1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Kamatari, Y.O.
Tomizawa, T.
Koshiba, S.
Inoue, M.
Kigawa, T.
Yokoyama, S.
RIKEN Structural Genomics/Proteomics Initiative (RSGI)
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
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
To be Published
0353
Solution structure of the homeobox domain of human homeobox protein PKNOX1
10.2210/pdb1x2n/pdb
pdb_00001x2n
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
8126.176
Homeobox protein PKNOX1
homeobox domain
1
man
polymer
PBX/knotted homeobox 1, Homeobox protein PREP-1
no
no
GSSGSSGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQSGPSSG
GSSGSSGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQSGPSSG
A
hss001001784.1
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
human
Homo
sample
Cell-free protein synthesis
PKNOX1
9606
Homo sapiens
PLASMID
P040628-06
RIKEN Structural Genomics/Proteomics Initiative
RSGI
NPPSFA, National Project on Protein Structural and Functional Analyses
database_2
pdbx_nmr_software
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2005-10-26
1
1
2008-04-30
1
2
2011-07-13
1
3
2022-03-02
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_pdbx_nmr_spectrometer.model
_struct_ref_seq_dif.details
Y
PDBJ
Y
PDBJ
2005-04-26
REL
target function, structures with the least restraint violations
100
20
3D_15N-separated_NOESY
3D_13C-separated_NOESY
120 mM
7.0
ambient
296
K
torsion angle dynamics
1
lowest energy
1.00mM homeobox domain U-13C, 15N; 20mM d-Tris-HCl buffer; 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 90% H2O, 10% D2O
90% H2O/10% D2O
Bruker
collection
XwinNMR
2.6
Delaglio, F.
processing
NMRPipe
20031121
Johnson, B. A.
data analysis
NMRView
5.0.4
Kobayashi, N.
data analysis
KUJIRA
0.9295
Guntert, P.
structure solution
CYANA
2.0.17
Guntert, P.
refinement
CYANA
2.0.17
800
Bruker
AVANCE
GLY
1
n
1
GLY
1
A
SER
2
n
2
SER
2
A
SER
3
n
3
SER
3
A
GLY
4
n
4
GLY
4
A
SER
5
n
5
SER
5
A
SER
6
n
6
SER
6
A
GLY
7
n
7
GLY
7
A
LYS
8
n
8
LYS
8
A
ASN
9
n
9
ASN
9
A
LYS
10
n
10
LYS
10
A
ARG
11
n
11
ARG
11
A
GLY
12
n
12
GLY
12
A
VAL
13
n
13
VAL
13
A
LEU
14
n
14
LEU
14
A
PRO
15
n
15
PRO
15
A
LYS
16
n
16
LYS
16
A
HIS
17
n
17
HIS
17
A
ALA
18
n
18
ALA
18
A
THR
19
n
19
THR
19
A
ASN
20
n
20
ASN
20
A
VAL
21
n
21
VAL
21
A
MET
22
n
22
MET
22
A
ARG
23
n
23
ARG
23
A
SER
24
n
24
SER
24
A
TRP
25
n
25
TRP
25
A
LEU
26
n
26
LEU
26
A
PHE
27
n
27
PHE
27
A
GLN
28
n
28
GLN
28
A
HIS
29
n
29
HIS
29
A
ILE
30
n
30
ILE
30
A
GLY
31
n
31
GLY
31
A
HIS
32
n
32
HIS
32
A
PRO
33
n
33
PRO
33
A
TYR
34
n
34
TYR
34
A
PRO
35
n
35
PRO
35
A
THR
36
n
36
THR
36
A
GLU
37
n
37
GLU
37
A
ASP
38
n
38
ASP
38
A
GLU
39
n
39
GLU
39
A
LYS
40
n
40
LYS
40
A
LYS
41
n
41
LYS
41
A
GLN
42
n
42
GLN
42
A
ILE
43
n
43
ILE
43
A
ALA
44
n
44
ALA
44
A
ALA
45
n
45
ALA
45
A
GLN
46
n
46
GLN
46
A
THR
47
n
47
THR
47
A
ASN
48
n
48
ASN
48
A
LEU
49
n
49
LEU
49
A
THR
50
n
50
THR
50
A
LEU
51
n
51
LEU
51
A
LEU
52
n
52
LEU
52
A
GLN
53
n
53
GLN
53
A
VAL
54
n
54
VAL
54
A
ASN
55
n
55
ASN
55
A
ASN
56
n
56
ASN
56
A
TRP
57
n
57
TRP
57
A
PHE
58
n
58
PHE
58
A
ILE
59
n
59
ILE
59
A
ASN
60
n
60
ASN
60
A
ALA
61
n
61
ALA
61
A
ARG
62
n
62
ARG
62
A
ARG
63
n
63
ARG
63
A
ARG
64
n
64
ARG
64
A
ILE
65
n
65
ILE
65
A
LEU
66
n
66
LEU
66
A
GLN
67
n
67
GLN
67
A
SER
68
n
68
SER
68
A
GLY
69
n
69
GLY
69
A
PRO
70
n
70
PRO
70
A
SER
71
n
71
SER
71
A
SER
72
n
72
SER
72
A
GLY
73
n
73
GLY
73
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
ASN
9
-47.45
105.77
1
A
PRO
33
-69.86
79.81
1
A
GLU
37
-34.46
-37.13
1
A
ALA
44
-39.24
-38.57
1
A
LEU
51
-34.35
-35.31
2
A
VAL
13
-35.74
142.60
2
A
LYS
16
-36.58
-36.41
2
A
PRO
33
-69.73
79.66
2
A
GLU
37
-39.98
-38.50
2
A
ASN
48
73.56
34.53
2
A
LEU
51
-37.80
-36.34
3
A
PRO
33
-69.73
79.78
3
A
LEU
51
-34.38
-39.52
3
A
PRO
70
-69.75
2.80
3
A
SER
71
-34.52
123.50
4
A
PRO
33
-69.76
79.77
4
A
GLU
37
-35.80
-37.86
4
A
LEU
51
-35.36
-36.31
4
A
PRO
70
-69.86
0.54
4
A
SER
71
-48.73
88.96
5
A
SER
3
-42.92
152.63
5
A
SER
5
-170.91
141.06
5
A
ASN
9
-109.83
-62.28
5
A
PRO
33
-69.80
79.46
5
A
GLU
37
-39.78
-38.82
5
A
LEU
51
-34.28
-37.18
6
A
LYS
10
-124.54
-50.73
6
A
PRO
33
-69.72
79.53
6
A
GLU
37
-35.20
-33.30
6
A
ALA
44
-37.23
-39.29
6
A
LEU
51
-34.53
-34.79
7
A
PRO
33
-69.79
79.50
7
A
GLU
37
-34.27
-37.52
7
A
ALA
44
-35.84
-36.63
7
A
LEU
51
-35.87
-36.05
8
A
LYS
10
-104.67
-60.31
8
A
PRO
33
-69.73
79.84
8
A
GLU
37
-33.98
-36.72
8
A
ALA
44
-38.67
-38.70
8
A
LEU
51
-34.91
-39.19
9
A
ASN
9
-95.06
-62.46
9
A
PRO
33
-69.74
79.55
9
A
GLU
37
-33.80
-38.09
9
A
LEU
51
-34.47
-37.81
9
A
ARG
62
-47.99
-19.47
9
A
SER
72
-172.05
131.72
10
A
ASN
9
-160.56
112.72
10
A
PRO
33
-69.75
78.72
10
A
GLU
37
-35.80
-38.22
10
A
ALA
44
-39.81
-38.23
10
A
LEU
51
-35.85
-33.96
10
A
SER
72
-82.36
47.47
11
A
PRO
33
-69.72
79.52
11
A
GLU
37
-34.37
-36.51
11
A
ALA
44
-37.39
-37.43
11
A
ASN
48
73.05
30.09
11
A
LEU
51
-34.30
-39.75
11
A
SER
72
-132.49
-50.07
12
A
SER
2
34.71
42.25
12
A
ARG
11
-172.03
141.78
12
A
PRO
33
-69.83
79.48
12
A
GLU
37
-33.85
-38.70
12
A
LEU
51
-36.63
-39.83
12
A
PRO
70
-69.76
0.17
13
A
PRO
33
-69.80
79.94
13
A
GLU
37
-33.69
-34.69
13
A
LEU
51
-36.93
-34.46
14
A
LYS
10
-40.70
104.78
14
A
PRO
33
-69.78
79.54
14
A
GLU
37
-35.27
-37.07
15
A
LYS
16
-38.98
-36.94
15
A
PRO
33
-69.78
79.19
15
A
GLU
37
-34.03
-33.39
15
A
ALA
44
-34.93
-36.57
15
A
LEU
51
-36.26
-38.25
15
A
SER
68
-36.25
133.35
16
A
PRO
33
-69.79
79.34
16
A
GLU
37
-33.17
-38.51
16
A
SER
72
-57.75
109.10
17
A
SER
3
-49.54
151.76
17
A
PRO
33
-69.70
78.68
17
A
GLU
37
-33.99
-34.14
17
A
LEU
51
-37.67
-36.12
18
A
PRO
33
-69.75
79.23
18
A
GLU
37
-34.09
-33.47
18
A
ALA
44
-35.74
-36.74
18
A
PRO
70
-69.74
93.49
19
A
PRO
33
-69.75
79.31
19
A
GLU
37
-35.52
-37.42
19
A
LEU
51
-34.12
-38.46
20
A
SER
3
-48.95
108.06
20
A
PRO
33
-69.77
79.16
20
A
GLU
37
-33.22
-35.57
20
A
ALA
44
-39.40
-38.39
20
A
SER
68
-58.04
109.04
Solution structure of the homeobox domain of human homeobox protein PKNOX1
1
N
N
A
PRO
15
A
PRO
15
HELX_P
A
HIS
29
A
HIS
29
1
1
15
A
THR
36
A
THR
36
HELX_P
A
ASN
48
A
ASN
48
1
2
13
A
THR
50
A
THR
50
HELX_P
A
SER
68
A
SER
68
1
3
19
TRANSCRIPTION
homeobox domain, human homeobox protein PKNOX1, structural genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, TRANSCRIPTION
PKNX1_HUMAN
UNP
1
259
P55347
KNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQ
259
318
1X2N
8
67
P55347
A
1
8
67
1
cloning artifact
GLY
1
1X2N
A
P55347
UNP
1
1
cloning artifact
SER
2
1X2N
A
P55347
UNP
2
1
cloning artifact
SER
3
1X2N
A
P55347
UNP
3
1
cloning artifact
GLY
4
1X2N
A
P55347
UNP
4
1
cloning artifact
SER
5
1X2N
A
P55347
UNP
5
1
cloning artifact
SER
6
1X2N
A
P55347
UNP
6
1
cloning artifact
GLY
7
1X2N
A
P55347
UNP
7
1
cloning artifact
SER
68
1X2N
A
P55347
UNP
68
1
cloning artifact
GLY
69
1X2N
A
P55347
UNP
69
1
cloning artifact
PRO
70
1X2N
A
P55347
UNP
70
1
cloning artifact
SER
71
1X2N
A
P55347
UNP
71
1
cloning artifact
SER
72
1X2N
A
P55347
UNP
72
1
cloning artifact
GLY
73
1X2N
A
P55347
UNP
73