0.017640
0.000000
0.000000
0.000000
0.016385
0.000000
0.000000
0.000000
0.029595
0.00000
0.00000
0.00000
Takano, K.
Funahashi, J.
Yamagata, Y.
Ogasahara, K.
Yutani, K.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
56.690
61.030
33.790
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
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
JA
J.Biochem.(Tokyo)
JOBIAO
0418
0021-924X
120
1216
1223
9010773
The structure, stability, and folding process of amyloidogenic mutant human lysozyme.
1996
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
254
62
Contribution of Hydrophobic Residues to the Stability of Human Lysozyme: Calorimetric Studies and X-Ray Structural Analysis of the Five Isoleucine to Valine Mutants
1995
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
283
1
IMAGE PLATE
1996-04-23
RIGAKU
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH3R
14708.639
LYSOZYME
3.2.1.17
I56T
1
man
polymer
22.990
SODIUM ION
1
syn
non-polymer
18.015
water
171
nat
water
no
no
KVFERCELARTLKRLGMDGYRGISLANWMCLAKWESGYNTRATNYNAGDRSTDYGTFQINSRYWCNDGKTPGAVNACHLS
CSALLQDNIADAVACAKRVVRDPQGIRAWVAWRNRCQNRDVRQYVQGCGV
KVFERCELARTLKRLGMDGYRGISLANWMCLAKWESGYNTRATNYNAGDRSTDYGTFQINSRYWCNDGKTPGAVNACHLS
CSALLQDNIADAVACAKRVVRDPQGIRAWVAWRNRCQNRDVRQYVQGCGV
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
n
human
Homo
baker's yeast
Saccharomyces
sample
HUMAN LYSOZYME WITH ILE 56 REP
9606
Homo sapiens
HUMAN LYSOZYME WITH ILE 56 REPLACED BY THR
4932
Saccharomyces cerevisiae
AH22R-
PERI8602
1
1.99
38.09
4.5
pH 4.5
pdbx_database_status
struct_conf
struct_conf_type
repository
Initial release
Version format compliance
Version format compliance
Derived calculations
Other
1
0
1997-02-12
1
1
2008-03-24
1
2
2011-07-13
1
3
2017-11-29
_pdbx_database_status.process_site
Y
BNL
1996-08-23
REL
NA
SODIUM ION
HOH
water
NA
601
2
NA
NA
601
A
HOH
131
3
HOH
HOH
131
A
HOH
132
3
HOH
HOH
132
A
HOH
133
3
HOH
HOH
133
A
HOH
134
3
HOH
HOH
134
A
HOH
135
3
HOH
HOH
135
A
HOH
136
3
HOH
HOH
136
A
HOH
137
3
HOH
HOH
137
A
HOH
138
3
HOH
HOH
138
A
HOH
139
3
HOH
HOH
139
A
HOH
140
3
HOH
HOH
140
A
HOH
141
3
HOH
HOH
141
A
HOH
142
3
HOH
HOH
142
A
HOH
143
3
HOH
HOH
143
A
HOH
144
3
HOH
HOH
144
A
HOH
145
3
HOH
HOH
145
A
HOH
146
3
HOH
HOH
146
A
HOH
147
3
HOH
HOH
147
A
HOH
148
3
HOH
HOH
148
A
HOH
149
3
HOH
HOH
149
A
HOH
150
3
HOH
HOH
150
A
HOH
151
3
HOH
HOH
151
A
HOH
152
3
HOH
HOH
152
A
HOH
153
3
HOH
HOH
153
A
HOH
154
3
HOH
HOH
154
A
HOH
155
3
HOH
HOH
155
A
HOH
156
3
HOH
HOH
156
A
HOH
157
3
HOH
HOH
157
A
HOH
158
3
HOH
HOH
158
A
HOH
159
3
HOH
HOH
159
A
HOH
160
3
HOH
HOH
160
A
HOH
161
3
HOH
HOH
161
A
HOH
162
3
HOH
HOH
162
A
HOH
164
3
HOH
HOH
164
A
HOH
165
3
HOH
HOH
165
A
HOH
166
3
HOH
HOH
166
A
HOH
167
3
HOH
HOH
167
A
HOH
169
3
HOH
HOH
169
A
HOH
170
3
HOH
HOH
170
A
HOH
171
3
HOH
HOH
171
A
HOH
172
3
HOH
HOH
172
A
HOH
173
3
HOH
HOH
173
A
HOH
174
3
HOH
HOH
174
A
HOH
175
3
HOH
HOH
175
A
HOH
176
3
HOH
HOH
176
A
HOH
177
3
HOH
HOH
177
A
HOH
178
3
HOH
HOH
178
A
HOH
179
3
HOH
HOH
179
A
HOH
180
3
HOH
HOH
180
A
HOH
181
3
HOH
HOH
181
A
HOH
182
3
HOH
HOH
182
A
HOH
183
3
HOH
HOH
183
A
HOH
184
3
HOH
HOH
184
A
HOH
185
3
HOH
HOH
185
A
HOH
186
3
HOH
HOH
186
A
HOH
188
3
HOH
HOH
188
A
HOH
189
3
HOH
HOH
189
A
HOH
190
3
HOH
HOH
190
A
HOH
191
3
HOH
HOH
191
A
HOH
192
3
HOH
HOH
192
A
HOH
193
3
HOH
HOH
193
A
HOH
194
3
HOH
HOH
194
A
HOH
195
3
HOH
HOH
195
A
HOH
196
3
HOH
HOH
196
A
HOH
197
3
HOH
HOH
197
A
HOH
201
3
HOH
HOH
201
A
HOH
203
3
HOH
HOH
203
A
HOH
204
3
HOH
HOH
204
A
HOH
205
3
HOH
HOH
205
A
HOH
208
3
HOH
HOH
208
A
HOH
210
3
HOH
HOH
210
A
HOH
212
3
HOH
HOH
212
A
HOH
214
3
HOH
HOH
214
A
HOH
215
3
HOH
HOH
215
A
HOH
217
3
HOH
HOH
217
A
HOH
219
3
HOH
HOH
219
A
HOH
220
3
HOH
HOH
220
A
HOH
221
3
HOH
HOH
221
A
HOH
223
3
HOH
HOH
223
A
HOH
224
3
HOH
HOH
224
A
HOH
225
3
HOH
HOH
225
A
HOH
226
3
HOH
HOH
226
A
HOH
227
3
HOH
HOH
227
A
HOH
228
3
HOH
HOH
228
A
HOH
229
3
HOH
HOH
229
A
HOH
235
3
HOH
HOH
235
A
HOH
237
3
HOH
HOH
237
A
HOH
238
3
HOH
HOH
238
A
HOH
239
3
HOH
HOH
239
A
HOH
240
3
HOH
HOH
240
A
HOH
241
3
HOH
HOH
241
A
HOH
242
3
HOH
HOH
242
A
HOH
243
3
HOH
HOH
243
A
HOH
244
3
HOH
HOH
244
A
HOH
245
3
HOH
HOH
245
A
HOH
246
3
HOH
HOH
246
A
HOH
247
3
HOH
HOH
247
A
HOH
248
3
HOH
HOH
248
A
HOH
250
3
HOH
HOH
250
A
HOH
252
3
HOH
HOH
252
A
HOH
253
3
HOH
HOH
253
A
HOH
254
3
HOH
HOH
254
A
HOH
256
3
HOH
HOH
256
A
HOH
257
3
HOH
HOH
257
A
HOH
258
3
HOH
HOH
258
A
HOH
261
3
HOH
HOH
261
A
HOH
262
3
HOH
HOH
262
A
HOH
263
3
HOH
HOH
263
A
HOH
264
3
HOH
HOH
264
A
HOH
268
3
HOH
HOH
268
A
HOH
270
3
HOH
HOH
270
A
HOH
273
3
HOH
HOH
273
A
HOH
274
3
HOH
HOH
274
A
HOH
275
3
HOH
HOH
275
A
HOH
276
3
HOH
HOH
276
A
HOH
277
3
HOH
HOH
277
A
HOH
279
3
HOH
HOH
279
A
HOH
280
3
HOH
HOH
280
A
HOH
289
3
HOH
HOH
289
A
HOH
290
3
HOH
HOH
290
A
HOH
293
3
HOH
HOH
293
A
HOH
297
3
HOH
HOH
297
A
HOH
301
3
HOH
HOH
301
A
HOH
303
3
HOH
HOH
303
A
HOH
307
3
HOH
HOH
307
A
HOH
309
3
HOH
HOH
309
A
HOH
310
3
HOH
HOH
310
A
HOH
312
3
HOH
HOH
312
A
HOH
315
3
HOH
HOH
315
A
HOH
316
3
HOH
HOH
316
A
HOH
318
3
HOH
HOH
318
A
HOH
319
3
HOH
HOH
319
A
HOH
324
3
HOH
HOH
324
A
HOH
326
3
HOH
HOH
326
A
HOH
331
3
HOH
HOH
331
A
HOH
344
3
HOH
HOH
344
A
HOH
347
3
HOH
HOH
347
A
HOH
348
3
HOH
HOH
348
A
HOH
352
3
HOH
HOH
352
A
HOH
355
3
HOH
HOH
355
A
HOH
356
3
HOH
HOH
356
A
HOH
358
3
HOH
HOH
358
A
HOH
364
3
HOH
HOH
364
A
HOH
365
3
HOH
HOH
365
A
HOH
367
3
HOH
HOH
367
A
HOH
388
3
HOH
HOH
388
A
HOH
389
3
HOH
HOH
389
A
HOH
390
3
HOH
HOH
390
A
HOH
391
3
HOH
HOH
391
A
HOH
392
3
HOH
HOH
392
A
HOH
402
3
HOH
HOH
402
A
HOH
404
3
HOH
HOH
404
A
HOH
426
3
HOH
HOH
426
A
HOH
439
3
HOH
HOH
439
A
HOH
442
3
HOH
HOH
442
A
HOH
444
3
HOH
HOH
444
A
HOH
445
3
HOH
HOH
445
A
HOH
446
3
HOH
HOH
446
A
HOH
447
3
HOH
HOH
447
A
HOH
449
3
HOH
HOH
449
A
HOH
450
3
HOH
HOH
450
A
HOH
453
3
HOH
HOH
453
A
HOH
457
3
HOH
HOH
457
A
HOH
458
3
HOH
HOH
458
A
HOH
461
3
HOH
HOH
461
A
HOH
467
3
HOH
HOH
467
A
HOH
486
3
HOH
HOH
486
A
HOH
488
3
HOH
HOH
488
A
HOH
489
3
HOH
HOH
489
A
HOH
494
3
HOH
HOH
494
A
HOH
495
3
HOH
HOH
495
A
HOH
501
3
HOH
HOH
501
A
LYS
1
n
1
LYS
1
A
VAL
2
n
2
VAL
2
A
PHE
3
n
3
PHE
3
A
GLU
4
n
4
GLU
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
ARG
10
n
10
ARG
10
A
THR
11
n
11
THR
11
A
LEU
12
n
12
LEU
12
A
LYS
13
n
13
LYS
13
A
ARG
14
n
14
ARG
14
A
LEU
15
n
15
LEU
15
A
GLY
16
n
16
GLY
16
A
MET
17
n
17
MET
17
A
ASP
18
n
18
ASP
18
A
GLY
19
n
19
GLY
19
A
TYR
20
n
20
TYR
20
A
ARG
21
n
21
ARG
21
A
GLY
22
n
22
GLY
22
A
ILE
23
n
23
ILE
23
A
SER
24
n
24
SER
24
A
LEU
25
n
25
LEU
25
A
ALA
26
n
26
ALA
26
A
ASN
27
n
27
ASN
27
A
TRP
28
n
28
TRP
28
A
MET
29
n
29
MET
29
A
CYS
30
n
30
CYS
30
A
LEU
31
n
31
LEU
31
A
ALA
32
n
32
ALA
32
A
LYS
33
n
33
LYS
33
A
TRP
34
n
34
TRP
34
A
GLU
35
n
35
GLU
35
A
SER
36
n
36
SER
36
A
GLY
37
n
37
GLY
37
A
TYR
38
n
38
TYR
38
A
ASN
39
n
39
ASN
39
A
THR
40
n
40
THR
40
A
ARG
41
n
41
ARG
41
A
ALA
42
n
42
ALA
42
A
THR
43
n
43
THR
43
A
ASN
44
n
44
ASN
44
A
TYR
45
n
45
TYR
45
A
ASN
46
n
46
ASN
46
A
ALA
47
n
47
ALA
47
A
GLY
48
n
48
GLY
48
A
ASP
49
n
49
ASP
49
A
ARG
50
n
50
ARG
50
A
SER
51
n
51
SER
51
A
THR
52
n
52
THR
52
A
ASP
53
n
53
ASP
53
A
TYR
54
n
54
TYR
54
A
GLY
55
n
55
GLY
55
A
THR
56
n
56
THR
56
A
PHE
57
n
57
PHE
57
A
GLN
58
n
58
GLN
58
A
ILE
59
n
59
ILE
59
A
ASN
60
n
60
ASN
60
A
SER
61
n
61
SER
61
A
ARG
62
n
62
ARG
62
A
TYR
63
n
63
TYR
63
A
TRP
64
n
64
TRP
64
A
CYS
65
n
65
CYS
65
A
ASN
66
n
66
ASN
66
A
ASP
67
n
67
ASP
67
A
GLY
68
n
68
GLY
68
A
LYS
69
n
69
LYS
69
A
THR
70
n
70
THR
70
A
PRO
71
n
71
PRO
71
A
GLY
72
n
72
GLY
72
A
ALA
73
n
73
ALA
73
A
VAL
74
n
74
VAL
74
A
ASN
75
n
75
ASN
75
A
ALA
76
n
76
ALA
76
A
CYS
77
n
77
CYS
77
A
HIS
78
n
78
HIS
78
A
LEU
79
n
79
LEU
79
A
SER
80
n
80
SER
80
A
CYS
81
n
81
CYS
81
A
SER
82
n
82
SER
82
A
ALA
83
n
83
ALA
83
A
LEU
84
n
84
LEU
84
A
LEU
85
n
85
LEU
85
A
GLN
86
n
86
GLN
86
A
ASP
87
n
87
ASP
87
A
ASN
88
n
88
ASN
88
A
ILE
89
n
89
ILE
89
A
ALA
90
n
90
ALA
90
A
ASP
91
n
91
ASP
91
A
ALA
92
n
92
ALA
92
A
VAL
93
n
93
VAL
93
A
ALA
94
n
94
ALA
94
A
CYS
95
n
95
CYS
95
A
ALA
96
n
96
ALA
96
A
LYS
97
n
97
LYS
97
A
ARG
98
n
98
ARG
98
A
VAL
99
n
99
VAL
99
A
VAL
100
n
100
VAL
100
A
ARG
101
n
101
ARG
101
A
ASP
102
n
102
ASP
102
A
PRO
103
n
103
PRO
103
A
GLN
104
n
104
GLN
104
A
GLY
105
n
105
GLY
105
A
ILE
106
n
106
ILE
106
A
ARG
107
n
107
ARG
107
A
ALA
108
n
108
ALA
108
A
TRP
109
n
109
TRP
109
A
VAL
110
n
110
VAL
110
A
ALA
111
n
111
ALA
111
A
TRP
112
n
112
TRP
112
A
ARG
113
n
113
ARG
113
A
ASN
114
n
114
ASN
114
A
ARG
115
n
115
ARG
115
A
CYS
116
n
116
CYS
116
A
GLN
117
n
117
GLN
117
A
ASN
118
n
118
ASN
118
A
ARG
119
n
119
ARG
119
A
ASP
120
n
120
ASP
120
A
VAL
121
n
121
VAL
121
A
ARG
122
n
122
ARG
122
A
GLN
123
n
123
GLN
123
A
TYR
124
n
124
TYR
124
A
VAL
125
n
125
VAL
125
A
GLN
126
n
126
GLN
126
A
GLY
127
n
127
GLY
127
A
CYS
128
n
128
CYS
128
A
GLY
129
n
129
GLY
129
A
VAL
130
n
130
VAL
130
A
author_defined_assembly
1
monomeric
A
HOH
135
C
O
HOH
1_555
A
NA
601
B
NA
NA
1_555
A
HOH
159
C
O
HOH
1_555
78.3
A
HOH
135
C
O
HOH
1_555
A
NA
601
B
NA
NA
1_555
A
SER
61
A
O
SER
61
1_554
76.4
A
HOH
159
C
O
HOH
1_555
A
NA
601
B
NA
NA
1_555
A
SER
61
A
O
SER
61
1_554
149.5
A
HOH
135
C
O
HOH
1_555
A
NA
601
B
NA
NA
1_555
A
CYS
65
A
O
CYS
65
1_554
86.8
A
HOH
159
C
O
HOH
1_555
A
NA
601
B
NA
NA
1_555
A
CYS
65
A
O
CYS
65
1_554
112.3
A
SER
61
A
O
SER
61
1_554
A
NA
601
B
NA
NA
1_555
A
CYS
65
A
O
CYS
65
1_554
83.0
A
HOH
135
C
O
HOH
1_555
A
NA
601
B
NA
NA
1_555
A
VAL
74
A
O
VAL
74
1_554
168.2
A
HOH
159
C
O
HOH
1_555
A
NA
601
B
NA
NA
1_555
A
VAL
74
A
O
VAL
74
1_554
89.9
A
SER
61
A
O
SER
61
1_554
A
NA
601
B
NA
NA
1_555
A
VAL
74
A
O
VAL
74
1_554
114.8
A
CYS
65
A
O
CYS
65
1_554
A
NA
601
B
NA
NA
1_555
A
VAL
74
A
O
VAL
74
1_554
98.0
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
O
THR
43
A
O
THR
43
A
N
TYR
54
A
N
TYR
54
A
O
ASP
53
A
O
ASP
53
A
N
ASN
60
A
N
ASN
60
1
A
ASN
118
58.98
16.66
0.148
0.148
1.8
8.
8212
73.3
1
3.
DIFFERENCE FOURIER
1.8
8.
172
1200
0
0
1028
0.009
1.519
24.15
1.194
1.8
1OUA
9220
1.
0.056
1
3.05
80.4
data collection
RIGAKU
SOFTWARE
data reduction
RIGAKU
SOFTWARE
model building
X-PLOR
refinement
X-PLOR
data scaling
RIGAKU
phasing
X-PLOR
LYSOZYME
CONTRIBUTION OF HYDROPHOBIC RESIDUES TO THE STABILITY OF HUMAN LYSOZYME: X-RAY STRUCTURE OF THE I56T MUTANT
1
N
N
2
N
N
3
N
N
A
ARG
5
A
ARG
5
HELX_P
A
ARG
14
A
ARG
14
1
A
10
A
LEU
25
A
LEU
25
HELX_P
A
SER
36
A
SER
36
1
B
12
A
CYS
81
A
CYS
81
HELX_P
A
LEU
85
A
LEU
85
5
C
5
A
ALA
90
A
ALA
90
HELX_P
A
VAL
100
A
VAL
100
1
D
11
A
GLY
105
A
GLY
105
HELX_P
A
ALA
108
A
ALA
108
5
E
4
A
VAL
110
A
VAL
110
HELX_P
A
ARG
115
A
ARG
115
1
F
6
A
ARG
122
A
ARG
122
HELX_P
A
TYR
124
A
TYR
124
5
G
3
disulf
2.017
A
CYS
6
A
SG
CYS
6
1_555
A
CYS
128
A
SG
CYS
128
1_555
disulf
2.034
A
CYS
30
A
SG
CYS
30
1_555
A
CYS
116
A
SG
CYS
116
1_555
disulf
2.023
A
CYS
65
A
SG
CYS
65
1_555
A
CYS
81
A
SG
CYS
81
1_555
disulf
2.028
A
CYS
77
A
SG
CYS
77
1_555
A
CYS
95
A
SG
CYS
95
1_555
metalc
2.391
A
NA
601
B
NA
NA
1_555
A
HOH
135
C
O
HOH
1_555
metalc
2.216
A
NA
601
B
NA
NA
1_555
A
HOH
159
C
O
HOH
1_555
metalc
2.163
A
NA
601
B
NA
NA
1_555
A
SER
61
A
O
SER
61
1_554
metalc
2.502
A
NA
601
B
NA
NA
1_555
A
CYS
65
A
O
CYS
65
1_554
metalc
2.485
A
NA
601
B
NA
NA
1_555
A
VAL
74
A
O
VAL
74
1_554
HYDROLASE (O-GLYCOSYL)
HYDROLASE (O-GLYCOSYL), AMYLOID, DISEASE MUTATION
LYSC_HUMAN
UNP
1
1
P61626
KVFERCELARTLKRLGMDGYRGISLANWMCLAKWESGYNTRATNYNAGDRSTDYGTFQINSRYWCNDGKTPGAVNACHLS
CSALLQDNIADAVACAKRVVRDPQGIRAWVAWRNRCQNRDVRQYVQGCGV
1
130
1OUA
1
130
P61626
A
1
1
130
3
anti-parallel
anti-parallel
A
THR
43
A
THR
43
A
ASN
46
A
ASN
46
A
SER
51
A
SER
51
A
TYR
54
A
TYR
54
A
ILE
59
A
ILE
59
A
ASN
60
A
ASN
60
BINDING SITE FOR RESIDUE NA A 601
Software
6
A
SER
61
A
SER
61
6
1_554
A
CYS
65
A
CYS
65
6
1_554
A
ALA
73
A
ALA
73
6
1_554
A
VAL
74
A
VAL
74
6
1_554
A
HOH
135
C
HOH
6
1_555
A
HOH
159
C
HOH
6
1_555
19
P 21 21 21