1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Hashimoto, Y.
Toma, K.
Nishikido, J.
Yamamoto, K.
Haneda, K.
Inazu, T.
Valentine, K.
Opella, S.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
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
C3 H7 N O2 S
121.158
y
CYSTEINE
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
C6 H12 O6
180.156
alpha-D-mannopyranose
D-saccharide, alpha linking
C8 H15 N O6
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
D-saccharide, beta linking
H2 N
16.023
AMINO GROUP
non-polymer
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
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
Biochemistry
BICHAW
0033
0006-2960
38
8377
8384
10.1021/bi983018j
10387083
Effects of glycosylation on the structure and dynamics of eel calcitonin in micelles and lipid bilayers determined by nuclear magnetic resonance spectroscopy.
1999
MAN B 3 HAS WRONG CHIRALITY AT ATOM C1
NAG B 1 HAS WRONG CHIRALITY AT ATOM C1
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
SYNTHETICALLY GLYCOSYLATED AT ASN3
3419.906
PROTEIN (CALCITONIN)
1
syn
polymer
1397.245
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
1
man
branched
no
yes
CSNLSTCVLGKLSQELHKLQTYPRTDVGAGTP(NH2)
CSNLSTCVLGKLSQELHKLQTYPRTDVGAGTPX
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
atom_site
chem_comp
database_PDB_caveat
entity
pdbx_branch_scheme
pdbx_chem_comp_identifier
pdbx_entity_branch
pdbx_entity_branch_descriptor
pdbx_entity_branch_link
pdbx_entity_branch_list
pdbx_entity_nonpoly
pdbx_nmr_software
pdbx_nonpoly_scheme
pdbx_struct_assembly_gen
pdbx_validate_chiral
struct_asym
struct_conn
struct_site
struct_site_gen
repository
Initial release
Carbohydrate remediation
repository
Remediation
Version format compliance
Non-polymer description
Version format compliance
Advisory
Atomic model
Data collection
Derived calculations
Structure summary
1
0
1998-11-11
1
1
2008-04-27
1
2
2011-07-13
2
0
2020-07-29
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.auth_asym_id
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.label_asym_id
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_entity_id
_atom_site.type_symbol
_chem_comp.name
_chem_comp.type
_pdbx_nmr_software.name
_pdbx_struct_assembly_gen.asym_id_list
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_role
_struct_conn.pdbx_value_order
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
NAG
33
n
B
NAG
1
NAG
34
n
B
NAG
2
MAN
35
n
B
MAN
3
MAN
37
n
B
MAN
4
MAN
40
n
B
MAN
5
MAN
36
n
B
MAN
6
MAN
39
n
B
MAN
7
MAN
38
n
B
MAN
8
DManpa
a-D-mannopyranose
a-D-Manp
Man
DGlcpNAcb
N-acetyl-b-D-glucopyranosamine
b-D-GlcpNAc
GlcNAc
BNL
Y
RCSB
1998-10-27
REL
REL
oligosaccharide
DManpa1-2DManpa1-3[DManpa1-3[DManpa1-6]DManpa1-6]DManpa1-4DGlcpNAcb1-4DGlcpNAcb1-
2
GMML
1.0
Glycam Condensed Sequence
WURCS=2.0/2,8,7/[a2122h-1b_1-5_2*NCC/3=O][a1122h-1a_1-5]/1-1-2-2-2-2-2-2/a4-b1_b4-c1_c3-d1_c6-f1_d2-e1_f3-g1_f6-h1
2
PDB2Glycan
1.1.0
WURCS
[]{[(4+1)][b-D-GlcpNAc]{[(4+1)][b-D-GlcpNAc]{[(4+1)][b-D-Manp]{[(3+1)][a-D-Manp]{[(2+1)][a-D-Manp]{}}[(6+1)][a-D-Manp]{[(3+1)][a-D-Manp]{}[(6+1)][a-D-Manp]{}}}}}}
2
PDB-CARE
LINUCS
C1
O4
NAG
NAG
2
1
2
O1
HO4
sing
C1
O4
MAN
NAG
3
2
2
O1
HO4
sing
C1
O3
MAN
MAN
4
3
2
O1
HO3
sing
C1
O2
MAN
MAN
5
4
2
O1
HO2
sing
C1
O6
MAN
MAN
6
3
2
O1
HO6
sing
C1
O3
MAN
MAN
7
6
2
O1
HO3
sing
C1
O6
MAN
MAN
8
6
2
O1
HO6
sing
n
n
n
n
n
n
n
n
THIS SEQUENCE OCCURS NATURALLY IN ANGUILLA JAPONICA (JAPANESE EEL)
sample
THE STRUCTURE WAS DETERMINED USING A SERIES OF 2D NMR SPECTROSCOPY ON UNLABLED
SAMPLE. SODIUM DODECYL SULFATE (SDS) WAS ADDED TO THE NMR SAMPLE AT A SDS/
PEPTIDE RATIO OF 100/1.
VIOLATION
20
10
NOESY
DQF-COSY
TOCSY
4.5
308
K
distance geometry
HAVEL
refinement
DGII
structure solution
Felix
750
Bruker
DMX750
CYS
1
n
1
CYS
1
A
SER
2
n
2
SER
2
A
ASN
3
n
3
ASN
3
A
LEU
4
n
4
LEU
4
A
SER
5
n
5
SER
5
A
THR
6
n
6
THR
6
A
CYS
7
n
7
CYS
7
A
VAL
8
n
8
VAL
8
A
LEU
9
n
9
LEU
9
A
GLY
10
n
10
GLY
10
A
LYS
11
n
11
LYS
11
A
LEU
12
n
12
LEU
12
A
SER
13
n
13
SER
13
A
GLN
14
n
14
GLN
14
A
GLU
15
n
15
GLU
15
A
LEU
16
n
16
LEU
16
A
HIS
17
n
17
HIS
17
A
LYS
18
n
18
LYS
18
A
LEU
19
n
19
LEU
19
A
GLN
20
n
20
GLN
20
A
THR
21
n
21
THR
21
A
TYR
22
n
22
TYR
22
A
PRO
23
n
23
PRO
23
A
ARG
24
n
24
ARG
24
A
THR
25
n
25
THR
25
A
ASP
26
n
26
ASP
26
A
VAL
27
n
27
VAL
27
A
GLY
28
n
28
GLY
28
A
ALA
29
n
29
ALA
29
A
GLY
30
n
30
GLY
30
A
THR
31
n
31
THR
31
A
PRO
32
n
32
PRO
32
A
NH2
41
n
33
NH2
41
A
author_defined_assembly
1
monomeric
A
ASN
3
GLYCOSYLATION SITE
A
ASN
3
ASN
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
2
A
NH1
ARG
24
A
NH1
ARG
24
1
Y
1
B
C1
MAN
3
WRONG HAND
4
B
C1
NAG
1
WRONG HAND
10
B
C1
NAG
1
WRONG HAND
8
A
A
SER
ASN
2
3
148.58
1
A
TYR
22
0.076
SIDE CHAIN
10
A
TYR
22
0.065
SIDE CHAIN
1
A
ASN
3
-55.17
-70.95
1
A
SER
5
-158.68
-72.99
1
A
ARG
24
-160.55
103.37
1
A
ASP
26
64.30
67.94
2
A
SER
2
-88.80
45.89
2
A
ASN
3
-179.19
-46.08
2
A
SER
5
-162.49
-63.33
2
A
GLN
20
53.37
-84.57
2
A
PRO
23
-64.95
-174.79
2
A
THR
25
-161.67
-51.40
2
A
ALA
29
70.79
-66.73
3
A
SER
5
-114.90
-82.81
3
A
THR
21
-88.28
44.27
3
A
TYR
22
65.45
127.32
3
A
ASP
26
59.70
78.31
3
A
ALA
29
-154.23
79.52
4
A
SER
2
76.47
-49.87
4
A
SER
5
-151.94
-63.05
4
A
TYR
22
55.68
70.58
4
A
ASP
26
53.38
-107.67
4
A
THR
31
58.71
73.71
5
A
SER
2
-140.47
-48.81
5
A
SER
5
-158.43
-64.54
5
A
TYR
22
61.64
72.52
5
A
ASP
26
-156.88
75.29
5
A
ALA
29
67.54
179.93
6
A
SER
2
-154.05
40.26
6
A
ASN
3
168.41
-31.77
6
A
LEU
4
70.57
70.98
6
A
SER
5
-142.37
-72.27
6
A
TYR
22
48.34
83.42
7
A
SER
2
92.49
-38.51
7
A
SER
5
-161.04
-55.29
7
A
LEU
19
-68.93
-79.46
7
A
GLN
20
63.60
-80.25
7
A
ASP
26
69.57
-77.65
7
A
VAL
27
-130.40
-34.46
7
A
ALA
29
51.89
80.10
8
A
SER
2
-50.21
-85.25
8
A
ASN
3
179.58
148.12
8
A
SER
5
168.14
-61.19
8
A
TYR
22
47.82
90.41
8
A
ARG
24
60.96
82.17
8
A
THR
25
-88.81
49.42
8
A
ASP
26
-172.56
70.45
9
A
ASN
3
50.31
-167.22
9
A
LEU
4
-148.67
54.49
9
A
SER
5
-139.28
-65.50
9
A
GLN
20
26.95
60.96
9
A
VAL
27
-143.20
57.01
10
A
SER
2
56.61
-103.90
10
A
SER
5
-137.36
-62.19
10
A
GLN
20
54.44
-87.79
10
A
TYR
22
63.08
88.79
10
A
ALA
29
61.10
-170.77
PROTEIN (CALCITONIN)
GLYCOSYLATED EEL CALCITONIN
1
N
N
2
N
N
A
SER
5
A
SER
5
HELX_P
A
LEU
19
A
LEU
19
5
H1
15
disulf
2.036
A
CYS
1
A
SG
CYS
1
1_555
A
CYS
7
A
SG
CYS
7
1_555
covale
1.452
one
N-Glycosylation
A
ASN
3
A
ND2
ASN
3
1_555
B
NAG
1
B
C1
NAG
1_555
covale
1.336
both
A
PRO
32
A
C
PRO
32
1_555
A
NH2
41
A
N
NH2
33
1_555
covale
1.395
both
sing
B
NAG
1
B
O4
NAG
1_555
B
NAG
2
B
C1
NAG
1_555
covale
1.395
both
sing
B
NAG
2
B
O4
NAG
1_555
B
MAN
3
B
C1
MAN
1_555
covale
1.417
both
sing
B
MAN
3
B
O3
MAN
1_555
B
MAN
4
B
C1
MAN
1_555
covale
1.400
both
sing
B
MAN
3
B
O6
MAN
1_555
B
MAN
6
B
C1
MAN
1_555
covale
1.416
both
sing
B
MAN
4
B
O2
MAN
1_555
B
MAN
5
B
C1
MAN
1_555
covale
1.420
both
sing
B
MAN
6
B
O3
MAN
1_555
B
MAN
7
B
C1
MAN
1_555
covale
1.400
both
sing
B
MAN
6
B
O6
MAN
1_555
B
MAN
8
B
C1
MAN
1_555
HORMONE/GROWTH FACTOR
HORMONE, CALCIUM-REGULATOR, OSTEOPOROSIS, HORMONE-GROWTH FACTOR COMPLEX
CALC_ANGJA
UNP
1
P01262
1
32
1BZB
1
32
P01262
A
1
1
32
1
P 1