1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Schibli, D.J.
Hunter, H.N.
Aseyev, V.
Starner, T.D.
Wiencek, J.M.
McCray Jr., P.B.
Tack, B.F.
Vogel, H.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
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 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 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
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
277
8279
8289
10.1074/jbc.M108830200
11741980
The solution structures of the human beta-defensins lead to a better understanding of the potent bactericidal activity of HBD3 against Staphylococcus aureus.
2002
10.2210/pdb1kj6/pdb
pdb_00001kj6
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
SINGLE WAVELENGTH
M
1
1.0
5174.266
Beta-defensin 3
1
man
polymer
BD-3, hBD-3
no
no
GIINTLQKYYCRVRGGRCAVLSCLPKEEQIGKCSTRGRKCCRRKK
GIINTLQKYYCRVRGGRCAVLSCLPKEEQIGKCSTRGRKCCRRKK
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
human
Homo
Escherichia
sample
9606
Homo sapiens
562
Escherichia coli
database_2
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_oper_list
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2002-03-20
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
_pdbx_nmr_spectrometer.model
Solution Structure of Human beta-Defensin 1
RCSB
Y
RCSB
2001-12-04
REL
This structure was determined using standard 2D homonuclear techniques.
structures with the lowest energy
100
20
2D NOESY
2D TOCSY
2D COSY
2D NOESY
4.00
ambient
298
K
Distance geometry,
Simulated Annealing,
Molecular Dynamics
1
closest to the average
0.36 mM HBD3
90% H2O/10% D2O
0.36 mM HBD3
100% D2O
Bruker
collection
XwinNMR
2.6
Delaglio, G., Grzejiek, S., Vuister, G., Zhu, G., Pfeifer, J., Bax, A.
processing
NMRPipe
1.8
Johnson, B.A., Blevins, R.A.
data analysis
NMRView
4.1.3
A.T.Brunger, P.D.Adams, G.M.Clore, W.L.Delano, P.Gros, R.W.Grosse-Kunstleve, J.-S.Jiang, J.Kuszewski, M.Nilges, N.S.Pannu, R.J.Read, L.M.Rice, T.Simonson, G.L.Warren
refinement
CNS
1.0
J.Linge, S.O'Donoghue, M.Nilges
refinement
ARIA
1.0
500
Bruker
AVANCE
800
Varian
INOVA
GLY
1
n
1
GLY
1
A
ILE
2
n
2
ILE
2
A
ILE
3
n
3
ILE
3
A
ASN
4
n
4
ASN
4
A
THR
5
n
5
THR
5
A
LEU
6
n
6
LEU
6
A
GLN
7
n
7
GLN
7
A
LYS
8
n
8
LYS
8
A
TYR
9
n
9
TYR
9
A
TYR
10
n
10
TYR
10
A
CYS
11
n
11
CYS
11
A
ARG
12
n
12
ARG
12
A
VAL
13
n
13
VAL
13
A
ARG
14
n
14
ARG
14
A
GLY
15
n
15
GLY
15
A
GLY
16
n
16
GLY
16
A
ARG
17
n
17
ARG
17
A
CYS
18
n
18
CYS
18
A
ALA
19
n
19
ALA
19
A
VAL
20
n
20
VAL
20
A
LEU
21
n
21
LEU
21
A
SER
22
n
22
SER
22
A
CYS
23
n
23
CYS
23
A
LEU
24
n
24
LEU
24
A
PRO
25
n
25
PRO
25
A
LYS
26
n
26
LYS
26
A
GLU
27
n
27
GLU
27
A
GLU
28
n
28
GLU
28
A
GLN
29
n
29
GLN
29
A
ILE
30
n
30
ILE
30
A
GLY
31
n
31
GLY
31
A
LYS
32
n
32
LYS
32
A
CYS
33
n
33
CYS
33
A
SER
34
n
34
SER
34
A
THR
35
n
35
THR
35
A
ARG
36
n
36
ARG
36
A
GLY
37
n
37
GLY
37
A
ARG
38
n
38
ARG
38
A
LYS
39
n
39
LYS
39
A
CYS
40
n
40
CYS
40
A
CYS
41
n
41
CYS
41
A
ARG
42
n
42
ARG
42
A
ARG
43
n
43
ARG
43
A
LYS
44
n
44
LYS
44
A
LYS
45
n
45
LYS
45
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
A
N
ARG
17
A
N
ARG
17
A
O
CYS
41
A
O
CYS
41
A
O
CYS
40
A
O
CYS
40
A
N
GLY
31
A
N
GLY
31
1
A
LEU
6
-161.80
42.76
1
A
TYR
9
-154.78
21.40
1
A
ARG
14
-174.78
36.19
1
A
LEU
21
-130.62
-68.27
1
A
SER
34
-151.78
-97.31
1
A
THR
35
-171.59
-27.51
1
A
ARG
36
-166.73
108.56
2
A
ASN
4
-106.50
46.28
2
A
LEU
6
-109.67
43.46
2
A
TYR
9
-155.92
28.32
2
A
ARG
14
-168.50
52.86
2
A
LEU
21
-114.64
-80.18
2
A
CYS
23
-48.45
162.63
2
A
PRO
25
-71.21
24.48
2
A
LYS
26
-146.51
20.99
2
A
ARG
43
-39.20
131.19
3
A
TYR
9
-156.49
36.17
3
A
ARG
14
-152.08
26.73
3
A
LEU
21
-120.75
-70.52
3
A
CYS
23
-59.60
174.74
4
A
LEU
6
-92.76
49.16
4
A
TYR
9
-155.65
30.26
4
A
ARG
14
-168.15
25.67
4
A
LEU
21
-132.71
-60.90
4
A
CYS
23
-57.66
173.49
4
A
CYS
33
-51.48
-83.02
4
A
ARG
36
-48.73
109.52
5
A
THR
5
-137.69
-159.71
5
A
TYR
9
-155.62
17.74
5
A
ARG
14
-152.79
61.78
5
A
LEU
21
-129.88
-80.67
5
A
CYS
23
-55.22
172.65
5
A
PRO
25
-74.42
27.53
5
A
LYS
26
-146.86
11.05
5
A
ARG
36
-72.78
-79.97
6
A
TYR
9
-154.91
25.37
6
A
ARG
14
-165.22
-72.50
6
A
LEU
21
-131.93
-69.56
6
A
CYS
23
-54.70
171.37
6
A
PRO
25
-71.98
27.37
6
A
LYS
26
-146.83
15.00
6
A
SER
34
-106.70
-77.60
6
A
THR
35
-169.43
-33.38
6
A
ARG
36
-166.90
-10.87
7
A
ASN
4
-92.77
-61.76
7
A
THR
5
-139.17
-80.44
7
A
LEU
6
-168.86
43.33
7
A
TYR
9
-154.56
28.06
7
A
ARG
14
-156.64
46.79
7
A
LEU
21
-125.37
-66.68
7
A
CYS
23
-48.75
152.09
7
A
ARG
36
-107.31
-74.42
8
A
ASN
4
-143.75
-70.48
8
A
THR
5
-101.28
-167.13
8
A
TYR
9
-153.49
16.61
8
A
ARG
14
-175.09
46.69
8
A
LEU
21
-129.23
-63.94
8
A
CYS
23
-57.29
172.19
8
A
SER
34
-139.53
-98.18
8
A
THR
35
-136.16
-43.07
8
A
ARG
36
-161.93
-12.08
9
A
LEU
6
-161.71
41.21
9
A
TYR
9
-154.33
13.28
9
A
ARG
14
-144.35
-71.33
9
A
LEU
21
-135.13
-49.72
9
A
CYS
23
-58.96
176.39
9
A
PRO
25
-75.61
27.07
10
A
LEU
6
-102.84
41.17
10
A
TYR
9
-155.14
29.86
10
A
ARG
14
-169.43
33.66
10
A
LEU
21
-121.10
-80.34
10
A
LYS
44
-119.65
66.66
11
A
ASN
4
-109.53
51.61
11
A
LEU
6
-88.94
38.19
11
A
TYR
9
-150.65
34.67
11
A
ARG
14
-164.35
30.97
11
A
LEU
21
-130.98
-62.67
11
A
CYS
23
-55.32
171.45
11
A
PRO
25
-71.34
25.28
11
A
SER
34
-111.59
-163.84
12
A
ASN
4
-95.06
-73.59
12
A
TYR
9
-152.73
21.42
12
A
ARG
14
-160.98
-63.84
12
A
LEU
21
-120.77
-78.23
12
A
CYS
23
-58.21
174.82
13
A
TYR
9
-157.19
29.65
13
A
ARG
14
-149.24
-67.68
13
A
CYS
23
-57.41
172.57
13
A
SER
34
-138.86
-96.22
13
A
THR
35
-137.88
-63.42
13
A
ARG
36
-150.03
-20.76
14
A
TYR
9
-154.89
25.31
14
A
ARG
14
-166.88
42.12
14
A
LEU
21
-134.53
-40.36
14
A
ARG
36
-171.60
145.34
15
A
THR
5
-141.27
-88.67
15
A
LEU
6
-172.23
30.99
15
A
GLN
7
-65.40
0.55
15
A
TYR
9
-154.75
22.48
15
A
ARG
14
-156.03
-60.11
15
A
LEU
21
-129.27
-86.81
16
A
TYR
9
-155.21
15.09
16
A
ARG
14
-156.40
12.77
16
A
LEU
21
-127.13
-60.54
16
A
PRO
25
-70.57
22.47
16
A
LYS
26
-144.01
19.80
16
A
ARG
36
-167.28
103.26
17
A
LEU
6
-97.00
36.44
17
A
TYR
9
-155.20
17.38
17
A
ARG
14
-144.97
26.02
17
A
SER
34
-163.84
-83.86
17
A
THR
35
-133.12
-159.27
18
A
LEU
6
-107.85
40.71
18
A
TYR
9
-156.19
32.93
18
A
ARG
14
-144.65
19.81
18
A
LEU
21
-130.76
-51.94
18
A
PRO
25
-73.56
23.66
18
A
LYS
26
-146.91
22.26
18
A
SER
34
-138.28
-87.64
18
A
THR
35
-108.15
-160.94
19
A
ASN
4
-131.84
-65.31
19
A
TYR
9
-155.48
21.36
19
A
ARG
14
-161.81
-62.02
19
A
LEU
21
-128.46
-62.52
19
A
CYS
23
-56.41
173.70
19
A
SER
34
-124.05
-169.95
19
A
THR
35
-64.68
-75.87
20
A
ILE
2
-66.98
91.74
20
A
ASN
4
-66.39
-170.94
20
A
LEU
6
-93.85
58.24
20
A
TYR
9
-154.86
31.64
20
A
ARG
14
-172.57
33.11
20
A
LEU
21
-126.42
-77.94
20
A
CYS
23
-56.18
170.33
20
A
PRO
25
-71.25
23.57
20
A
LYS
26
-147.13
16.29
20
A
ARG
36
-165.25
107.80
Solution Structure of Human beta-Defensin 3
1
N
N
A
TYR
9
A
TYR
9
HELX_P
A
GLY
15
A
GLY
15
1
1
7
disulf
2.028
A
CYS
11
A
SG
CYS
11
1_555
A
CYS
40
A
SG
CYS
40
1_555
disulf
2.031
A
CYS
18
A
SG
CYS
18
1_555
A
CYS
33
A
SG
CYS
33
1_555
disulf
2.028
A
CYS
23
A
SG
CYS
23
1_555
A
CYS
41
A
SG
CYS
41
1_555
ANTIBIOTIC
defensin, antimicrobial protein, human beta-defensin 3, beta-defensin, HBD3, ANTIBIOTIC
D103A_HUMAN
UNP
1
23
P81534
GIINTLQKYYCRVRGGRCAVLSCLPKEEQIGKCSTRGRKCCRRKK
23
67
1KJ6
1
45
P81534
A
1
1
45
3
anti-parallel
anti-parallel
A
ARG
17
A
ARG
17
A
ALA
19
A
ALA
19
A
LYS
39
A
LYS
39
A
ARG
43
A
ARG
43
A
GLU
27
A
GLU
27
A
GLY
31
A
GLY
31