1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Martin-Pintado, N.
Deleavey, G.
Portella, G.
Campos, R.
Orozco, M.
Damha, M.
Gonzalez, C.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
C10 H13 F N5 O6 P
349.212
n
2'-deoxy-2'-fluoroadenosine 5'-(dihydrogen phosphate)
DNA linking
C9 H13 F N3 O7 P
325.188
n
4-amino-1-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)pyrimidin-2(1H)-one
2'-FLUORO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE
DNA linking
C9 H13 F N3 O7 P
325.188
n
2'-deoxy-2'-fluorocytidine 5'-(dihydrogen phosphate)
DNA linking
C10 H13 F N5 O7 P
365.212
n
2'-deoxy-2'-fluoroguanosine 5'-(dihydrogen phosphate)
DNA linking
C10 H14 F N2 O8 P
340.199
n
2'-DEOXY-2'-FLUORO-ARABINO-FURANOSYL THYMINE-5'-PHOSPHATE
DNA linking
C9 H12 F N2 O8 P
326.172
n
2'-deoxy-2'-fluorouridine 5'-(dihydrogen phosphate)
DNA linking
GE
Angew.Chem.Int.Ed.Engl.
9999
1433-7851
52
12065
12068
10.1002/anie.201305710
24115468
Backbone FCHO Hydrogen Bonds in 2'F-Substituted Nucleic Acids.
2013
10.2210/pdb2m8a/pdb
pdb_00002m8a
3865.255
2'F-RNA/2'F-ANA chimeric duplex
2
syn
polymer
no
yes
(CFZ)(GF2)(CFZ)(GF2)(AF2)(AF2)(TAF)(UFT)(CFL)(GF2)(CFL)(GF2)
XXXXXXTUCXCX
A,B
polydeoxyribonucleotide/polyribonucleotide hybrid
n
n
n
n
n
n
n
n
n
n
n
n
database_2
pdbx_database_status
pdbx_nmr_software
pdbx_nmr_spectrometer
struct_conn
repository
Initial release
Database references
Data collection
Database references
Derived calculations
Other
1
0
2013-11-27
1
1
2014-05-21
1
2
2023-06-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_nmr_data
_pdbx_nmr_software.name
_pdbx_nmr_spectrometer.model
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_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_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_comp_id
_struct_conn.ptnr2_label_seq_id
BMRB
Y
RCSB
2013-05-14
REL
REL
REL
REL
structures with the lowest energy
20
10
2D 1H-1H NOESY
2D 1H-1H NOESY
2D DQF-COSY
2D 1H-1H TOCSY
0.6
mM
100
mM
25
mM
0.6
mM
100
mM
25
mM
125
7.0
ambient
atm
283
K
125
7.0
1
atm
298
K
molecular dynamics
1
closest to the average
0.6 mM DNA/RNA (5'-R((CFZ)P*(GFZ)P*(CFZ)P*(GFZ)P*(AF2)P*(AF2)D(P*(TAF)P*(UFT)P*(CFL)P*(GFZ)P*(CFL)P*(GFZ))-3'), 100 mM sodium chloride, 25 mM sodium phosphate, 90% H2O/10% D2O
90% H2O/10% D2O
0.6 mM DNA/RNA (5'-R((CFZ)P*(GFZ)P*(CFZ)P*(GFZ)P*(AF2)P*(AF2)D(P*(TAF)P*(UFT)P*(CFL)P*(GFZ)P*(CFL)P*(GFZ))-3'), 100 mM sodium chloride, 25 mM sodium phosphate, 100% D2O
100% D2O
Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman
geometry optimization
Amber
Koradi, Billeter and Wuthrich
data analysis
MOLMOL
Goddard
peak picking
Sparky
Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman
refinement
Amber
600
Bruker
AVANCE
Bruker Avance
800
Bruker
AVANCE
Bruker Avance
800
Varian
INOVA
Varian INOVA
700
Bruker
AVANCE
Bruker Avance
CFZ
1
n
1
CFZ
1
A
GF2
2
n
2
GF2
2
A
CFZ
3
n
3
CFZ
3
A
GF2
4
n
4
GF2
4
A
AF2
5
n
5
AF2
5
A
AF2
6
n
6
AF2
6
A
TAF
7
n
7
TAF
7
A
UFT
8
n
8
UFT
8
A
CFL
9
n
9
CFL
9
A
GF2
10
n
10
GF2
10
A
CFL
11
n
11
CFL
11
A
GF2
12
n
12
GF2
12
A
CFZ
13
n
1
CFZ
13
B
GF2
14
n
2
GF2
14
B
CFZ
15
n
3
CFZ
15
B
GF2
16
n
4
GF2
16
B
AF2
17
n
5
AF2
17
B
AF2
18
n
6
AF2
18
B
TAF
19
n
7
TAF
19
B
UFT
20
n
8
UFT
20
B
CFL
21
n
9
CFL
21
B
GF2
22
n
10
GF2
22
B
CFL
23
n
11
CFL
23
B
GF2
24
n
12
GF2
24
B
author_defined_assembly
2
dimeric
A
CFZ
1
A
CFZ
1
DC
A
GF2
2
A
GF2
2
DG
A
CFZ
3
A
CFZ
3
DC
A
GF2
4
A
GF2
4
DG
A
AF2
5
A
AF2
5
DA
A
AF2
6
A
AF2
6
DA
A
TAF
7
A
TAF
7
DT
A
UFT
8
A
UFT
8
DU
A
CFL
9
A
CFL
9
DC
A
GF2
10
A
GF2
10
DG
A
CFL
11
A
CFL
11
DC
A
GF2
12
A
GF2
12
DG
B
CFZ
13
B
CFZ
1
DC
B
GF2
14
B
GF2
2
DG
B
CFZ
15
B
CFZ
3
DC
B
GF2
16
B
GF2
4
DG
B
AF2
17
B
AF2
5
DA
B
AF2
18
B
AF2
6
DA
B
TAF
19
B
TAF
7
DT
B
UFT
20
B
UFT
8
DU
B
CFL
21
B
CFL
9
DC
B
GF2
22
B
GF2
10
DG
B
CFL
23
B
CFL
11
DC
B
GF2
24
B
GF2
12
DG
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
closest to the average, model1
2'F-ANA/2'F-RNA alternated sequences
1
N
N
1
N
N
covale
1.609
both
A
CFZ
1
A
O3'
CFZ
1
1_555
A
GF2
2
A
P
GF2
2
1_555
covale
1.623
one
A
GF2
2
A
O3'
GF2
2
1_555
A
CFZ
3
A
P
CFZ
3
1_555
covale
1.628
both
A
CFZ
3
A
O3'
CFZ
3
1_555
A
GF2
4
A
P
GF2
4
1_555
covale
1.617
one
A
GF2
4
A
O3'
GF2
4
1_555
A
AF2
5
A
P
AF2
5
1_555
covale
1.618
one
A
AF2
5
A
O3'
AF2
5
1_555
A
AF2
6
A
P
AF2
6
1_555
covale
1.615
one
A
AF2
6
A
O3'
AF2
6
1_555
A
TAF
7
A
P
TAF
7
1_555
covale
1.634
one
A
TAF
7
A
O3'
TAF
7
1_555
A
UFT
8
A
P
UFT
8
1_555
covale
1.612
both
A
UFT
8
A
O3'
UFT
8
1_555
A
CFL
9
A
P
CFL
9
1_555
covale
1.624
one
A
CFL
9
A
O3'
CFL
9
1_555
A
GF2
10
A
P
GF2
10
1_555
covale
1.622
one
A
GF2
10
A
O3'
GF2
10
1_555
A
CFL
11
A
P
CFL
11
1_555
covale
1.626
one
A
CFL
11
A
O3'
CFL
11
1_555
A
GF2
12
A
P
GF2
12
1_555
covale
1.611
both
B
CFZ
13
B
O3'
CFZ
1
1_555
B
GF2
14
B
P
GF2
2
1_555
covale
1.627
one
B
GF2
14
B
O3'
GF2
2
1_555
B
CFZ
15
B
P
CFZ
3
1_555
covale
1.619
both
B
CFZ
15
B
O3'
CFZ
3
1_555
B
GF2
16
B
P
GF2
4
1_555
covale
1.628
one
B
GF2
16
B
O3'
GF2
4
1_555
B
AF2
17
B
P
AF2
5
1_555
covale
1.619
one
B
AF2
17
B
O3'
AF2
5
1_555
B
AF2
18
B
P
AF2
6
1_555
covale
1.617
one
B
AF2
18
B
O3'
AF2
6
1_555
B
TAF
19
B
P
TAF
7
1_555
covale
1.638
one
B
TAF
19
B
O3'
TAF
7
1_555
B
UFT
20
B
P
UFT
8
1_555
covale
1.637
both
B
UFT
20
B
O3'
UFT
8
1_555
B
CFL
21
B
P
CFL
9
1_555
covale
1.631
one
B
CFL
21
B
O3'
CFL
9
1_555
B
GF2
22
B
P
GF2
10
1_555
covale
1.615
one
B
GF2
22
B
O3'
GF2
10
1_555
B
CFL
23
B
P
CFL
11
1_555
covale
1.627
one
B
CFL
23
B
O3'
CFL
11
1_555
B
GF2
24
B
P
GF2
12
1_555
DNA, RNA
A-form, 12-mer, Dickerson Drew dodecamer, Modified nucleotides, DNA, RNA
2M8A
PDB
1
2M8A
1
12
2M8A
1
12
2M8A
A
1
1
12
13
24
2M8A
13
24
2M8A
B
1
1
12