1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Lee, K.H.
Lee, D.G.
Park, Y.K.
Harm, K.S.
Kim, Y.M.
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
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
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
H2 N
16.023
AMINO GROUP
non-polymer
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
To be published
0353
Interactions between antimicrobial peptide, HP(2-20) derived from helicobacter pylori, and membrain studied by nmr spectroscopy
10.2210/pdb1p5l/pdb
pdb_00001p5l
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
2265.740
19-mer peptide from 50S ribosomal protein L1
F5S
1
syn
polymer
ribosomal protein L1
no
yes
AKKVSKRLEKLFSKIQNDK(NH2)
AKKVSKRLEKLFSKIQNDKX
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
database_2
pdbx_nmr_exptl_sample_conditions
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Experimental preparation
1
0
2003-06-03
1
1
2008-04-29
1
2
2011-07-13
1
3
2021-11-10
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_exptl_sample_conditions.pressure_units
_pdbx_nmr_software.name
_pdbx_nmr_spectrometer.model
_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
HP (2-20)
HP (2-20) analogue 1
HP (2-20) analogue 2
HP (2-20) analogue 3
HP (2-20) analogue 4
RCSB
Y
PDBJ
2003-04-27
REL
REL
this peptide was chemically synthesized. The sequence for this peptide which N-terminus of Helicobacter pylori ribosomal protein L1
sample
THIS STRUCTURE WAS DETERMINED USING STANDARD 2D HOMONUCLEAR TECHNIQUES
structures with the lowest energy
50
20
2D NOESY
DQF-COSY
6
1
atm
318
K
HYBRID DISTANCE GEOMETRY -DYNAMICAL SIMULATED ANNEALING
1.5MM PEPTIDE; 150MM SDS-D25
90% H2O/10% D2O
processing
Felix
95.0
collection
XwinNMR
2.5
refinement
CNS
1.1
400
Bruker
AVANCE
ALA
1
n
1
ALA
1
A
LYS
2
n
2
LYS
2
A
LYS
3
n
3
LYS
3
A
VAL
4
n
4
VAL
4
A
SER
5
n
5
SER
5
A
LYS
6
n
6
LYS
6
A
ARG
7
n
7
ARG
7
A
LEU
8
n
8
LEU
8
A
GLU
9
n
9
GLU
9
A
LYS
10
n
10
LYS
10
A
LEU
11
n
11
LEU
11
A
PHE
12
n
12
PHE
12
A
SER
13
n
13
SER
13
A
LYS
14
n
14
LYS
14
A
ILE
15
n
15
ILE
15
A
GLN
16
n
16
GLN
16
A
ASN
17
n
17
ASN
17
A
ASP
18
n
18
ASP
18
A
LYS
19
n
19
LYS
19
A
NH2
20
n
20
NH2
20
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
identity operation
0.0000000000
0.0000000000
0.0000000000
1
A
LYS
2
-99.98
30.80
2
A
LYS
3
-141.10
13.04
2
A
GLN
16
-96.67
32.81
2
A
ASP
18
-95.10
43.78
3
A
LYS
2
-97.48
39.27
3
A
ASP
18
-94.79
45.71
4
A
LYS
2
-100.12
54.77
4
A
GLN
16
-71.53
-75.99
4
A
ASP
18
-95.05
38.06
6
A
LYS
3
47.68
24.31
6
A
ASP
18
-95.22
31.98
7
A
LYS
2
-99.94
31.40
8
A
LYS
3
-140.43
14.39
9
A
LYS
2
-99.97
33.97
9
A
ASP
18
-95.15
43.70
10
A
LYS
3
-145.03
16.62
10
A
ASN
17
-93.72
45.32
11
A
LYS
3
-142.04
15.98
11
A
ASP
18
-95.16
31.23
12
A
GLN
16
70.74
92.49
12
A
ASN
17
-57.24
92.70
14
A
LYS
2
-94.08
46.71
14
A
ASP
18
-95.20
33.93
15
A
LYS
3
-147.55
18.19
15
A
ASP
18
-95.14
41.63
16
A
LYS
3
-144.06
16.93
16
A
GLN
16
-92.20
-64.72
16
A
ASP
18
-95.01
44.24
17
A
LYS
2
-98.87
30.88
17
A
LYS
3
-145.07
18.24
17
A
GLN
16
-92.06
50.08
17
A
ASP
18
-95.12
30.53
18
A
LYS
2
-98.92
31.46
20
A
LYS
2
-97.79
36.72
20
A
GLN
16
-101.32
-76.69
20
A
ASP
18
-91.08
49.50
HP (2-20) Substitution PHE5 to SER modification in sds-d25 micelles
1
N
N
A
VAL
4
A
VAL
4
HELX_P
A
ASN
17
A
ASN
17
1
1
14
covale
1.328
both
A
LYS
19
A
C
LYS
19
1_555
A
NH2
20
A
N
NH2
20
1_555
RIBOSOME
COIL-HELIX-COIL, RIBOSOME
RL1_HELPJ
UNP
1
2
Q9ZK21
AKKVFKRLEKLFSKIQNDK
2
20
1P5L
1
19
Q9ZK21
A
1
1
19
1
PHE
engineered mutation
SER
5
1P5L
A
Q9ZK21
UNP
6
5
BINDING SITE FOR RESIDUE NH2 A 20
A
NH2
20
Software
1
A
LYS
19
A
LYS
19
1
1_555