1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Kurz, M.
Guba, W.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C4 H9 N O3
119.119
D-allothreonine
D-peptide linking
C4 H8 N2 O4
148.117
n
BETA-HYDROXYASPARAGINE
L-peptide linking
C4 H9 N O3
119.119
n
ALLO-THREONINE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C8 H8 Cl N O3
201.607
n
3-CHLORO-4-HYDROXYPHENYLGLYCINE
L-peptide linking
C8 H9 N O3
167.162
(2S)-AMINO(4-HYDROXYPHENYL)ACETIC ACID
L-peptide linking
C3 H7 N O2
89.093
D-ALANINE
D-peptide linking
C9 H14 O2
154.206
(2Z,4E)-7-methylocta-2,4-dienoic acid
non-polymer
C8 H9 N O3
167.162
(2R)-amino(4-hydroxyphenyl)ethanoic acid
D-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H12 O6
180.156
alpha-D-mannopyranose
alpha-D-mannose; D-mannose; mannose
D-saccharide, alpha linking
C5 H12 N2 O2
132.161
D-ORNITHINE
D-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
N
1
N
N
N
2
R
C
N
3
R
C
N
4
N
O
N
5
N
C
N
6
N
C
N
7
N
O
N
8
N
O
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
H
N
15
N
H
N
16
N
H
N
17
N
H
N
18
N
N
N
19
S
C
N
20
S
C
N
21
N
O
N
22
N
C
N
23
N
O
N
24
N
N
N
25
N
C
N
26
N
O
N
27
N
O
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
N
N
37
S
C
N
38
S
C
N
39
N
C
N
40
N
O
N
41
N
C
N
42
N
O
N
43
N
O
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
H
N
49
N
H
N
50
N
H
N
51
N
H
N
52
N
H
N
53
N
N
N
54
S
C
N
55
N
C
N
56
N
O
N
57
N
C
N
58
N
C
N
59
N
O
N
60
N
N
N
61
N
O
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
N
N
71
S
C
N
72
N
C
N
73
N
O
N
74
N
O
Y
75
N
C
Y
76
N
C
Y
77
N
C
N
78
N
CL
Y
79
N
C
N
80
N
O
Y
81
N
C
Y
82
N
C
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
N
N
92
S
C
N
93
N
C
N
94
N
O
Y
95
N
C
Y
96
N
C
Y
97
N
C
Y
98
N
C
N
99
N
O
Y
100
N
C
Y
101
N
C
N
102
N
O
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
N
N
113
R
C
N
114
N
C
N
115
N
C
N
116
N
O
N
117
N
O
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
C
N
126
N
O
N
127
N
C
N
128
N
C
N
129
N
C
N
130
N
C
N
131
N
C
N
132
N
C
N
133
N
C
N
134
N
C
N
135
N
O
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
N
N
151
R
C
N
152
N
C
N
153
N
O
N
154
N
O
Y
155
N
C
Y
156
N
C
Y
157
N
C
Y
158
N
C
N
159
N
O
Y
160
N
C
Y
161
N
C
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
N
N
172
N
C
N
173
N
C
N
174
N
O
N
175
N
O
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
N
N
182
S
C
N
183
N
C
N
184
N
O
N
185
N
C
N
186
N
C
N
187
N
C
N
188
N
C
N
189
N
O
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
S
C
N
204
S
C
N
205
S
C
N
206
S
C
N
207
R
C
N
208
N
C
N
209
N
O
N
210
N
O
N
211
N
O
N
212
N
O
N
213
N
O
N
214
N
O
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
N
N
228
R
C
N
229
N
C
N
230
N
C
N
231
N
C
N
232
N
N
N
233
N
O
N
234
N
O
N
235
N
C
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
N
N
249
S
C
N
250
N
C
N
251
N
O
N
252
N
C
Y
253
N
C
Y
254
N
C
Y
255
N
C
Y
256
N
C
Y
257
N
C
Y
258
N
C
N
259
N
O
N
260
N
H
N
261
N
H
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
doub
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
doub
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
doub
N
32
N
sing
N
33
N
sing
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
doub
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
doub
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
doub
N
73
N
sing
N
74
N
sing
Y
75
N
doub
Y
76
N
sing
Y
77
N
sing
N
78
N
sing
N
79
N
sing
Y
80
N
doub
N
81
N
sing
Y
82
N
sing
N
83
N
sing
Y
84
N
doub
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
doub
N
94
N
sing
Y
95
N
doub
Y
96
N
sing
Y
97
N
sing
N
98
N
sing
Y
99
N
doub
N
100
N
sing
N
101
N
sing
Y
102
N
sing
N
103
N
sing
Y
104
N
doub
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
doub
N
118
N
sing
N
119
N
sing
N
120
N
doub
N
121
N
sing
N
122
N
sing
N
123
Z
doub
N
124
N
sing
N
125
N
doub
N
126
N
sing
N
127
E
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
doub
N
151
N
sing
N
152
N
sing
Y
153
N
doub
Y
154
N
sing
Y
155
N
sing
N
156
N
sing
Y
157
N
doub
N
158
N
sing
N
159
N
sing
Y
160
N
sing
N
161
N
sing
Y
162
N
doub
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
doub
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
doub
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
sing
N
225
N
doub
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
doub
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
Y
250
N
doub
Y
251
N
sing
Y
252
N
sing
N
253
N
sing
Y
254
N
doub
N
255
N
sing
Y
256
N
doub
N
257
N
sing
Y
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
35
12570
10.1021/BI961017Q
8823194
3D Structure of Ramoplanin: A Potent Inhibitor of Bacterial Cell Wall Synthesis.
1996
10.2210/pdb1dsr/pdb
pdb_00001dsr
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
2111.610
RAMOPLANIN A2
1
nat
polymer
342.297
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose
1
man
branched
154.206
(2Z,4E)-7-methylocta-2,4-dienoic acid
1
syn
non-polymer
A-166686,MDL 62,198)
2alpha-alpha-mannobiose
no
yes
N(AHB)(GHP)(ORD)(2TL)(D4P)(GHP)(ALO)F(ORD)(D4P)(2TL)(D4P)GL(DAL)(CHP)
NNGXTXGTFXXTXGLAG
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
1871
ACTINOPLANES SP.
ATCC 33076
atom_site
chem_comp
entity
entity_name_com
pdbx_branch_scheme
pdbx_chem_comp_identifier
pdbx_database_status
pdbx_entity_branch
pdbx_entity_branch_descriptor
pdbx_entity_branch_link
pdbx_entity_branch_list
pdbx_entity_nonpoly
pdbx_molecule
pdbx_molecule_features
pdbx_nonpoly_scheme
pdbx_struct_assembly_gen
struct_asym
struct_conn
atom_site
chem_comp
chem_comp_atom
chem_comp_bond
database_2
struct_conn
repository
Initial release
Carbohydrate remediation
repository
Remediation
Version format compliance
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Other
Atomic model
Data collection
Derived calculations
Other
Structure summary
Atomic model
Data collection
Database references
Derived calculations
Structure summary
1
0
1997-02-12
1
1
2011-06-14
1
2
2011-07-13
1
3
2011-07-27
1
4
2012-12-12
2
0
2020-07-29
3
0
2023-11-15
_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
_entity.formula_weight
_entity.pdbx_description
_entity.pdbx_number_of_molecules
_entity.src_method
_entity.type
_pdbx_database_status.process_site
_pdbx_struct_assembly_gen.asym_id_list
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_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
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.auth_atom_id
_atom_site.label_atom_id
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
A
MAN
18
n
B
MAN
1
A
MAN
19
n
B
MAN
2
DManpa
a-D-mannopyranose
a-D-Manp
Man
Y
BNL
1996-07-05
REL
oligosaccharide
DManpa1-2DManpa1-ROH
2
GMML
1.0
Glycam Condensed Sequence
WURCS=2.0/1,2,1/[a1122h-1a_1-5]/1-1/a2-b1
2
PDB2Glycan
1.1.0
WURCS
[][D-1-deoxy-Manp]{[(2+1)][a-D-Manp]{}}
2
PDB-CARE
LINUCS
C1
O2
MAN
MAN
2
1
2
O1
HO2
sing
n
n
FA7
(2Z,4E)-7-methylocta-2,4-dienoic acid
RAMOPLANIN IS A CYCLIC LIPOGLYCOPEPTIDE.
HERE, RAMOPLANIN IS REPRESENTED BY GROUPING TOGETHER THE
SEQUENCE (SEQRES) A FATTY ACID (FA7) AND TWO LIGANDS (HET) MAN.
Antibiotic
RAMOPLANIN A2 IS A CYCLIC HEPTADECAMER
LIPOGLYCODEPSIPEPTIDE.
THE SCAFFOLD IS A HEPTA CYCLIC PEPTIDE
GLYCOSYLATED BY ONE DISACCHARIDE AND A FATTY ACID
AT THE N-TERM.
RAMOPLANIN A2
Lipoglycopeptide
Metabolism
oligosaccharide
2alpha-alpha-mannobiose
Oligosaccharide
ENERGY MINIMIZED SNAPSHOT EVERY 75 PS
450
6
NOESY
4.6
313
K
600
Bruker
AMX 600
FA7
0
3
FA7
FA7
0
A
ASN
1
n
1
ASN
1
A
AHB
2
n
2
AHB
2
A
GHP
3
n
3
GHP
3
A
ORD
4
n
4
ORD
4
A
2TL
5
n
5
2TL
5
A
D4P
6
n
6
D4P
6
A
GHP
7
n
7
GHP
7
A
ALO
8
n
8
ALO
8
A
PHE
9
n
9
PHE
9
A
ORD
10
n
10
ORD
10
A
D4P
11
n
11
D4P
11
A
2TL
12
n
12
2TL
12
A
D4P
13
n
13
D4P
13
A
GLY
14
n
14
GLY
14
A
LEU
15
n
15
LEU
15
A
DAL
16
n
16
DAL
16
A
CHP
17
n
17
CHP
17
A
author_and_software_defined_assembly
PISA
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
A
N
ORD
4
A
N
ORD
4
A
O
2TL
12
A
O
2TL
12
1
A
A
H2
C2
ASN
FA7
1
0
1.09
2
A
A
H2
C2
ASN
FA7
1
0
1.09
3
A
A
H2
C2
ASN
FA7
1
0
1.09
4
A
A
H2
C2
ASN
FA7
1
0
1.09
5
A
A
H2
C2
ASN
FA7
1
0
1.09
6
A
A
H2
C2
ASN
FA7
1
0
1.09
3
A
A
D4P
GHP
6
7
148.22
1
A
GHP
7
171.82
-137.60
1
A
LEU
15
59.46
79.39
2
A
GHP
7
176.66
-127.71
2
A
LEU
15
62.31
79.46
3
A
LEU
15
60.29
80.34
4
A
GHP
7
174.95
-136.61
4
A
LEU
15
62.18
80.09
5
A
GHP
7
172.37
-131.17
5
A
LEU
15
61.49
80.39
6
A
GHP
7
179.97
-134.23
6
A
LEU
15
60.62
79.99
Peptide antibiotic, NMR, 6 structures
1
N
N
2
N
N
3
N
N
covale
1.338
both
A
FA7
0
C
C1
FA7
1_555
A
ASN
1
A
N
ASN
1
1_555
covale
1.340
both
A
ASN
1
A
C
ASN
1
1_555
A
AHB
2
A
N
AHB
2
1_555
covale
1.339
both
A
AHB
2
A
C
AHB
2
1_555
A
GHP
3
A
N
GHP
3
1_555
covale
1.397
one
A
AHB
2
A
OB
AHB
2
1_555
A
CHP
17
A
C
CHP
17
1_555
covale
1.339
both
A
GHP
3
A
C
GHP
3
1_555
A
ORD
4
A
N
ORD
4
1_555
covale
1.339
both
A
ORD
4
A
C
ORD
4
1_555
A
2TL
5
A
N
2TL
5
1_555
covale
1.339
both
A
2TL
5
A
C
2TL
5
1_555
A
D4P
6
A
N
D4P
6
1_555
covale
1.351
both
A
D4P
6
A
C
D4P
6
1_555
A
GHP
7
A
N
GHP
7
1_555
covale
1.344
both
A
GHP
7
A
C
GHP
7
1_555
A
ALO
8
A
N
ALO
8
1_555
covale
1.340
both
A
ALO
8
A
C
ALO
8
1_555
A
PHE
9
A
N
PHE
9
1_555
covale
1.343
both
A
PHE
9
A
C
PHE
9
1_555
A
ORD
10
A
N
ORD
10
1_555
covale
1.342
both
A
ORD
10
A
C
ORD
10
1_555
A
D4P
11
A
N
D4P
11
1_555
covale
1.343
both
A
D4P
11
A
C
D4P
11
1_555
A
2TL
12
A
N
2TL
12
1_555
covale
1.451
both
A
D4P
11
A
O4
D4P
11
1_555
B
MAN
1
B
C1
MAN
1_555
covale
1.341
both
A
2TL
12
A
C
2TL
12
1_555
A
D4P
13
A
N
D4P
13
1_555
covale
1.349
both
A
D4P
13
A
C
D4P
13
1_555
A
GLY
14
A
N
GLY
14
1_555
covale
1.338
both
A
LEU
15
A
C
LEU
15
1_555
A
DAL
16
A
N
DAL
16
1_555
covale
1.346
both
A
DAL
16
A
C
DAL
16
1_555
A
CHP
17
A
N
CHP
17
1_555
covale
1.450
both
B
MAN
1
B
O2
MAN
1_555
B
MAN
2
B
C1
MAN
1_555
ANTIBIOTIC
RAMOPLANIN, ANTIBIOTIC, INHIBITOR, GLYCOLIPODESPSIPEPTIDE
NOR00844
NOR
1
NOR00844
1
17
1DSR
1
17
NOR00844
A
1
1
17
2
anti-parallel
A
GHP
3
A
GHP
3
A
D4P
6
A
D4P
6
A
D4P
11
A
D4P
11
A
D4P
13
A
D4P
13
1
P 1