1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Pallaghy, P.K.
Norton, R.S.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C3 H8 N2 O S
120.173
n
2-AMINO-3-MERCAPTO-PROPIONAMIDE
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C9 H11 N O3
181.189
D-TYROSINE
D-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C5 H9 N O3
131.130
n
4-HYDROXYPROLINE
HYDROXYPROLINE
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
US
Biopolymers
BIPMAA
0161
0006-3525
54
173
179
10.1002/1097-0282(200009)54:3<173::AID-BIP30>3.3.CO;2-1
10861378
The cyclic contryphan motif CPxXPXC, a robust scaffold potentially useful as an omega-conotoxin mimic.
2000
DTY A 4 HAS WRONG CHIRALITY AT ATOM CA
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
897.054
YNK-CONTRYPHAN
1
syn
polymer
no
yes
GC(HYP)(DTY)NPK(CY3)
GCPYNPKC
A
polypeptide(L)
n
n
n
n
n
n
n
n
database_PDB_caveat
pdbx_entity_src_syn
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
struct_ref
struct_ref_seq
repository
Initial release
Version format compliance
Version format compliance
Advisory
Database references
Derived calculations
Source and taxonomy
1
0
2000-09-13
1
1
2008-04-27
1
2
2011-07-13
1
3
2020-06-24
_pdbx_entity_src_syn.ncbi_taxonomy_id
_pdbx_entity_src_syn.organism_scientific
_pdbx_entity_src_syn.pdbx_beg_seq_num
_pdbx_entity_src_syn.pdbx_end_seq_num
_struct_conn.pdbx_leaving_atom_flag
RCSB
Y
RCSB
1999-10-19
REL
THE SEQUENCE WAS DESIGNED TO MIMIC THE SURFACE OF W-CONOTOXIN GVIA FROM CONUS GEOGRAPHUS AND IS BASED ON THE CONTRYPHAN-R SCAFFOLD FROM CONUS RADIATUS
32630
synthetic construct
sample
1
8
THIS STRUCTURE WAS DETERMINED USING STANDARD 2D HOMONUCLEAR TECHNIQUES.
LOWEST ENERGY
200
20
2D NOESY
0
3.5
AMBIENT
283
K
STRUCTURES ARE BASED ON 104 NOES AND 2 PHI-ANGLES AND 4 CHI1-ANGLES.
DISTANCE GEOMETRY SIMULATED ANNEALING
1
closest to the average
21 MM YNK-CONTRYPHAN
BRUNGER
refinement
X-PLOR
3.5
600
Bruker
DRX
GLY
1
n
1
GLY
1
A
CYS
2
n
2
CYS
2
A
HYP
3
n
3
HYP
3
A
DTY
4
n
4
DTY
4
A
ASN
5
n
5
ASN
5
A
PRO
6
n
6
PRO
6
A
LYS
7
n
7
LYS
7
A
CYS
8
n
8
CY3
8
A
author_defined_assembly
1
monomeric
A
HYP
3
4-HYDROXYPROLINE
A
HYP
3
PRO
A
DTY
4
D-TYROSINE
A
DTY
4
TYR
A
CY3
8
2-AMINO-3-MERCAPTO-PROPIONAMIDE
A
CY3
8
CYS
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
CA
DTY
4
WRONG HAND
2
A
CA
DTY
4
WRONG HAND
3
A
CA
DTY
4
WRONG HAND
4
A
CA
DTY
4
WRONG HAND
5
A
CA
DTY
4
WRONG HAND
6
A
CA
DTY
4
WRONG HAND
7
A
CA
DTY
4
WRONG HAND
8
A
CA
DTY
4
WRONG HAND
9
A
CA
DTY
4
WRONG HAND
10
A
CA
DTY
4
WRONG HAND
11
A
CA
DTY
4
WRONG HAND
12
A
CA
DTY
4
WRONG HAND
13
A
CA
DTY
4
WRONG HAND
14
A
CA
DTY
4
WRONG HAND
15
A
CA
DTY
4
WRONG HAND
16
A
CA
DTY
4
WRONG HAND
17
A
CA
DTY
4
WRONG HAND
18
A
CA
DTY
4
WRONG HAND
19
A
CA
DTY
4
WRONG HAND
20
A
CA
DTY
4
WRONG HAND
1
18.20
2.70
111.00
129.20
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
2
20.60
2.70
111.00
131.60
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
4
19.20
2.70
111.00
130.20
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
5
-13.89
1.90
113.40
99.51
A
A
A
CA
CB
CG
DTY
DTY
DTY
4
4
4
N
5
22.58
2.70
111.00
133.58
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
6
19.87
2.70
111.00
130.87
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
7
23.44
2.70
111.00
134.44
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
8
20.67
2.70
111.00
131.67
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
9
-18.84
1.90
113.40
94.56
A
A
A
CA
CB
CG
DTY
DTY
DTY
4
4
4
N
9
-4.54
0.60
121.00
116.46
A
A
A
CB
CG
CD2
DTY
DTY
DTY
4
4
4
N
9
6.10
0.60
121.00
127.10
A
A
A
CB
CG
CD1
DTY
DTY
DTY
4
4
4
N
9
21.65
2.70
111.00
132.65
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
10
17.76
2.70
111.00
128.76
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
11
21.48
2.70
111.00
132.48
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
12
-16.32
1.90
113.40
97.08
A
A
A
CA
CB
CG
DTY
DTY
DTY
4
4
4
N
12
20.80
2.70
111.00
131.80
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
13
-12.86
1.90
113.40
100.54
A
A
A
CA
CB
CG
DTY
DTY
DTY
4
4
4
N
13
20.45
2.70
111.00
131.45
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
14
-12.31
1.90
113.40
101.09
A
A
A
CA
CB
CG
DTY
DTY
DTY
4
4
4
N
14
21.30
2.70
111.00
132.30
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
15
17.73
2.70
111.00
128.73
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
16
21.11
2.70
111.00
132.11
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
17
19.04
2.70
111.00
130.04
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
18
-11.65
1.90
113.40
101.75
A
A
A
CA
CB
CG
DTY
DTY
DTY
4
4
4
N
18
22.12
2.70
111.00
133.12
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
19
19.14
2.70
111.00
130.14
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
20
20.98
2.70
111.00
131.98
A
A
A
N
CA
C
DTY
DTY
DTY
4
4
4
N
1
A
HYP
3
-70.01
-166.29
9
A
HYP
3
-67.69
-176.47
12
A
PRO
6
-80.66
31.28
15
A
PRO
6
-69.55
13.45
16
A
HYP
3
-56.29
-178.90
19
A
PRO
6
-69.06
2.54
20
A
PRO
6
-58.32
-8.36
YNK-CONTRYPHAN
NMR STRUCTURE OF AN ENGINEERED CONTRYPHAN CYCLIC PEPTIDE (MOTIF CPXXPXC)
1
N
N
covale
1.317
both
A
CYS
2
A
C
CYS
2
1_555
A
HYP
3
A
N
HYP
3
1_555
covale
2.023
none
A
CYS
2
A
SG
CYS
2
1_555
A
CY3
8
A
SG
CY3
8
1_555
covale
1.304
both
A
HYP
3
A
C
HYP
3
1_555
A
DTY
4
A
N
DTY
4
1_555
covale
1.307
both
A
DTY
4
A
C
DTY
4
1_555
A
ASN
5
A
N
ASN
5
1_555
covale
1.310
both
A
LYS
7
A
C
LYS
7
1_555
A
CY3
8
A
N
CY3
8
1_555
DE NOVO PROTEIN
DISULFIDE BOND, D-HANDED, BETA TURN, CIS PROLINE, DE NOVO PROTEIN
A
CYS
2
A
CYS
2
1
A
HYP
3
A
HYP
3
3.99
A
CYS
2
A
CYS
2
2
A
HYP
3
A
HYP
3
-5.17
A
CYS
2
A
CYS
2
3
A
HYP
3
A
HYP
3
-2.73
A
CYS
2
A
CYS
2
4
A
HYP
3
A
HYP
3
9.69
A
CYS
2
A
CYS
2
5
A
HYP
3
A
HYP
3
-4.02
A
CYS
2
A
CYS
2
6
A
HYP
3
A
HYP
3
0.75
A
CYS
2
A
CYS
2
7
A
HYP
3
A
HYP
3
9.15
A
CYS
2
A
CYS
2
8
A
HYP
3
A
HYP
3
10.58
A
CYS
2
A
CYS
2
9
A
HYP
3
A
HYP
3
3.58
A
CYS
2
A
CYS
2
10
A
HYP
3
A
HYP
3
10.60
A
CYS
2
A
CYS
2
11
A
HYP
3
A
HYP
3
-10.88
A
CYS
2
A
CYS
2
12
A
HYP
3
A
HYP
3
10.72
A
CYS
2
A
CYS
2
13
A
HYP
3
A
HYP
3
2.58
A
CYS
2
A
CYS
2
14
A
HYP
3
A
HYP
3
-9.27
A
CYS
2
A
CYS
2
15
A
HYP
3
A
HYP
3
11.08
A
CYS
2
A
CYS
2
16
A
HYP
3
A
HYP
3
-10.59
A
CYS
2
A
CYS
2
17
A
HYP
3
A
HYP
3
-8.01
A
CYS
2
A
CYS
2
18
A
HYP
3
A
HYP
3
11.86
A
CYS
2
A
CYS
2
19
A
HYP
3
A
HYP
3
9.41
A
CYS
2
A
CYS
2
20
A
HYP
3
A
HYP
3
-8.52
1D7T
PDB
1
1
1D7T
1
8
1D7T
1
8
1D7T
A
1
1
8
1
P 1