n
84
LEU
84
A
SER
85
n
85
SER
85
A
SER
86
n
86
SER
86
A
ASP
87
n
87
ASP
87
A
ILE
88
n
88
ILE
88
A
THR
89
n
89
THR
89
A
ALA
90
n
90
ALA
90
A
SER
91
n
91
SER
91
A
VAL
92
n
92
VAL
92
A
ASN
93
n
93
ASN
93
A
CYS
94
n
94
CYS
94
A
ALA
95
n
95
ALA
95
A
LYS
96
n
96
LYS
96
A
LYS
97
n
97
LYS
97
A
ILE
98
n
98
ILE
98
A
VAL
99
n
99
VAL
99
A
SER
100
n
100
SER
100
A
ASP
101
n
101
ASP
101
A
GLY
102
n
102
GLY
102
A
ASN
103
n
103
ASN
103
A
GLY
104
n
104
GLY
104
A
MET
105
n
105
MET
105
A
ASN
106
n
106
ASN
106
A
ALA
107
n
107
ALA
107
A
TRP
108
n
108
TRP
108
A
VAL
109
n
109
VAL
109
A
ALA
110
n
110
ALA
110
A
TRP
111
n
111
TRP
111
A
ARG
112
n
112
ARG
112
A
ASN
113
n
113
ASN
113
A
ARG
114
n
114
ARG
114
A
CYS
115
n
115
CYS
115
A
LYS
116
n
116
LYS
116
A
GLY
117
n
117
GLY
117
A
THR
118
n
118
THR
118
A
ASP
119
n
119
ASP
119
A
VAL
120
n
120
VAL
120
A
GLN
121
n
121
GLN
121
A
ALA
122
n
122
ALA
122
A
TRP
123
n
123
TRP
123
A
ILE
124
n
124
ILE
124
A
ARG
125
n
125
ARG
125
A
GLY
126
n
126
GLY
126
A
CYS
127
n
127
CYS
127
A
ARG
128
n
128
ARG
128
A
LEU
129
n
129
LEU
129
A
author_and_software_defined_assembly
PISA
1
monomeric
A
CYS
64
A
O
CYS
64
1_555
A
NA
1001
B
NA
NA
1_555
A
SER
72
A
OG
SER
72
1_555
159.2
A
CYS
64
A
O
CYS
64
1_555
A
NA
1001
B
NA
NA
1_555
A
HOH
1127
D
O
HOH
1_555
84.5
A
SER
72
A
OG
SER
72
1_555
A
NA
1001
B
NA
NA
1_555
A
HOH
1127
D
O
HOH
1_555
78.9
A
CYS
64
A
O
CYS
64
1_555
A
NA
1001
B
NA
NA
1_555
A
ARG
73
A
O
ARG
73
1_555
99.3
A
SER
72
A
OG
SER
72
1_555
A
NA
1001
B
NA
NA
1_555
A
ARG
73
A
O
ARG
73
1_555
97.8
A
HOH
1127
D
O
HOH
1_555
A
NA
1001
B
NA
NA
1_555
A
ARG
73
A
O
ARG
73
1_555
175.5
A
CYS
64
A
O
CYS
64
1_555
A
NA
1001
B
NA
NA
1_555
A
SER
60
A
O
SER
60
1_555
88.4
A
SER
72
A
OG
SER
72
1_555
A
NA
1001
B
NA
NA
1_555
A
SER
60
A
O
SER
60
1_555
79.4
A
HOH
1127
D
O
HOH
1_555
A
NA
1001
B
NA
NA
1_555
A
SER
60
A
O
SER
60
1_555
90.9
A
ARG
73
A
O
ARG
73
1_555
A
NA
1001
B
NA
NA
1_555
A
SER
60
A
O
SER
60
1_555
91.5
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
44
A
N
ASN
44
A
O
ASP
52
A
O
ASP
52
A
N
TYR
53
A
N
TYR
53
A
O
ILE
58
A
O
ILE
58
42.201
0.944
0.907
0.22981
0.19433
0.19615
2.40
19.16
233
4794
4794
4.6
99.92
RANDOM
1
THROUGHOUT
0
FOURIER SYNTHESIS
0.596
0.260
0.80
0.80
1.40
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
2.40
19.16
32
1035
2
0
1001
0.015
0.021
1025
1.546
1.903
1389
6.355
5.000
128
32.043
23.000
50
16.823
15.000
166
27.660
15.000
11
0.120
0.200
144
0.005
0.020
794
0.752
1.500
635
1.506
2.000
1008
2.706
3.000
390
4.525
4.500
381
0.2360
0.0000
0.2460
2.4610
20
334
354
20
99.7200
2.4
30
3WUN
5038
5038
0
0
1
99.8
2.40
2.49
1
99.8
data collection
CrystFEL
refinement
REFMAC
5.5.0109
data reduction
CrystFEL
data scaling
XDS
phasing
REFMAC
Lysozyme C (E.C.3.2.1.17)
Crystal structure of hen egg-white lysozyme
1
N
N
2
N
N
3
N
N
4
N
N
A
GLY
4
A
GLY
4
HELX_P
A
HIS
15
A
HIS
15
1
1
12
A
ASN
19
A
ASN
19
HELX_P
A
TYR
23
A
TYR
23
5
2
5
A
SER
24
A
SER
24
HELX_P
A
ASN
37
A
ASN
37
1
3
14
A
PRO
79
A
PRO
79
HELX_P
A
SER
85
A
SER
85
5
4
7
A
ILE
88
A
ILE
88
HELX_P
A
SER
100
A
SER
100
1
5
13
A
ASN
103
A
ASN
103
HELX_P
A
ALA
107
A
ALA
107
5
6
5
A
TRP
108
A
TRP
108
HELX_P
A
CYS
115
A
CYS
115
1
7
8
A
ASP
119
A
ASP
119
HELX_P
A
ILE
124
A
ILE
124
5
8
6
disulf
1.980
A
CYS
6
A
SG
CYS
6
1_555
A
CYS
127
A
SG
CYS
127
1_555
disulf
2.031
A
CYS
30
A
SG
CYS
30
1_555
A
CYS
115
A
SG
CYS
115
1_555
disulf
2.022
A
CYS
64
A
SG
CYS
64
1_555
A
CYS
80
A
SG
CYS
80
1_555
disulf
2.040
A
CYS
76
A
SG
CYS
76
1_555
A
CYS
94
A
SG
CYS
94
1_555
metalc
2.372
A
CYS
64
A
O
CYS
64
1_555
A
NA
1001
B
NA
NA
1_555
metalc
2.435
A
SER
72
A
OG
SER
72
1_555
A
NA
1001
B
NA
NA
1_555
metalc
2.449
A
NA
1001
B
NA
NA
1_555
A
HOH
1127
D
O
HOH
1_555
metalc
2.583
A
ARG
73
A
O
ARG
73
1_555
A
NA
1001
B
NA
NA
1_555
metalc
2.640
A
SER
60
A
O
SER
60
1_555
A
NA
1001
B
NA
NA
1_555
HYDROLASE
serial femtosecond crystallography, HYDROLASE
LYSC_CHICK
UNP
1
19
P00698
KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPC
SALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL
19
147
3WUN
1
129
P00698
A
1
1
129
3
anti-parallel
anti-parallel
A
THR
43
A
THR
43
A
ARG
45
A
ARG
45
A
THR
51
A
THR
51
A
TYR
53
A
TYR
53
A
ILE
58
A
ILE
58
A
ASN
59
A
ASN
59
BINDING SITE FOR RESIDUE NA A 1001
Software
5
BINDING SITE FOR RESIDUE CL A 1002
Software
2
A
SER
60
A
SER
60
5
1_555
A
CYS
64
A
CYS
64
5
1_555
A
SER
72
A
SER
72
5
1_555
A
ARG
73
A
ARG
73
5
1_555
A
HOH
1127
D
HOH
5
1_555
A
TYR
23
A
TYR
23
2
1_555
A
ASN
113
A
ASN
113
2
3_544
96
P 43 21 2