1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Pan, B.
Li, B.
Russell, S.J.
Tom, J.Y.K.
Cochran, A.G.
Fairbrother, W.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
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
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
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
316
769
787
10.1006/jmbi.2001.5370
11866530
Solution Structure of a Phage-derived Peptide Antagonist in Complex with Vascular Endothelial Growth Factor
2002
10.2210/pdb1kat/pdb
pdb_00001kat
11649.396
Vascular Endothelial Growth Factor
Receptor Binding Domain
2
man
polymer
2346.620
Phage-Derived Peptide Antagonist
2
syn
polymer
VEGF; VASCULAR PERMEABILITY FACTOR; VPF
v107
no
no
HHEVVKFMDVYQRSYCHPIETLVDIFQEYPDEIEYIFKPSCVPLMRCGGCCNDEGLECVPTEESNITMQIMRIKPHQGQH
IGEMSFLQHNKCECRPKKD
HHEVVKFMDVYQRSYCHPIETLVDIFQEYPDEIEYIFKPSCVPLMRCGGCCNDEGLECVPTEESNITMQIMRIKPHQGQH
IGEMSFLQHNKCECRPKKD
V,W
polypeptide(L)
no
no
GGNECDIARMWEWECFERL
GGNECDIARMWEWECFERL
X,Y
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
human
Homo
Escherichia
sample
VEGF or VEGFA
9606
Homo sapiens
562
Escherichia coli
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2002-11-02
1
1
2008-04-27
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
1H, 13C, and 15N resonance assignment of the vascular endothelial growth factor receptor-binding domain in complex with a receptor-blocking peptide.
1H, 13C, and 15N resonance assignment of a receptor-blocking peptide in complex with the vascular endothelial growth factor receptor-binding domain.
RCSB
Y
RCSB
2001-11-02
REL
The structure was determined using triple-resonance NMR spectroscopy
structures with the least restraint violations
120
24
3D_15N-separated_NOESY
3D_13C-separated_NOESY
3D_15N-separated_NOESY
3D_13C-separated_NOESY
IPAP_1H_15N_HSQC
IPAP_1H_15N_HSQC
3D_13C-edited_12C-filtered_NOESY
3D_12C-filtered_13C-edited_NOESY
HNHB
HMSQC-HA
50mM sodium chloride, 20 sodium phosphate
7.0
1
atm
308
K
50mM sodium chloride, 20 sodium phosphate
7.0
1
atm
318
K
50mM sodium chloride, 20 sodium phosphate
7.0
1
atm
298
K
The structures are based on 3940 NOE-derived distance restraints, 176 distance restraints from hydrogen bonds, 476 dihedral angle restraints, 146 residual dipolar coupling restraints.
Torsion angle dynamics simulated annealing
9
closest to the average
0.6mM U-13C/15N labeled v107 + 0.45 mM unlabeled VEGF Dimer; 50mM sodium chloride, 20mM phosphate buffer, 0.002% sodium azide
90% H2O/10% D2O
0.6mM U-13C/15N labeled v107 + 0.45 mM unlabeled VEGF Dimer; 50mM sodium chloride, 20mM phosphate buffer, 0.002% sodium azide
100% D2O
1.0mM U-13C/15N labeled VEGF dimer + 2.25 mM unlabeled v107; 50mM sodium chloride, 20mM phosphate buffer, 0.002% sodium azide
90% H2O/10% D2O
1.0mM U-13C/15N labeled VEGF dimer + 2.25 mM unlabeled v107; 50mM sodium chloride, 20mM phosphate buffer, 0.002% sodium azide
100% D2O
0.6mM U-13C/15N labeled v107 + 0.45 mM unlabeled VEGF Dimer; 50mM sodium chloride, 20mM phosphate buffer, 0.002% sodium azide, 15mg/ml pf1 phage
90% H2O/10% D2O
1.0mM U-13C/15N labeled VEGF Dimer + 2.25 mM unlabeled v107; 50mM sodium chloride, 20mM phosphate buffer, 0.002% sodium azide, 15mg/ml pf1 phage
90% H2O/10% D2O
Bruker, Inc.
collection
XwinNMR
2.6
Accelys, Inc.
processing
Felix
98.0
Bartels, Xia, Billeter, Guntert, Wuthrich
data analysis
XEASY
1.3.13
Accelys, Inc.
structure solution
CNX
2000.1
Accelys, Inc.
refinement
CNX
2000.1
600
Bruker
DRX
800
Bruker
DRX
HIS
11
n
1
HIS
11
V
HIS
12
n
2
HIS
12
V
GLU
13
n
3
GLU
13
V
VAL
14
n
4
VAL
14
V
VAL
15
n
5
VAL
15
V
LYS
16
n
6
LYS
16
V
PHE
17
n
7
PHE
17
V
MET
18
n
8
MET
18
V
ASP
19
n
9
ASP
19
V
VAL
20
n
10
VAL
20
V
TYR
21
n
11
TYR
21
V
GLN
22
n
12
GLN
22
V
ARG
23
n
13
ARG
23
V
SER
24
n
14
SER
24
V
TYR
25
n
15
TYR
25
V
CYS
26
n
16
CYS
26
V
HIS
27
n
17
HIS
27
V
PRO
28
n
18
PRO
28
V
ILE
29
n
19
ILE
29
V
GLU
30
n
20
GLU
30
V
THR
31
n
21
THR
31
V
LEU
32
n
22
LEU
32
V
VAL
33
n
23
VAL
33
V
ASP
34
n
24
ASP
34
V
ILE
35
n
25
ILE
35
V
PHE
36
n
26
PHE
36
V
GLN
37
n
27
GLN
37
V
GLU
38
n
28
GLU
38
V
TYR
39
n
29
TYR
39
V
PRO
40
n
30
PRO
40
V
ASP
41
n
31
ASP
41
V
GLU
42
n
32
GLU
42
V
ILE
43
n
33
ILE
43
V
GLU
44
n
34
GLU
44
V
TYR
45
n
35
TYR
45
V
ILE
46
n
36
ILE
46
V
PHE
47
n
37
PHE
47
V
LYS
48
n
38
LYS
48
V
PRO
49
n
39
PRO
49
V
SER
50
n
40
SER
50
V
CYS
51
n
41
CYS
51
V
VAL
52
n
42
VAL
52
V
PRO
53
n
43
PRO
53
V
LEU
54
n
44
LEU
54
V
MET
55
n
45
MET
55
V
ARG
56
n
46
ARG
56
V
CYS
57
n
47
CYS
57
V
GLY
58
n
48
GLY
58
V
GLY
59
n
49
GLY
59
V
CYS
60
n
50
CYS
60
V
CYS
61
n
51
CYS
61
V
ASN
62
n
52
ASN
62
V
ASP
63
n
53
ASP
63
V
GLU
64
n
54
GLU
64
V
GLY
65
n
55
GLY
65
V
LEU
66
n
56
LEU
66
V
GLU
67
n
57
GLU
67
V
CYS
68
n
58
CYS
68
V
VAL
69
n
59
VAL
69
V
PRO
70
n
60
PRO
70
V
THR
71
n
61
THR
71
V
GLU
72
n
62
GLU
72
V
GLU
73
n
63
GLU
73
V
SER
74
n
64
SER
74
V
ASN
75
n
65
ASN
75
V
ILE
76
n
66
ILE
76
V
THR
77
n
67
THR
77
V
MET
78
n
68
MET
78
V
GLN
79
n
69
GLN
79
V
ILE
80
n
70
ILE
80
V
MET
81
n
71
MET
81
V
ARG
82
n
72
ARG
82
V
ILE
83
n
73
ILE
83
V
LYS
84
n
74
LYS
84
V
PRO
85
n
75
PRO
85
V
HIS
86
n
76
HIS
86
V
GLN
87
n
77
GLN
87
V
GLY
88
n
78
GLY
88
V
GLN
89
n
79
GLN
89
V
HIS
90
n
80
HIS
90
V
ILE
91
n
81
ILE
91
V
GLY
92
n
82
GLY
92
V
GLU
93
n
83
GLU
93
V
MET
94
n
84
MET
94
V
SER
95
n
85
SER
95
V
PHE
96
n
86
PHE
96
V
LEU
97
n
87
LEU
97
V
GLN
98
n
88
GLN
98
V
HIS
99
n
89
HIS
99
V
ASN
100
n
90
ASN
100
V
LYS
101
n
91
LYS
101
V
CYS
102
n
92
CYS
102
V
GLU
103
n
93
GLU
103
V
CYS
104
n
94
CYS
104
V
ARG
105
n
95
ARG
105
V
PRO
106
n
96
PRO
106
V
LYS
107
n
97
LYS
107
V
LYS
108
n
98
LYS
108
V
ASP
109
n
99
ASP
109
V
HIS
11
n
1
HIS
11
W
HIS
12
n
2
HIS
12
W
GLU
13
n
3
GLU
13
W
VAL
14
n
4
VAL
14
W
VAL
15
n
5
VAL
15
W
LYS
16
n
6
LYS
16
W
PHE
17
n
7
PHE
17
W
MET
18
n
8
MET
18
W
ASP
19
n
9
ASP
19
W
VAL
20
n
10
VAL
20
W
TYR
21
n
11
TYR
21
W
GLN
22
n
12
GLN
22
W
ARG
23
n
13
ARG
23
W
SER
24
n
14
SER
24
W
TYR
25
n
15
TYR
25
W
CYS
26
n
16
CYS
26
W
HIS
27
n
17
HIS
27
W
PRO
28
n
18
PRO
28
W
ILE
29
n
19
ILE
29
W
GLU
30
n
20
GLU
30
W
THR
31
n
21
THR
31
W
LEU
32
n
22
LEU
32
W
VAL
33
n
23
VAL
33
W
ASP
34
n
24
ASP
34
W
ILE
35
n
25
ILE
35
W
PHE
36
n
26
PHE
36
W
GLN
37
n
27
GLN
37
W
GLU
38
n
28
GLU
38
W
TYR
39
n
29
TYR
39
W
PRO
40
n
30
PRO
40
W
ASP
41
n
31
ASP
41
W
GLU
42
n
32
GLU
42
W
ILE
43
n
33
ILE
43
W
GLU
44
n
34
GLU
44
W
TYR
45
n
35
TYR
45
W
ILE
46
n
36
ILE
46
W
PHE
47
n
37
PHE
47
W
LYS
48
n
38
LYS
48
W
PRO
49
n
39
PRO
49
W
SER
50
n
40
SER
50
W
CYS
51
n
41
CYS
51
W
VAL
52
n
42
VAL
52
W
PRO
53
n
43
PRO
53
W
LEU
54
n
44
LEU
54
W
MET
55
n
45
MET
55
W
ARG
56
n
46
ARG
56
W
CYS
57
n
47
CYS
57
W
GLY
58
n
48
GLY
58
W
GLY
59
n
49
GLY
59
W
CYS
60
n
50
CYS
60
W
CYS
61
n
51
CYS
61
W
ASN
62
n
52
ASN
62
W
ASP
63
n
53
ASP
63
W
GLU
64
n
54
GLU
64
W
GLY
65
n
55
GLY
65
W
LEU
66
n
56
LEU
66
W
GLU
67
n
57
GLU
67
W
CYS
68
n
58
CYS
68
W
VAL
69
n
59
VAL
69
W
PRO
70
n
60
PRO
70
W
THR
71
n
61
THR
71
W
GLU
72
n
62
GLU
72
W
GLU
73
n
63
GLU
73
W
SER
74
n
64
SER
74
W
ASN
75
n
65
ASN
75
W
ILE
76
n
66
ILE
76
W
THR
77
n
67
THR
77
W
MET
78
n
68
MET
78
W
GLN
79
n
69
GLN
79
W
ILE
80
n
70
ILE
80
W
MET
81
n
71
MET
81
W
ARG
82
n
72
ARG
82
W
ILE
83
n
73
ILE
83
W
LYS
84
n
74
LYS
84
W
PRO
85
n
75
PRO
85
W
HIS
86
n
76
HIS
86
W
GLN
87
n
77
GLN
87
W
GLY
88
n
78
GLY
88
W
GLN
89
n
79
GLN
89
W
HIS
90
n
80
HIS
90
W
ILE
91
n
81
ILE
91
W
GLY
92
n
82
GLY
92
W
GLU
93
n
83
GLU
93
W
MET
94
n
84
MET
94
W
SER
95
n
85
SER
95
W
PHE
96
n
86
PHE
96
W
LEU
97
n
87
LEU
97
W
GLN
98
n
88
GLN
98
W
HIS
99
n
89
HIS
99
W
ASN
100
n
90
ASN
100
W
LYS
101
n
91
LYS
101
W
CYS
102
n
92
CYS
102
W
GLU
103
n
93
GLU
103
W
CYS
104
n
94
CYS
104
W
ARG
105
n
95
ARG
105
W
PRO
106
n
96
PRO
106
W
LYS
107
n
97
LYS
107
W
LYS
108
n
98
LYS
108
W
ASP
109
n
99
ASP
109
W
GLY
1
n
1
GLY
1
X
GLY
2
n
2
GLY
2
X
ASN
3
n
3
ASN
3
X
GLU
4
n
4
GLU
4
X
CYS
5
n
5
CYS
5
X
ASP
6
n
6
ASP
6
X
ILE
7
n
7
ILE
7
X
ALA
8
n
8
ALA
8
X
ARG
9
n
9
ARG
9
X
MET
10
n
10
MET
10
X
TRP
11
n
11
TRP
11
X
GLU
12
n
12
GLU
12
X
TRP
13
n
13
TRP
13
X
GLU
14
n
14
GLU
14
X
CYS
15
n
15
CYS
15
X
PHE
16
n
16
PHE
16
X
GLU
17
n
17
GLU
17
X
ARG
18
n
18
ARG
18
X
LEU
19
n
19
LEU
19
X
GLY
1
n
1
GLY
1
Y
GLY
2
n
2
GLY
2
Y
ASN
3
n
3
ASN
3
Y
GLU
4
n
4
GLU
4
Y
CYS
5
n
5
CYS
5
Y
ASP
6
n
6
ASP
6
Y
ILE
7
n
7
ILE
7
Y
ALA
8
n
8
ALA
8
Y
ARG
9
n
9
ARG
9
Y
MET
10
n
10
MET
10
Y
TRP
11
n
11
TRP
11
Y
GLU
12
n
12
GLU
12
Y
TRP
13
n
13
TRP
13
Y
GLU
14
n
14
GLU
14
Y
CYS
15
n
15
CYS
15
Y
PHE
16
n
16
PHE
16
Y
GLU
17
n
17
GLU
17
Y
ARG
18
n
18
ARG
18
Y
LEU
19
n
19
LEU
19
Y
author_defined_assembly
4
tetrameric
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
V
N
ILE
29
A
N
ILE
19
V
O
ARG
56
A
O
ARG
46
V
N
ILE
46
A
N
ILE
36
V
O
ILE
83
A
O
ILE
73
V
N
ILE
80
A
N
ILE
70
V
O
GLY
92
A
O
GLY
82
V
N
VAL
69
A
N
VAL
59
V
O
GLU
103
A
O
GLU
93
W
N
ILE
29
B
N
ILE
19
W
O
ARG
56
B
O
ARG
46
W
N
ILE
46
B
N
ILE
36
W
O
ILE
83
B
O
ILE
73
W
N
ILE
80
B
N
ILE
70
W
O
GLY
92
B
O
GLY
82
W
N
VAL
69
B
N
VAL
59
W
O
GLU
103
B
O
GLU
93
1
V
HIS
12
-86.12
-83.42
1
V
GLU
13
172.69
179.80
1
V
CYS
26
-39.91
103.25
1
V
GLN
87
-120.21
-124.52
1
W
GLU
13
65.78
-174.28
1
W
CYS
26
-38.50
102.66
1
W
GLN
87
-120.97
-122.81
1
W
HIS
90
-171.67
149.40
1
W
LYS
108
-110.74
-70.57
1
X
ASN
3
-157.08
47.95
1
X
GLU
4
-99.66
40.32
1
X
ALA
8
-97.93
33.37
1
X
MET
10
-54.69
96.54
1
X
TRP
11
-68.05
92.79
1
X
GLU
12
-60.13
-172.72
1
X
ARG
18
-117.49
70.95
1
Y
ASN
3
-164.06
40.60
1
Y
GLU
4
-97.73
46.42
1
Y
ALA
8
-98.67
33.01
1
Y
MET
10
-51.60
95.23
1
Y
TRP
11
-66.14
94.18
1
Y
GLU
12
-61.26
-172.04
1
Y
ARG
18
-111.45
68.81
2
V
GLU
13
-148.12
21.20
2
V
CYS
26
-37.22
100.80
2
V
TYR
39
-114.41
74.98
2
V
HIS
86
75.12
-2.44
2
V
GLN
87
-123.16
-116.19
2
V
LYS
108
-137.67
-64.18
2
W
CYS
26
-39.08
101.90
2
W
TYR
39
-114.60
75.99
2
W
HIS
86
74.96
-2.24
2
W
GLN
87
-122.63
-118.56
2
W
LYS
108
-162.98
40.48
2
X
ALA
8
-99.80
36.38
2
X
MET
10
-50.03
95.02
2
X
TRP
11
-69.59
88.32
2
X
GLU
12
-57.20
-174.89
2
Y
ASN
3
-62.20
84.69
2
Y
MET
10
-48.82
95.07
2
Y
TRP
11
-69.81
90.42
2
Y
GLU
12
-59.30
-173.57
3
V
HIS
12
-176.64
84.82
3
V
GLU
13
-66.47
-76.54
3
V
CYS
26
-38.18
104.75
3
V
TYR
39
-118.98
77.21
3
V
PRO
85
-58.18
104.23
3
W
HIS
12
-170.25
-42.57
3
W
GLU
13
60.61
-88.22
3
W
CYS
26
-39.61
103.94
3
W
TYR
39
-119.97
77.07
3
W
GLN
87
-125.81
-101.95
3
W
LYS
108
-177.22
106.15
3
X
ALA
8
-98.43
34.12
3
X
MET
10
-52.52
95.24
3
X
TRP
11
-68.63
86.92
3
X
GLU
12
-59.51
-163.76
3
Y
ALA
8
-98.59
34.49
3
Y
MET
10
-54.27
95.90
3
Y
TRP
11
-68.93
87.61
3
Y
GLU
12
-59.38
-163.21
4
V
CYS
26
-36.54
98.98
4
V
GLN
87
-122.50
-115.93
4
W
CYS
26
-36.55
99.50
4
W
GLN
87
-121.31
-118.99
4
X
ALA
8
-98.39
39.66
4
X
MET
10
-54.77
92.17
4
X
TRP
11
-69.06
89.70
4
X
GLU
12
-58.90
-164.74
4
X
ARG
18
-95.54
55.84
4
Y
ALA
8
-97.79
39.59
4
Y
MET
10
-52.68
92.51
4
Y
TRP
11
-69.70
90.36
4
Y
GLU
12
-59.74
-163.68
4
Y
ARG
18
-95.32
56.67
5
V
HIS
12
-168.98
-157.57
5
V
GLU
13
63.45
139.42
5
V
CYS
26
-39.93
103.05
5
V
HIS
86
74.36
-4.24
5
V
GLN
87
-122.39
-117.02
5
W
HIS
12
-165.91
-157.72
5
W
GLU
13
63.30
141.05
5
W
CYS
26
-41.45
102.90
5
W
HIS
86
73.73
-4.30
5
W
LYS
108
-112.29
54.81
5
X
ASN
3
-151.70
-48.44
5
X
MET
10
-50.19
97.90
5
X
GLU
12
-56.80
-171.55
5
X
ARG
18
-116.52
69.53
5
Y
ASN
3
-151.48
-47.93
5
Y
MET
10
-52.22
97.96
5
Y
GLU
12
-56.07
-171.06
5
Y
ARG
18
-116.09
69.37
6
V
CYS
26
-38.92
105.19
6
V
GLN
87
-122.37
-114.29
6
W
CYS
26
-37.36
103.66
6
W
GLN
87
-122.17
-114.72
6
W
LYS
108
-140.86
55.47
6
X
ALA
8
-98.17
32.12
6
X
MET
10
-56.56
99.40
6
X
TRP
11
-69.87
89.75
6
X
GLU
12
-56.52
-171.31
6
Y
ALA
8
-98.88
36.56
6
Y
MET
10
-56.12
98.76
6
Y
TRP
11
-69.80
90.04
6
Y
GLU
12
-56.58
-171.48
7
V
HIS
12
73.90
-0.37
7
V
GLU
13
-99.56
-64.57
7
V
CYS
26
-41.01
102.94
7
V
TYR
39
-105.45
78.84
7
V
HIS
86
80.35
-8.34
7
V
GLN
87
-114.29
-128.29
7
W
CYS
26
-40.44
104.93
7
W
TYR
39
-105.39
79.67
7
W
HIS
86
78.48
-6.38
7
X
ALA
8
-93.93
30.08
7
X
MET
10
-51.52
96.78
7
X
TRP
11
-68.51
90.17
7
X
GLU
12
-56.50
-167.83
7
Y
MET
10
-53.99
97.97
7
Y
TRP
11
-69.83
90.06
7
Y
GLU
12
-56.88
-167.26
8
V
GLU
13
-149.14
-109.73
8
V
CYS
26
-39.70
108.52
8
V
TYR
39
-109.33
74.39
8
V
SER
74
-175.52
146.75
8
V
HIS
86
77.21
-4.67
8
V
LYS
108
-104.10
49.29
8
W
GLU
13
-155.21
-153.18
8
W
CYS
26
-41.65
107.20
8
W
TYR
39
-109.33
74.73
8
W
SER
74
-175.50
147.51
8
W
HIS
86
76.69
-5.05
8
W
GLN
87
-117.93
-120.70
8
X
MET
10
-50.60
100.72
8
X
GLU
12
-58.16
-171.27
8
Y
ASN
3
59.77
87.58
8
Y
MET
10
-50.86
101.29
8
Y
GLU
12
-57.86
-171.72
9
V
CYS
26
-40.73
102.21
9
V
TYR
39
-108.81
78.61
9
V
GLN
87
-121.10
-125.42
9
W
CYS
26
-39.19
103.07
9
W
TYR
39
-109.05
78.56
9
W
GLN
87
-121.53
-125.42
9
X
ASN
3
-156.36
-46.59
9
X
MET
10
-51.11
97.50
9
X
TRP
11
-67.84
92.30
9
X
GLU
12
-58.34
-167.99
9
Y
ASN
3
-156.24
-46.47
9
Y
ALA
8
-98.58
31.24
9
Y
MET
10
-49.59
98.04
9
Y
TRP
11
-69.53
91.04
9
Y
GLU
12
-56.98
-169.76
10
V
HIS
12
-149.64
-47.64
10
V
GLU
13
58.68
171.31
10
V
CYS
26
-39.41
104.96
10
V
HIS
86
77.88
-4.82
10
V
GLN
87
-119.65
-122.33
10
V
LYS
108
-123.98
-69.30
10
W
CYS
26
-38.30
105.19
10
W
HIS
86
76.65
-3.70
10
W
GLN
87
-120.10
-122.80
10
X
ASN
3
64.93
-80.54
10
X
GLU
4
-161.59
-66.93
10
X
ALA
8
-97.77
35.83
10
X
MET
10
-51.99
96.00
10
X
TRP
11
-69.89
90.56
10
X
GLU
12
-56.82
-168.33
10
Y
ASN
3
-157.96
-54.30
10
Y
GLU
4
-171.95
-50.20
10
Y
ALA
8
-97.48
33.99
10
Y
MET
10
-51.53
95.75
10
Y
TRP
11
-69.90
90.28
10
Y
GLU
12
-56.62
-168.44
11
V
CYS
26
-39.33
106.08
11
V
HIS
86
76.30
-5.77
11
W
HIS
12
-62.00
84.97
11
W
CYS
26
-38.22
105.64
11
W
HIS
86
76.27
-5.38
11
W
GLN
87
-117.17
-121.14
11
W
LYS
108
-101.59
-69.91
11
X
ALA
8
-99.15
34.32
11
X
MET
10
-54.24
95.91
11
X
GLU
12
-57.10
-172.56
11
Y
ASN
3
61.15
115.65
11
Y
ALA
8
-97.34
34.82
11
Y
MET
10
-52.89
94.86
11
Y
TRP
11
-69.49
88.22
11
Y
GLU
12
-55.60
-172.65
12
V
CYS
26
-39.89
98.06
12
V
TYR
39
-110.63
74.06
12
V
GLN
87
-115.23
-129.37
12
W
HIS
12
53.25
-91.84
12
W
GLU
13
55.68
-79.28
12
W
CYS
26
-39.90
98.70
12
W
TYR
39
-112.64
74.17
12
W
GLN
87
-116.19
-129.90
12
W
LYS
108
-93.25
-66.48
12
X
ASN
3
-158.66
33.40
12
X
ALA
8
-96.63
31.98
12
X
MET
10
-52.95
96.68
12
X
GLU
12
-54.73
-172.45
12
X
ARG
18
-101.30
66.12
12
Y
ASN
3
-160.38
35.70
12
Y
ALA
8
-99.38
34.40
12
Y
MET
10
-47.44
96.12
12
Y
TRP
11
-69.97
90.14
12
Y
GLU
12
-55.95
-171.44
12
Y
ARG
18
-102.06
63.81
13
V
CYS
26
-38.22
104.25
13
V
TYR
39
-111.77
79.20
13
V
SER
74
-174.34
145.43
13
V
HIS
86
75.89
-2.12
13
V
GLN
87
-119.09
-121.52
13
V
LYS
108
-176.76
38.57
13
W
CYS
26
-39.17
104.39
13
W
TYR
39
-109.51
78.48
13
W
SER
74
-174.51
145.99
13
W
HIS
86
90.57
-26.48
13
W
GLN
87
-95.71
-125.75
13
W
LYS
108
-175.91
39.22
13
X
ASN
3
-167.68
-43.84
13
X
ALA
8
-95.57
31.79
13
X
MET
10
-53.88
96.10
13
X
TRP
11
-67.22
92.08
13
X
GLU
12
-61.20
-168.17
13
Y
ASN
3
-167.78
-43.86
13
Y
ALA
8
-94.79
32.58
13
Y
MET
10
-54.17
96.46
13
Y
TRP
11
-66.98
92.83
13
Y
GLU
12
-61.36
-167.96
14
V
HIS
12
-89.05
-72.08
14
V
GLU
13
-170.11
64.09
14
V
CYS
26
-39.37
101.70
14
V
TYR
39
-109.99
75.05
14
V
SER
74
-175.39
144.62
14
V
GLN
87
-120.91
-121.53
14
W
HIS
12
-88.41
-72.14
14
W
GLU
13
-170.36
62.89
14
W
CYS
26
-38.91
101.55
14
W
TYR
39
-110.65
75.38
14
W
SER
74
-175.86
145.15
14
W
GLN
87
-121.55
-122.77
14
W
LYS
108
-135.90
-157.27
14
X
ALA
8
-99.20
31.51
14
X
MET
10
-54.23
96.41
14
X
GLU
12
-56.46
-169.33
14
Y
ALA
8
-99.81
32.56
14
Y
MET
10
-53.30
96.94
14
Y
GLU
12
-56.64
-168.80
15
V
HIS
12
57.97
174.44
15
V
GLU
13
-135.56
-64.39
15
V
CYS
26
-40.88
106.02
15
V
TYR
39
-105.99
78.56
15
V
GLN
87
-123.73
-120.83
15
V
LYS
108
-135.83
-69.09
15
W
CYS
26
-39.46
108.03
15
W
TYR
39
-106.07
78.98
15
W
LYS
108
-136.13
-69.01
15
X
ALA
8
-97.26
36.01
15
X
MET
10
-57.81
98.05
15
X
GLU
12
-59.24
-163.59
15
X
ARG
18
-91.67
52.13
15
Y
ALA
8
-98.19
35.48
15
Y
MET
10
-54.39
94.67
15
Y
GLU
12
-60.79
-162.78
16
V
HIS
12
65.19
133.37
16
V
CYS
26
-38.31
99.92
16
V
TYR
39
-105.41
74.34
16
V
SER
74
-175.32
146.59
16
V
GLN
87
-121.76
-114.54
16
W
CYS
26
-37.70
100.13
16
W
TYR
39
-105.47
75.65
16
W
SER
74
-175.07
148.93
16
X
ASN
3
58.17
106.53
16
X
ALA
8
-97.70
34.23
16
X
MET
10
-55.44
98.74
16
X
TRP
11
-69.99
90.19
16
X
GLU
12
-57.87
-171.62
16
X
ARG
18
-111.59
67.15
16
Y
ALA
8
-98.72
35.11
16
Y
MET
10
-54.21
98.23
16
Y
GLU
12
-57.80
-170.91
16
Y
ARG
18
-111.78
67.13
17
V
CYS
26
-39.13
106.81
17
V
TYR
39
-107.79
74.19
17
V
HIS
86
83.84
-13.92
17
W
CYS
26
-40.74
105.83
17
W
HIS
86
84.02
-14.90
17
X
GLU
4
-135.87
-56.89
17
X
ALA
8
-98.52
33.95
17
X
MET
10
-52.78
93.58
17
X
TRP
11
-69.92
89.62
17
X
GLU
12
-55.77
-170.26
17
Y
GLU
4
-136.23
-56.67
17
Y
ALA
8
-97.87
35.01
17
Y
MET
10
-54.73
93.70
17
Y
TRP
11
-69.16
89.36
17
Y
GLU
12
-55.52
-169.42
18
V
HIS
12
-157.29
-50.10
18
V
CYS
26
-36.95
105.33
18
V
HIS
86
75.10
-5.92
18
W
HIS
12
-156.01
-49.58
18
W
CYS
26
-37.10
104.95
18
W
HIS
86
74.73
-6.03
18
X
ALA
8
-96.46
31.97
18
X
MET
10
-52.87
96.51
18
X
GLU
12
-59.97
-166.88
18
X
ARG
18
-100.23
62.22
18
Y
ALA
8
-96.17
32.67
18
Y
MET
10
-52.31
96.23
18
Y
GLU
12
-60.96
-166.95
19
V
HIS
12
-61.13
-179.86
19
V
CYS
26
-38.00
105.14
19
V
TYR
39
-107.64
70.19
19
V
GLN
87
-122.69
-117.71
19
W
HIS
12
60.45
173.23
19
W
CYS
26
-38.32
104.44
19
W
TYR
39
-105.79
76.86
19
W
GLN
87
-122.49
-117.61
19
X
ASN
3
-135.01
-65.97
19
X
GLU
4
-174.12
110.74
19
X
ALA
8
-97.33
33.13
19
X
MET
10
-49.98
94.50
19
X
TRP
11
-69.71
89.42
19
X
GLU
12
-60.99
-170.71
19
Y
ASN
3
-124.55
-65.88
19
Y
GLU
4
-173.87
118.68
19
Y
ALA
8
-95.85
33.19
19
Y
MET
10
-48.65
96.24
19
Y
GLU
12
-60.00
-171.84
19
Y
ARG
18
-90.41
54.78
20
V
HIS
12
-147.70
59.62
20
V
CYS
26
-36.97
100.80
20
V
TYR
39
-119.28
73.81
20
V
HIS
86
81.63
-10.52
20
W
CYS
26
-36.77
101.87
20
W
TYR
39
-117.95
73.94
20
W
HIS
86
81.16
-10.02
20
X
MET
10
-53.70
93.31
20
X
GLU
12
-59.87
-170.34
20
Y
ALA
8
-98.49
34.79
20
Y
MET
10
-55.91
94.39
20
Y
GLU
12
-59.78
-169.56
21
V
CYS
26
-42.25
106.37
21
V
GLN
87
-121.09
-118.04
21
W
HIS
12
-108.32
41.91
21
W
CYS
26
-41.13
105.54
21
W
GLN
87
-120.01
-117.08
21
W
LYS
108
45.03
-171.02
21
X
ASN
3
-166.77
37.72
21
X
MET
10
-53.24
93.58
21
X
GLU
12
-59.56
-165.52
21
X
ARG
18
-101.94
58.93
21
Y
MET
10
-45.96
94.54
21
Y
GLU
12
-53.88
-169.06
21
Y
ARG
18
-95.06
54.44
22
V
CYS
26
-38.66
108.65
22
V
HIS
86
74.15
-0.57
22
V
GLN
87
-123.76
-116.08
22
V
HIS
90
-170.33
126.07
22
V
LYS
108
-140.86
-63.92
22
W
GLU
13
-79.18
-164.27
22
W
CYS
26
-39.14
109.86
22
W
SER
74
-174.70
146.76
22
W
HIS
86
74.61
-1.31
22
W
GLN
87
-123.50
-117.60
22
W
LYS
108
-141.02
-63.74
22
X
ALA
8
-98.27
34.81
22
X
MET
10
-54.84
96.47
22
X
TRP
11
-69.82
89.64
22
X
GLU
12
-57.26
-171.33
22
Y
ALA
8
-98.69
33.88
22
Y
MET
10
-52.18
96.12
22
Y
TRP
11
-69.45
89.85
22
Y
GLU
12
-57.06
-171.60
23
V
CYS
26
-40.28
103.04
23
V
TYR
39
-109.28
69.05
23
V
GLN
87
-118.71
-120.28
23
V
LYS
108
-97.20
59.16
23
W
GLU
13
-146.15
-80.15
23
W
CYS
26
-40.15
103.41
23
W
TYR
39
-109.29
71.91
23
W
GLN
87
-119.24
-125.34
23
W
LYS
108
-97.44
57.75
23
X
ASN
3
-93.75
48.15
23
X
ALA
8
-98.08
34.12
23
X
MET
10
-48.55
94.19
23
X
GLU
12
-60.51
-174.93
23
Y
ASN
3
-93.79
48.00
23
Y
ALA
8
-98.95
34.39
23
Y
MET
10
-52.54
96.03
23
Y
GLU
12
-60.10
-173.89
24
V
CYS
26
-39.32
110.01
24
V
GLN
87
-125.06
-112.13
24
W
CYS
26
-38.13
106.33
24
W
GLN
87
-126.69
-110.78
24
W
LYS
108
-91.33
57.39
24
X
ALA
8
-99.02
33.15
24
X
MET
10
-51.19
93.58
24
X
GLU
12
-62.49
-163.02
24
Y
MET
10
-49.34
93.12
24
Y
GLU
12
-61.50
-164.33
Solution Structure of a Phage-Derived Peptide Antagonist in Complex with Vascular Endothelial Growth Factor
1
N
N
1
N
N
2
N
N
2
N
N
V
LYS
16
A
LYS
6
HELX_P
V
TYR
25
A
TYR
15
1
1
10
V
ILE
35
A
ILE
25
HELX_P
V
TYR
39
A
TYR
29
1
2
5
W
LYS
16
B
LYS
6
HELX_P
W
TYR
25
B
TYR
15
1
3
10
W
ILE
35
B
ILE
25
HELX_P
W
TYR
39
B
TYR
29
1
4
5
X
GLU
12
C
GLU
12
HELX_P
X
ARG
18
C
ARG
18
1
5
7
Y
GLU
12
D
GLU
12
HELX_P
Y
ARG
18
D
ARG
18
1
6
7
disulf
2.032
V
CYS
26
A
SG
CYS
16
1_555
V
CYS
68
A
SG
CYS
58
1_555
disulf
2.033
V
CYS
51
A
SG
CYS
41
1_555
W
CYS
60
B
SG
CYS
50
1_555
disulf
2.033
V
CYS
57
A
SG
CYS
47
1_555
V
CYS
102
A
SG
CYS
92
1_555
disulf
2.032
V
CYS
60
A
SG
CYS
50
1_555
W
CYS
51
B
SG
CYS
41
1_555
disulf
2.031
V
CYS
61
A
SG
CYS
51
1_555
V
CYS
104
A
SG
CYS
94
1_555
disulf
2.031
W
CYS
26
B
SG
CYS
16
1_555
W
CYS
68
B
SG
CYS
58
1_555
disulf
2.032
W
CYS
57
B
SG
CYS
47
1_555
W
CYS
102
B
SG
CYS
92
1_555
disulf
2.029
W
CYS
61
B
SG
CYS
51
1_555
W
CYS
104
B
SG
CYS
94
1_555
disulf
2.033
X
CYS
5
C
SG
CYS
5
1_555
X
CYS
15
C
SG
CYS
15
1_555
disulf
2.032
Y
CYS
5
D
SG
CYS
5
1_555
Y
CYS
15
D
SG
CYS
15
1_555
CELL CYCLE, HORMONE/GROWTH FACTOR
Protein-peptide complex, homodimer, cystine knot, CELL CYCLE, HORMONE-GROWTH FACTOR COMPLEX
V
LYS
48
A
LYS
38
1
V
PRO
49
A
PRO
39
0.42
W
LYS
48
B
LYS
38
1
W
PRO
49
B
PRO
39
0.43
V
LYS
48
A
LYS
38
2
V
PRO
49
A
PRO
39
0.55
W
LYS
48
B
LYS
38
2
W
PRO
49
B
PRO
39
0.22
V
LYS
48
A
LYS
38
3
V
PRO
49
A
PRO
39
0.57
W
LYS
48
B
LYS
38
3
W
PRO
49
B
PRO
39
0.67
V
LYS
48
A
LYS
38
4
V
PRO
49
A
PRO
39
0.16
W
LYS
48
B
LYS
38
4
W
PRO
49
B
PRO
39
0.27
V
LYS
48
A
LYS
38
5
V
PRO
49
A
PRO
39
0.49
W
LYS
48
B
LYS
38
5
W
PRO
49
B
PRO
39
0.45
V
LYS
48
A
LYS
38
6
V
PRO
49
A
PRO
39
0.43
W
LYS
48
B
LYS
38
6
W
PRO
49
B
PRO
39
0.44
V
LYS
48
A
LYS
38
7
V
PRO
49
A
PRO
39
0.73
W
LYS
48
B
LYS
38
7
W
PRO
49
B
PRO
39
0.53
V
LYS
48
A
LYS
38
8
V
PRO
49
A
PRO
39
0.36
W
LYS
48
B
LYS
38
8
W
PRO
49
B
PRO
39
0.39
V
LYS
48
A
LYS
38
9
V
PRO
49
A
PRO
39
0.45
W
LYS
48
B
LYS
38
9
W
PRO
49
B
PRO
39
0.57
V
LYS
48
A
LYS
38
10
V
PRO
49
A
PRO
39
0.46
W
LYS
48
B
LYS
38
10
W
PRO
49
B
PRO
39
0.29
V
LYS
48
A
LYS
38
11
V
PRO
49
A
PRO
39
0.63
W
LYS
48
B
LYS
38
11
W
PRO
49
B
PRO
39
0.49
V
LYS
48
A
LYS
38
12
V
PRO
49
A
PRO
39
0.78
W
LYS
48
B
LYS
38
12
W
PRO
49
B
PRO
39
0.65
V
LYS
48
A
LYS
38
13
V
PRO
49
A
PRO
39
0.74
W
LYS
48
B
LYS
38
13
W
PRO
49
B
PRO
39
0.63
V
LYS
48
A
LYS
38
14
V
PRO
49
A
PRO
39
0.47
W
LYS
48
B
LYS
38
14
W
PRO
49
B
PRO
39
0.48
V
LYS
48
A
LYS
38
15
V
PRO
49
A
PRO
39
0.75
W
LYS
48
B
LYS
38
15
W
PRO
49
B
PRO
39
0.56
V
LYS
48
A
LYS
38
16
V
PRO
49
A
PRO
39
0.45
W
LYS
48
B
LYS
38
16
W
PRO
49
B
PRO
39
0.64
V
LYS
48
A
LYS
38
17
V
PRO
49
A
PRO
39
0.72
W
LYS
48
B
LYS
38
17
W
PRO
49
B
PRO
39
0.78
V
LYS
48
A
LYS
38
18
V
PRO
49
A
PRO
39
0.46
W
LYS
48
B
LYS
38
18
W
PRO
49
B
PRO
39
0.68
V
LYS
48
A
LYS
38
19
V
PRO
49
A
PRO
39
0.22
W
LYS
48
B
LYS
38
19
W
PRO
49
B
PRO
39
0.34
V
LYS
48
A
LYS
38
20
V
PRO
49
A
PRO
39
0.96
W
LYS
48
B
LYS
38
20
W
PRO
49
B
PRO
39
1.06
V
LYS
48
A
LYS
38
21
V
PRO
49
A
PRO
39
0.54
W
LYS
48
B
LYS
38
21
W
PRO
49
B
PRO
39
0.41
V
LYS
48
A
LYS
38
22
V
PRO
49
A
PRO
39
0.66
W
LYS
48
B
LYS
38
22
W
PRO
49
B
PRO
39
0.34
V
LYS
48
A
LYS
38
23
V
PRO
49
A
PRO
39
0.43
W
LYS
48
B
LYS
38
23
W
PRO
49
B
PRO
39
0.33
V
LYS
48
A
LYS
38
24
V
PRO
49
A
PRO
39
0.74
W
LYS
48
B
LYS
38
24
W
PRO
49
B
PRO
39
0.66
VEGFA_HUMAN
UNP
1
37
P15692
HHEVVKFMDVYQRSYCHPIETLVDIFQEYPDEIEYIFKPSCVPLMRCGGCCNDEGLECVPTEESNITMQIMRIKPHQGQH
IGEMSFLQHNKCECRPKKD
1KAT
PDB
2
1KAT
37
135
1KAT
11
109
P15692
V
1
1
99
37
135
1KAT
11
109
P15692
W
1
1
99
1
19
1KAT
1
19
1KAT
X
2
1
19
1
19
1KAT
1
19
1KAT
Y
2
1
19
2
3
2
2
3
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
V
HIS
27
A
HIS
17
V
ASP
34
A
ASP
24
V
CYS
51
A
CYS
41
V
GLY
58
A
GLY
48
V
ILE
46
A
ILE
36
V
LYS
48
A
LYS
38
V
GLU
73
A
GLU
63
V
ILE
83
A
ILE
73
V
GLN
89
A
GLN
79
V
HIS
99
A
HIS
89
V
LEU
66
A
LEU
56
V
PRO
70
A
PRO
60
V
CYS
102
A
CYS
92
V
PRO
106
A
PRO
96
W
HIS
27
B
HIS
17
W
ASP
34
B
ASP
24
W
CYS
51
B
CYS
41
W
GLY
58
B
GLY
48
W
ILE
46
B
ILE
36
W
LYS
48
B
LYS
38
W
GLU
73
B
GLU
63
W
ILE
83
B
ILE
73
W
GLN
89
B
GLN
79
W
HIS
99
B
HIS
89
W
LEU
66
B
LEU
56
W
PRO
70
B
PRO
60
W
CYS
102
B
CYS
92
W
PRO
106
B
PRO
96