0.032103
0.000000
0.008506
0.000000
0.021013
0.000000
0.000000
0.000000
0.024267
0.00000
0.00000
0.00000
Arkin, M.A.
Randal, M.
DeLano, W.L.
Hyde, J.
Luong, T.N.
Oslob, J.D.
Raphael, D.R.
Taylor, L.
Wang, J.
McDowell, R.S.
Wells, J.A.
Braisted, A.C.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
2
90.00
104.84
90.00
31.150
47.590
42.630
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 S
149.211
y
METHIONINE
L-peptide linking
C12 H14 N2 O3 S
266.316
(1H-INDOL-3-YL)-(2-MERCAPTO-ETHOXYIMINO)-ACETIC ACID
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
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
100
1603
1608
10.1073/pnas.252756299
12582206
Binding of small molecules to an adaptive
protein-protein interface
2003
10.2210/pdb1m4a/pdb
pdb_00001m4a
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
mirrors
IMAGE PLATE
2000-06-02
RIGAKU RAXIS IV
yale mirrors
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU
15375.948
interleukin-2
Y31C
1
man
polymer
266.316
(1H-INDOL-3-YL)-(2-MERCAPTO-ETHOXYIMINO)-ACETIC ACID
1
syn
non-polymer
92.094
GLYCEROL
1
syn
non-polymer
18.015
water
13
nat
water
IL-2, T-CELL GROWTH FACTOR, TCGF, ALDESLEUKIN
no
no
APTSSSTKKTQLQLEHLLLDLQMILNGINNCKNPKLTRMLTFKFYMPKKATELKHLQCLEEELKPLEEVLNLAQSKNFHL
RPRDLISNINVIVLELKGSETTFMCEYADETATIVEFLNRWITFCQSIISTLT
APTSSSTKKTQLQLEHLLLDLQMILNGINNCKNPKLTRMLTFKFYMPKKATELKHLQCLEEELKPLEEVLNLAQSKNFHL
RPRDLISNINVIVLELKGSETTFMCEYADETATIVEFLNRWITFCQSIISTLT
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
n
n
n
human
Homo
Escherichia
Escherichia coli
sample
9606
Homo sapiens
511693
Escherichia coli BL21
BL21
plasmid
pRSET
1
1.99
38.06
VAPOR DIFFUSION, HANGING DROP
7.0
pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
software
database_2
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Non-polymer description
Version format compliance
Refinement description
Database references
Derived calculations
1
0
2002-07-31
1
1
2008-04-28
1
2
2011-07-13
1
3
2017-10-11
1
4
2021-10-27
_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
1M47 IS the Crystal Structure of Human Interleukin-2
1m48 is the crystal structure of human IL-2 complexed with (R)-N-[2-[1-(Aminoiminomethyl)-3-piperidinyl]-1-oxoethyl]-4-(phenylethynyl)-L-phenylalanine methyl ester
1m49 is the crystal structure of human interleukin-2 complexed with SP-1985
1m4b is the crystal structure of human interleukin-2 K43C covalently modified at C43 with 2-[2-(2-Cyclohexyl-2-guanidino-acetylamino)-acetylamino]-N-(3-mercapto-propyl)-propionamide
1M4C is the crystal structure of human interleukin-2
RCSB
Y
RCSB
2002-07-02
REL
REL
MPE
(1H-INDOL-3-YL)-(2-MERCAPTO-ETHOXYIMINO)-ACETIC ACID
GOL
GLYCEROL
HOH
water
FRG
101
2
MPE
MPE
201
A
GOL
1
3
GOL
GOL
202
A
HOH
2
4
HOH
HOH
203
A
HOH
3
4
HOH
HOH
204
A
HOH
4
4
HOH
HOH
205
A
HOH
5
4
HOH
HOH
206
A
HOH
6
4
HOH
HOH
207
A
HOH
7
4
HOH
HOH
208
A
HOH
8
4
HOH
HOH
209
A
HOH
9
4
HOH
HOH
210
A
HOH
10
4
HOH
HOH
211
A
HOH
11
4
HOH
HOH
212
A
HOH
12
4
HOH
HOH
213
A
HOH
13
4
HOH
HOH
214
A
HOH
14
4
HOH
HOH
215
A
n
1
1
A
n
2
2
A
n
3
3
A
n
4
4
A
n
5
5
A
n
6
6
A
THR
7
n
7
THR
7
A
LYS
8
n
8
LYS
8
A
LYS
9
n
9
LYS
9
A
THR
10
n
10
THR
10
A
GLN
11
n
11
GLN
11
A
LEU
12
n
12
LEU
12
A
GLN
13
n
13
GLN
13
A
LEU
14
n
14
LEU
14
A
GLU
15
n
15
GLU
15
A
HIS
16
n
16
HIS
16
A
LEU
17
n
17
LEU
17
A
LEU
18
n
18
LEU
18
A
LEU
19
n
19
LEU
19
A
ASP
20
n
20
ASP
20
A
LEU
21
n
21
LEU
21
A
GLN
22
n
22
GLN
22
A
MET
23
n
23
MET
23
A
ILE
24
n
24
ILE
24
A
LEU
25
n
25
LEU
25
A
ASN
26
n
26
ASN
26
A
GLY
27
n
27
GLY
27
A
ILE
28
n
28
ILE
28
A
ASN
29
n
29
ASN
29
A
ASN
30
n
30
ASN
30
A
CYS
31
n
31
CYS
31
A
LYS
32
n
32
LYS
32
A
ASN
33
n
33
ASN
33
A
PRO
34
n
34
PRO
34
A
LYS
35
n
35
LYS
35
A
LEU
36
n
36
LEU
36
A
THR
37
n
37
THR
37
A
ARG
38
n
38
ARG
38
A
MET
39
n
39
MET
39
A
LEU
40
n
40
LEU
40
A
THR
41
n
41
THR
41
A
PHE
42
n
42
PHE
42
A
LYS
43
n
43
LYS
43
A
PHE
44
n
44
PHE
44
A
TYR
45
n
45
TYR
45
A
MET
46
n
46
MET
46
A
PRO
47
n
47
PRO
47
A
LYS
48
n
48
LYS
48
A
LYS
49
n
49
LYS
49
A
ALA
50
n
50
ALA
50
A
THR
51
n
51
THR
51
A
GLU
52
n
52
GLU
52
A
LEU
53
n
53
LEU
53
A
LYS
54
n
54
LYS
54
A
HIS
55
n
55
HIS
55
A
LEU
56
n
56
LEU
56
A
GLN
57
n
57
GLN
57
A
CYS
58
n
58
CYS
58
A
LEU
59
n
59
LEU
59
A
GLU
60
n
60
GLU
60
A
GLU
61
n
61
GLU
61
A
GLU
62
n
62
GLU
62
A
LEU
63
n
63
LEU
63
A
LYS
64
n
64
LYS
64
A
PRO
65
n
65
PRO
65
A
LEU
66
n
66
LEU
66
A
GLU
67
n
67
GLU
67
A
GLU
68
n
68
GLU
68
A
VAL
69
n
69
VAL
69
A
LEU
70
n
70
LEU
70
A
ASN
71
n
71
ASN
71
A
LEU
72
n
72
LEU
72
A
ALA
73
n
73
ALA
73
A
n
74
74
A
n
75
75
A
n
76
76
A
n
77
77
A
n
78
78
A
n
79
79
A
LEU
80
n
80
LEU
80
A
ARG
81
n
81
ARG
81
A
PRO
82
n
82
PRO
82
A
ARG
83
n
83
ARG
83
A
ASP
84
n
84
ASP
84
A
LEU
85
n
85
LEU
85
A
ILE
86
n
86
ILE
86
A
SER
87
n
87
SER
87
A
ASN
88
n
88
ASN
88
A
ILE
89
n
89
ILE
89
A
ASN
90
n
90
ASN
90
A
VAL
91
n
91
VAL
91
A
ILE
92
n
92
ILE
92
A
VAL
93
n
93
VAL
93
A
LEU
94
n
94
LEU
94
A
GLU
95
n
95
GLU
95
A
LEU
96
n
96
LEU
96
A
n
97
97
A
n
98
98
A
n
99
99
A
n
100
100
A
n
101
101
A
n
102
102
A
PHE
103
n
103
PHE
103
A
MET
104
n
104
MET
104
A
CYS
105
n
105
CYS
105
A
GLU
106
n
106
GLU
106
A
TYR
107
n
107
TYR
107
A
ALA
108
n
108
ALA
108
A
ASP
109
n
109
ASP
109
A
GLU
110
n
110
GLU
110
A
THR
111
n
111
THR
111
A
ALA
112
n
112
ALA
112
A
THR
113
n
113
THR
113
A
ILE
114
n
114
ILE
114
A
VAL
115
n
115
VAL
115
A
GLU
116
n
116
GLU
116
A
PHE
117
n
117
PHE
117
A
LEU
118
n
118
LEU
118
A
ASN
119
n
119
ASN
119
A
ARG
120
n
120
ARG
120
A
TRP
121
n
121
TRP
121
A
ILE
122
n
122
ILE
122
A
THR
123
n
123
THR
123
A
PHE
124
n
124
PHE
124
A
CYS
125
n
125
CYS
125
A
GLN
126
n
126
GLN
126
A
SER
127
n
127
SER
127
A
ILE
128
n
128
ILE
128
A
ILE
129
n
129
ILE
129
A
SER
130
n
130
SER
130
A
THR
131
n
131
THR
131
A
LEU
132
n
132
LEU
132
A
n
133
133
A
author_defined_assembly
1
monomeric
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
A
ALA
1
A
ALA
1
1
Y
1
A
PRO
2
A
PRO
2
1
Y
1
A
THR
3
A
THR
3
1
Y
1
A
SER
4
A
SER
4
1
Y
1
A
SER
5
A
SER
5
1
Y
1
A
SER
6
A
SER
6
1
Y
1
A
GLN
74
A
GLN
74
1
Y
1
A
SER
75
A
SER
75
1
Y
1
A
LYS
76
A
LYS
76
1
Y
1
A
ASN
77
A
ASN
77
1
Y
1
A
PHE
78
A
PHE
78
1
Y
1
A
HIS
79
A
HIS
79
1
Y
1
A
LYS
97
A
LYS
97
1
Y
1
A
GLY
98
A
GLY
98
1
Y
1
A
SER
99
A
SER
99
1
Y
1
A
GLU
100
A
GLU
100
1
Y
1
A
THR
101
A
THR
101
1
Y
1
A
THR
102
A
THR
102
1
Y
1
A
THR
133
A
THR
133
1
Y
1
A
A
O
O
MET
HOH
39
207
1.85
1
A
A
O
OG1
ARG
THR
38
41
2.12
1
A
ALA
50
-172.71
74.32
1
A
ARG
81
159.29
-39.44
1
A
PRO
82
23.39
-73.36
1
A
ARG
83
-171.95
31.34
43.652
-3.47
0.00
0.28
-0.76
0.00
4.37
0.906
0.862
0.32364
0.27124
0.27625
0.27625
2.18
10.00
561
5210
5210
9.7
91.65
RANDOM
1
isotropic
THROUGHOUT
0
0
MOLECULAR REPLACEMENT
0.540
0.325
0.80
0.80
1.40
MAXIMUM LIKELIHOOD
MASK
2.18
10.00
13
972
24
0
935
0.008
0.022
972
1.366
2.015
1306
3.628
5.000
111
0.095
0.200
158
0.007
0.020
675
0.266
0.200
499
0.236
0.200
35
0.233
0.200
31
0.346
0.200
2
2.358
2.500
570
4.000
5.000
930
2.117
2.500
402
3.429
5.000
376
0.388
0.318
2.254
41
349
390
15
67.6
32.4
2.18
10
1M4A
5840
5840
0
0
0.099
0.099
1
16.1
3.3
91.7
0.246
2.18
2.26
3.2
438
0.246
1
2.0
67.6
data reduction
d*TREK
phasing
AMoRE
refinement
REFMAC
5.1.19
data scaling
d*TREK
Crystal Structure of Human Interleukin-2 Y31C Covalently Modified at C31 with (1H-Indol-3-yl)-(2-mercapto-ethoxyimino)-acetic acid
1
N
N
2
N
N
3
N
N
4
N
N
A
THR
7
A
THR
7
HELX_P
A
ASN
29
A
ASN
29
1
1
23
A
LYS
32
A
LYS
32
HELX_P
A
LEU
40
A
LEU
40
1
2
9
A
GLU
52
A
GLU
52
HELX_P
A
HIS
55
A
HIS
55
5
3
4
A
LEU
56
A
LEU
56
HELX_P
A
GLU
62
A
GLU
62
1
4
7
A
GLU
62
A
GLU
62
HELX_P
A
ALA
73
A
ALA
73
1
5
12
A
ARG
83
A
ARG
83
HELX_P
A
LEU
96
A
LEU
96
1
6
14
A
THR
113
A
THR
113
HELX_P
A
SER
130
A
SER
130
1
7
18
covale
2.010
none
A
CYS
31
A
SG
CYS
31
1_555
A
MPE
201
B
S1
MPE
1_555
CYTOKINE
cytokine, four-helix bundle, small molecule complex
A
LEU
80
A
LEU
80
1
A
ARG
81
A
ARG
81
-17.03
IL2_HUMAN
UNP
1
21
P60568
APTSSSTKKTQLQLEHLLLDLQMILNGINNYKNPKLTRMLTFKFYMPKKATELKHLQCLEEELKPLEEVLNLAQSKNFHL
RPRDLISNINVIVLELKGSETTFMCEYADETATIVEFLNRWITFCQSIISTLT
21
153
1M4A
1
133
P60568
A
1
1
133
1
TYR
engineered mutation
CYS
31
1M4A
A
P60568
UNP
51
31
BINDING SITE FOR RESIDUE MPE A 201
A
MPE
201
Software
7
BINDING SITE FOR RESIDUE GOL A 202
A
GOL
202
Software
3
A
CYS
31
A
CYS
31
7
1_555
A
LYS
35
A
LYS
35
7
1_555
A
LEU
36
A
LEU
36
7
1_555
A
MET
39
A
MET
39
7
1_555
A
PHE
42
A
PHE
42
7
1_555
A
LEU
72
A
LEU
72
7
1_555
A
ALA
73
A
ALA
73
7
1_555
A
ASN
29
A
ASN
29
3
1_555
A
CYS
31
A
CYS
31
3
1_555
A
ASN
33
A
ASN
33
3
1_555
4
P 1 21 1