1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Skjeldal, L.
Gran, L.
Sletten, K.
Volkman, B.F.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
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 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
LEUCINE
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
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
Arch.Biochem.Biophys.
ABBIA4
0158
0003-9861
399
142
148
10.1006/abbi.2002.2769
11888199
Refined structure and metal binding site of the kalata B1 peptide.
2002
US
Biochemistry
BICHAW
0033
0006-2960
34
4147
4158
Elucidation of the Primary and Three-Dimensional Structure of the Uterotonic Polypeptide Kalata B1
1995
10.2210/pdb1k48/pdb
pdb_00001k48
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
2917.345
Kalata B1
1
nat
polymer
no
no
NGLPVCGETCVGGTCNTPGCTCSWPVCTR
NGLPVCGETCVGGTCNTPGCTCSWPVCTR
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
Extracted from African plant kalata-kalata
Oldenlandia
sample
60225
Oldenlandia affinis
DC
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
2002-04-10
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
ELUCIDATION OF THE PRIMARY AND THREE-DIMENSIONAL STRUCTURE OF THE UTEROTONIC POLYPEPTIDE KALATA B1
REFINED STRUCTURE AND DISULFIDE PAIRING OF THE KALATA B1 PEPTIDE
RCSB
Y
RCSB
2001-10-05
REL
STRUCTURE WAS DETERMINED USING NOES FROM A SINGLE 100 MS MIXING TIME NOESY EXPERIMENT
1
2D NOESY
0
3.00
AMBIENT
298.00
K
STRUCTURES ARE BASED ON A TOTAL OF 333 DISTANCE CONSTRAINTS. THIS INCLUDES 6 UPPER AND 6 LOWER LIMITS DEFINING 3 DISULFIDE BONDS, AS WELL AS 3 UPPER AND 3 LOWER LIMITS DEFINING A PEPTIDE BOND CYCLIZING THE PEPTIDE BACKBONE. RESIDUE NUMBERING FOLLOWS THE ORIGINAL DESCRIPTION OF CITATION 1, EXCEPT THAT FOR THE PURPOSES OF STRUCTURE CALCULATIONS, THE N-TERMINAL RESIDUE WAS TAKEN AS ASN8. THEREFORE, RESIDUES 30-36 IN THIS DEPOSITION CORRESPOND TO RESIDUES 1-7 IN CITATION 1 AND RELATED PDB ENTRY 1KAL. STRUCTURES WERE REFINED IN THE ABSENCE OF ANY ARTIFICIAL CONSTRAINTS DEFINING DISULFIDE BONDS UNTIL ALL NOES HAD BEEN ASSIGNED AND LOW TARGET FUNCTIONS WERE ACHIEVED (TF=0.6). 15 ADDITIONAL CALCULATIONS WERE PERFORMED WITH THESE INPUT DATA AND THE INCLUSION OF CONSTRAINTS DEFINING ALL POSSIBLE DISULFIDE PAIRING COMBINATIONS. THE STRUCTURES CONTAINING DISULFIDES BETWEEN [5(34)-13], [17-29] AND [22-27] DISPLAYED THE LOWEST TARGET FUNCTION (0.74, SECOND LOWEST WAS 1.54). ON THE BASIS OF THIS RESULT AND ANALYSIS OF NOES OBSERVED BETWEEN CYS SIDECHAIN PROTONS, THIS DISULFIDE BONDING ARRANGEMENT WAS ASSUMED TO BE CORRECT AND SERVED AS THE BASIS FOR THIS DEPOSITION.
torsion angle dynamics
minimized average structure
5 MM KALATA B1, 10% D2O
P. GUENTERT
refinement
DYANA
1.5
Bruker Instruments
collection
XwinNMR
2.6
C. Mumenthaler
data analysis
XEASY
1.3.11
750
Bruker
DMX
ASN
8
n
1
ASN
8
A
GLY
9
n
2
GLY
9
A
LEU
10
n
3
LEU
10
A
PRO
11
n
4
PRO
11
A
VAL
12
n
5
VAL
12
A
CYS
13
n
6
CYS
13
A
GLY
14
n
7
GLY
14
A
GLU
15
n
8
GLU
15
A
THR
16
n
9
THR
16
A
CYS
17
n
10
CYS
17
A
VAL
18
n
11
VAL
18
A
GLY
19
n
12
GLY
19
A
GLY
20
n
13
GLY
20
A
THR
21
n
14
THR
21
A
CYS
22
n
15
CYS
22
A
ASN
23
n
16
ASN
23
A
THR
24
n
17
THR
24
A
PRO
25
n
18
PRO
25
A
GLY
26
n
19
GLY
26
A
CYS
27
n
20
CYS
27
A
THR
28
n
21
THR
28
A
CYS
29
n
22
CYS
29
A
SER
30
n
23
SER
30
A
TRP
31
n
24
TRP
31
A
PRO
32
n
25
PRO
32
A
VAL
33
n
26
VAL
33
A
CYS
34
n
27
CYS
34
A
THR
35
n
28
THR
35
A
ARG
36
n
29
ARG
36
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
A
N
C
ASN
ARG
8
36
1.38
1
A
CYS
17
-153.79
67.60
1
A
ASN
23
82.83
-7.96
1
A
CYS
29
-39.32
114.11
1
A
TRP
31
62.26
137.04
minimized average
REFINED STRUCTURE AND DISULFIDE PAIRING OF THE KALATA B1 PEPTIDE
1
N
N
disulf
1.980
A
CYS
13
A
SG
CYS
6
1_555
A
CYS
34
A
SG
CYS
27
1_555
disulf
2.108
A
CYS
17
A
SG
CYS
10
1_555
A
CYS
29
A
SG
CYS
22
1_555
disulf
2.058
A
CYS
22
A
SG
CYS
15
1_555
A
CYS
27
A
SG
CYS
20
1_555
PLANT PROTEIN
CYCLIC PEPTIDE, CYCLOTIDE, DISULFIDE PAIRING, UTEROTONIC, PLANT PROTEIN
A
TRP
31
A
TRP
24
1
A
PRO
32
A
PRO
25
-0.04
KAB1_OLDAF
UNP
1
1
P56254
TCVGGTCNTPGCTCSWPVCTRNGLPVCGE
22
29
1K48
8
15
P56254
A
1
1
8
1
21
1K48
16
36
P56254
A
1
9
29
1
P 1