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- PDB-4nia: Satellite Tobacco Mosaic Virus Refined at room temperature to 1.8... -

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基本情報

登録情報
データベース: PDB / ID: 4nia
タイトルSatellite Tobacco Mosaic Virus Refined at room temperature to 1.8 A Resolution using NCS Restraints
要素
  • 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')
キーワードVIRUS/RNA / Double-helix RNA / Protein-RNA complex / Swiss Jelly-roll beta barrel / icosahedral virus / VIRUS-RNA complex
機能・相同性
機能・相同性情報


viral capsid / structural molecule activity
類似検索 - 分子機能
Satellite virus coat domain / Satellite virus coat domain superfamily / Jelly Rolls / Sandwich / Mainly Beta
類似検索 - ドメイン・相同性
PHOSPHATE ION / RNA / Coat protein
類似検索 - 構成要素
生物種Satellite tobacco mosaic virus (ウイルス)
Satellite Tobacco Mosaic Virus (ウイルス)
手法X線回折 / 分子置換 / 解像度: 1.82 Å
データ登録者Larson, S.B. / Day, J.S. / McPherson, A.
引用
ジャーナル: Acta Crystallogr.,Sect.D / 年: 2014
タイトル: Satellite tobacco mosaic virus refined to 1.4 angstrom resolution.
著者: Larson, S.B. / Day, J.S. / McPherson, A.
#1: ジャーナル: J.Mol.Biol. / 年: 1998
タイトル: Refined structure of satellite tobacco mosaic virus at 1.8 A resolution.
著者: Larson, S.B. / Day, J. / Greenwood, A. / McPherson, A.
#2: ジャーナル: J.Mol.Biol. / 年: 1993
タイトル: Three-dimensional structure of satellite tobacco mosaic virus at 2.9 A resolution.
著者: Larson, S.B. / Koszelak, S. / Day, J. / Greenwood, A. / Dodds, J.A. / McPherson, A.
#3: ジャーナル: Nature / 年: 1993
タイトル: Double-helical RNA in satellite tobacco mosaic virus.
著者: Larson, S.B. / Koszelak, S. / Day, J. / Greenwood, A. / Dodds, J.A. / McPherson, A.
#4: ジャーナル: Protein Sci. / 年: 1992
タイトル: Macromolecular crystal growth experiments on International Microgravity Laboratory--1.
著者: Day, J. / McPherson, A.
#5: ジャーナル: J.Mol.Biol. / 年: 1989
タイトル: Preliminary analysis of crystals of satellite tobacco mosaic virus.
著者: Koszelak, S. / Dodds, J.A. / McPherson, A.
履歴
登録2013年11月5日登録サイト: RCSB / 処理サイト: RCSB
改定 1.02014年9月10日Provider: repository / タイプ: Initial release
改定 1.12014年10月1日Group: Database references
改定 1.22017年11月22日Group: Refinement description / カテゴリ: software
改定 1.32023年9月20日Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Refinement description
カテゴリ: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model / 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 / _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_label_asym_id / _struct_conn.ptnr1_label_atom_id / _struct_conn.ptnr1_label_comp_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_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
Remark 200AUTHOR USED THE SF DATA FROM ENTRY 1A34.

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構造の表示

構造ビューア分子:
MolmilJmol/JSmol

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集合体

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


分子量 (理論値)分子数
合計 (水以外)365,93167
ポリマ－365,47760
非ポリマー4547
水60,9093381
1
A: Coat protein
P: 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')
t: RNA (5'-R(P*UP*U)-3')
B: Coat protein
Q: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
f: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
u: RNA (5'-R(P*UP*U)-3')
C: Coat protein
R: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
g: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
v: RNA (5'-R(P*UP*U)-3')
D: Coat protein
S: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
h: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
w: RNA (5'-R(P*UP*U)-3')
E: Coat protein
T: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
i: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
x: RNA (5'-R(P*UP*U)-3')
F: Coat protein
U: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
j: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
y: RNA (5'-R(P*UP*U)-3')
G: Coat protein
V: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
k: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
z: RNA (5'-R(P*UP*U)-3')
H: Coat protein
W: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
l: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
1: RNA (5'-R(P*UP*U)-3')
I: Coat protein
X: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
m: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
2: RNA (5'-R(P*UP*U)-3')
J: Coat protein
Y: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
n: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
3: RNA (5'-R(P*UP*U)-3')
K: Coat protein
Z: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
o: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
4: RNA (5'-R(P*UP*U)-3')
L: Coat protein
a: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
p: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
5: RNA (5'-R(P*UP*U)-3')
M: Coat protein
b: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
q: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
6: RNA (5'-R(P*UP*U)-3')
N: Coat protein
c: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
r: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
7: RNA (5'-R(P*UP*U)-3')
O: Coat protein
d: RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
s: RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
8: RNA (5'-R(P*UP*U)-3')
ヘテロ分子

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

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

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


分子量 (理論値)分子数
合計 (水以外)1,463,723268
ポリマ－1,461,907240
非ポリマー1,81628
水3,603200
タイプ名称対称操作数
identity operation1_555x,y,z1
crystal symmetry operation2_555-x,-y,z1
crystal symmetry operation3_555-x,y,-z1
crystal symmetry operation4_555x,-y,-z1
単位格子
Length a, b, c (Å)174.268, 191.774, 202.503
Angle α, β, γ (deg.)90.00, 90.00, 90.00
Int Tables number23
Space group name H-MI222
対称性点対称性: (シェーンフリース記号: I (正20面体型対称))
Components on special symmetry positions
IDモデル要素
11G-382-

HOH

21a-211-

HOH

非結晶学的対称性 (NCS)NCSドメイン:
IDEns-ID詳細
11A
21B
31C
41D
51E
61F
71G
81H
91I
101J
111K
121L
131M
141N
151O
12P
22Q
32R
42S
52T
62V
72X
82Y
92a
13e
23g
33h
43i
53m
63n
14U
24W
34Z
44b
54c
64d
15f
25j
35k
45l
55o
65p
75q
85r
95s

NCSドメイン領域:
Dom-IDComponent-IDEns-IDBeg auth comp-IDBeg label comp-IDEnd auth comp-IDEnd label comp-IDRefine codeAuth asym-IDLabel asym-IDAuth seq-IDLabel seq-IDBeg label alt-IDEnd label alt-ID
111ASNASNSERSER1AA16 - 1716 - 17
211ASNASNSERSER1BE16 - 1716 - 17
311ASNASNSERSER1CI16 - 1716 - 17
411ASNASNSERSER1DM16 - 1716 - 17
511ASNASNSERSER1EQ16 - 1716 - 17
611ASNASNSERSER1FU16 - 1716 - 17
711ASNASNSERSER1GY16 - 1716 - 17
811ASNASNSERSER1HCA16 - 1716 - 17
911ASNASNSERSER1IGA16 - 1716 - 17
1011ASNASNSERSER1JKA16 - 1716 - 17
1111ASNASNSERSER1KOA16 - 1716 - 17
1211ASNASNSERSER1LSA16 - 1716 - 17
1311ASNASNSERSER1MWA16 - 1716 - 17
1411ASNASNSERSER1NAB16 - 1716 - 17
1511ASNASNSERSER1OEB16 - 1716 - 17
121VALVALTHRTHR1AA19 - 2119 - 21
221VALVALTHRTHR1BE19 - 2119 - 21
321VALVALTHRTHR1CI19 - 2119 - 21
421VALVALTHRTHR1DM19 - 2119 - 21
521VALVALTHRTHR1EQ19 - 2119 - 21
621VALVALTHRTHR1FU19 - 2119 - 21
721VALVALTHRTHR1GY19 - 2119 - 21
821VALVALTHRTHR1HCA19 - 2119 - 21
921VALVALTHRTHR1IGA19 - 2119 - 21
1021VALVALTHRTHR1JKA19 - 2119 - 21
1121VALVALTHRTHR1KOA19 - 2119 - 21
1221VALVALTHRTHR1LSA19 - 2119 - 21
1321VALVALTHRTHR1MWA19 - 2119 - 21
1421VALVALTHRTHR1NAB19 - 2119 - 21
1521VALVALTHRTHR1OEB19 - 2119 - 21
131ILEILEGLYGLY1AA23 - 2623 - 26
231ILEILEGLYGLY1BE23 - 2623 - 26
331ILEILEGLYGLY1CI23 - 2623 - 26
431ILEILEGLYGLY1DM23 - 2623 - 26
531ILEILEGLYGLY1EQ23 - 2623 - 26
631ILEILEGLYGLY1FU23 - 2623 - 26
731ILEILEGLYGLY1GY23 - 2623 - 26
831ILEILEGLYGLY1HCA23 - 2623 - 26
931ILEILEGLYGLY1IGA23 - 2623 - 26
1031ILEILEGLYGLY1JKA23 - 2623 - 26
1131ILEILEGLYGLY1KOA23 - 2623 - 26
1231ILEILEGLYGLY1LSA23 - 2623 - 26
1331ILEILEGLYGLY1MWA23 - 2623 - 26
1431ILEILEGLYGLY1NAB23 - 2623 - 26
1531ILEILEGLYGLY1OEB23 - 2623 - 26
141TYRTYRTHRTHR1AA28 - 3428 - 34
241TYRTYRTHRTHR1BE28 - 3428 - 34
341TYRTYRTHRTHR1CI28 - 3428 - 34
441TYRTYRTHRTHR1DM28 - 3428 - 34
541TYRTYRTHRTHR1EQ28 - 3428 - 34
641TYRTYRTHRTHR1FU28 - 3428 - 34
741TYRTYRTHRTHR1GY28 - 3428 - 34
841TYRTYRTHRTHR1HCA28 - 3428 - 34
941TYRTYRTHRTHR1IGA28 - 3428 - 34
1041TYRTYRTHRTHR1JKA28 - 3428 - 34
1141TYRTYRTHRTHR1KOA28 - 3428 - 34
1241TYRTYRTHRTHR1LSA28 - 3428 - 34
1341TYRTYRTHRTHR1MWA28 - 3428 - 34
1441TYRTYRTHRTHR1NAB28 - 3428 - 34
1541TYRTYRTHRTHR1OEB28 - 3428 - 34
151THRTHRSERSER1AA36 - 4636 - 46
251THRTHRSERSER1BE36 - 4636 - 46
351THRTHRSERSER1CI36 - 4636 - 46
451THRTHRSERSER1DM36 - 4636 - 46
551THRTHRSERSER1EQ36 - 4636 - 46
651THRTHRSERSER1FU36 - 4636 - 46
751THRTHRSERSER1GY36 - 4636 - 46
851THRTHRSERSER1HCA36 - 4636 - 46
951THRTHRSERSER1IGA36 - 4636 - 46
1051THRTHRSERSER1JKA36 - 4636 - 46
1151THRTHRSERSER1KOA36 - 4636 - 46
1251THRTHRSERSER1LSA36 - 4636 - 46
1351THRTHRSERSER1MWA36 - 4636 - 46
1451THRTHRSERSER1NAB36 - 4636 - 46
1551THRTHRSERSER1OEB36 - 4636 - 46
161GLNGLNGLNGLN1AA4848
261GLNGLNGLNGLN1BE4848
361GLNGLNGLNGLN1CI4848
461GLNGLNGLNGLN1DM4848
561GLNGLNGLNGLN1EQ4848
661GLNGLNGLNGLN1FU4848
761GLNGLNGLNGLN1GY4848
861GLNGLNGLNGLN1HCA4848
961GLNGLNGLNGLN1IGA4848
1061GLNGLNGLNGLN1JKA4848
1161GLNGLNGLNGLN1KOA4848
1261GLNGLNGLNGLN1LSA4848
1361GLNGLNGLNGLN1MWA4848
1461GLNGLNGLNGLN1NAB4848
1561GLNGLNGLNGLN1OEB4848
171GLYGLYGLYGLY1AA5050
271GLYGLYGLYGLY1BE5050
371GLYGLYGLYGLY1CI5050
471GLYGLYGLYGLY1DM5050
571GLYGLYGLYGLY1EQ5050
671GLYGLYGLYGLY1FU5050
771GLYGLYGLYGLY1GY5050
871GLYGLYGLYGLY1HCA5050
971GLYGLYGLYGLY1IGA5050
1071GLYGLYGLYGLY1JKA5050
1171GLYGLYGLYGLY1KOA5050
1271GLYGLYGLYGLY1LSA5050
1371GLYGLYGLYGLY1MWA5050
1471GLYGLYGLYGLY1NAB5050
1571GLYGLYGLYGLY1OEB5050
181VALVALVALVAL1AA5555
281VALVALVALVAL1BE5555
381VALVALVALVAL1CI5555
481VALVALVALVAL1DM5555
581VALVALVALVAL1EQ5555
681VALVALVALVAL1FU5555
781VALVALVALVAL1GY5555
881VALVALVALVAL1HCA5555
981VALVALVALVAL1IGA5555
1081VALVALVALVAL1JKA5555
1181VALVALVALVAL1KOA5555
1281VALVALVALVAL1LSA5555
1381VALVALVALVAL1MWA5555
1481VALVALVALVAL1NAB5555
1581VALVALVALVAL1OEB5555
191VALVALGLYGLY1AA57 - 5857 - 58
291VALVALGLYGLY1BE57 - 5857 - 58
391VALVALGLYGLY1CI57 - 5857 - 58
491VALVALGLYGLY1DM57 - 5857 - 58
591VALVALGLYGLY1EQ57 - 5857 - 58
691VALVALGLYGLY1FU57 - 5857 - 58
791VALVALGLYGLY1GY57 - 5857 - 58
891VALVALGLYGLY1HCA57 - 5857 - 58
991VALVALGLYGLY1IGA57 - 5857 - 58
1091VALVALGLYGLY1JKA57 - 5857 - 58
1191VALVALGLYGLY1KOA57 - 5857 - 58
1291VALVALGLYGLY1LSA57 - 5857 - 58
1391VALVALGLYGLY1MWA57 - 5857 - 58
1491VALVALGLYGLY1NAB57 - 5857 - 58
1591VALVALGLYGLY1OEB57 - 5857 - 58
1101LEULEUTHRTHR1AA60 - 6760 - 67
2101LEULEUTHRTHR1BE60 - 6760 - 67
3101LEULEUTHRTHR1CI60 - 6760 - 67
4101LEULEUTHRTHR1DM60 - 6760 - 67
5101LEULEUTHRTHR1EQ60 - 6760 - 67
6101LEULEUTHRTHR1FU60 - 6760 - 67
7101LEULEUTHRTHR1GY60 - 6760 - 67
8101LEULEUTHRTHR1HCA60 - 6760 - 67
9101LEULEUTHRTHR1IGA60 - 6760 - 67
10101LEULEUTHRTHR1JKA60 - 6760 - 67
11101LEULEUTHRTHR1KOA60 - 6760 - 67
12101LEULEUTHRTHR1LSA60 - 6760 - 67
13101LEULEUTHRTHR1MWA60 - 6760 - 67
14101LEULEUTHRTHR1NAB60 - 6760 - 67
15101LEULEUTHRTHR1OEB60 - 6760 - 67
1111SERSERVALVAL1AA69 - 7569 - 75
2111SERSERVALVAL1BE69 - 7569 - 75
3111SERSERVALVAL1CI69 - 7569 - 75
4111SERSERVALVAL1DM69 - 7569 - 75
5111SERSERVALVAL1EQ69 - 7569 - 75
6111SERSERVALVAL1FU69 - 7569 - 75
7111SERSERVALVAL1GY69 - 7569 - 75
8111SERSERVALVAL1HCA69 - 7569 - 75
9111SERSERVALVAL1IGA69 - 7569 - 75
10111SERSERVALVAL1JKA69 - 7569 - 75
11111SERSERVALVAL1KOA69 - 7569 - 75
12111SERSERVALVAL1LSA69 - 7569 - 75
13111SERSERVALVAL1MWA69 - 7569 - 75
14111SERSERVALVAL1NAB69 - 7569 - 75
15111SERSERVALVAL1OEB69 - 7569 - 75
1121SERSERVALVAL1AA77 - 7877 - 78
2121SERSERVALVAL1BE77 - 7877 - 78
3121SERSERVALVAL1CI77 - 7877 - 78
4121SERSERVALVAL1DM77 - 7877 - 78
5121SERSERVALVAL1EQ77 - 7877 - 78
6121SERSERVALVAL1FU77 - 7877 - 78
7121SERSERVALVAL1GY77 - 7877 - 78
8121SERSERVALVAL1HCA77 - 7877 - 78
9121SERSERVALVAL1IGA77 - 7877 - 78
10121SERSERVALVAL1JKA77 - 7877 - 78
11121SERSERVALVAL1KOA77 - 7877 - 78
12121SERSERVALVAL1LSA77 - 7877 - 78
13121SERSERVALVAL1MWA77 - 7877 - 78
14121SERSERVALVAL1NAB77 - 7877 - 78
15121SERSERVALVAL1OEB77 - 7877 - 78
1131ALAALAPROPRO4AA80 - 8780 - 87
2131ALAALAPROPRO4BE80 - 8780 - 87
3131ALAALAPROPRO4CI80 - 8780 - 87
4131ALAALAPROPRO4DM80 - 8780 - 87
5131ALAALAPROPRO4EQ80 - 8780 - 87
6131ALAALAPROPRO4FU80 - 8780 - 87
7131ALAALAPROPRO4GY80 - 8780 - 87
8131ALAALAPROPRO4HCA80 - 8780 - 87
9131ALAALAPROPRO4IGA80 - 8780 - 87
10131ALAALAPROPRO4JKA80 - 8780 - 87
11131ALAALAPROPRO4KOA80 - 8780 - 87
12131ALAALAPROPRO4LSA80 - 8780 - 87
13131ALAALAPROPRO4MWA80 - 8780 - 87
14131ALAALAPROPRO4NAB80 - 8780 - 87
15131ALAALAPROPRO4OEB80 - 8780 - 87
1141ASNASNLEULEU4AA89 - 9689 - 96
2141ASNASNLEULEU4BE89 - 9689 - 96
3141ASNASNLEULEU4CI89 - 9689 - 96
4141ASNASNLEULEU4DM89 - 9689 - 96
5141ASNASNLEULEU4EQ89 - 9689 - 96
6141ASNASNLEULEU4FU89 - 9689 - 96
7141ASNASNLEULEU4GY89 - 9689 - 96
8141ASNASNLEULEU4HCA89 - 9689 - 96
9141ASNASNLEULEU4IGA89 - 9689 - 96
10141ASNASNLEULEU4JKA89 - 9689 - 96
11141ASNASNLEULEU4KOA89 - 9689 - 96
12141ASNASNLEULEU4LSA89 - 9689 - 96
13141ASNASNLEULEU4MWA89 - 9689 - 96
14141ASNASNLEULEU4NAB89 - 9689 - 96
15141ASNASNLEULEU4OEB89 - 9689 - 96
1151PROPROPHEPHE4AA98 - 10098 - 100
2151PROPROPHEPHE4BE98 - 10098 - 100
3151PROPROPHEPHE4CI98 - 10098 - 100
4151PROPROPHEPHE4DM98 - 10098 - 100
5151PROPROPHEPHE4EQ98 - 10098 - 100
6151PROPROPHEPHE4FU98 - 10098 - 100
7151PROPROPHEPHE4GY98 - 10098 - 100
8151PROPROPHEPHE4HCA98 - 10098 - 100
9151PROPROPHEPHE4IGA98 - 10098 - 100
10151PROPROPHEPHE4JKA98 - 10098 - 100
11151PROPROPHEPHE4KOA98 - 10098 - 100
12151PROPROPHEPHE4LSA98 - 10098 - 100
13151PROPROPHEPHE4MWA98 - 10098 - 100
14151PROPROPHEPHE4NAB98 - 10098 - 100
15151PROPROPHEPHE4OEB98 - 10098 - 100
1161THRTHRASPASP4AA102 - 104102 - 104
2161THRTHRASPASP4BE102 - 104102 - 104
3161THRTHRASPASP4CI102 - 104102 - 104
4161THRTHRASPASP4DM102 - 104102 - 104
5161THRTHRASPASP4EQ102 - 104102 - 104
6161THRTHRASPASP4FU102 - 104102 - 104
7161THRTHRASPASP4GY102 - 104102 - 104
8161THRTHRASPASP4HCA102 - 104102 - 104
9161THRTHRASPASP4IGA102 - 104102 - 104
10161THRTHRASPASP4JKA102 - 104102 - 104
11161THRTHRASPASP4KOA102 - 104102 - 104
12161THRTHRASPASP4LSA102 - 104102 - 104
13161THRTHRASPASP4MWA102 - 104102 - 104
14161THRTHRASPASP4NAB102 - 104102 - 104
15161THRTHRASPASP4OEB102 - 104102 - 104
1171THRTHRASNASN4AA106 - 117106 - 117
2171THRTHRASNASN4BE106 - 117106 - 117
3171THRTHRASNASN4CI106 - 117106 - 117
4171THRTHRASNASN4DM106 - 117106 - 117
5171THRTHRASNASN4EQ106 - 117106 - 117
6171THRTHRASNASN4FU106 - 117106 - 117
7171THRTHRASNASN4GY106 - 117106 - 117
8171THRTHRASNASN4HCA106 - 117106 - 117
9171THRTHRASNASN4IGA106 - 117106 - 117
10171THRTHRASNASN4JKA106 - 117106 - 117
11171THRTHRASNASN4KOA106 - 117106 - 117
12171THRTHRASNASN4LSA106 - 117106 - 117
13171THRTHRASNASN4MWA106 - 117106 - 117
14171THRTHRASNASN4NAB106 - 117106 - 117
15171THRTHRASNASN4OEB106 - 117106 - 117
1181ARGARGPROPRO4AA119 - 127119 - 127
2181ARGARGPROPRO4BE119 - 127119 - 127
3181ARGARGPROPRO4CI119 - 127119 - 127
4181ARGARGPROPRO4DM119 - 127119 - 127
5181ARGARGPROPRO4EQ119 - 127119 - 127
6181ARGARGPROPRO4FU119 - 127119 - 127
7181ARGARGPROPRO4GY119 - 127119 - 127
8181ARGARGPROPRO4HCA119 - 127119 - 127
9181ARGARGPROPRO4IGA119 - 127119 - 127
10181ARGARGPROPRO4JKA119 - 127119 - 127
11181ARGARGPROPRO4KOA119 - 127119 - 127
12181ARGARGPROPRO4LSA119 - 127119 - 127
13181ARGARGPROPRO4MWA119 - 127119 - 127
14181ARGARGPROPRO4NAB119 - 127119 - 127
15181ARGARGPROPRO4OEB119 - 127119 - 127
1191ASNASNASNASN4AA129 - 133129 - 133
2191ASNASNASNASN4BE129 - 133129 - 133
3191ASNASNASNASN4CI129 - 133129 - 133
4191ASNASNASNASN4DM129 - 133129 - 133
5191ASNASNASNASN4EQ129 - 133129 - 133
6191ASNASNASNASN4FU129 - 133129 - 133
7191ASNASNASNASN4GY129 - 133129 - 133
8191ASNASNASNASN4HCA129 - 133129 - 133
9191ASNASNASNASN4IGA129 - 133129 - 133
10191ASNASNASNASN4JKA129 - 133129 - 133
11191ASNASNASNASN4KOA129 - 133129 - 133
12191ASNASNASNASN4LSA129 - 133129 - 133
13191ASNASNASNASN4MWA129 - 133129 - 133
14191ASNASNASNASN4NAB129 - 133129 - 133
15191ASNASNASNASN4OEB129 - 133129 - 133
1201VALVALASNASN4AA135 - 139135 - 139
2201VALVALASNASN4BE135 - 139135 - 139
3201VALVALASNASN4CI135 - 139135 - 139
4201VALVALASNASN4DM135 - 139135 - 139
5201VALVALASNASN4EQ135 - 139135 - 139
6201VALVALASNASN4FU135 - 139135 - 139
7201VALVALASNASN4GY135 - 139135 - 139
8201VALVALASNASN4HCA135 - 139135 - 139
9201VALVALASNASN4IGA135 - 139135 - 139
10201VALVALASNASN4JKA135 - 139135 - 139
11201VALVALASNASN4KOA135 - 139135 - 139
12201VALVALASNASN4LSA135 - 139135 - 139
13201VALVALASNASN4MWA135 - 139135 - 139
14201VALVALASNASN4NAB135 - 139135 - 139
15201VALVALASNASN4OEB135 - 139135 - 139
1211CYSCYSGLUGLU4AA141 - 142141 - 142
2211CYSCYSGLUGLU4BE141 - 142141 - 142
3211CYSCYSGLUGLU4CI141 - 142141 - 142
4211CYSCYSGLUGLU4DM141 - 142141 - 142
5211CYSCYSGLUGLU4EQ141 - 142141 - 142
6211CYSCYSGLUGLU4FU141 - 142141 - 142
7211CYSCYSGLUGLU4GY141 - 142141 - 142
8211CYSCYSGLUGLU4HCA141 - 142141 - 142
9211CYSCYSGLUGLU4IGA141 - 142141 - 142
10211CYSCYSGLUGLU4JKA141 - 142141 - 142
11211CYSCYSGLUGLU4KOA141 - 142141 - 142
12211CYSCYSGLUGLU4LSA141 - 142141 - 142
13211CYSCYSGLUGLU4MWA141 - 142141 - 142
14211CYSCYSGLUGLU4NAB141 - 142141 - 142
15211CYSCYSGLUGLU4OEB141 - 142141 - 142
1221ARGARGARGARG4AA144 - 148144 - 148
2221ARGARGARGARG4BE144 - 148144 - 148
3221ARGARGARGARG4CI144 - 148144 - 148
4221ARGARGARGARG4DM144 - 148144 - 148
5221ARGARGARGARG4EQ144 - 148144 - 148
6221ARGARGARGARG4FU144 - 148144 - 148
7221ARGARGARGARG4GY144 - 148144 - 148
8221ARGARGARGARG4HCA144 - 148144 - 148
9221ARGARGARGARG4IGA144 - 148144 - 148
10221ARGARGARGARG4JKA144 - 148144 - 148
11221ARGARGARGARG4KOA144 - 148144 - 148
12221ARGARGARGARG4LSA144 - 148144 - 148
13221ARGARGARGARG4MWA144 - 148144 - 148
14221ARGARGARGARG4NAB144 - 148144 - 148
15221ARGARGARGARG4OEB144 - 148144 - 148
1231VALVALALAALA4AA150 - 151150 - 151
2231VALVALALAALA4BE150 - 151150 - 151
3231VALVALALAALA4CI150 - 151150 - 151
4231VALVALALAALA4DM150 - 151150 - 151
5231VALVALALAALA4EQ150 - 151150 - 151
6231VALVALALAALA4FU150 - 151150 - 151
7231VALVALALAALA4GY150 - 151150 - 151
8231VALVALALAALA4HCA150 - 151150 - 151
9231VALVALALAALA4IGA150 - 151150 - 151
10231VALVALALAALA4JKA150 - 151150 - 151
11231VALVALALAALA4KOA150 - 151150 - 151
12231VALVALALAALA4LSA150 - 151150 - 151
13231VALVALALAALA4MWA150 - 151150 - 151
14231VALVALALAALA4NAB150 - 151150 - 151
15231VALVALALAALA4OEB150 - 151150 - 151
1241VALVALILEILE4AA153 - 154153 - 154
2241VALVALILEILE4BE153 - 154153 - 154
3241VALVALILEILE4CI153 - 154153 - 154
4241VALVALILEILE4DM153 - 154153 - 154
5241VALVALILEILE4EQ153 - 154153 - 154
6241VALVALILEILE4FU153 - 154153 - 154
7241VALVALILEILE4GY153 - 154153 - 154
8241VALVALILEILE4HCA153 - 154153 - 154
9241VALVALILEILE4IGA153 - 154153 - 154
10241VALVALILEILE4JKA153 - 154153 - 154
11241VALVALILEILE4KOA153 - 154153 - 154
12241VALVALILEILE4LSA153 - 154153 - 154
13241VALVALILEILE4MWA153 - 154153 - 154
14241VALVALILEILE4NAB153 - 154153 - 154
15241VALVALILEILE4OEB153 - 154153 - 154
1251CYSCYSCYSCYS4AA156156
2251CYSCYSCYSCYS4BE156156
3251CYSCYSCYSCYS4CI156156
4251CYSCYSCYSCYS4DM156156
5251CYSCYSCYSCYS4EQ156156
6251CYSCYSCYSCYS4FU156156
7251CYSCYSCYSCYS4GY156156
8251CYSCYSCYSCYS4HCA156156
9251CYSCYSCYSCYS4IGA156156
10251CYSCYSCYSCYS4JKA156156
11251CYSCYSCYSCYS4KOA156156
12251CYSCYSCYSCYS4LSA156156
13251CYSCYSCYSCYS4MWA156156
14251CYSCYSCYSCYS4NAB156156
15251CYSCYSCYSCYS4OEB156156
1261PHEPHEASNASN4AA158 - 159158 - 159
2261PHEPHEASNASN4BE158 - 159158 - 159
3261PHEPHEASNASN4CI158 - 159158 - 159
4261PHEPHEASNASN4DM158 - 159158 - 159
5261PHEPHEASNASN4EQ158 - 159158 - 159
6261PHEPHEASNASN4FU158 - 159158 - 159
7261PHEPHEASNASN4GY158 - 159158 - 159
8261PHEPHEASNASN4HCA158 - 159158 - 159
9261PHEPHEASNASN4IGA158 - 159158 - 159
10261PHEPHEASNASN4JKA158 - 159158 - 159
11261PHEPHEASNASN4KOA158 - 159158 - 159
12261PHEPHEASNASN4LSA158 - 159158 - 159
13261PHEPHEASNASN4MWA158 - 159158 - 159
14261PHEPHEASNASN4NAB158 - 159158 - 159
15261PHEPHEASNASN4OEB158 - 159158 - 159
112AAAA6PB161 - 1701 - 10AA
212AAAA6QF161 - 1701 - 10AA
312AAAA6RJ161 - 1701 - 10AA
412AAAA6SN161 - 1701 - 10AA
512AAAA6TR161 - 1701 - 10AA
612AAAA6VZ161 - 1701 - 10AA
712AAAA6XHA161 - 1701 - 10AA
812AAAA6YLA161 - 1701 - 10AA
912AAAA6aTA161 - 1701 - 10AA
113UUUU6eC181 - 1901 - 10AA
213UUUU6gK181 - 1901 - 10AA
313UUUU6hO181 - 1901 - 10AA
413UUUU6iS181 - 1901 - 10AA
513UUUU6mIA181 - 1901 - 10AA
613UUUU6nMA181 - 1901 - 10AA
114AAAA6UV161 - 1701 - 10BB
214AAAA6WDA161 - 1701 - 10BB
314AAAA6ZPA161 - 1701 - 10BB
414AAAA6bXA161 - 1701 - 10BB
514AAAA6cBB161 - 1701 - 10BB
614AAAA6dFB161 - 1701 - 10BB
115UUUU6fG181 - 1901 - 10BB
215UUUU6jW181 - 1901 - 10BB
315UUUU6kAA181 - 1901 - 10BB
415UUUU6lEA181 - 1901 - 10BB
515UUUU6oQA181 - 1901 - 10BB
615UUUU6pUA181 - 1901 - 10BB
715UUUU6qYA181 - 1901 - 10BB
815UUUU6rCB181 - 1901 - 10BB
915UUUU6sGB181 - 1901 - 10BB

NCSアンサンブル:
ID
1
2
3
4
5

-
要素

-
タンパク質 , 1種, 15分子 ABCDEFGHIJKLMNO

#1: タンパク質
Coat protein


分子量: 17533.949 Da / 分子数: 15 / 由来タイプ: 天然
由来: (天然) Satellite tobacco mosaic virus (ウイルス)
参照: UniProt: P17574

-
RNA鎖 , 3種, 45分子 PQRSTUVWXYZabcdefghijklmnopqrs...

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


分子量: 3247.100 Da / 分子数: 15 / 由来タイプ: 天然 / 詳細: arbitrary RNA adenine nucleotide decamer
由来: (天然) Satellite Tobacco Mosaic Virus (ウイルス)
#3: RNA鎖
RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')


分子量: 3016.700 Da / 分子数: 15 / 由来タイプ: 天然 / 詳細: arbitrary RNA uridine nucleotide decamer
由来: (天然) Satellite Tobacco Mosaic Virus (ウイルス)
#4: RNA鎖
RNA (5'-R(P*UP*U)-3')


分子量: 567.374 Da / 分子数: 15 / 由来タイプ: 天然 / 詳細: arbitrary RNA uridine nucleotide dimer
由来: (天然) Satellite Tobacco Mosaic Virus (ウイルス)

-
非ポリマー , 4種, 3388分子

#5: 化合物 ChemComp-MG / MAGNESIUM ION / マグネシウムジカチオン


分子量: 24.305 Da / 分子数: 3 / 由来タイプ: 合成 / 式: Mg
#6: 化合物 ChemComp-PO4 / PHOSPHATE ION / ホスファ-ト


分子量: 94.971 Da / 分子数: 3 / 由来タイプ: 合成 / 式: PO4
#7: 化合物 ChemComp-SO4 / SULFATE ION / 硫酸ジアニオン


分子量: 96.063 Da / 分子数: 1 / 由来タイプ: 合成 / 式: SO4
#8: 水 ChemComp-HOH / water


分子量: 18.015 Da / 分子数: 3381 / 由来タイプ: 天然 / 式: H2O

-
実験情報

-
実験

実験手法: X線回折 / 使用した結晶の数: 21

-
試料調製

結晶
IDマシュー密度 (Å3/Da)溶媒含有率 (%)
12.3146.86
2
結晶化
温度 (K)Crystal-ID手法pH詳細
2961liquid diffusion6.59 crystals were grown in microgravity aboard IML-I mission of the U.S. Space Shuttle over 12 days using 20% ammonium sulfate as precipitant, pH 6.50, LIQUID DIFFUSION, temperature 296K
2962蒸気拡散法, シッティングドロップ法6.512 crystals grown from 8% ammonium sulfate on earth with a reservoir of 14-16% ammonium sulfate, pH 6.50, VAPOR DIFFUSION, SITTING DROP, temperature 296K

-
データ収集

回折平均測定温度: 290 K
放射光源由来: 回転陽極 / タイプ: RIGAKU RU200 / 波長: 1.54178 Å
検出器タイプ: SDMS / 検出器: AREA DETECTOR / 日付: 1992年2月28日 / 詳細: None
放射モノクロメーター: Supper graphite / プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray
放射波長波長: 1.54178 Å / 相対比: 1
反射解像度: 1.82→87.04 Å / Num. all: 271689 / Num. obs: 268316 / % possible obs: 89.46 % / Observed criterion σ(F): 0 / 冗長度: 8.2 % / Biso Wilson estimate: 24.9 Å2 / Rmerge(I) obs: 0.091
反射 シェル
解像度 (Å)Diffraction-ID% possible all
1.82-1.919175
1.919-2.036183.7
2.036-2.176185
2.176-2.351190.5
2.351-2.575197
2.575-2.878198.8
2.878-3.3231100
3.323-4.0681100
4.068-5.74711
5.747-5001100

-
解析

ソフトウェア
名称バージョン分類
SDMSデータ収集
REFMAC5.5.0109精密化
SDMSデータ削減
SDMSデータスケーリング
精密化構造決定の手法: 分子置換
開始モデル: PDB entry 1A34

1a34


解像度: 1.82→87.04 Å / Cor.coef. Fo:Fc: 0.974 / Cor.coef. Fo:Fc free: 0.961 / SU B: 4.386 / SU ML: 0.059
Isotropic thermal model: Isotropic with TLS refinement applied to each of 45 chains
交差検証法: THROUGHOUT / σ(F): 0 / ESU R: 0.102 / ESU R Free: 0.097 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD / 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
Rfactor反射数%反射Selection details
Rfree0.156 3984 1.5 %RANDOM
Rwork0.123 ---
obs0.124 268316 89.5 %-
all-271689 --
溶媒の処理イオンプローブ半径: 0.8 Å / 減衰半径: 0.8 Å / VDWプローブ半径: 1.4 Å / 溶媒モデル: BABINET MODEL WITH MASK
原子変位パラメータBiso mean: 41.09 Å2
Baniso -1Baniso -2Baniso -3
1-0.08 Å20 Å20 Å2
2--0.02 Å20 Å2
3----0.1 Å2
精密化ステップサイクル: LAST / 解像度: 1.82→87.04 Å
タンパク質核酸リガンド溶媒全体
原子数16770 6720 23 3381 26894
拘束条件
Refine-IDタイプDev idealDev ideal target数
X-RAY DIFFRACTIONr_bond_refined_d0.0090.02226373
X-RAY DIFFRACTIONr_bond_other_d0.0010.0222051
X-RAY DIFFRACTIONr_angle_refined_deg1.2632.26937731
X-RAY DIFFRACTIONr_angle_other_deg0.6543.00350182
X-RAY DIFFRACTIONr_dihedral_angle_1_deg6.53352649
X-RAY DIFFRACTIONr_dihedral_angle_2_deg33.89222.875800
X-RAY DIFFRACTIONr_dihedral_angle_3_deg12.881153177
X-RAY DIFFRACTIONr_dihedral_angle_4_deg17.95815180
X-RAY DIFFRACTIONr_chiral_restr0.0760.24675
X-RAY DIFFRACTIONr_gen_planes_refined0.0090.02125624
X-RAY DIFFRACTIONr_gen_planes_other0.0010.025680
X-RAY DIFFRACTIONr_nbd_refined
X-RAY DIFFRACTIONr_nbd_other
X-RAY DIFFRACTIONr_nbtor_refined
X-RAY DIFFRACTIONr_nbtor_other
X-RAY DIFFRACTIONr_xyhbond_nbd_refined
X-RAY DIFFRACTIONr_xyhbond_nbd_other
X-RAY DIFFRACTIONr_metal_ion_refined
X-RAY DIFFRACTIONr_metal_ion_other
X-RAY DIFFRACTIONr_symmetry_vdw_refined
X-RAY DIFFRACTIONr_symmetry_vdw_other
X-RAY DIFFRACTIONr_symmetry_hbond_refined
X-RAY DIFFRACTIONr_symmetry_hbond_other
X-RAY DIFFRACTIONr_symmetry_metal_ion_refined
X-RAY DIFFRACTIONr_symmetry_metal_ion_other
X-RAY DIFFRACTIONr_mcbond_it2.915611866
X-RAY DIFFRACTIONr_mcbond_other1.28264612
X-RAY DIFFRACTIONr_mcangle_it4.7391519901
X-RAY DIFFRACTIONr_mcangle_other
X-RAY DIFFRACTIONr_scbond_it6.089914507
X-RAY DIFFRACTIONr_scbond_other
X-RAY DIFFRACTIONr_scangle_it9.7432817653
X-RAY DIFFRACTIONr_scangle_other
X-RAY DIFFRACTIONr_long_range_B_refined
X-RAY DIFFRACTIONr_long_range_B_other
X-RAY DIFFRACTIONr_rigid_bond_restr
X-RAY DIFFRACTIONr_sphericity_free
X-RAY DIFFRACTIONr_sphericity_bonded
Refine LS restraints NCS

Refine-ID: X-RAY DIFFRACTION

Ens-IDDom-IDAuth asym-ID数タイプRms dev position (Å)Weight position
11A753TIGHT POSITIONAL0.090.04
12B753TIGHT POSITIONAL0.060.04
13C753TIGHT POSITIONAL0.050.04
14D753TIGHT POSITIONAL0.060.04
15E753TIGHT POSITIONAL0.050.04
16F753TIGHT POSITIONAL0.060.04
17G753TIGHT POSITIONAL0.050.04
18H753TIGHT POSITIONAL0.050.04
19I753TIGHT POSITIONAL0.080.04
110J753TIGHT POSITIONAL0.060.04
111K753TIGHT POSITIONAL0.090.04
112L753TIGHT POSITIONAL0.050.04
113M753TIGHT POSITIONAL0.060.04
114N753TIGHT POSITIONAL0.080.04
115O753TIGHT POSITIONAL0.060.04
11A1043MEDIUM POSITIONAL0.140.5
12B1043MEDIUM POSITIONAL0.070.5
13C1043MEDIUM POSITIONAL0.070.5
14D1043MEDIUM POSITIONAL0.060.5
15E1043MEDIUM POSITIONAL0.040.5
16F1043MEDIUM POSITIONAL0.060.5
17G1043MEDIUM POSITIONAL0.050.5
18H1043MEDIUM POSITIONAL0.050.5
19I1043MEDIUM POSITIONAL0.130.5
110J1043MEDIUM POSITIONAL0.090.5
111K1043MEDIUM POSITIONAL0.10.5
112L1043MEDIUM POSITIONAL0.050.5
113M1043MEDIUM POSITIONAL0.060.5
114N1043MEDIUM POSITIONAL0.090.5
115O1043MEDIUM POSITIONAL0.070.5
11A753TIGHT THERMAL0.740.6
12B753TIGHT THERMAL0.690.6
13C753TIGHT THERMAL0.730.6
14D753TIGHT THERMAL0.720.6
15E753TIGHT THERMAL0.710.6
16F753TIGHT THERMAL0.680.6
17G753TIGHT THERMAL0.670.6
18H753TIGHT THERMAL0.660.6
19I753TIGHT THERMAL0.750.6
110J753TIGHT THERMAL0.740.6
111K753TIGHT THERMAL0.680.6
112L753TIGHT THERMAL0.660.6
113M753TIGHT THERMAL0.720.6
114N753TIGHT THERMAL0.680.6
115O753TIGHT THERMAL0.710.6
11A1043MEDIUM THERMAL0.752
12B1043MEDIUM THERMAL0.712
13C1043MEDIUM THERMAL0.682
14D1043MEDIUM THERMAL0.712
15E1043MEDIUM THERMAL0.682
16F1043MEDIUM THERMAL0.72
17G1043MEDIUM THERMAL0.672
18H1043MEDIUM THERMAL0.682
19I1043MEDIUM THERMAL0.752
110J1043MEDIUM THERMAL0.672
111K1043MEDIUM THERMAL0.732
112L1043MEDIUM THERMAL0.72
113M1043MEDIUM THERMAL0.672
114N1043MEDIUM THERMAL0.722
115O1043MEDIUM THERMAL0.672
21P331LOOSE POSITIONAL0.255
22Q331LOOSE POSITIONAL0.185
23R331LOOSE POSITIONAL0.175
24S331LOOSE POSITIONAL0.225
25T331LOOSE POSITIONAL0.215
26V331LOOSE POSITIONAL0.175
27X331LOOSE POSITIONAL0.235
28Y331LOOSE POSITIONAL0.165
29a331LOOSE POSITIONAL0.185
21P331LOOSE THERMAL56
22Q331LOOSE THERMAL3.956
23R331LOOSE THERMAL4.856
24S331LOOSE THERMAL3.636
25T331LOOSE THERMAL3.066
26V331LOOSE THERMAL3.946
27X331LOOSE THERMAL5.846
28Y331LOOSE THERMAL3.676
29a331LOOSE THERMAL4.376
31e301LOOSE POSITIONAL0.175
32g301LOOSE POSITIONAL0.165
33h301LOOSE POSITIONAL0.155
34i301LOOSE POSITIONAL0.25
35m301LOOSE POSITIONAL0.275
36n301LOOSE POSITIONAL0.165
31e301LOOSE THERMAL3.366
32g301LOOSE THERMAL3.456
33h301LOOSE THERMAL3.66
34i301LOOSE THERMAL4.36
35m301LOOSE THERMAL7.166
36n301LOOSE THERMAL3.426
41U331LOOSE POSITIONAL0.215
42W331LOOSE POSITIONAL0.185
43Z331LOOSE POSITIONAL0.215
44b331LOOSE POSITIONAL0.25
45c331LOOSE POSITIONAL0.245
46d331LOOSE POSITIONAL0.245
41U331LOOSE THERMAL3.476
42W331LOOSE THERMAL3.266
43Z331LOOSE THERMAL4.056
44b331LOOSE THERMAL6.566
45c331LOOSE THERMAL4.656
46d331LOOSE THERMAL5.056
51f301LOOSE POSITIONAL0.185
52j301LOOSE POSITIONAL0.165
53k301LOOSE POSITIONAL0.175
54l301LOOSE POSITIONAL0.165
55o301LOOSE POSITIONAL0.175
56p301LOOSE POSITIONAL0.155
57q301LOOSE POSITIONAL0.25
58r301LOOSE POSITIONAL0.155
59s301LOOSE POSITIONAL0.235
51f301LOOSE THERMAL3.446
52j301LOOSE THERMAL3.316
53k301LOOSE THERMAL2.516
54l301LOOSE THERMAL2.86
55o301LOOSE THERMAL2.26
56p301LOOSE THERMAL2.386
57q301LOOSE THERMAL2.696
58r301LOOSE THERMAL2.716
59s301LOOSE THERMAL5.226
LS精密化 シェル解像度: 1.82→1.87 Å / Total num. of bins used: 20
Rfactor反射数%反射
Rfree0.225 202 -
Rwork0.2 14345 -
obs--65.87 %
精密化 TLS

手法: refined / Refine-ID: X-RAY DIFFRACTION

IDL11 (°2)L12 (°2)L13 (°2)L22 (°2)L23 (°2)L33 (°2)S11 (Å °)S12 (Å °)S13 (Å °)S21 (Å °)S22 (Å °)S23 (Å °)S31 (Å °)S32 (Å °)S33 (Å °)T11 (Å2)T12 (Å2)T13 (Å2)T22 (Å2)T23 (Å2)T33 (Å2)Origin x (Å)Origin y (Å)Origin z (Å)
10.0219-0.033-0.06870.0134-0.01490.205-0.0033-0.01030.0268-0.02030.01340.00570.0030.0156-0.01010.133-0.01030.00110.1161-0.0070.140335.894954.843927.9475
20.2716-0.07390.0066-0.0245-0.00740.0736-0.0305-0.03260.0228-0.00830.0187-0.0098-0.0208-0.01210.01180.1366-0.0047-0.00120.1247-0.00260.155512.167369.316510.2382
30.0357-0.03980.06820.04620.10230.28110-0.00850.0092-0.0215-0.0052-0.0098-0.0618-0.03060.00520.1364-0.0098-0.00280.12730.00150.147519.2564.8747-21.6647
40.1121-0.113-0.01470.11030.07270.08420.01480.01510.0310.009-0.0155-0.014-0.00260.00390.00070.137-0.00690.00610.11860.00520.131847.21747.59-23.4493
50.075-0.07710.04510.102-0.18250.25530.01670.01650.01770.0011-0.03710.00560.01030.05380.02040.1489-0.00510.00180.1176-0.00370.13257.412340.8147.5592
6-0.013-0.0036-0.05680.1375-0.06320.13410.0124-0.0039-0.00570.0228-0.01610.0092-0.03020.04080.00360.1366-0.0053-0.0030.117-0.0040.133254.730427.414636.394
7-0.03130.0038-0.07050.05950.09360.29990.0147-0.0070.0057-0.01020.0151-0.0099-0.02430.0248-0.02980.1522-0.0002-0.00230.128-0.00220.125869.351810.137212.2833
80.04080.0767-0.02980.25330.0640.0873-0.0048-0.0101-0.0194-0.03890.009-0.0511-0.01550.0055-0.00420.14450.0001-0.00430.1238-0.00290.12764.9375-21.621119.301
90.10760.076-0.10620.0907-0.05140.0689-0.0305-0.02170.0015-0.01490.01140.00050.00560.01960.01910.126-0.0006-0.00330.12250.00670.132147.5759-23.580147.3991
100.1119-0.1526-0.06160.21660.03440.0183-0.0254-0.0173-0.00540.03890.01610.01330.00980.0150.00930.12680.0040.00340.1328-0.00260.141541.07077.104857.6248
110.2812-0.1299-0.03880.0983-0.01030.0221-0.016-0.01490.0240.01760.0043-0.0120.013-0.01240.01170.1249-0.00320.00180.1238-0.01780.13127.470336.209754.9504
120.10190.0420.01730.2077-0.0923-0.01430.0113-0.0265-0.01760.0247-0.0298-0.0416-0.0095-0.00610.01850.13670.00140.00170.124-0.00680.147210.152812.328269.4128
130.32850.03860.0930.02-0.058-0.01070.0075-0.0516-0.0354-0.01250.0021-0.0089-0.018-0.015-0.00950.13270.0028-0.00040.1281-0.01440.1394-21.710819.323665.0148
140.1489-0.03230.06660.1121-0.1630.1323-0.0082-0.01160.01080.01570.02360.0028-0.0292-0.0126-0.01540.13080.0084-0.0020.1217-0.01870.1319-23.552747.227447.825
150.25970.0327-0.14520.0467-0.09590.09260.02470.00570.05890.00940.01410.0136-0.0086-0.0067-0.03880.137-0.00350.00170.1238-0.01030.14186.747457.550941.6051
168.9573-3.24271.25483.07623.29681.4520.09980.8068-0.7761-0.2238-0.29190.62390.344-0.02610.1920.3144-0.09080.00390.2545-0.03120.265615.04242.321829.919
170.8205-1.43450.51171.0806-1.45435.805-0.0507-0.3822-0.76-0.34630.08210.52310.8446-0.2546-0.03140.2632-0.052-0.02130.11480.07590.3742-3.550153.68510.2118
18-2.1208-3.85211.11530.2541.41612.4782-0.0178-0.2357-0.0705-0.25450.46920.15141.4533-1.2929-0.45130.5885-0.4453-0.07810.4990.05970.211214.622842.3612-29.7096
193.14950.30871.77881.346-0.88972.9071-0.43760.1205-1.24520.20710.03040.05130.3763-0.62010.40720.1774-0.14720.19180.2155-0.10250.472144.453124.0005-18.5911
20-0.4429-1.37881.1721-2.46460.45911.06390.5426-0.4736-0.7754-0.1129-0.01960.34970.7828-0.3886-0.5230.3697-0.1994-0.19570.270.14010.435444.631323.958118.2441
210.1403-1.7932-2.6609-0.92510.43651.51-0.24160.32680.443-1.08670.85222.00660.017-0.3454-0.61060.3899-0.3231-0.4780.39240.37940.733642.064229.476814.9941
224.045-2.573-1.759413.06324.63072.40710.00710.4852-0.480.2522-0.17550.8294-0.0201-0.80720.16840.09040.0181-0.02560.5685-0.01780.152453.54270.1393-3.3742
231.919-2.4071-0.33341.6527-2.64612.77590.15950.128-0.414-0.3032-0.08960.5149-0.166-0.4174-0.06990.15490.0472-0.12910.2468-0.07880.246842.3906-29.657114.6608
24-0.13290.47671.77130.09450.57524.8721-0.33620.67750.4308-0.10480.55530.2343-0.0529-1.4894-0.2190.121-0.107-0.07340.62930.23770.274624.0528-18.566644.5774
250.26332.95410.50180.7935-0.392-0.3505-0.14190.38190.1224-0.19180.05670.3525-0.1391-0.46390.08520.19410.0437-0.06910.3623-0.11970.232923.853218.256544.7342
263.5923-0.48263.76095.3339-2.7934.6690.81271.5815-0.9011-0.3037-0.57690.67490.61240.737-0.23590.18530.2333-0.14690.5548-0.40690.338629.449514.927342.0806
276.39055.2935-3.68236.6344-0.3951.8142-0.29620.54020.1831-1.01290.36220.2493-0.0082-0.5214-0.0660.3807-0.03140.00790.1786-0.00490.13150.1591-3.408253.5293
287.126-1.5870.21722.1249-1.9041.4832-0.01080.985-0.2989-0.3176-0.2336-0.01550.0320.07370.24440.1923-0.03530.01730.2621-0.07420.1363-29.733614.719442.4316
29-0.3649-0.0688-0.00495.1175-0.12392.75960.08420.0870.0136-0.60470.0868-0.0330.46130.49-0.1710.27680.0766-0.0190.2202-0.05620.1167-18.556844.333223.9581
307.5008-3.26530.3341-0.36182.15926.8214-0.56220.7954-0.3815-0.88740.7989-0.0950.77710.0603-0.23670.5255-0.33850.06330.4477-0.15620.122518.139344.369623.9825
318.57632.25052.01936.4586-1.58973.84840.34710.611-1.2371-0.60210.1657-0.25340.5582-0.0789-0.51280.2366-0.0042-0.09610.1571-0.09660.284318.394845.29124.0654
3212.5526.55470.93393.06883.70438.66190.2466-0.817-1.53260.525-0.3438-0.91131.4820.20710.09720.37030.03680.00570.14220.09920.32683.586753.66170.0043
3312.0184-5.4717-0.051810.46988.10490.7858-0.3332-0.872-1.65811.9886-0.34461.190.7714-0.20080.67780.4247-0.06060.18490.27270.09070.349118.357844.4714-23.9649
340.11050.24012.184114.076-2.15948.55880.0921-0.3278-0.04080.00340.52541.58040.5464-1.4234-0.61760.1675-0.0962-0.01990.35380.10540.303642.502429.7262-14.6802
356.12840.6472-4.53356.9998-0.33125.3419-0.46991.053-0.4723-0.41440.10070.51120.4969-0.85460.36920.171-0.05890.01380.2731-0.09410.191442.4230.277814.9619
366.3561-3.65342.67971.56860.792315.75710.1718-0.1814-0.71220.1036-0.16430.42850.9662-1.7918-0.00750.1888-0.1160.02550.2548-0.03380.223244.472623.955418.3818
374.421.9334.22836.55212.17834.60440.0126-0.47720.49430.0477-0.24380.9232-0.2381-0.87850.23120.19370.0460.03940.28260.02350.254953.64020.00223.5484
3817.88656.7578-1.86142.95672.46345.4297-0.29351.71321.6388-0.46440.29920.5895-0.8133-0.8124-0.00570.23570.0718-0.03560.33360.15080.244344.4661-24.040518.4372
3918.95172.99866.5045.01112.85085.4640.192.67330.4583-1.08810.57140.5422-0.66690.3786-0.76140.51410.0361-0.01470.60240.16580.236329.5656-14.672742.6434
406.7448-1.79751.33413.1046-6.1726.98360.47620.5256-0.6848-0.95730.28720.63721.1634-0.3901-0.76340.3271-0.0807-0.14290.1647-0.02260.280929.890214.794942.3141
414.3466-1.3952-3.871615.71245.16644.5085-0.02581.0033-0.0507-1.7693-0.28851.1463-0.6607-0.86260.31420.3101-0.0271-0.14310.3425-0.010.216923.933318.299844.4909
427.92581.76977.398810.05885.81786.7494-0.07041.8693-0.136-1.50610.4876-0.679-0.93751.3781-0.41720.37830.00650.09490.547-0.04520.1921-0.11423.572253.7135
434.21172.21536.00452.1478-2.237516.4340.22630.7538-0.5351-0.58260.0754-0.62131.55591.6623-0.30180.34360.12480.08490.2899-0.07580.2482-24.06818.472344.5361
447.89133.0676-6.5712-2.1067-2.002619.733-1.13640.5098-1.4191-0.16390.1047-0.60932.8502-0.13161.03170.5327-0.06780.1820.1352-0.09310.3976-14.734442.334829.6813
450.1857-8.6411-2.93349.10834.925118.89320.57840.254-0.8256-0.3947-1.14161.56381.2338-1.58290.56320.2962-0.0453-0.0760.2581-0.11890.340514.861842.327329.7239
精密化 TLSグループ
IDRefine-IDRefine TLS-IDAuth asym-IDAuth seq-ID
1X-RAY DIFFRACTION1A16 - 159
2X-RAY DIFFRACTION2B16 - 159
3X-RAY DIFFRACTION3C16 - 159
4X-RAY DIFFRACTION4D16 - 159
5X-RAY DIFFRACTION5E16 - 159
6X-RAY DIFFRACTION6F16 - 159
7X-RAY DIFFRACTION7G16 - 159
8X-RAY DIFFRACTION8H16 - 159
9X-RAY DIFFRACTION9I16 - 159
10X-RAY DIFFRACTION10J16 - 159
11X-RAY DIFFRACTION11K16 - 159
12X-RAY DIFFRACTION12L16 - 159
13X-RAY DIFFRACTION13M16 - 159
14X-RAY DIFFRACTION14N16 - 159
15X-RAY DIFFRACTION15O16 - 159
16X-RAY DIFFRACTION16P161 - 170
17X-RAY DIFFRACTION17Q161 - 170
18X-RAY DIFFRACTION18R161 - 170
19X-RAY DIFFRACTION19S161 - 170
20X-RAY DIFFRACTION20T161 - 170
21X-RAY DIFFRACTION21U161 - 170
22X-RAY DIFFRACTION22V161 - 170
23X-RAY DIFFRACTION23W161 - 170
24X-RAY DIFFRACTION24X161 - 170
25X-RAY DIFFRACTION25Y161 - 170
26X-RAY DIFFRACTION26Z161 - 170
27X-RAY DIFFRACTION27a161 - 170
28X-RAY DIFFRACTION28b161 - 170
29X-RAY DIFFRACTION29c161 - 170
30X-RAY DIFFRACTION30d161 - 170
31X-RAY DIFFRACTION31e181 - 190
32X-RAY DIFFRACTION32f181 - 190
33X-RAY DIFFRACTION33g181 - 190
34X-RAY DIFFRACTION34h181 - 190
35X-RAY DIFFRACTION35i181 - 190
36X-RAY DIFFRACTION36j181 - 190
37X-RAY DIFFRACTION37k181 - 190
38X-RAY DIFFRACTION38l181 - 190
39X-RAY DIFFRACTION39m181 - 190
40X-RAY DIFFRACTION40n181 - 190
41X-RAY DIFFRACTION41o181 - 190
42X-RAY DIFFRACTION42p181 - 190
43X-RAY DIFFRACTION43q181 - 190
44X-RAY DIFFRACTION44r181 - 190
45X-RAY DIFFRACTION45s181 - 190

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万見について

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お知らせ

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2022年2月9日: EMDBエントリの付随情報ファイルのフォーマットが新しくなりました

EMDBエントリの付随情報ファイルのフォーマットが新しくなりました

  • EMDBのヘッダファイルのバージョン3が、公式のフォーマットとなりました。
  • これまでは公式だったバージョン1.9は、アーカイブから削除されます。

関連情報:EMDBヘッダ

外部リンク:wwPDBはEMDBデータモデルのバージョン3へ移行します

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2020年8月12日: 新型コロナ情報

新型コロナ情報

URL: https://pdbjlvh1.pdbj.org/emnavi/covid19.php

新ページ: EM Navigatorに新型コロナウイルスの特設ページを開設しました。

関連情報:Covid-19情報 / 2020年3月5日: 新型コロナウイルスの構造データ

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2020年3月5日: 新型コロナウイルスの構造データ

新型コロナウイルスの構造データ

関連情報:万見生物種 / 2020年8月12日: 新型コロナ情報

外部リンク:COVID-19特集ページ - PDBj / 今月の分子2020年2月：コロナウイルスプロテーアーゼ

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2019年1月31日: EMDBのIDの桁数の変更

EMDBのIDの桁数の変更

  • EMDBエントリに付与されているアクセスコード(EMDB-ID)は4桁の数字(例、EMD-1234)でしたが、間もなく枯渇します。これまでの4桁のID番号は4桁のまま変更されませんが、4桁の数字を使い切った後に発行されるIDは5桁以上の数字(例、EMD-12345)になります。5桁のIDは2019年の春頃から発行される見通しです。
  • EM Navigator/万見では、接頭語「EMD-」は省略されています。

関連情報:Q: 「EMD」とは何ですか？ / 万見/EM NavigatorにおけるID/アクセスコードの表記

外部リンク:EMDB Accession Codes are Changing Soon! / PDBjへお問い合わせ

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2017年7月12日: PDB大規模アップデート

PDB大規模アップデート

  • 新バージョンのPDBx/mmCIF辞書形式に基づくデータがリリースされました。
  • 今回の更新はバージョン番号が4から5になる大規模なもので、全エントリデータの書き換えが行われる「Remediation」というアップデートに該当します。
  • このバージョンアップで、電子顕微鏡の実験手法に関する多くの項目の書式が改定されました(例：em_softwareなど)。
  • EM NavigatorとYorodumiでも、この改定に基づいた表示内容になります。

外部リンク:wwPDB Remediation / OneDepデータ基準に準拠した、より強化された内容のモデル構造ファイルが、PDBアーカイブで公開されました。

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万見 (Yorodumi)

幾万の構造データを、幾万の視点から

  • 万見(Yorodumi)は、EMDB/PDB/SASBDBなどの構造データを閲覧するためのページです。
  • EM Navigatorの詳細ページの後継、Omokage検索のフロントエンドも兼ねています。

関連情報:EMDB / PDB / SASBDB / 3つのデータバンクの比較 / 万見検索 / 2016年8月31日: 新しいEM Navigatorと万見 / 万見文献 / Jmol/JSmol / 機能・相同性情報 / 新しいEM Navigatorと万見の変更点

他の情報も見る