1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Barrera-Vilarmau, S.
Obregon, P.
de Alba, E.
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 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
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
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
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
US
Plos One
1932-6203
6
e21413
e21413
10.1371/journal.pone.0021413
21731739
Intrinsic order and disorder in the bcl-2 member harakiri: insights into its proapoptotic activity.
2011
10.2210/pdb2l58/pdb
pdb_00002l58
3726.374
Activator of apoptosis harakiri
UNP residues 22-53
1
syn
polymer
BH3-interacting domain-containing protein 3, Neuronal death protein DP5
no
yes
RLGLRSSAAQLTAARLKALGDELHQRTMWRRR(NH2)
RLGLRSSAAQLTAARLKALGDELHQRTMWRRRX
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
database_2
pdbx_entity_src_syn
pdbx_nmr_exptl
pdbx_nmr_exptl_sample
pdbx_nmr_refine
pdbx_nmr_sample_details
pdbx_nmr_software
pdbx_nmr_spectrometer
struct_conn
struct_ref_seq_dif
repository
Initial release
Data collection
Database references
Derived calculations
Experimental preparation
Refinement description
Source and taxonomy
1
0
2011-09-14
1
1
2021-08-18
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_entity_src_syn.ncbi_taxonomy_id
_pdbx_entity_src_syn.organism_scientific
_pdbx_nmr_refine.software_ordinal
_pdbx_nmr_sample_details.contents
_pdbx_nmr_sample_details.label
_pdbx_nmr_sample_details.solvent_system
_pdbx_nmr_sample_details.type
_pdbx_nmr_software.name
_pdbx_nmr_spectrometer.model
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
BMRB
Y
RCSB
2010-10-28
REL
REL
chemically synthesized
32630
synthetic construct
sample
structures with the lowest energy
200
20
2D 1H-15N SOFAST HMQC
2D 1H-1H TOCSY
2D 1H-1H NOESY
2D 1H-13C HSQC
3D [1H-1H]-TOCSY-[1H-13C]-HSQC
2D 1H-15N SOFAST HMQC
2D 1H-1H TOCSY
2D 1H-1H NOESY
2D 1H-13C HSQC
3D [1H-1H]-TOCSY-[1H-13C]-HSQC
1.0-1.5
mM
natural abundance
0.1
mM
natural abundance
20
mM
natural abundance
35
v/v
d3
1.0-1.5
mM
natural abundance
0.1
mM
natural abundance
20
mM
natural abundance
35
v/v
d2
0.1
5.8
ambient
303
K
DGSA-distance geometry simulated annealing
1
lowest energy
1.0-1.5 mM Hrk-22_53, 0.1 mM sodium azide, 20 mM sodium phosphate, 35% v/v d3 TFE, 100% D2O
sample_1
100% D2O
solution
1.0-1.5 mM Hrk-22_53, 0.1 mM sodium azide, 20 mM sodium phosphate, 35% v/v d2 TFE, 95% H2O/5% D2O
sample_2
95% H2O/5% D2O
solution
Bruker Biospin
collection
TopSpin
Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
processing
NMRPipe
Goddard
data analysis
Sparky
Garrett
data analysis
PIPP
Cornilescu, Delaglio and Bax
data analysis
TALOS
Schwieters, Kuszewski, Tjandra and Clore
structure solution
X-PLOR NIH
Schwieters, Kuszewski, Tjandra and Clore
refinement
X-PLOR NIH
600
Bruker
AVANCE
Bruker Avance
ARG
1
n
1
ARG
1
A
LEU
2
n
2
LEU
2
A
GLY
3
n
3
GLY
3
A
LEU
4
n
4
LEU
4
A
ARG
5
n
5
ARG
5
A
SER
6
n
6
SER
6
A
SER
7
n
7
SER
7
A
ALA
8
n
8
ALA
8
A
ALA
9
n
9
ALA
9
A
GLN
10
n
10
GLN
10
A
LEU
11
n
11
LEU
11
A
THR
12
n
12
THR
12
A
ALA
13
n
13
ALA
13
A
ALA
14
n
14
ALA
14
A
ARG
15
n
15
ARG
15
A
LEU
16
n
16
LEU
16
A
LYS
17
n
17
LYS
17
A
ALA
18
n
18
ALA
18
A
LEU
19
n
19
LEU
19
A
GLY
20
n
20
GLY
20
A
ASP
21
n
21
ASP
21
A
GLU
22
n
22
GLU
22
A
LEU
23
n
23
LEU
23
A
HIS
24
n
24
HIS
24
A
GLN
25
n
25
GLN
25
A
ARG
26
n
26
ARG
26
A
THR
27
n
27
THR
27
A
MET
28
n
28
MET
28
A
TRP
29
n
29
TRP
29
A
ARG
30
n
30
ARG
30
A
ARG
31
n
31
ARG
31
A
ARG
32
n
32
ARG
32
A
NH2
33
n
33
NH2
33
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
4
A
A
O
H
SER
ALA
6
8
1.59
7
A
A
H3
HH21
ARG
ARG
1
5
1.32
11
A
A
O
HG1
ALA
THR
8
12
1.50
16
A
A
O
H
ALA
THR
8
12
1.57
18
A
A
O
H
THR
ARG
27
31
1.58
18
A
A
O
H
LEU
SER
4
6
1.60
1
A
LEU
2
59.46
-79.73
1
A
LEU
4
-64.46
79.01
1
A
SER
6
53.02
-87.18
1
A
SER
7
-56.92
-9.71
2
A
LEU
4
56.27
72.58
2
A
ARG
5
-169.04
-23.61
3
A
SER
6
-77.66
-82.73
4
A
LEU
2
-63.92
-173.44
4
A
ARG
5
52.97
-174.93
4
A
SER
6
58.43
111.99
4
A
SER
7
68.46
-48.56
5
A
LEU
2
-166.85
98.74
5
A
LEU
4
56.38
174.24
5
A
ARG
5
-170.67
33.04
5
A
SER
6
-171.55
-54.51
6
A
LEU
2
-170.19
127.13
6
A
LEU
4
52.95
16.79
6
A
ARG
5
-68.10
67.88
6
A
SER
6
-171.71
-36.45
7
A
LEU
2
-167.13
110.66
7
A
LEU
4
-69.62
60.64
7
A
ARG
5
-65.82
-141.41
7
A
SER
6
55.70
171.02
7
A
SER
7
52.09
-88.86
8
A
LEU
2
-165.95
16.87
8
A
LEU
4
68.08
-59.65
8
A
ARG
5
51.82
179.75
8
A
SER
6
-170.77
-78.09
9
A
LEU
2
-62.53
-73.49
9
A
ARG
5
-168.97
-21.52
9
A
ARG
31
-164.75
-36.29
10
A
LEU
2
-167.80
-154.47
10
A
SER
6
-171.63
-74.95
10
A
ARG
31
-78.19
45.59
11
A
LEU
4
-65.76
86.17
11
A
ARG
5
-65.60
95.62
11
A
SER
6
-171.55
-72.42
11
A
ARG
31
-164.47
47.67
12
A
SER
6
-66.60
72.79
12
A
SER
7
-170.20
-59.98
13
A
ARG
5
52.81
15.34
13
A
SER
6
-70.23
45.72
13
A
SER
7
-171.60
-53.10
13
A
ARG
30
-90.67
45.36
13
A
ARG
31
-162.17
-21.32
14
A
LEU
2
-65.25
-80.72
14
A
ARG
5
-169.04
-35.33
14
A
SER
6
-66.78
72.78
14
A
SER
7
-171.61
-60.04
14
A
ARG
30
-87.07
44.91
14
A
ARG
31
-155.69
-38.01
15
A
LEU
2
-65.39
78.06
15
A
LEU
4
-165.72
40.77
15
A
SER
6
-165.89
43.73
15
A
SER
7
-171.50
-39.47
16
A
LEU
4
56.23
13.73
16
A
ARG
5
-147.48
-80.76
16
A
SER
6
66.68
-63.07
17
A
SER
6
-67.86
68.60
17
A
SER
7
-169.14
-44.15
18
A
ARG
5
-69.70
46.87
18
A
SER
6
-165.66
-61.12
19
A
LEU
2
-68.95
5.91
19
A
SER
6
59.58
126.56
19
A
SER
7
65.79
-58.86
19
A
ARG
31
-168.63
-8.16
20
A
LEU
4
-169.71
-21.26
20
A
SER
7
-171.53
-51.73
lowest energy, model 1
Solution structure of the cytosolic fragment 22-53 of Bcl-2 member Harakiri
1
N
N
A
SER
6
A
SER
6
HELX_P
A
ARG
31
A
ARG
31
1
1
26
covale
1.304
both
A
ARG
32
A
C
ARG
32
1_555
A
NH2
33
A
N
NH2
33
1_555
APOPTOSIS
Apoptosis, Bcl-2, BH3-only, Harakiri, intrinsically disordered protein
HRK_HUMAN
UNP
1
22
O00198
RLGLRSSAAQLTAARLKALGDELHQRTMWRRR
22
53
2L58
1
32
O00198
A
1
1
32
1
amidation
NH2
33
2L58
A
O00198
UNP
33