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- PDB-4oq9: Satellite Tobacco Mosaic Virus Refined to 1.4 A Resolution using ... -

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Basic information

Entry
Database: PDB / ID: 4oq9
TitleSatellite Tobacco Mosaic Virus Refined to 1.4 A Resolution using non-crystallographic symmetry restraints
Components
  • Coat protein
  • RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
  • RNA (5'-R(P*UP*U)-3')
  • RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
KeywordsVIRUS/RNA / Double-helix RNA / Protein-RNA complex / Swiss Jelly-roll beta barrel / VIRUS-RNA complex
Function / homology
Function and homology information


viral capsid / structural molecule activity
Similarity search - Function
Satellite virus coat domain / Satellite virus coat domain superfamily / Jelly Rolls / Sandwich / Mainly Beta
Similarity search - Domain/homology
PHOSPHATE ION / RNA / Coat protein
Similarity search - Component
Biological speciesSatellite Tobacco Mosaic Virus
MethodX-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.45 Å
AuthorsLarson, S.B. / Day, J.S. / McPherson, A.
Citation
Journal: Acta Crystallogr.,Sect.D / Year: 2014
Title: Satellite tobacco mosaic virus refined to 1.4 angstrom resolution.
Authors: Larson, S.B. / Day, J.S. / McPherson, A.
#1: Journal: J.Mol.Biol. / Year: 1998
Title: Refined structure of satellite tobacco mosaic virus at 1.8 A resolution.
Authors: Larson, S.B. / Day, J. / Greenwood, A. / McPherson, A.
#2: Journal: J.Mol.Biol. / Year: 1993
Title: Three-dimensional structure of satellite tobacco mosaic virus at 2.9 A resolution.
Authors: Larson, S.B. / Koszelak, S. / Day, J. / Greenwood, A. / Dodds, J.A. / McPherson, A.
#3: Journal: Nature / Year: 1993
Title: Double-helical RNA in satellite tobacco mosaic virus.
Authors: Larson, S.B. / Koszelak, S. / Day, J. / Greenwood, A. / Dodds, J.A. / McPherson, A.
#4: Journal: Protein Sci. / Year: 1992
Title: Macromolecular crystal growth experiments on International Microgravity Laboratory--1.
Authors: Day, J. / McPherson, A.
#5: Journal: J.Mol.Biol. / Year: 1989
Title: Preliminary analysis of crystals of satellite tobacco mosaic virus.
Authors: Koszelak, S. / Dodds, J.A. / McPherson, A.
#6: Journal: Curr.Opin.Struct.Biol. / Year: 2001
Title: Satellite tobacco mosaic virus RNA: structure and implications for assembly.
Authors: Larson, S.B. / McPherson, A.
#7: Journal: J.Struct.Biol. / Year: 2012
Title: A model for the structure of satellite tobacco mosaic virus.
Authors: Zeng, Y. / Larson, S.B. / Heitsch, C.E. / McPherson, A. / Harvey, S.C.
History
DepositionFeb 7, 2014Deposition site: RCSB / Processing site: RCSB
Revision 1.0Sep 10, 2014Provider: repository / Type: Initial release
Revision 1.1Oct 1, 2014Group: Database references
Revision 1.2Sep 20, 2023Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Refinement description
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model / pdbx_struct_conn_angle / pdbx_struct_oper_list / struct_conn / struct_ncs_dom_lim / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_struct_conn_angle.ptnr1_auth_asym_id / _pdbx_struct_conn_angle.ptnr1_auth_comp_id / _pdbx_struct_conn_angle.ptnr1_auth_seq_id / _pdbx_struct_conn_angle.ptnr1_label_alt_id / _pdbx_struct_conn_angle.ptnr1_label_asym_id / _pdbx_struct_conn_angle.ptnr1_label_atom_id / _pdbx_struct_conn_angle.ptnr1_label_comp_id / _pdbx_struct_conn_angle.ptnr1_label_seq_id / _pdbx_struct_conn_angle.ptnr2_auth_asym_id / _pdbx_struct_conn_angle.ptnr2_auth_comp_id / _pdbx_struct_conn_angle.ptnr2_auth_seq_id / _pdbx_struct_conn_angle.ptnr2_label_alt_id / _pdbx_struct_conn_angle.ptnr2_label_asym_id / _pdbx_struct_conn_angle.ptnr2_label_atom_id / _pdbx_struct_conn_angle.ptnr2_label_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_asym_id / _pdbx_struct_conn_angle.ptnr3_auth_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_seq_id / _pdbx_struct_conn_angle.ptnr3_label_alt_id / _pdbx_struct_conn_angle.ptnr3_label_asym_id / _pdbx_struct_conn_angle.ptnr3_label_atom_id / _pdbx_struct_conn_angle.ptnr3_label_comp_id / _pdbx_struct_conn_angle.ptnr3_label_seq_id / _pdbx_struct_conn_angle.value / _pdbx_struct_oper_list.name / _pdbx_struct_oper_list.symmetry_operation / _pdbx_struct_oper_list.type / _struct_conn.pdbx_dist_value / _struct_conn.pdbx_ptnr1_label_alt_id / _struct_conn.pdbx_ptnr2_label_alt_id / _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 / _struct_ncs_dom_lim.beg_auth_comp_id / _struct_ncs_dom_lim.beg_label_alt_id / _struct_ncs_dom_lim.beg_label_asym_id / _struct_ncs_dom_lim.beg_label_comp_id / _struct_ncs_dom_lim.beg_label_seq_id / _struct_ncs_dom_lim.end_auth_comp_id / _struct_ncs_dom_lim.end_label_alt_id / _struct_ncs_dom_lim.end_label_asym_id / _struct_ncs_dom_lim.end_label_comp_id / _struct_ncs_dom_lim.end_label_seq_id / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: Coat protein
B: Coat protein
C: Coat protein
D: Coat protein
E: Coat protein
F: Coat protein
G: Coat protein
H: Coat protein
I: Coat protein
J: Coat protein
K: Coat protein
L: Coat protein
M: Coat protein
N: Coat protein
O: Coat protein
P: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Q: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
R: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
S: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
T: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
U: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
V: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
W: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
X: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Y: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Z: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
a: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
b: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
c: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
d: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
e: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
f: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
g: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
h: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
i: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
j: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
k: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
l: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
m: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
n: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
o: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
p: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
q: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
r: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
s: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
t: RNA (5'-R(P*UP*U)-3')
u: RNA (5'-R(P*UP*U)-3')
v: RNA (5'-R(P*UP*U)-3')
w: RNA (5'-R(P*UP*U)-3')
x: RNA (5'-R(P*UP*U)-3')
y: RNA (5'-R(P*UP*U)-3')
z: RNA (5'-R(P*UP*U)-3')
1: RNA (5'-R(P*UP*U)-3')
2: RNA (5'-R(P*UP*U)-3')
3: RNA (5'-R(P*UP*U)-3')
4: RNA (5'-R(P*UP*U)-3')
5: RNA (5'-R(P*UP*U)-3')
6: RNA (5'-R(P*UP*U)-3')
7: RNA (5'-R(P*UP*U)-3')
8: RNA (5'-R(P*UP*U)-3')
hetero molecules


Theoretical massNumber of molelcules
Total (without water)367,955101
Polymers365,47760
Non-polymers2,47841
Water77,0324276
1
A: Coat protein
B: Coat protein
C: Coat protein
D: Coat protein
E: Coat protein
F: Coat protein
G: Coat protein
H: Coat protein
I: Coat protein
J: Coat protein
K: Coat protein
L: Coat protein
M: Coat protein
N: Coat protein
O: Coat protein
P: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Q: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
R: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
S: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
T: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
U: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
V: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
W: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
X: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Y: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Z: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
a: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
b: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
c: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
d: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
e: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
f: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
g: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
h: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
i: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
j: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
k: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
l: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
m: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
n: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
o: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
p: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
q: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
r: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
s: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
t: RNA (5'-R(P*UP*U)-3')
u: RNA (5'-R(P*UP*U)-3')
v: RNA (5'-R(P*UP*U)-3')
w: RNA (5'-R(P*UP*U)-3')
x: RNA (5'-R(P*UP*U)-3')
y: RNA (5'-R(P*UP*U)-3')
z: RNA (5'-R(P*UP*U)-3')
1: RNA (5'-R(P*UP*U)-3')
2: RNA (5'-R(P*UP*U)-3')
3: RNA (5'-R(P*UP*U)-3')
4: RNA (5'-R(P*UP*U)-3')
5: RNA (5'-R(P*UP*U)-3')
6: RNA (5'-R(P*UP*U)-3')
7: RNA (5'-R(P*UP*U)-3')
8: RNA (5'-R(P*UP*U)-3')
hetero molecules

A: Coat protein
B: Coat protein
C: Coat protein
D: Coat protein
E: Coat protein
F: Coat protein
G: Coat protein
H: Coat protein
I: Coat protein
J: Coat protein
K: Coat protein
L: Coat protein
M: Coat protein
N: Coat protein
O: Coat protein
P: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Q: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
R: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
S: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
T: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
U: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
V: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
W: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
X: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Y: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Z: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
a: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
b: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
c: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
d: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
e: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
f: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
g: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
h: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
i: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
j: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
k: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
l: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
m: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
n: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
o: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
p: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
q: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
r: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
s: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
t: RNA (5'-R(P*UP*U)-3')
u: RNA (5'-R(P*UP*U)-3')
v: RNA (5'-R(P*UP*U)-3')
w: RNA (5'-R(P*UP*U)-3')
x: RNA (5'-R(P*UP*U)-3')
y: RNA (5'-R(P*UP*U)-3')
z: RNA (5'-R(P*UP*U)-3')
1: RNA (5'-R(P*UP*U)-3')
2: RNA (5'-R(P*UP*U)-3')
3: RNA (5'-R(P*UP*U)-3')
4: RNA (5'-R(P*UP*U)-3')
5: RNA (5'-R(P*UP*U)-3')
6: RNA (5'-R(P*UP*U)-3')
7: RNA (5'-R(P*UP*U)-3')
8: RNA (5'-R(P*UP*U)-3')
hetero molecules

A: Coat protein
B: Coat protein
C: Coat protein
D: Coat protein
E: Coat protein
F: Coat protein
G: Coat protein
H: Coat protein
I: Coat protein
J: Coat protein
K: Coat protein
L: Coat protein
M: Coat protein
N: Coat protein
O: Coat protein
P: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Q: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
R: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
S: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
T: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
U: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
V: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
W: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
X: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Y: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Z: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
a: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
b: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
c: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
d: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
e: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
f: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
g: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
h: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
i: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
j: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
k: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
l: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
m: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
n: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
o: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
p: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
q: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
r: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
s: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
t: RNA (5'-R(P*UP*U)-3')
u: RNA (5'-R(P*UP*U)-3')
v: RNA (5'-R(P*UP*U)-3')
w: RNA (5'-R(P*UP*U)-3')
x: RNA (5'-R(P*UP*U)-3')
y: RNA (5'-R(P*UP*U)-3')
z: RNA (5'-R(P*UP*U)-3')
1: RNA (5'-R(P*UP*U)-3')
2: RNA (5'-R(P*UP*U)-3')
3: RNA (5'-R(P*UP*U)-3')
4: RNA (5'-R(P*UP*U)-3')
5: RNA (5'-R(P*UP*U)-3')
6: RNA (5'-R(P*UP*U)-3')
7: RNA (5'-R(P*UP*U)-3')
8: RNA (5'-R(P*UP*U)-3')
hetero molecules

A: Coat protein
B: Coat protein
C: Coat protein
D: Coat protein
E: Coat protein
F: Coat protein
G: Coat protein
H: Coat protein
I: Coat protein
J: Coat protein
K: Coat protein
L: Coat protein
M: Coat protein
N: Coat protein
O: Coat protein
P: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Q: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
R: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
S: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
T: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
U: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
V: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
W: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
X: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Y: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Z: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
a: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
b: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
c: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
d: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
e: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
f: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
g: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
h: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
i: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
j: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
k: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
l: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
m: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
n: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
o: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
p: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
q: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
r: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
s: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
t: RNA (5'-R(P*UP*U)-3')
u: RNA (5'-R(P*UP*U)-3')
v: RNA (5'-R(P*UP*U)-3')
w: RNA (5'-R(P*UP*U)-3')
x: RNA (5'-R(P*UP*U)-3')
y: RNA (5'-R(P*UP*U)-3')
z: RNA (5'-R(P*UP*U)-3')
1: RNA (5'-R(P*UP*U)-3')
2: RNA (5'-R(P*UP*U)-3')
3: RNA (5'-R(P*UP*U)-3')
4: RNA (5'-R(P*UP*U)-3')
5: RNA (5'-R(P*UP*U)-3')
6: RNA (5'-R(P*UP*U)-3')
7: RNA (5'-R(P*UP*U)-3')
8: RNA (5'-R(P*UP*U)-3')
hetero molecules


Theoretical massNumber of molelcules
Total (without water)1,471,819404
Polymers1,461,907240
Non-polymers9,911164
Water3,603200
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
point symmetry operation3
2


  • Idetical with deposited unit
  • point asymmetric unit
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
3


  • Idetical with deposited unit in distinct coordinate
  • point asymmetric unit, std point frame
TypeNameSymmetry operationNumber
transform to point frame1
4
A: Coat protein
B: Coat protein
C: Coat protein
D: Coat protein
E: Coat protein
F: Coat protein
G: Coat protein
H: Coat protein
I: Coat protein
J: Coat protein
K: Coat protein
L: Coat protein
M: Coat protein
N: Coat protein
O: Coat protein
P: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Q: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
R: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
S: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
T: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
U: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
V: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
W: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
X: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Y: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
Z: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
a: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
b: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
c: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
d: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
e: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
f: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
g: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
h: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
i: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
j: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
k: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
l: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
m: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
n: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
o: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
p: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
q: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
r: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
s: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
t: RNA (5'-R(P*UP*U)-3')
u: RNA (5'-R(P*UP*U)-3')
v: RNA (5'-R(P*UP*U)-3')
w: RNA (5'-R(P*UP*U)-3')
x: RNA (5'-R(P*UP*U)-3')
y: RNA (5'-R(P*UP*U)-3')
z: RNA (5'-R(P*UP*U)-3')
1: RNA (5'-R(P*UP*U)-3')
2: RNA (5'-R(P*UP*U)-3')
3: RNA (5'-R(P*UP*U)-3')
4: RNA (5'-R(P*UP*U)-3')
5: RNA (5'-R(P*UP*U)-3')
6: RNA (5'-R(P*UP*U)-3')
7: RNA (5'-R(P*UP*U)-3')
8: RNA (5'-R(P*UP*U)-3')
hetero molecules


  • crystal asymmetric unit, crystal frame
  • 368 kDa, 60 polymers
Theoretical massNumber of molelcules
Total (without water)367,955101
Polymers365,47760
Non-polymers2,47841
Water90150
TypeNameSymmetry operationNumber
identity operation1_555x,y,z2
Unit cell
Length a, b, c (Å)172.690, 190.300, 201.690
Angle α, β, γ (deg.)90.00, 90.00, 90.00
Int Tables number23
Space group name H-MI222
SymmetryPoint symmetry: (Schoenflies symbol: D2 (2x2 fold dihedral))
Components on special symmetry positions
IDModelComponents
11L-5269-

HOH

Noncrystallographic symmetry (NCS)NCS domain:
IDEns-IDDetails
11P
21Q
31R
41T
51V
61X
71Y
81a
12e
22g
32h
42i
52m
62n
13U
23W
33Z
43b
53c
63d
14f
24j
34k
44l
54o
64p
74q
84r
94s
15A
25B
35C
45D
55E
65F
75G
85H
95I
105J
115K
125L
135M
145N
155O

NCS domain segments:
Dom-IDComponent-IDEns-IDBeg auth comp-IDBeg label alt-IDBeg label comp-IDEnd auth comp-IDEnd label alt-IDEnd label comp-IDRefine codeAuth asym-IDLabel asym-IDAuth seq-IDLabel seq-ID
111AAAAAA6PP161 - 1701 - 10
211AAAAAA6QQ161 - 1701 - 10
311AAAAAA6RR161 - 1701 - 10
411AAAAAA6TT161 - 1701 - 10
511AAAAAA6VV161 - 1701 - 10
611AAAAAA6XX161 - 1701 - 10
711AAAAAA6YY161 - 1701 - 10
811AAAAAA6aAA161 - 1701 - 10
112UAUUAU6eEA181 - 1901 - 10
212UAUUAU6gGA181 - 1901 - 10
312UAUUAU6hHA181 - 1901 - 10
412UAUUAU6iIA181 - 1901 - 10
512UAUUAU6mMA181 - 1901 - 10
612UAUUAU6nNA181 - 1901 - 10
113ABAABA6UU161 - 1701 - 10
213ABAABA6WW161 - 1701 - 10
313ABAABA6ZZ161 - 1701 - 10
413ABAABA6bBA161 - 1701 - 10
513ABAABA6cCA161 - 1701 - 10
613ABAABA6dDA161 - 1701 - 10
114UBUUBU6fFA181 - 1901 - 10
214UBUUBU6jJA181 - 1901 - 10
314UBUUBU6kKA181 - 1901 - 10
414UBUUBU6lLA181 - 1901 - 10
514UBUUBU6oOA181 - 1901 - 10
614UBUUBU6pPA181 - 1901 - 10
714UBUUBU6qQA181 - 1901 - 10
814UBUUBU6rRA181 - 1901 - 10
914UBUUBU6sSA181 - 1901 - 10
115ASNASNSERSER2AA16 - 1716 - 17
215ASNASNSERSER2BB16 - 1716 - 17
315ASNASNSERSER2CC16 - 1716 - 17
415ASNASNSERSER2DD16 - 1716 - 17
515ASNASNSERSER2EE16 - 1716 - 17
615ASNASNSERSER2FF16 - 1716 - 17
715ASNASNSERSER2GG16 - 1716 - 17
815ASNASNSERSER2HH16 - 1716 - 17
915ASNASNSERSER2II16 - 1716 - 17
1015ASNASNSERSER2JJ16 - 1716 - 17
1115ASNASNSERSER2KK16 - 1716 - 17
1215ASNASNSERSER2LL16 - 1716 - 17
1315ASNASNSERSER2MM16 - 1716 - 17
1415ASNASNSERSER2NN16 - 1716 - 17
1515ASNASNSERSER2OO16 - 1716 - 17
125VALVALVALVAL2AA1919
225VALVALVALVAL2BB1919
325VALVALVALVAL2CC1919
425VALVALVALVAL2DD1919
525VALVALVALVAL2EE1919
625VALVALVALVAL2FF1919
725VALVALVALVAL2GG1919
825VALVALVALVAL2HH1919
925VALVALVALVAL2II1919
1025VALVALVALVAL2JJ1919
1125VALVALVALVAL2KK1919
1225VALVALVALVAL2LL1919
1325VALVALVALVAL2MM1919
1425VALVALVALVAL2NN1919
1525VALVALVALVAL2OO1919
135THRTHRTHRTHR2AA2121
235THRTHRTHRTHR2BB2121
335THRTHRTHRTHR2CC2121
435THRTHRTHRTHR2DD2121
535THRTHRTHRTHR2EE2121
635THRTHRTHRTHR2FF2121
735THRTHRTHRTHR2GG2121
835THRTHRTHRTHR2HH2121
935THRTHRTHRTHR2II2121
1035THRTHRTHRTHR2JJ2121
1135THRTHRTHRTHR2KK2121
1235THRTHRTHRTHR2LL2121
1335THRTHRTHRTHR2MM2121
1435THRTHRTHRTHR2NN2121
1535THRTHRTHRTHR2OO2121
145ARGARGGLYGLY2AA24 - 2624 - 26
245ARGARGGLYGLY2BB24 - 2624 - 26
345ARGARGGLYGLY2CC24 - 2624 - 26
445ARGARGGLYGLY2DD24 - 2624 - 26
545ARGARGGLYGLY2EE24 - 2624 - 26
645ARGARGGLYGLY2FF24 - 2624 - 26
745ARGARGGLYGLY2GG24 - 2624 - 26
845ARGARGGLYGLY2HH24 - 2624 - 26
945ARGARGGLYGLY2II24 - 2624 - 26
1045ARGARGGLYGLY2JJ24 - 2624 - 26
1145ARGARGGLYGLY2KK24 - 2624 - 26
1245ARGARGGLYGLY2LL24 - 2624 - 26
1345ARGARGGLYGLY2MM24 - 2624 - 26
1445ARGARGGLYGLY2NN24 - 2624 - 26
1545ARGARGGLYGLY2OO24 - 2624 - 26
155TYRTYRVALVAL2AA28 - 4528 - 45
255TYRTYRVALVAL2BB28 - 4528 - 45
355TYRTYRVALVAL2CC28 - 4528 - 45
455TYRTYRVALVAL2DD28 - 4528 - 45
555TYRTYRVALVAL2EE28 - 4528 - 45
655TYRTYRVALVAL2FF28 - 4528 - 45
755TYRTYRVALVAL2GG28 - 4528 - 45
855TYRTYRVALVAL2HH28 - 4528 - 45
955TYRTYRVALVAL2II28 - 4528 - 45
1055TYRTYRVALVAL2JJ28 - 4528 - 45
1155TYRTYRVALVAL2KK28 - 4528 - 45
1255TYRTYRVALVAL2LL28 - 4528 - 45
1355TYRTYRVALVAL2MM28 - 4528 - 45
1455TYRTYRVALVAL2NN28 - 4528 - 45
1555TYRTYRVALVAL2OO28 - 4528 - 45
165GLYGLYGLYGLY2AA5050
265GLYGLYGLYGLY2BB5050
365GLYGLYGLYGLY2CC5050
465GLYGLYGLYGLY2DD5050
565GLYGLYGLYGLY2EE5050
665GLYGLYGLYGLY2FF5050
765GLYGLYGLYGLY2GG5050
865GLYGLYGLYGLY2HH5050
965GLYGLYGLYGLY2II5050
1065GLYGLYGLYGLY2JJ5050
1165GLYGLYGLYGLY2KK5050
1265GLYGLYGLYGLY2LL5050
1365GLYGLYGLYGLY2MM5050
1465GLYGLYGLYGLY2NN5050
1565GLYGLYGLYGLY2OO5050
175VALVALGLYGLY2AA57 - 5857 - 58
275VALVALGLYGLY2BB57 - 5857 - 58
375VALVALGLYGLY2CC57 - 5857 - 58
475VALVALGLYGLY2DD57 - 5857 - 58
575VALVALGLYGLY2EE57 - 5857 - 58
675VALVALGLYGLY2FF57 - 5857 - 58
775VALVALGLYGLY2GG57 - 5857 - 58
875VALVALGLYGLY2HH57 - 5857 - 58
975VALVALGLYGLY2II57 - 5857 - 58
1075VALVALGLYGLY2JJ57 - 5857 - 58
1175VALVALGLYGLY2KK57 - 5857 - 58
1275VALVALGLYGLY2LL57 - 5857 - 58
1375VALVALGLYGLY2MM57 - 5857 - 58
1475VALVALGLYGLY2NN57 - 5857 - 58
1575VALVALGLYGLY2OO57 - 5857 - 58
185PHEPHEPHEPHE2AA61 - 7061 - 70
285PHEPHEPHEPHE2BB61 - 7061 - 70
385PHEPHEPHEPHE2CC61 - 7061 - 70
485PHEPHEPHEPHE2DD61 - 7061 - 70
585PHEPHEPHEPHE2EE61 - 7061 - 70
685PHEPHEPHEPHE2FF61 - 7061 - 70
785PHEPHEPHEPHE2GG61 - 7061 - 70
885PHEPHEPHEPHE2HH61 - 7061 - 70
985PHEPHEPHEPHE2II61 - 7061 - 70
1085PHEPHEPHEPHE2JJ61 - 7061 - 70
1185PHEPHEPHEPHE2KK61 - 7061 - 70
1285PHEPHEPHEPHE2LL61 - 7061 - 70
1385PHEPHEPHEPHE2MM61 - 7061 - 70
1485PHEPHEPHEPHE2NN61 - 7061 - 70
1585PHEPHEPHEPHE2OO61 - 7061 - 70
195SERSERVALVAL2AA72 - 7572 - 75
295SERSERVALVAL2BB72 - 7572 - 75
395SERSERVALVAL2CC72 - 7572 - 75
495SERSERVALVAL2DD72 - 7572 - 75
595SERSERVALVAL2EE72 - 7572 - 75
695SERSERVALVAL2FF72 - 7572 - 75
795SERSERVALVAL2GG72 - 7572 - 75
895SERSERVALVAL2HH72 - 7572 - 75
995SERSERVALVAL2II72 - 7572 - 75
1095SERSERVALVAL2JJ72 - 7572 - 75
1195SERSERVALVAL2KK72 - 7572 - 75
1295SERSERVALVAL2LL72 - 7572 - 75
1395SERSERVALVAL2MM72 - 7572 - 75
1495SERSERVALVAL2NN72 - 7572 - 75
1595SERSERVALVAL2OO72 - 7572 - 75
1105SERSERLEULEU2AA77 - 9677 - 96
2105SERSERLEULEU2BB77 - 9677 - 96
3105SERSERLEULEU2CC77 - 9677 - 96
4105SERSERLEULEU2DD77 - 9677 - 96
5105SERSERLEULEU2EE77 - 9677 - 96
6105SERSERLEULEU2FF77 - 9677 - 96
7105SERSERLEULEU2GG77 - 9677 - 96
8105SERSERLEULEU2HH77 - 9677 - 96
9105SERSERLEULEU2II77 - 9677 - 96
10105SERSERLEULEU2JJ77 - 9677 - 96
11105SERSERLEULEU2KK77 - 9677 - 96
12105SERSERLEULEU2LL77 - 9677 - 96
13105SERSERLEULEU2MM77 - 9677 - 96
14105SERSERLEULEU2NN77 - 9677 - 96
15105SERSERLEULEU2OO77 - 9677 - 96
1115PROPROPHEPHE2AA98 - 10098 - 100
2115PROPROPHEPHE2BB98 - 10098 - 100
3115PROPROPHEPHE2CC98 - 10098 - 100
4115PROPROPHEPHE2DD98 - 10098 - 100
5115PROPROPHEPHE2EE98 - 10098 - 100
6115PROPROPHEPHE2FF98 - 10098 - 100
7115PROPROPHEPHE2GG98 - 10098 - 100
8115PROPROPHEPHE2HH98 - 10098 - 100
9115PROPROPHEPHE2II98 - 10098 - 100
10115PROPROPHEPHE2JJ98 - 10098 - 100
11115PROPROPHEPHE2KK98 - 10098 - 100
12115PROPROPHEPHE2LL98 - 10098 - 100
13115PROPROPHEPHE2MM98 - 10098 - 100
14115PROPROPHEPHE2NN98 - 10098 - 100
15115PROPROPHEPHE2OO98 - 10098 - 100
1125THRTHRASPASP2AA102 - 104102 - 104
2125THRTHRASPASP2BB102 - 104102 - 104
3125THRTHRASPASP2CC102 - 104102 - 104
4125THRTHRASPASP2DD102 - 104102 - 104
5125THRTHRASPASP2EE102 - 104102 - 104
6125THRTHRASPASP2FF102 - 104102 - 104
7125THRTHRASPASP2GG102 - 104102 - 104
8125THRTHRASPASP2HH102 - 104102 - 104
9125THRTHRASPASP2II102 - 104102 - 104
10125THRTHRASPASP2JJ102 - 104102 - 104
11125THRTHRASPASP2KK102 - 104102 - 104
12125THRTHRASPASP2LL102 - 104102 - 104
13125THRTHRASPASP2MM102 - 104102 - 104
14125THRTHRASPASP2NN102 - 104102 - 104
15125THRTHRASPASP2OO102 - 104102 - 104
1135THRTHRPROPRO2AA106 - 127106 - 127
2135THRTHRPROPRO2BB106 - 127106 - 127
3135THRTHRPROPRO2CC106 - 127106 - 127
4135THRTHRPROPRO2DD106 - 127106 - 127
5135THRTHRPROPRO2EE106 - 127106 - 127
6135THRTHRPROPRO2FF106 - 127106 - 127
7135THRTHRPROPRO2GG106 - 127106 - 127
8135THRTHRPROPRO2HH106 - 127106 - 127
9135THRTHRPROPRO2II106 - 127106 - 127
10135THRTHRPROPRO2JJ106 - 127106 - 127
11135THRTHRPROPRO2KK106 - 127106 - 127
12135THRTHRPROPRO2LL106 - 127106 - 127
13135THRTHRPROPRO2MM106 - 127106 - 127
14135THRTHRPROPRO2NN106 - 127106 - 127
15135THRTHRPROPRO2OO106 - 127106 - 127
1145ASNASNVALVAL2AA129 - 135129 - 135
2145ASNASNVALVAL2BB129 - 135129 - 135
3145ASNASNVALVAL2CC129 - 135129 - 135
4145ASNASNVALVAL2DD129 - 135129 - 135
5145ASNASNVALVAL2EE129 - 135129 - 135
6145ASNASNVALVAL2FF129 - 135129 - 135
7145ASNASNVALVAL2GG129 - 135129 - 135
8145ASNASNVALVAL2HH129 - 135129 - 135
9145ASNASNVALVAL2II129 - 135129 - 135
10145ASNASNVALVAL2JJ129 - 135129 - 135
11145ASNASNVALVAL2KK129 - 135129 - 135
12145ASNASNVALVAL2LL129 - 135129 - 135
13145ASNASNVALVAL2MM129 - 135129 - 135
14145ASNASNVALVAL2NN129 - 135129 - 135
15145ASNASNVALVAL2OO129 - 135129 - 135
1155ASPASPASNASN4AA138 - 139138 - 139
2155ASPASPASNASN4BB138 - 139138 - 139
3155ASPASPASNASN4CC138 - 139138 - 139
4155ASPASPASNASN4DD138 - 139138 - 139
5155ASPASPASNASN4EE138 - 139138 - 139
6155ASPASPASNASN4FF138 - 139138 - 139
7155ASPASPASNASN4GG138 - 139138 - 139
8155ASPASPASNASN4HH138 - 139138 - 139
9155ASPASPASNASN4II138 - 139138 - 139
10155ASPASPASNASN4JJ138 - 139138 - 139
11155ASPASPASNASN4KK138 - 139138 - 139
12155ASPASPASNASN4LL138 - 139138 - 139
13155ASPASPASNASN4MM138 - 139138 - 139
14155ASPASPASNASN4NN138 - 139138 - 139
15155ASPASPASNASN4OO138 - 139138 - 139
1165CYSCYSGLUGLU4AA141 - 142141 - 142
2165CYSCYSGLUGLU4BB141 - 142141 - 142
3165CYSCYSGLUGLU4CC141 - 142141 - 142
4165CYSCYSGLUGLU4DD141 - 142141 - 142
5165CYSCYSGLUGLU4EE141 - 142141 - 142
6165CYSCYSGLUGLU4FF141 - 142141 - 142
7165CYSCYSGLUGLU4GG141 - 142141 - 142
8165CYSCYSGLUGLU4HH141 - 142141 - 142
9165CYSCYSGLUGLU4II141 - 142141 - 142
10165CYSCYSGLUGLU4JJ141 - 142141 - 142
11165CYSCYSGLUGLU4KK141 - 142141 - 142
12165CYSCYSGLUGLU4LL141 - 142141 - 142
13165CYSCYSGLUGLU4MM141 - 142141 - 142
14165CYSCYSGLUGLU4NN141 - 142141 - 142
15165CYSCYSGLUGLU4OO141 - 142141 - 142
1175ARGARGCYSCYS4AA144 - 147144 - 147
2175ARGARGCYSCYS4BB144 - 147144 - 147
3175ARGARGCYSCYS4CC144 - 147144 - 147
4175ARGARGCYSCYS4DD144 - 147144 - 147
5175ARGARGCYSCYS4EE144 - 147144 - 147
6175ARGARGCYSCYS4FF144 - 147144 - 147
7175ARGARGCYSCYS4GG144 - 147144 - 147
8175ARGARGCYSCYS4HH144 - 147144 - 147
9175ARGARGCYSCYS4II144 - 147144 - 147
10175ARGARGCYSCYS4JJ144 - 147144 - 147
11175ARGARGCYSCYS4KK144 - 147144 - 147
12175ARGARGCYSCYS4LL144 - 147144 - 147
13175ARGARGCYSCYS4MM144 - 147144 - 147
14175ARGARGCYSCYS4NN144 - 147144 - 147
15175ARGARGCYSCYS4OO144 - 147144 - 147
1185VALVALILEILE4AA150 - 154150 - 154
2185VALVALILEILE4BB150 - 154150 - 154
3185VALVALILEILE4CC150 - 154150 - 154
4185VALVALILEILE4DD150 - 154150 - 154
5185VALVALILEILE4EE150 - 154150 - 154
6185VALVALILEILE4FF150 - 154150 - 154
7185VALVALILEILE4GG150 - 154150 - 154
8185VALVALILEILE4HH150 - 154150 - 154
9185VALVALILEILE4II150 - 154150 - 154
10185VALVALILEILE4JJ150 - 154150 - 154
11185VALVALILEILE4KK150 - 154150 - 154
12185VALVALILEILE4LL150 - 154150 - 154
13185VALVALILEILE4MM150 - 154150 - 154
14185VALVALILEILE4NN150 - 154150 - 154
15185VALVALILEILE4OO150 - 154150 - 154
1195CYSCYSCYSCYS4AA156156
2195CYSCYSCYSCYS4BB156156
3195CYSCYSCYSCYS4CC156156
4195CYSCYSCYSCYS4DD156156
5195CYSCYSCYSCYS4EE156156
6195CYSCYSCYSCYS4FF156156
7195CYSCYSCYSCYS4GG156156
8195CYSCYSCYSCYS4HH156156
9195CYSCYSCYSCYS4II156156
10195CYSCYSCYSCYS4JJ156156
11195CYSCYSCYSCYS4KK156156
12195CYSCYSCYSCYS4LL156156
13195CYSCYSCYSCYS4MM156156
14195CYSCYSCYSCYS4NN156156
15195CYSCYSCYSCYS4OO156156
1205PHEPHEASNASN4AA158 - 159158 - 159
2205PHEPHEASNASN4BB158 - 159158 - 159
3205PHEPHEASNASN4CC158 - 159158 - 159
4205PHEPHEASNASN4DD158 - 159158 - 159
5205PHEPHEASNASN4EE158 - 159158 - 159
6205PHEPHEASNASN4FF158 - 159158 - 159
7205PHEPHEASNASN4GG158 - 159158 - 159
8205PHEPHEASNASN4HH158 - 159158 - 159
9205PHEPHEASNASN4II158 - 159158 - 159
10205PHEPHEASNASN4JJ158 - 159158 - 159
11205PHEPHEASNASN4KK158 - 159158 - 159
12205PHEPHEASNASN4LL158 - 159158 - 159
13205PHEPHEASNASN4MM158 - 159158 - 159
14205PHEPHEASNASN4NN158 - 159158 - 159
15205PHEPHEASNASN4OO158 - 159158 - 159

NCS ensembles :
ID
1
2
3
4
5

-
Components

-
Protein , 1 types, 15 molecules ABCDEFGHIJKLMNO

#1: Protein
Coat protein


Mass: 17533.949 Da / Num. of mol.: 15 / Source method: isolated from a natural source / Details: grown in Nicotiana Tobacum plants / Source: (natural) Satellite Tobacco Mosaic Virus / References: UniProt: P17574

-
RNA chain , 3 types, 45 molecules PQRSTUVWXYZabcdefghijklmnopqrs...

#2: RNA chain
RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')


Mass: 3247.100 Da / Num. of mol.: 15 / Source method: isolated from a natural source / Details: arbitrary RNA adenine nucleotide decamer / Source: (natural) Satellite Tobacco Mosaic Virus
#3: RNA chain
RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')


Mass: 3016.700 Da / Num. of mol.: 15 / Source method: isolated from a natural source / Details: arbitrary RNA uridine nucleotide decamer / Source: (natural) Satellite Tobacco Mosaic Virus
#4: RNA chain
RNA (5'-R(P*UP*U)-3')


Mass: 567.374 Da / Num. of mol.: 15 / Source method: isolated from a natural source / Details: arbitrary RNA uridine nucleotide dimer / Source: (natural) Satellite Tobacco Mosaic Virus

-
Non-polymers , 5 types, 4317 molecules

#5: Chemical ChemComp-PO4 / PHOSPHATE ION / Phosphate


Mass: 94.971 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: PO4
#6: Chemical
ChemComp-SO4 / SULFATE ION / Sulfate


Mass: 96.063 Da / Num. of mol.: 18 / Source method: obtained synthetically / Formula: SO4
#7: Chemical
ChemComp-NA / SODIUM ION


Mass: 22.990 Da / Num. of mol.: 17 / Source method: obtained synthetically / Formula: Na
#8: Chemical ChemComp-MG / MAGNESIUM ION


Mass: 24.305 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: Mg
#9: Water ChemComp-HOH / water / Water


Mass: 18.015 Da / Num. of mol.: 4276 / Source method: isolated from a natural source / Formula: H2O

-
Experimental details

-
Experiment

ExperimentMethod: X-RAY DIFFRACTION / Number of used crystals: 6

-
Sample preparation

CrystalDensity Matthews: 2.27 Å3/Da / Density % sol: 45.74 %
Crystal growTemperature: 296 K / Method: vapor diffusion, sitting drop / pH: 6.5
Details: crystals grown from 15% ammonium sulfate on earth with a reservoir of 15% ammonium sulfate over 14 days., pH 6.50, VAPOR DIFFUSION, SITTING DROP, temperature 296K

-
Data collection

DiffractionMean temperature: 100 K
Diffraction sourceSource: SYNCHROTRON / Site: ALS / Beamline: 8.2.2 / Wavelength: 1.06 Å
DetectorType: ADSC QUANTUM 315 / Detector: CCD / Date: Oct 3, 2003
RadiationMonochromator: Double crystal, Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelengthWavelength: 1.06 Å / Relative weight: 1
ReflectionResolution: 1.4→48.35 Å / Num. all: 643001 / Num. obs: 613720 / % possible obs: 95.4 % / Observed criterion σ(I): 0 / Redundancy: 7.23 % / Biso Wilson estimate: 26.95 Å2 / Rmerge(I) obs: 0.1 / Χ2: 1.65 / Net I/σ(I): 11.6
Reflection shell

Diffraction-ID: 1

Resolution (Å)Redundancy (%)Rmerge(I) obsMean I/σ(I) obsNum. measured allNum. unique all% possible all
1.4-1.452.170.3542.98315274307067.3
1.45-1.512.90.3633.27053586111195.5
1.51-1.584.010.3873.75613276270098
1.58-1.665.740.4194.15106476350899
1.66-1.767.140.4134.74837166376199.5
1.76-1.97.610.45.24552936359699.1
1.9-2.098.060.35963648316331898.6
2.09-2.398.850.2667.72513726344198.6
2.39-3.0211.010.14614.21771486409199.2
3.02-48.3512.770.06631.4933746512499.4

-
Processing

Software
NameVersionClassification
ADSCQuantumdata collection
Coot0.6.2model building
REFMAC5.5.0109refinement
d*TREKdata reduction
d*TREKdata scaling
CNS1.2phasing
RefinementMethod to determine structure: MOLECULAR REPLACEMENT
Starting model: PDB entry 1A34

1a34


Resolution: 1.45→48.35 Å / Cor.coef. Fo:Fc: 0.971 / Cor.coef. Fo:Fc free: 0.964 / Num. parameters: 247916 / Num. restraintsaints: 452738 / WRfactor Rfree: 0.2706 / WRfactor Rwork: 0.2348 / Occupancy max: 1 / Occupancy min: 0.1 / SU B: 4.012 / SU ML: 0.068 / SU R Cruickshank DPI: 0.0974 / Isotropic thermal model: Mixed isotropic/anisotropic / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.097 / ESU R Free: 0.086 / Stereochemistry target values: MAXIMUM LIKELIHOOD
Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS; NCS restraints were applied to equivalent chains (entities 1, 2 and 3, but not 4); NCS restraints for entities 2 and 3 were divided into 2 ...Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS; NCS restraints were applied to equivalent chains (entities 1, 2 and 3, but not 4); NCS restraints for entities 2 and 3 were divided into 2 sets for each entity (4 NCS groups in total) based on the part id assigned to each individual chain. Close contacts between RNA atoms are due to inherent disorder that exists in the crystal lattice.
RfactorNum. reflection% reflectionSelection details
Rfree0.24973 28359 5 %RANDOM
Rwork0.21652 ---
all0.21817 570721 --
obs0.21817 570721 98.55 %-
Solvent computationIon probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK
Displacement parametersBiso max: 200 Å2 / Biso mean: 45.601 Å2 / Biso min: 10.93 Å2
Baniso -1Baniso -2Baniso -3
1--0.74 Å20 Å20 Å2
2--0.93 Å20 Å2
3----0.19 Å2
Refinement stepCycle: LAST / Resolution: 1.45→48.35 Å
ProteinNucleic acidLigandSolventTotal
Num. atoms16770 6720 125 4276 27891
Refine LS restraints
Refine-IDTypeDev idealDev ideal targetNumber
X-RAY DIFFRACTIONr_bond_refined_d0.0090.02226291
X-RAY DIFFRACTIONr_bond_other_d0.0020.0221955
X-RAY DIFFRACTIONr_angle_refined_deg1.252.27637559
X-RAY DIFFRACTIONr_angle_other_deg0.7863.00349911
X-RAY DIFFRACTIONr_dihedral_angle_1_deg6.90152568
X-RAY DIFFRACTIONr_dihedral_angle_2_deg33.54822.485809
X-RAY DIFFRACTIONr_dihedral_angle_3_deg12.822153197
X-RAY DIFFRACTIONr_dihedral_angle_4_deg16.14815199
X-RAY DIFFRACTIONr_chiral_restr0.0730.24636
X-RAY DIFFRACTIONr_gen_planes_refined0.0090.02125150
X-RAY DIFFRACTIONr_gen_planes_other0.0040.025674
X-RAY DIFFRACTIONr_nbd_refined0.2140.32943
X-RAY DIFFRACTIONr_nbd_other0.1970.317720
X-RAY DIFFRACTIONr_nbtor_refined0.1780.58737
X-RAY DIFFRACTIONr_nbtor_other0.0870.511721
X-RAY DIFFRACTIONr_xyhbond_nbd_refined0.2020.54396
X-RAY DIFFRACTIONr_xyhbond_nbd_other0.1240.520
X-RAY DIFFRACTIONr_metal_ion_refined0.2050.514
X-RAY DIFFRACTIONr_metal_ion_other
X-RAY DIFFRACTIONr_mcbond_it1.956211633
X-RAY DIFFRACTIONr_mcbond_other1.81124524
X-RAY DIFFRACTIONr_mcangle_it3.069319452
X-RAY DIFFRACTIONr_mcangle_other2.039316033
X-RAY DIFFRACTIONr_scbond_it5.504914658
X-RAY DIFFRACTIONr_scbond_other5.7917431
X-RAY DIFFRACTIONr_scangle_it8.3881217910
X-RAY DIFFRACTIONr_scangle_other6.1891233878
X-RAY DIFFRACTIONr_rigid_bond_restr2.443320102
X-RAY DIFFRACTIONr_symmetry_vdw_refined0.2380.3249
X-RAY DIFFRACTIONr_symmetry_vdw_other0.210.3997
X-RAY DIFFRACTIONr_symmetry_hbond_refined0.1950.5459
X-RAY DIFFRACTIONr_symmetry_hbond_other0.120.51
X-RAY DIFFRACTIONr_symmetry_metal_ion_refined0.2010.51
X-RAY DIFFRACTIONr_symmetry_metal_ion_other
Refine LS restraints NCS

Refine-ID: X-RAY DIFFRACTION

Ens-IDDom-IDAuth asym-IDNumberTypeRms dev position (Å)Weight position
11P331LOOSE POSITIONAL0.010.02
12Q331LOOSE POSITIONAL0.010.02
13R331LOOSE POSITIONAL00.02
14T331LOOSE POSITIONAL0.010.02
15V331LOOSE POSITIONAL0.010.02
16X331LOOSE POSITIONAL0.010.02
17Y331LOOSE POSITIONAL0.010.02
18a331LOOSE POSITIONAL0.010.02
11P331LOOSE THERMAL0.050.5
12Q331LOOSE THERMAL0.040.5
13R331LOOSE THERMAL0.040.5
14T331LOOSE THERMAL0.060.5
15V331LOOSE THERMAL0.040.5
16X331LOOSE THERMAL0.050.5
17Y331LOOSE THERMAL0.040.5
18a331LOOSE THERMAL0.050.5
21e301LOOSE POSITIONAL0.010.02
22g301LOOSE POSITIONAL0.010.02
23h301LOOSE POSITIONAL0.010.02
24i301LOOSE POSITIONAL0.010.02
25m301LOOSE POSITIONAL0.010.02
26n301LOOSE POSITIONAL0.010.02
21e301LOOSE THERMAL0.060.5
22g301LOOSE THERMAL0.060.5
23h301LOOSE THERMAL0.050.5
24i301LOOSE THERMAL0.070.5
25m301LOOSE THERMAL0.060.5
26n301LOOSE THERMAL0.060.5
31U331LOOSE POSITIONAL0.010.02
32W331LOOSE POSITIONAL0.010.02
33Z331LOOSE POSITIONAL0.010.02
34b331LOOSE POSITIONAL0.010.02
35c331LOOSE POSITIONAL0.010.02
36d331LOOSE POSITIONAL0.010.02
31U331LOOSE THERMAL0.070.5
32W331LOOSE THERMAL0.070.5
33Z331LOOSE THERMAL0.060.5
34b331LOOSE THERMAL0.070.5
35c331LOOSE THERMAL0.050.5
36d331LOOSE THERMAL0.060.5
41f301LOOSE POSITIONAL0.010.02
42j301LOOSE POSITIONAL0.010.02
43k301LOOSE POSITIONAL0.010.02
44l301LOOSE POSITIONAL0.010.02
45o301LOOSE POSITIONAL0.010.02
46p301LOOSE POSITIONAL0.010.02
47q301LOOSE POSITIONAL0.010.02
48r301LOOSE POSITIONAL0.010.02
49s301LOOSE POSITIONAL0.010.02
41f301LOOSE THERMAL0.040.5
42j301LOOSE THERMAL0.060.5
43k301LOOSE THERMAL0.050.5
44l301LOOSE THERMAL0.050.5
45o301LOOSE THERMAL0.050.5
46p301LOOSE THERMAL0.040.5
47q301LOOSE THERMAL0.060.5
48r301LOOSE THERMAL0.050.5
49s301LOOSE THERMAL0.060.5
51A571TIGHT POSITIONAL0.050.02
52B571TIGHT POSITIONAL0.030.02
53C571TIGHT POSITIONAL0.030.02
54D571TIGHT POSITIONAL0.040.02
55E571TIGHT POSITIONAL0.030.02
56F571TIGHT POSITIONAL0.040.02
57G571TIGHT POSITIONAL0.030.02
58H571TIGHT POSITIONAL0.030.02
59I571TIGHT POSITIONAL0.050.02
510J571TIGHT POSITIONAL0.040.02
511K571TIGHT POSITIONAL0.040.02
512L571TIGHT POSITIONAL0.030.02
513M571TIGHT POSITIONAL0.030.02
514N571TIGHT POSITIONAL0.050.02
515O571TIGHT POSITIONAL0.030.02
51A1227MEDIUM POSITIONAL0.030.03
52B1227MEDIUM POSITIONAL0.020.03
53C1227MEDIUM POSITIONAL0.020.03
54D1227MEDIUM POSITIONAL0.020.03
55E1227MEDIUM POSITIONAL0.020.03
56F1227MEDIUM POSITIONAL0.030.03
57G1227MEDIUM POSITIONAL0.020.03
58H1227MEDIUM POSITIONAL0.020.03
59I1227MEDIUM POSITIONAL0.030.03
510J1227MEDIUM POSITIONAL0.020.03
511K1227MEDIUM POSITIONAL0.030.03
512L1227MEDIUM POSITIONAL0.020.03
513M1227MEDIUM POSITIONAL0.020.03
514N1227MEDIUM POSITIONAL0.030.03
515O1227MEDIUM POSITIONAL0.020.03
51A571TIGHT THERMAL0.410.5
52B571TIGHT THERMAL0.370.5
53C571TIGHT THERMAL0.360.5
54D571TIGHT THERMAL0.370.5
55E571TIGHT THERMAL0.380.5
56F571TIGHT THERMAL0.390.5
57G571TIGHT THERMAL0.380.5
58H571TIGHT THERMAL0.370.5
59I571TIGHT THERMAL0.380.5
510J571TIGHT THERMAL0.380.5
511K571TIGHT THERMAL1.240.5
512L571TIGHT THERMAL0.380.5
513M571TIGHT THERMAL0.380.5
514N571TIGHT THERMAL0.370.5
515O571TIGHT THERMAL0.470.5
51A1227MEDIUM THERMAL0.260.5
52B1227MEDIUM THERMAL0.250.5
53C1227MEDIUM THERMAL0.240.5
54D1227MEDIUM THERMAL0.240.5
55E1227MEDIUM THERMAL0.250.5
56F1227MEDIUM THERMAL0.260.5
57G1227MEDIUM THERMAL0.250.5
58H1227MEDIUM THERMAL0.240.5
59I1227MEDIUM THERMAL0.260.5
510J1227MEDIUM THERMAL0.250.5
511K1227MEDIUM THERMAL0.610.5
512L1227MEDIUM THERMAL0.250.5
513M1227MEDIUM THERMAL0.260.5
514N1227MEDIUM THERMAL0.240.5
515O1227MEDIUM THERMAL0.380.5
LS refinement shell

Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 20

Resolution (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkNum. reflection obs% reflection obs (%)
1.45-1.4880.59320370.595384384047594.97
1.488-1.5280.52719870.524383544034196.89
1.528-1.5730.4418640.427378203968498.29
1.573-1.6210.36219520.342369053885799.06
1.621-1.6740.31319620.28357943775699.19
1.674-1.7330.27118090.236349023671199.57
1.733-1.7980.2617700.226335673533799.33
1.798-1.8720.29716500.255322563390699.06
1.872-1.9550.31115930.276307863237998.6
1.955-2.050.30915980.276293883098698.57
2.05-2.1610.28515130.256279632947698.51
2.161-2.2920.29113850.243265282791398.53
2.292-2.4510.25812940.211250612635599.01
2.451-2.6470.23712260.192233722459899.07
2.647-2.90.21711120.173216012271399.31
2.9-3.2420.19510260.158196222064899.48
3.242-3.7430.1729330.141173331826699.63
3.743-4.5830.1617490.125147981554799.77
4.583-6.4780.1795860.156115301211699.84
6.478-48.350.2793130.2616344665796.52

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