0.013831
0.007985
0.000000
0.000000
0.015971
0.000000
0.000000
0.000000
0.005379
0.00000
0.00000
0.00000
CIS PROLINE - PRO A 145
PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION SER A 191 - HIS A 192 146.695
CIS PROLINE - PRO B 145
RESIDUE DPN P 2 IS A D FORM OF PHE
PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION HIS P 3 - PRO P 4 246.36
RESIDUE DPN P 4 IS A D FORM OF PRO, ITS PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION HIS P 3 - PRO P 4 246.36
Edmundson, A.B.
Harris, D.L.
Fan, Z.-C.
Guddat, L.W.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
72.300
72.300
185.900
C2 H4 O
44.053
ACETYL GROUP
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
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C9 H11 N O2
165.189
D-PHENYLALANINE
D-peptide linking
C5 H9 N O2
115.130
D-PROLINE
D-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
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
H2 N
16.023
AMINO GROUP
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
US
Proteins
PSFGEY
0867
0887-3585
16
246
267
10.1002/prot.340160304
8346191
Principles and pitfalls in designing site-directed peptide ligands.
1993
UK
Mol.Immunol.
MOIMD5
0921
0161-5890
24
915
The Binding of Opioid Peptides to the Mcg Light Chain Dimer: Flexible Keys and Adjustable Locks
1987
UK
Mol.Immunol.
MOIMD5
0921
0161-5890
22
463
Binding of N-Formylated Chemotactic Peptides in Crystals of the Mcg Light Chain Dimer: Similarities with Neutrophil Receptors
1985
UK
Mol.Immunol.
MOIMD5
0921
0161-5890
7
561
A Search for Site-Filling Ligands in the Mcg Bence-Jones Dimer: Crystal Binding Studies of Fluorescent Compounds
1984
US
Biochemistry
BICHAW
0033
0006-2960
13
3816
Binding of 2,4-Dinitrophenyl Compounds and Other Small Molecules to a Crystalline Lambdal-Type Bence-Jones Dimer
1974
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
x-ray
1
1.0
1.0
Photon Factory
1.0
SYNCHROTRON
22819.080
IMMUNOGLOBULIN LAMBDA DIMER MCG (LIGHT CHAIN)
2
man
polymer
552.625
PEPTIDE N-ACETYL-L-GLN-D-PHE-L-HIS-D-PRO-NH2
1
man
polymer
no
no
PSALTQPPSASGSLGQSVTISCTGTSSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFSGSKSGNTASLTVSGL
QAEDEADYYCSSYEGSDNFVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVK
AGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS
PSALTQPPSASGSLGQSVTISCTGTSSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFSGSKSGNTASLTVSGL
QAEDEADYYCSSYEGSDNFVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVK
AGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS
A,B
polypeptide(L)
no
yes
(ACE)Q(DPN)H(DPR)(NH2)
XQFHPX
P
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
human
sample
9606
Homo sapiens
3.03
59.47
THIS COMPLEX WAS PREPARED BY DIFFUSION OF THE PEPTIDE INTO
A CRYSTAL OF THE DIMER.
pdbx_database_status
struct_conf
struct_conf_type
repository
Initial release
Version format compliance
Version format compliance
Derived calculations
Other
1
0
1994-01-31
1
1
2008-03-03
1
2
2011-07-13
1
3
2017-11-29
_pdbx_database_status.process_site
Y
BNL
1993-02-25
REL
RESIDUE DPN P 2 IS THE D-PHE.
RESIDUE DPN P 4 IS A D-PRO.
1. THE FOLLOWING TABLE MAY BE USED TO RELATE
THE ENTRIES SEQUENCE NUMBERING TO THE NUMBERING
SYSTEM OF E.KABAT (E.A.KABAT,T.T.WU,M.REID-MILLER,
H.M.PERRY,K.S.GOTTESMAN, SEQUENCES OF PROTEINS OF
IMMUNOLOGICAL INTEREST, 4TH ED.,(1987), NATIONAL
INSTITUTE OF HEALTH,BETHESDA,MD.):
ENTRY 1- 9 10-26 27 28 29
KABAT 1- 9 11-27 27A 27B 27C
ENTRY 30-97 110 111-172 173-203 204-216
KABAT 28-95 106A 107-168 170-200 203-215
2. THE LIGHT CHAIN WAS SEQUENCED BY FETT AND
DEUTSCH (1974) BIOCHEMISTRY, 13, 4102-4114.
3. THIS COMPLEX WAS PREPARED BY DIFFUSION OF THE
PEPTIDE INTO A CRYSTAL OF THE DIMER.
THE LIGHT CHAIN WAS SEQUENCED BY FETT AND DEUTSCH (1974)
BIOCHEMISTRY, 13, 4102-4114.
PRO
1
n
1
PRO
1
A
SER
2
n
2
SER
2
A
ALA
3
n
3
ALA
3
A
LEU
4
n
4
LEU
4
A
THR
5
n
5
THR
5
A
GLN
6
n
6
GLN
6
A
PRO
7
n
7
PRO
7
A
PRO
8
n
8
PRO
8
A
SER
9
n
9
SER
9
A
ALA
10
n
10
ALA
10
A
SER
11
n
11
SER
11
A
GLY
12
n
12
GLY
12
A
SER
13
n
13
SER
13
A
LEU
14
n
14
LEU
14
A
GLY
15
n
15
GLY
15
A
GLN
16
n
16
GLN
16
A
SER
17
n
17
SER
17
A
VAL
18
n
18
VAL
18
A
THR
19
n
19
THR
19
A
ILE
20
n
20
ILE
20
A
SER
21
n
21
SER
21
A
CYS
22
n
22
CYS
22
A
THR
23
n
23
THR
23
A
GLY
24
n
24
GLY
24
A
THR
25
n
25
THR
25
A
SER
26
n
26
SER
26
A
SER
27
n
27
SER
27
A
ASP
28
n
28
ASP
28
A
VAL
29
n
29
VAL
29
A
GLY
30
n
30
GLY
30
A
GLY
31
n
31
GLY
31
A
TYR
32
n
32
TYR
32
A
ASN
33
n
33
ASN
33
A
TYR
34
n
34
TYR
34
A
VAL
35
n
35
VAL
35
A
SER
36
n
36
SER
36
A
TRP
37
n
37
TRP
37
A
TYR
38
n
38
TYR
38
A
GLN
39
n
39
GLN
39
A
GLN
40
n
40
GLN
40
A
HIS
41
n
41
HIS
41
A
ALA
42
n
42
ALA
42
A
GLY
43
n
43
GLY
43
A
LYS
44
n
44
LYS
44
A
ALA
45
n
45
ALA
45
A
PRO
46
n
46
PRO
46
A
LYS
47
n
47
LYS
47
A
VAL
48
n
48
VAL
48
A
ILE
49
n
49
ILE
49
A
ILE
50
n
50
ILE
50
A
TYR
51
n
51
TYR
51
A
GLU
52
n
52
GLU
52
A
VAL
53
n
53
VAL
53
A
ASN
54
n
54
ASN
54
A
LYS
55
n
55
LYS
55
A
ARG
56
n
56
ARG
56
A
PRO
57
n
57
PRO
57
A
SER
58
n
58
SER
58
A
GLY
59
n
59
GLY
59
A
VAL
60
n
60
VAL
60
A
PRO
61
n
61
PRO
61
A
ASP
62
n
62
ASP
62
A
ARG
63
n
63
ARG
63
A
PHE
64
n
64
PHE
64
A
SER
65
n
65
SER
65
A
GLY
66
n
66
GLY
66
A
SER
67
n
67
SER
67
A
LYS
68
n
68
LYS
68
A
SER
69
n
69
SER
69
A
GLY
70
n
70
GLY
70
A
ASN
71
n
71
ASN
71
A
THR
72
n
72
THR
72
A
ALA
73
n
73
ALA
73
A
SER
74
n
74
SER
74
A
LEU
75
n
75
LEU
75
A
THR
76
n
76
THR
76
A
VAL
77
n
77
VAL
77
A
SER
78
n
78
SER
78
A
GLY
79
n
79
GLY
79
A
LEU
80
n
80
LEU
80
A
GLN
81
n
81
GLN
81
A
ALA
82
n
82
ALA
82
A
GLU
83
n
83
GLU
83
A
ASP
84
n
84
ASP
84
A
GLU
85
n
85
GLU
85
A
ALA
86
n
86
ALA
86
A
ASP
87
n
87
ASP
87
A
TYR
88
n
88
TYR
88
A
TYR
89
n
89
TYR
89
A
CYS
90
n
90
CYS
90
A
SER
91
n
91
SER
91
A
SER
92
n
92
SER
92
A
TYR
93
n
93
TYR
93
A
GLU
94
n
94
GLU
94
A
GLY
95
n
95
GLY
95
A
SER
96
n
96
SER
96
A
ASP
97
n
97
ASP
97
A
ASN
98
n
98
ASN
98
A
PHE
99
n
99
PHE
99
A
VAL
100
n
100
VAL
100
A
PHE
101
n
101
PHE
101
A
GLY
102
n
102
GLY
102
A
THR
103
n
103
THR
103
A
GLY
104
n
104
GLY
104
A
THR
105
n
105
THR
105
A
LYS
106
n
106
LYS
106
A
VAL
107
n
107
VAL
107
A
THR
108
n
108
THR
108
A
VAL
109
n
109
VAL
109
A
LEU
110
n
110
LEU
110
A
GLY
111
n
111
GLY
111
A
GLN
112
n
112
GLN
112
A
PRO
113
n
113
PRO
113
A
LYS
114
n
114
LYS
114
A
ALA
115
n
115
ALA
115
A
ASN
116
n
116
ASN
116
A
PRO
117
n
117
PRO
117
A
THR
118
n
118
THR
118
A
VAL
119
n
119
VAL
119
A
THR
120
n
120
THR
120
A
LEU
121
n
121
LEU
121
A
PHE
122
n
122
PHE
122
A
PRO
123
n
123
PRO
123
A
PRO
124
n
124
PRO
124
A
SER
125
n
125
SER
125
A
SER
126
n
126
SER
126
A
GLU
127
n
127
GLU
127
A
GLU
128
n
128
GLU
128
A
LEU
129
n
129
LEU
129
A
GLN
130
n
130
GLN
130
A
ALA
131
n
131
ALA
131
A
ASN
132
n
132
ASN
132
A
LYS
133
n
133
LYS
133
A
ALA
134
n
134
ALA
134
A
THR
135
n
135
THR
135
A
LEU
136
n
136
LEU
136
A
VAL
137
n
137
VAL
137
A
CYS
138
n
138
CYS
138
A
LEU
139
n
139
LEU
139
A
ILE
140
n
140
ILE
140
A
SER
141
n
141
SER
141
A
ASP
142
n
142
ASP
142
A
PHE
143
n
143
PHE
143
A
TYR
144
n
144
TYR
144
A
PRO
145
n
145
PRO
145
A
GLY
146
n
146
GLY
146
A
ALA
147
n
147
ALA
147
A
VAL
148
n
148
VAL
148
A
THR
149
n
149
THR
149
A
VAL
150
n
150
VAL
150
A
ALA
151
n
151
ALA
151
A
TRP
152
n
152
TRP
152
A
LYS
153
n
153
LYS
153
A
ALA
154
n
154
ALA
154
A
ASP
155
n
155
ASP
155
A
GLY
156
n
156
GLY
156
A
SER
157
n
157
SER
157
A
PRO
158
n
158
PRO
158
A
VAL
159
n
159
VAL
159
A
LYS
160
n
160
LYS
160
A
ALA
161
n
161
ALA
161
A
GLY
162
n
162
GLY
162
A
VAL
163
n
163
VAL
163
A
GLU
164
n
164
GLU
164
A
THR
165
n
165
THR
165
A
THR
166
n
166
THR
166
A
LYS
167
n
167
LYS
167
A
PRO
168
n
168
PRO
168
A
SER
169
n
169
SER
169
A
LYS
170
n
170
LYS
170
A
GLN
171
n
171
GLN
171
A
SER
172
n
172
SER
172
A
ASN
173
n
173
ASN
173
A
ASN
174
n
174
ASN
174
A
LYS
175
n
175
LYS
175
A
TYR
176
n
176
TYR
176
A
ALA
177
n
177
ALA
177
A
ALA
178
n
178
ALA
178
A
SER
179
n
179
SER
179
A
SER
180
n
180
SER
180
A
TYR
181
n
181
TYR
181
A
LEU
182
n
182
LEU
182
A
SER
183
n
183
SER
183
A
LEU
184
n
184
LEU
184
A
THR
185
n
185
THR
185
A
PRO
186
n
186
PRO
186
A
GLU
187
n
187
GLU
187
A
GLN
188
n
188
GLN
188
A
TRP
189
n
189
TRP
189
A
LYS
190
n
190
LYS
190
A
SER
191
n
191
SER
191
A
HIS
192
n
192
HIS
192
A
ARG
193
n
193
ARG
193
A
SER
194
n
194
SER
194
A
TYR
195
n
195
TYR
195
A
SER
196
n
196
SER
196
A
CYS
197
n
197
CYS
197
A
GLN
198
n
198
GLN
198
A
VAL
199
n
199
VAL
199
A
THR
200
n
200
THR
200
A
HIS
201
n
201
HIS
201
A
GLU
202
n
202
GLU
202
A
GLY
203
n
203
GLY
203
A
SER
204
n
204
SER
204
A
THR
205
n
205
THR
205
A
VAL
206
n
206
VAL
206
A
GLU
207
n
207
GLU
207
A
LYS
208
n
208
LYS
208
A
THR
209
n
209
THR
209
A
VAL
210
n
210
VAL
210
A
ALA
211
n
211
ALA
211
A
PRO
212
n
212
PRO
212
A
THR
213
n
213
THR
213
A
GLU
214
n
214
GLU
214
A
CYS
215
n
215
CYS
215
A
SER
216
n
216
SER
216
A
PRO
1
n
1
PRO
1
B
SER
2
n
2
SER
2
B
ALA
3
n
3
ALA
3
B
LEU
4
n
4
LEU
4
B
THR
5
n
5
THR
5
B
GLN
6
n
6
GLN
6
B
PRO
7
n
7
PRO
7
B
PRO
8
n
8
PRO
8
B
SER
9
n
9
SER
9
B
ALA
10
n
10
ALA
10
B
SER
11
n
11
SER
11
B
GLY
12
n
12
GLY
12
B
SER
13
n
13
SER
13
B
LEU
14
n
14
LEU
14
B
GLY
15
n
15
GLY
15
B
GLN
16
n
16
GLN
16
B
SER
17
n
17
SER
17
B
VAL
18
n
18
VAL
18
B
THR
19
n
19
THR
19
B
ILE
20
n
20
ILE
20
B
SER
21
n
21
SER
21
B
CYS
22
n
22
CYS
22
B
THR
23
n
23
THR
23
B
GLY
24
n
24
GLY
24
B
THR
25
n
25
THR
25
B
SER
26
n
26
SER
26
B
SER
27
n
27
SER
27
B
ASP
28
n
28
ASP
28
B
VAL
29
n
29
VAL
29
B
GLY
30
n
30
GLY
30
B
GLY
31
n
31
GLY
31
B
TYR
32
n
32
TYR
32
B
ASN
33
n
33
ASN
33
B
TYR
34
n
34
TYR
34
B
VAL
35
n
35
VAL
35
B
SER
36
n
36
SER
36
B
TRP
37
n
37
TRP
37
B
TYR
38
n
38
TYR
38
B
GLN
39
n
39
GLN
39
B
GLN
40
n
40
GLN
40
B
HIS
41
n
41
HIS
41
B
ALA
42
n
42
ALA
42
B
GLY
43
n
43
GLY
43
B
LYS
44
n
44
LYS
44
B
ALA
45
n
45
ALA
45
B
PRO
46
n
46
PRO
46
B
LYS
47
n
47
LYS
47
B
VAL
48
n
48
VAL
48
B
ILE
49
n
49
ILE
49
B
ILE
50
n
50
ILE
50
B
TYR
51
n
51
TYR
51
B
GLU
52
n
52
GLU
52
B
VAL
53
n
53
VAL
53
B
ASN
54
n
54
ASN
54
B
LYS
55
n
55
LYS
55
B
ARG
56
n
56
ARG
56
B
PRO
57
n
57
PRO
57
B
SER
58
n
58
SER
58
B
GLY
59
n
59
GLY
59
B
VAL
60
n
60
VAL
60
B
PRO
61
n
61
PRO
61
B
ASP
62
n
62
ASP
62
B
ARG
63
n
63
ARG
63
B
PHE
64
n
64
PHE
64
B
SER
65
n
65
SER
65
B
GLY
66
n
66
GLY
66
B
SER
67
n
67
SER
67
B
LYS
68
n
68
LYS
68
B
SER
69
n
69
SER
69
B
GLY
70
n
70
GLY
70
B
ASN
71
n
71
ASN
71
B
THR
72
n
72
THR
72
B
ALA
73
n
73
ALA
73
B
SER
74
n
74
SER
74
B
LEU
75
n
75
LEU
75
B
THR
76
n
76
THR
76
B
VAL
77
n
77
VAL
77
B
SER
78
n
78
SER
78
B
GLY
79
n
79
GLY
79
B
LEU
80
n
80
LEU
80
B
GLN
81
n
81
GLN
81
B
ALA
82
n
82
ALA
82
B
GLU
83
n
83
GLU
83
B
ASP
84
n
84
ASP
84
B
GLU
85
n
85
GLU
85
B
ALA
86
n
86
ALA
86
B
ASP
87
n
87
ASP
87
B
TYR
88
n
88
TYR
88
B
TYR
89
n
89
TYR
89
B
CYS
90
n
90
CYS
90
B
SER
91
n
91
SER
91
B
SER
92
n
92
SER
92
B
TYR
93
n
93
TYR
93
B
GLU
94
n
94
GLU
94
B
GLY
95
n
95
GLY
95
B
SER
96
n
96
SER
96
B
ASP
97
n
97
ASP
97
B
ASN
98
n
98
ASN
98
B
PHE
99
n
99
PHE
99
B
VAL
100
n
100
VAL
100
B
PHE
101
n
101
PHE
101
B
GLY
102
n
102
GLY
102
B
THR
103
n
103
THR
103
B
GLY
104
n
104
GLY
104
B
THR
105
n
105
THR
105
B
LYS
106
n
106
LYS
106
B
VAL
107
n
107
VAL
107
B
THR
108
n
108
THR
108
B
VAL
109
n
109
VAL
109
B
LEU
110
n
110
LEU
110
B
GLY
111
n
111
GLY
111
B
GLN
112
n
112
GLN
112
B
PRO
113
n
113
PRO
113
B
LYS
114
n
114
LYS
114
B
ALA
115
n
115
ALA
115
B
ASN
116
n
116
ASN
116
B
PRO
117
n
117
PRO
117
B
THR
118
n
118
THR
118
B
VAL
119
n
119
VAL
119
B
THR
120
n
120
THR
120
B
LEU
121
n
121
LEU
121
B
PHE
122
n
122
PHE
122
B
PRO
123
n
123
PRO
123
B
PRO
124
n
124
PRO
124
B
SER
125
n
125
SER
125
B
SER
126
n
126
SER
126
B
GLU
127
n
127
GLU
127
B
GLU
128
n
128
GLU
128
B
LEU
129
n
129
LEU
129
B
GLN
130
n
130
GLN
130
B
ALA
131
n
131
ALA
131
B
ASN
132
n
132
ASN
132
B
LYS
133
n
133
LYS
133
B
ALA
134
n
134
ALA
134
B
THR
135
n
135
THR
135
B
LEU
136
n
136
LEU
136
B
VAL
137
n
137
VAL
137
B
CYS
138
n
138
CYS
138
B
LEU
139
n
139
LEU
139
B
ILE
140
n
140
ILE
140
B
SER
141
n
141
SER
141
B
ASP
142
n
142
ASP
142
B
PHE
143
n
143
PHE
143
B
TYR
144
n
144
TYR
144
B
PRO
145
n
145
PRO
145
B
GLY
146
n
146
GLY
146
B
ALA
147
n
147
ALA
147
B
VAL
148
n
148
VAL
148
B
THR
149
n
149
THR
149
B
VAL
150
n
150
VAL
150
B
ALA
151
n
151
ALA
151
B
TRP
152
n
152
TRP
152
B
LYS
153
n
153
LYS
153
B
ALA
154
n
154
ALA
154
B
ASP
155
n
155
ASP
155
B
GLY
156
n
156
GLY
156
B
SER
157
n
157
SER
157
B
PRO
158
n
158
PRO
158
B
VAL
159
n
159
VAL
159
B
LYS
160
n
160
LYS
160
B
ALA
161
n
161
ALA
161
B
GLY
162
n
162
GLY
162
B
VAL
163
n
163
VAL
163
B
GLU
164
n
164
GLU
164
B
THR
165
n
165
THR
165
B
THR
166
n
166
THR
166
B
LYS
167
n
167
LYS
167
B
PRO
168
n
168
PRO
168
B
SER
169
n
169
SER
169
B
LYS
170
n
170
LYS
170
B
GLN
171
n
171
GLN
171
B
SER
172
n
172
SER
172
B
ASN
173
n
173
ASN
173
B
ASN
174
n
174
ASN
174
B
LYS
175
n
175
LYS
175
B
TYR
176
n
176
TYR
176
B
ALA
177
n
177
ALA
177
B
ALA
178
n
178
ALA
178
B
SER
179
n
179
SER
179
B
SER
180
n
180
SER
180
B
TYR
181
n
181
TYR
181
B
LEU
182
n
182
LEU
182
B
SER
183
n
183
SER
183
B
LEU
184
n
184
LEU
184
B
THR
185
n
185
THR
185
B
PRO
186
n
186
PRO
186
B
GLU
187
n
187
GLU
187
B
GLN
188
n
188
GLN
188
B
TRP
189
n
189
TRP
189
B
LYS
190
n
190
LYS
190
B
SER
191
n
191
SER
191
B
HIS
192
n
192
HIS
192
B
ARG
193
n
193
ARG
193
B
SER
194
n
194
SER
194
B
TYR
195
n
195
TYR
195
B
SER
196
n
196
SER
196
B
CYS
197
n
197
CYS
197
B
GLN
198
n
198
GLN
198
B
VAL
199
n
199
VAL
199
B
THR
200
n
200
THR
200
B
HIS
201
n
201
HIS
201
B
GLU
202
n
202
GLU
202
B
GLY
203
n
203
GLY
203
B
SER
204
n
204
SER
204
B
THR
205
n
205
THR
205
B
VAL
206
n
206
VAL
206
B
GLU
207
n
207
GLU
207
B
LYS
208
n
208
LYS
208
B
THR
209
n
209
THR
209
B
VAL
210
n
210
VAL
210
B
ALA
211
n
211
ALA
211
B
PRO
212
n
212
PRO
212
B
THR
213
n
213
THR
213
B
GLU
214
n
214
GLU
214
B
CYS
215
n
215
CYS
215
B
SER
216
n
216
SER
216
B
ACE
0
n
1
ACE
0
P
GLN
1
n
2
GLN
1
P
PHE
2
n
3
DPN
2
P
HIS
3
n
4
HIS
3
P
PRO
4
n
5
DPR
4
P
NH2
5
n
6
NH2
5
P
author_and_software_defined_assembly
PISA
3
trimeric
4900
-33
18920
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
GLY
24
A
N
GLY
24
A
O
ASN
71
A
O
ASN
71
A
N
SER
78
A
N
SER
78
A
O
ARG
63
A
O
ARG
63
A
N
GLN
39
A
N
GLN
39
A
O
LYS
47
A
O
LYS
47
A
O
GLY
95
A
O
GLY
95
A
N
ASN
98
A
N
ASN
98
A
N
PHE
122
A
N
PHE
122
A
O
VAL
137
A
O
VAL
137
A
O
PHE
143
A
O
PHE
143
A
N
TYR
176
A
N
TYR
176
A
N
SER
183
A
N
SER
183
A
O
GLY
162
A
O
GLY
162
A
N
ASP
155
A
N
ASP
155
A
O
SER
194
A
O
SER
194
A
O
HIS
201
A
O
HIS
201
A
N
SER
204
A
N
SER
204
B
N
GLY
24
B
N
GLY
24
B
O
ASN
71
B
O
ASN
71
B
N
SER
78
B
N
SER
78
B
O
ARG
63
B
O
ARG
63
B
O
GLN
39
B
O
GLN
39
B
N
LYS
47
B
N
LYS
47
B
O
SER
92
B
O
SER
92
B
N
VAL
100
B
N
VAL
100
B
N
PHE
122
B
N
PHE
122
B
O
VAL
137
B
O
VAL
137
B
O
PHE
143
B
O
PHE
143
B
N
TYR
176
B
N
TYR
176
B
O
TYR
181
B
O
TYR
181
B
N
GLU
164
B
N
GLU
164
B
N
ASP
155
B
N
ASP
155
B
O
SER
194
B
O
SER
194
B
O
HIS
201
B
O
HIS
201
B
N
SER
204
B
N
SER
204
1
P
HIS
3
-18.93
1
A
A
SER
HIS
191
192
146.69
1
P
P
HIS
DPR
3
4
-113.64
1
17.48
1.90
113.40
130.88
A
A
A
CA
CB
CG
TYR
TYR
TYR
51
51
51
N
1
18.35
1.90
113.40
131.75
A
A
A
CA
CB
CG
TYR
TYR
TYR
181
181
181
N
1
14.30
2.20
113.40
127.70
A
A
A
CA
CB
CG
GLU
GLU
GLU
202
202
202
N
1
8.75
1.20
111.50
120.25
B
B
B
CB
CA
C
CYS
CYS
CYS
22
22
22
N
1
9.10
1.10
114.20
123.30
B
B
B
CA
CB
SG
CYS
CYS
CYS
22
22
22
N
1
13.27
1.90
113.40
126.67
B
B
B
CA
CB
CG
TYR
TYR
TYR
34
34
34
N
1
22.58
1.90
113.40
135.98
B
B
B
CA
CB
CG
TYR
TYR
TYR
93
93
93
N
1
14.99
2.30
115.30
130.29
B
B
B
CA
CB
CG
LEU
LEU
LEU
184
184
184
N
1
7.79
1.10
114.20
121.99
B
B
B
CA
CB
SG
CYS
CYS
CYS
215
215
215
N
1
-12.36
1.90
121.10
108.74
P
P
P
O
C
N
HIS
HIS
DPR
3
3
4
Y
1
-9.05
1.40
111.70
102.65
P
P
P
CA
N
CD
DPR
DPR
DPR
4
4
4
N
1
A
SER
2
179.31
156.54
1
A
LEU
4
-22.90
141.58
1
A
PRO
8
-39.36
-1.27
1
A
SER
9
-177.19
131.37
1
A
GLN
16
-84.33
-133.11
1
A
SER
26
-29.89
-45.83
1
A
ASP
28
-122.89
-92.32
1
A
ASN
33
-92.62
57.99
1
A
HIS
41
-67.51
98.32
1
A
ALA
42
37.73
48.74
1
A
ALA
45
-45.09
105.81
1
A
VAL
53
66.30
-68.32
1
A
SER
58
-53.78
78.03
1
A
PRO
61
-12.53
94.43
1
A
ASP
62
17.58
-69.37
1
A
SER
69
-117.77
75.83
1
A
LEU
80
-38.94
121.29
1
A
ALA
86
-162.69
-161.33
1
A
GLU
94
-100.74
-128.16
1
A
SER
96
-35.46
97.26
1
A
ASP
97
53.83
3.20
1
A
ASN
132
86.21
24.69
1
A
ASP
155
156.08
39.85
1
A
ASN
173
-171.42
-121.68
1
A
ASN
174
169.12
35.65
1
A
SER
191
-66.06
42.77
1
A
HIS
192
162.81
127.21
1
A
ARG
193
1.22
-75.63
1
A
PRO
212
-50.69
-1.73
1
A
THR
213
-82.33
31.88
1
B
SER
2
-51.80
86.90
1
B
PRO
7
-42.66
158.85
1
B
ASP
28
-170.62
-65.90
1
B
VAL
29
-26.87
137.34
1
B
TYR
32
-178.05
139.27
1
B
ASN
33
-147.78
-26.79
1
B
GLU
52
32.99
68.61
1
B
VAL
53
62.53
-63.24
1
B
GLU
85
-54.46
108.12
1
B
ASP
97
117.92
-27.59
1
B
THR
105
-160.72
-165.79
1
B
THR
120
-153.08
81.49
1
B
PRO
124
-43.71
105.82
1
B
ASN
174
43.87
20.62
1
P
DPN
2
75.99
-31.40
0.199
0.199
2.7
6.0
8625
1
1.5
2.7
6.0
0
3251
0
0
3251
0.014
0.025
0.028
0.040
0.026
0.030
0.011
0.025
0.127
0.150
0.186
0.500
0.257
0.500
0.208
0.500
8.4
8.4
25.2
25.2
27.3
27.3
2.7
15.0
1MCC
8625
1
model building
X-PLOR
refinement
PROLSQ
refinement
X-PLOR
phasing
X-PLOR
IMMUNOGLOBULIN LAMBDA LIGHT CHAIN DIMER (MCG) COMPLEX WITH N-ACETYL-L-GLN-D-PHE-L-HIS-D-PRO-NH2
PRINCIPLES AND PITFALLS IN DESIGNING SITE DIRECTED PEPTIDE LIGANDS
1
N
N
1
N
N
2
N
N
A
GLN
81
A
GLN
81
HELX_P
A
ALA
82
A
ALA
82
5
CH1
2
A
SER
125
A
SER
125
HELX_P
A
ASN
132
A
ASN
132
1
CH2
8
A
THR
185
A
THR
185
HELX_P
A
HIS
192
A
HIS
192
1
CH3
8
B
GLN
81
B
GLN
81
HELX_P
B
ALA
82
B
ALA
82
5
CH4
2
B
SER
125
B
SER
125
HELX_P
B
ASN
132
B
ASN
132
1
CH5
8
B
THR
185
B
THR
185
HELX_P
B
SER
191
B
SER
191
1
CH6
7
disulf
2.035
A
CYS
22
A
SG
CYS
22
1_555
A
CYS
90
A
SG
CYS
90
1_555
disulf
2.187
A
CYS
138
A
SG
CYS
138
1_555
A
CYS
197
A
SG
CYS
197
1_555
disulf
2.174
B
CYS
22
B
SG
CYS
22
1_555
B
CYS
90
B
SG
CYS
90
1_555
disulf
1.973
B
CYS
138
B
SG
CYS
138
1_555
B
CYS
197
B
SG
CYS
197
1_555
disulf
2.026
A
CYS
215
A
SG
CYS
215
1_555
B
CYS
215
B
SG
CYS
215
1_555
covale
1.325
P
ACE
0
C
C
ACE
1
1_555
P
GLN
1
C
N
GLN
2
1_555
covale
1.325
P
GLN
1
C
C
GLN
2
1_555
P
DPN
2
C
N
DPN
3
1_555
covale
1.345
P
DPN
2
C
C
DPN
3
1_555
P
HIS
3
C
N
HIS
4
1_555
covale
1.400
P
HIS
3
C
C
HIS
4
1_555
P
DPR
4
C
N
DPR
5
1_555
covale
1.256
P
DPR
4
C
C
DPR
5
1_555
P
NH2
5
C
N
NH2
6
1_555
IMMUNE SYSTEM
IMMUNOGLOBULIN, IMMUNE SYSTEM
A
TYR
144
A
TYR
144
1
A
PRO
145
A
PRO
145
-14.65
B
TYR
144
B
TYR
144
1
B
PRO
145
B
PRO
145
-6.45
S14675
PIR
1
1
S14675
MAWALLILTLLTQGTGSWAQSALTQPPSASGSLGQSVTFSCSGTSSDIGNYNYVSWYRQHPGKAPKLMIYEVTKRPSGVP
NRFSGSKSGNTASLTVSGLQAEDEADYYCSSYAGSNSLIFGGGTRLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLIS
DFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS
1MCC
PDB
2
1MCC
21
235
1MCC
2
216
S14675
A
1
2
216
21
235
1MCC
2
216
S14675
B
1
2
216
0
5
1MCC
0
5
1MCC
P
2
1
6
1
PHE
CONFLICT
ILE
20
1MCC
A
S14675
PIR
39
20
1
SER
CONFLICT
THR
23
1MCC
A
S14675
PIR
42
23
1
ILE
CONFLICT
VAL
29
1MCC
A
S14675
PIR
48
29
1
ASN
CONFLICT
GLY
31
1MCC
A
S14675
PIR
50
31
1
ARG
CONFLICT
GLN
39
1MCC
A
S14675
PIR
58
39
1
PRO
CONFLICT
ALA
42
1MCC
A
S14675
PIR
61
42
1
LEU
CONFLICT
VAL
48
1MCC
A
S14675
PIR
67
48
1
MET
CONFLICT
ILE
49
1MCC
A
S14675
PIR
68
49
1
THR
CONFLICT
ASN
54
1MCC
A
S14675
PIR
73
54
1
ASN
CONFLICT
ASP
62
1MCC
A
S14675
PIR
81
62
1
ALA
CONFLICT
GLU
94
1MCC
A
S14675
PIR
113
94
1
ASN
CONFLICT
ASP
97
1MCC
A
S14675
PIR
116
97
1
SER
CONFLICT
ASN
98
1MCC
A
S14675
PIR
117
98
1
LEU
CONFLICT
PHE
99
1MCC
A
S14675
PIR
118
99
1
ILE
CONFLICT
VAL
100
1MCC
A
S14675
PIR
119
100
1
GLY
CONFLICT
THR
103
1MCC
A
S14675
PIR
122
103
1
ARG
CONFLICT
LYS
106
1MCC
A
S14675
PIR
125
106
1
LEU
CONFLICT
VAL
107
1MCC
A
S14675
PIR
126
107
1
ALA
CONFLICT
ASN
116
1MCC
A
S14675
PIR
135
116
1
SER
CONFLICT
THR
118
1MCC
A
S14675
PIR
137
118
1
SER
CONFLICT
GLY
156
1MCC
A
S14675
PIR
175
156
1
THR
CONFLICT
LYS
167
1MCC
A
S14675
PIR
186
167
2
PHE
CONFLICT
ILE
20
1MCC
B
S14675
PIR
39
20
2
SER
CONFLICT
THR
23
1MCC
B
S14675
PIR
42
23
2
ILE
CONFLICT
VAL
29
1MCC
B
S14675
PIR
48
29
2
ASN
CONFLICT
GLY
31
1MCC
B
S14675
PIR
50
31
2
ARG
CONFLICT
GLN
39
1MCC
B
S14675
PIR
58
39
2
PRO
CONFLICT
ALA
42
1MCC
B
S14675
PIR
61
42
2
LEU
CONFLICT
VAL
48
1MCC
B
S14675
PIR
67
48
2
MET
CONFLICT
ILE
49
1MCC
B
S14675
PIR
68
49
2
THR
CONFLICT
ASN
54
1MCC
B
S14675
PIR
73
54
2
ASN
CONFLICT
ASP
62
1MCC
B
S14675
PIR
81
62
2
ALA
CONFLICT
GLU
94
1MCC
B
S14675
PIR
113
94
2
ASN
CONFLICT
ASP
97
1MCC
B
S14675
PIR
116
97
2
SER
CONFLICT
ASN
98
1MCC
B
S14675
PIR
117
98
2
LEU
CONFLICT
PHE
99
1MCC
B
S14675
PIR
118
99
2
ILE
CONFLICT
VAL
100
1MCC
B
S14675
PIR
119
100
2
GLY
CONFLICT
THR
103
1MCC
B
S14675
PIR
122
103
2
ARG
CONFLICT
LYS
106
1MCC
B
S14675
PIR
125
106
2
LEU
CONFLICT
VAL
107
1MCC
B
S14675
PIR
126
107
2
ALA
CONFLICT
ASN
116
1MCC
B
S14675
PIR
135
116
2
SER
CONFLICT
THR
118
1MCC
B
S14675
PIR
137
118
2
SER
CONFLICT
GLY
156
1MCC
B
S14675
PIR
175
156
2
THR
CONFLICT
LYS
167
1MCC
B
S14675
PIR
186
167
3
4
4
3
3
4
4
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
GLY
15
A
GLY
15
A
GLY
24
A
GLY
24
A
ASN
71
A
ASN
71
A
LEU
80
A
LEU
80
A
ARG
63
A
ARG
63
A
SER
69
A
SER
69
A
VAL
35
A
VAL
35
A
GLN
40
A
GLN
40
A
LYS
47
A
LYS
47
A
VAL
53
A
VAL
53
A
ALA
86
A
ALA
86
A
GLY
95
A
GLY
95
A
ASN
98
A
ASN
98
A
LEU
110
A
LEU
110
A
ALA
115
A
ALA
115
A
PHE
122
A
PHE
122
A
ALA
134
A
ALA
134
A
TYR
144
A
TYR
144
A
ASN
174
A
ASN
174
A
LEU
184
A
LEU
184
A
GLY
162
A
GLY
162
A
GLN
171
A
GLN
171
A
THR
149
A
THR
149
A
ASP
155
A
ASP
155
A
SER
194
A
SER
194
A
HIS
201
A
HIS
201
A
SER
204
A
SER
204
A
VAL
210
A
VAL
210
B
GLY
15
B
GLY
15
B
GLY
24
B
GLY
24
B
ASN
71
B
ASN
71
B
LEU
80
B
LEU
80
B
ARG
63
B
ARG
63
B
SER
69
B
SER
69
B
VAL
35
B
VAL
35
B
GLN
40
B
GLN
40
B
LYS
47
B
LYS
47
B
VAL
53
B
VAL
53
B
ALA
86
B
ALA
86
B
SER
92
B
SER
92
B
VAL
100
B
VAL
100
B
LEU
110
B
LEU
110
B
ALA
115
B
ALA
115
B
PHE
122
B
PHE
122
B
ALA
134
B
ALA
134
B
TYR
144
B
TYR
144
B
ASN
174
B
ASN
174
B
LEU
184
B
LEU
184
B
GLU
164
B
GLU
164
B
GLN
171
B
GLN
171
B
THR
149
B
THR
149
B
ASP
155
B
ASP
155
B
SER
194
B
SER
194
B
HIS
201
B
HIS
201
B
SER
204
B
SER
204
B
VAL
210
B
VAL
210
BINDING SITE FOR RESIDUE ACE P 0
Software
4
BINDING SITE FOR RESIDUE DPN P 2
Software
8
BINDING SITE FOR RESIDUE DPR P 4
Software
6
BINDING SITE FOR RESIDUE NH2 P 5
Software
2
PEPTIDE BINDING SITE 1 IN CHAIN A
Author
14
PEPTIDE BINDING SITE 2 IN CHAIN A
Author
6
PEPTIDE BINDING SITE 3 IN CHAIN A
Author
10
PEPTIDE BINDING SITE 1 IN CHAIN B
Author
14
PEPTIDE BINDING SITE 2 IN CHAIN B
Author
6
PEPTIDE BINDING SITE 3 IN CHAIN B
Author
10
A
PHE
99
A
PHE
99
4
1_555
B
TYR
38
B
TYR
38
4
1_555
B
VAL
48
B
VAL
48
4
1_555
P
GLN
1
C
GLN
2
4
1_555
B
TYR
34
B
TYR
34
8
1_555
B
VAL
35
B
VAL
35
8
1_555
B
SER
36
B
SER
36
8
1_555
B
GLU
52
B
GLU
52
8
1_555
B
TYR
93
B
TYR
93
8
1_555
P
GLN
1
C
GLN
2
8
1_555
P
HIS
3
C
HIS
4
8
1_555
P
DPR
4
C
DPR
5
8
1_555
A
TYR
34
A
TYR
34
6
1_555
B
TYR
34
B
TYR
34
6
1_555
B
TYR
93
B
TYR
93
6
1_555
P
DPN
2
C
DPN
3
6
1_555
P
HIS
3
C
HIS
4
6
1_555
P
NH2
5
C
NH2
6
6
1_555
B
TYR
34
B
TYR
34
2
1_555
P
DPR
4
C
DPR
5
2
1_555
A
THR
23
A
THR
23
14
1_555
A
GLY
24
A
GLY
24
14
1_555
A
THR
25
A
THR
25
14
1_555
A
SER
26
A
SER
26
14
1_555
A
SER
27
A
SER
27
14
1_555
A
ASP
28
A
ASP
28
14
1_555
A
VAL
29
A
VAL
29
14
1_555
A
GLY
30
A
GLY
30
14
1_555
A
GLY
31
A
GLY
31
14
1_555
A
TYR
32
A
TYR
32
14
1_555
A
ASN
33
A
ASN
33
14
1_555
A
TYR
34
A
TYR
34
14
1_555
A
VAL
35
A
VAL
35
14
1_555
A
SER
36
A
SER
36
14
1_555
A
ILE
50
A
ILE
50
6
1_555
A
TYR
51
A
TYR
51
6
1_555
A
GLU
52
A
GLU
52
6
1_555
A
VAL
53
A
VAL
53
6
1_555
A
ASN
54
A
ASN
54
6
1_555
A
LYS
55
A
LYS
55
6
1_555
A
SER
91
A
SER
91
10
1_555
A
SER
92
A
SER
92
10
1_555
A
TYR
93
A
TYR
93
10
1_555
A
GLU
94
A
GLU
94
10
1_555
A
GLY
95
A
GLY
95
10
1_555
A
SER
96
A
SER
96
10
1_555
A
ASP
97
A
ASP
97
10
1_555
A
ASN
98
A
ASN
98
10
1_555
A
PHE
99
A
PHE
99
10
1_555
A
VAL
100
A
VAL
100
10
1_555
B
THR
23
B
THR
23
14
1_555
B
GLY
24
B
GLY
24
14
1_555
B
THR
25
B
THR
25
14
1_555
B
SER
26
B
SER
26
14
1_555
B
SER
27
B
SER
27
14
1_555
B
ASP
28
B
ASP
28
14
1_555
B
VAL
29
B
VAL
29
14
1_555
B
GLY
30
B
GLY
30
14
1_555
B
GLY
31
B
GLY
31
14
1_555
B
TYR
32
B
TYR
32
14
1_555
B
ASN
33
B
ASN
33
14
1_555
B
TYR
34
B
TYR
34
14
1_555
B
VAL
35
B
VAL
35
14
1_555
B
SER
36
B
SER
36
14
1_555
B
ILE
50
B
ILE
50
6
1_555
B
TYR
51
B
TYR
51
6
1_555
B
GLU
52
B
GLU
52
6
1_555
B
VAL
53
B
VAL
53
6
1_555
B
ASN
54
B
ASN
54
6
1_555
B
LYS
55
B
LYS
55
6
1_555
B
SER
91
B
SER
91
10
1_555
B
SER
92
B
SER
92
10
1_555
B
TYR
93
B
TYR
93
10
1_555
B
GLU
94
B
GLU
94
10
1_555
B
GLY
95
B
GLY
95
10
1_555
B
SER
96
B
SER
96
10
1_555
B
ASP
97
B
ASP
97
10
1_555
B
ASN
98
B
ASN
98
10
1_555
B
PHE
99
B
PHE
99
10
1_555
B
VAL
100
B
VAL
100
10
1_555
152
P 31 2 1