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1L1U
Theor. Model
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Theoretical Model (1.0 MB)
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(1)
Title
:
TERNARY COMPLEX DOCKED IN THE DECODING SITE OF THE 30S RIBOSOMAL SUBUNIT
Authors
:
A. B. Simonson, J. A. Lake
Date
:
20 Feb 02 (Deposition) - 22 Mar 02 (Release) - 22 Mar 02 (Revision)
Method
:
THEORETICAL MODEL
Resolution
:
NOT APPLICABLE
Chains
:
Theor. Model : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,V,X,1,2,3,4,_
#
(
#
: chains that contain no standard or modified protein/DNA/RNA residue)
Keywords
:
Trna, 5'-Stack, Anticodon, Decoding, Elongation, Protein Synthesis, Transorientation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. B. Simonson, J. A. Lake
The Transorientation Hypothesis For Codon Recognition During Protein Synthesis
Nature V. 416 281 2002
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(13, 204)
Info
All Hetero Components
01a: 6-HYDRO-1-METHYLADENOSINE-5'-MONOP... (1MAa)
02a: 2N-METHYLGUANOSINE-5'-MONOPHOSPHAT... (2MGa)
03a: 5-METHYLCYTIDINE-5'-MONOPHOSPHATE (5MCa)
03b: 5-METHYLCYTIDINE-5'-MONOPHOSPHATE (5MCb)
04a: 5-METHYLURIDINE 5'-MONOPHOSPHATE (5MUa)
05a: 7N-METHYL-8-HYDROGUANOSINE-5'-MONO... (7MGa)
06a: 5,6-DIHYDROURIDINE-5'-MONOPHOSPHAT... (H2Ua)
06b: 5,6-DIHYDROURIDINE-5'-MONOPHOSPHAT... (H2Ub)
07a: N2-DIMETHYLGUANOSINE-5'-MONOPHOSPH... (M2Ga)
08a: O2'-METHYLYCYTIDINE-5'-MONOPHOSPHA... (OMCa)
09a: O2'-METHYLGUANOSINE-5'-MONOPHOSPHA... (OMGa)
10a: PSEUDOURIDINE-5'-MONOPHOSPHATE (PSUa)
10b: PSEUDOURIDINE-5'-MONOPHOSPHATE (PSUb)
11a: UNKNOWN ATOM OR ION (UNXa)
11aa: UNKNOWN ATOM OR ION (UNXaa)
11ab: UNKNOWN ATOM OR ION (UNXab)
11ac: UNKNOWN ATOM OR ION (UNXac)
11ad: UNKNOWN ATOM OR ION (UNXad)
11ae: UNKNOWN ATOM OR ION (UNXae)
11af: UNKNOWN ATOM OR ION (UNXaf)
11ag: UNKNOWN ATOM OR ION (UNXag)
11ah: UNKNOWN ATOM OR ION (UNXah)
11ai: UNKNOWN ATOM OR ION (UNXai)
11aj: UNKNOWN ATOM OR ION (UNXaj)
11ak: UNKNOWN ATOM OR ION (UNXak)
11al: UNKNOWN ATOM OR ION (UNXal)
11am: UNKNOWN ATOM OR ION (UNXam)
11an: UNKNOWN ATOM OR ION (UNXan)
11ao: UNKNOWN ATOM OR ION (UNXao)
11ap: UNKNOWN ATOM OR ION (UNXap)
11aq: UNKNOWN ATOM OR ION (UNXaq)
11ar: UNKNOWN ATOM OR ION (UNXar)
11as: UNKNOWN ATOM OR ION (UNXas)
11at: UNKNOWN ATOM OR ION (UNXat)
11au: UNKNOWN ATOM OR ION (UNXau)
11av: UNKNOWN ATOM OR ION (UNXav)
11aw: UNKNOWN ATOM OR ION (UNXaw)
11ax: UNKNOWN ATOM OR ION (UNXax)
11ay: UNKNOWN ATOM OR ION (UNXay)
11az: UNKNOWN ATOM OR ION (UNXaz)
11b: UNKNOWN ATOM OR ION (UNXb)
11ba: UNKNOWN ATOM OR ION (UNXba)
11bb: UNKNOWN ATOM OR ION (UNXbb)
11bc: UNKNOWN ATOM OR ION (UNXbc)
11bd: UNKNOWN ATOM OR ION (UNXbd)
11be: UNKNOWN ATOM OR ION (UNXbe)
11bf: UNKNOWN ATOM OR ION (UNXbf)
11bg: UNKNOWN ATOM OR ION (UNXbg)
11bh: UNKNOWN ATOM OR ION (UNXbh)
11bi: UNKNOWN ATOM OR ION (UNXbi)
11bj: UNKNOWN ATOM OR ION (UNXbj)
11bk: UNKNOWN ATOM OR ION (UNXbk)
11bl: UNKNOWN ATOM OR ION (UNXbl)
11bm: UNKNOWN ATOM OR ION (UNXbm)
11bn: UNKNOWN ATOM OR ION (UNXbn)
11bo: UNKNOWN ATOM OR ION (UNXbo)
11bp: UNKNOWN ATOM OR ION (UNXbp)
11bq: UNKNOWN ATOM OR ION (UNXbq)
11br: UNKNOWN ATOM OR ION (UNXbr)
11bs: UNKNOWN ATOM OR ION (UNXbs)
11bt: UNKNOWN ATOM OR ION (UNXbt)
11bu: UNKNOWN ATOM OR ION (UNXbu)
11bv: UNKNOWN ATOM OR ION (UNXbv)
11bw: UNKNOWN ATOM OR ION (UNXbw)
11bx: UNKNOWN ATOM OR ION (UNXbx)
11by: UNKNOWN ATOM OR ION (UNXby)
11bz: UNKNOWN ATOM OR ION (UNXbz)
11c: UNKNOWN ATOM OR ION (UNXc)
11ca: UNKNOWN ATOM OR ION (UNXca)
11cb: UNKNOWN ATOM OR ION (UNXcb)
11cc: UNKNOWN ATOM OR ION (UNXcc)
11cd: UNKNOWN ATOM OR ION (UNXcd)
11ce: UNKNOWN ATOM OR ION (UNXce)
11cf: UNKNOWN ATOM OR ION (UNXcf)
11cg: UNKNOWN ATOM OR ION (UNXcg)
11ch: UNKNOWN ATOM OR ION (UNXch)
11ci: UNKNOWN ATOM OR ION (UNXci)
11cj: UNKNOWN ATOM OR ION (UNXcj)
11ck: UNKNOWN ATOM OR ION (UNXck)
11cl: UNKNOWN ATOM OR ION (UNXcl)
11cm: UNKNOWN ATOM OR ION (UNXcm)
11cn: UNKNOWN ATOM OR ION (UNXcn)
11co: UNKNOWN ATOM OR ION (UNXco)
11cp: UNKNOWN ATOM OR ION (UNXcp)
11cq: UNKNOWN ATOM OR ION (UNXcq)
11cr: UNKNOWN ATOM OR ION (UNXcr)
11cs: UNKNOWN ATOM OR ION (UNXcs)
11ct: UNKNOWN ATOM OR ION (UNXct)
11cu: UNKNOWN ATOM OR ION (UNXcu)
11cv: UNKNOWN ATOM OR ION (UNXcv)
11cw: UNKNOWN ATOM OR ION (UNXcw)
11cx: UNKNOWN ATOM OR ION (UNXcx)
11cy: UNKNOWN ATOM OR ION (UNXcy)
11cz: UNKNOWN ATOM OR ION (UNXcz)
11d: UNKNOWN ATOM OR ION (UNXd)
11da: UNKNOWN ATOM OR ION (UNXda)
11db: UNKNOWN ATOM OR ION (UNXdb)
11dc: UNKNOWN ATOM OR ION (UNXdc)
11dd: UNKNOWN ATOM OR ION (UNXdd)
11de: UNKNOWN ATOM OR ION (UNXde)
11df: UNKNOWN ATOM OR ION (UNXdf)
11dg: UNKNOWN ATOM OR ION (UNXdg)
11dh: UNKNOWN ATOM OR ION (UNXdh)
11di: UNKNOWN ATOM OR ION (UNXdi)
11dj: UNKNOWN ATOM OR ION (UNXdj)
11dk: UNKNOWN ATOM OR ION (UNXdk)
11dl: UNKNOWN ATOM OR ION (UNXdl)
11dm: UNKNOWN ATOM OR ION (UNXdm)
11dn: UNKNOWN ATOM OR ION (UNXdn)
11do: UNKNOWN ATOM OR ION (UNXdo)
11dp: UNKNOWN ATOM OR ION (UNXdp)
11dq: UNKNOWN ATOM OR ION (UNXdq)
11dr: UNKNOWN ATOM OR ION (UNXdr)
11ds: UNKNOWN ATOM OR ION (UNXds)
11dt: UNKNOWN ATOM OR ION (UNXdt)
11du: UNKNOWN ATOM OR ION (UNXdu)
11dv: UNKNOWN ATOM OR ION (UNXdv)
11dw: UNKNOWN ATOM OR ION (UNXdw)
11dx: UNKNOWN ATOM OR ION (UNXdx)
11dy: UNKNOWN ATOM OR ION (UNXdy)
11dz: UNKNOWN ATOM OR ION (UNXdz)
11e: UNKNOWN ATOM OR ION (UNXe)
11ea: UNKNOWN ATOM OR ION (UNXea)
11eb: UNKNOWN ATOM OR ION (UNXeb)
11ec: UNKNOWN ATOM OR ION (UNXec)
11ed: UNKNOWN ATOM OR ION (UNXed)
11ee: UNKNOWN ATOM OR ION (UNXee)
11ef: UNKNOWN ATOM OR ION (UNXef)
11eg: UNKNOWN ATOM OR ION (UNXeg)
11eh: UNKNOWN ATOM OR ION (UNXeh)
11ei: UNKNOWN ATOM OR ION (UNXei)
11ej: UNKNOWN ATOM OR ION (UNXej)
11ek: UNKNOWN ATOM OR ION (UNXek)
11el: UNKNOWN ATOM OR ION (UNXel)
11em: UNKNOWN ATOM OR ION (UNXem)
11en: UNKNOWN ATOM OR ION (UNXen)
11eo: UNKNOWN ATOM OR ION (UNXeo)
11ep: UNKNOWN ATOM OR ION (UNXep)
11eq: UNKNOWN ATOM OR ION (UNXeq)
11er: UNKNOWN ATOM OR ION (UNXer)
11es: UNKNOWN ATOM OR ION (UNXes)
11et: UNKNOWN ATOM OR ION (UNXet)
11eu: UNKNOWN ATOM OR ION (UNXeu)
11ev: UNKNOWN ATOM OR ION (UNXev)
11ew: UNKNOWN ATOM OR ION (UNXew)
11ex: UNKNOWN ATOM OR ION (UNXex)
11ey: UNKNOWN ATOM OR ION (UNXey)
11ez: UNKNOWN ATOM OR ION (UNXez)
11f: UNKNOWN ATOM OR ION (UNXf)
11fa: UNKNOWN ATOM OR ION (UNXfa)
11fb: UNKNOWN ATOM OR ION (UNXfb)
11fc: UNKNOWN ATOM OR ION (UNXfc)
11fd: UNKNOWN ATOM OR ION (UNXfd)
11fe: UNKNOWN ATOM OR ION (UNXfe)
11ff: UNKNOWN ATOM OR ION (UNXff)
11fg: UNKNOWN ATOM OR ION (UNXfg)
11fh: UNKNOWN ATOM OR ION (UNXfh)
11fi: UNKNOWN ATOM OR ION (UNXfi)
11fj: UNKNOWN ATOM OR ION (UNXfj)
11fk: UNKNOWN ATOM OR ION (UNXfk)
11fl: UNKNOWN ATOM OR ION (UNXfl)
11fm: UNKNOWN ATOM OR ION (UNXfm)
11fn: UNKNOWN ATOM OR ION (UNXfn)
11fo: UNKNOWN ATOM OR ION (UNXfo)
11fp: UNKNOWN ATOM OR ION (UNXfp)
11fq: UNKNOWN ATOM OR ION (UNXfq)
11fr: UNKNOWN ATOM OR ION (UNXfr)
11fs: UNKNOWN ATOM OR ION (UNXfs)
11ft: UNKNOWN ATOM OR ION (UNXft)
11fu: UNKNOWN ATOM OR ION (UNXfu)
11fv: UNKNOWN ATOM OR ION (UNXfv)
11fw: UNKNOWN ATOM OR ION (UNXfw)
11fx: UNKNOWN ATOM OR ION (UNXfx)
11fy: UNKNOWN ATOM OR ION (UNXfy)
11fz: UNKNOWN ATOM OR ION (UNXfz)
11g: UNKNOWN ATOM OR ION (UNXg)
11ga: UNKNOWN ATOM OR ION (UNXga)
11gb: UNKNOWN ATOM OR ION (UNXgb)
11gc: UNKNOWN ATOM OR ION (UNXgc)
11gd: UNKNOWN ATOM OR ION (UNXgd)
11ge: UNKNOWN ATOM OR ION (UNXge)
11gf: UNKNOWN ATOM OR ION (UNXgf)
11h: UNKNOWN ATOM OR ION (UNXh)
11i: UNKNOWN ATOM OR ION (UNXi)
11j: UNKNOWN ATOM OR ION (UNXj)
11k: UNKNOWN ATOM OR ION (UNXk)
11l: UNKNOWN ATOM OR ION (UNXl)
11m: UNKNOWN ATOM OR ION (UNXm)
11n: UNKNOWN ATOM OR ION (UNXn)
11o: UNKNOWN ATOM OR ION (UNXo)
11p: UNKNOWN ATOM OR ION (UNXp)
11q: UNKNOWN ATOM OR ION (UNXq)
11r: UNKNOWN ATOM OR ION (UNXr)
11s: UNKNOWN ATOM OR ION (UNXs)
11t: UNKNOWN ATOM OR ION (UNXt)
11u: UNKNOWN ATOM OR ION (UNXu)
11v: UNKNOWN ATOM OR ION (UNXv)
11w: UNKNOWN ATOM OR ION (UNXw)
11x: UNKNOWN ATOM OR ION (UNXx)
11y: UNKNOWN ATOM OR ION (UNXy)
11z: UNKNOWN ATOM OR ION (UNXz)
12a: WYBUTOSINE (YGa)
13a: ZINC ION (ZNa)
13b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1MA
1
Mod. Nucleotide
6-HYDRO-1-METHYLADENOSINE-5'-MONOPHOSPHATE
2
2MG
1
Mod. Nucleotide
2N-METHYLGUANOSINE-5'-MONOPHOSPHATE
3
5MC
2
Mod. Nucleotide
5-METHYLCYTIDINE-5'-MONOPHOSPHATE
4
5MU
1
Mod. Nucleotide
5-METHYLURIDINE 5'-MONOPHOSPHATE
5
7MG
1
Mod. Nucleotide
7N-METHYL-8-HYDROGUANOSINE-5'-MONOPHOSPHATE
6
H2U
2
Mod. Nucleotide
5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE
7
M2G
1
Mod. Nucleotide
N2-DIMETHYLGUANOSINE-5'-MONOPHOSPHATE
8
OMC
1
Mod. Nucleotide
O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE
9
OMG
1
Mod. Nucleotide
O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE
10
PSU
2
Mod. Nucleotide
PSEUDOURIDINE-5'-MONOPHOSPHATE
11
UNX
188
Ligand/Ion
UNKNOWN ATOM OR ION
12
YG
1
Mod. Residue
WYBUTOSINE
13
ZN
2
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
close Site info
]
SAPs(SNPs)/Variants
(7, 7)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_RS12_THETH_001 (P45S, chain L, )
2: VAR_RS12_THETH_002 (K46R, chain L, )
3: VAR_RS12_THETH_003 (R89C, chain L, )
4: VAR_RS12_THETH_004 (R89H, chain L, )
5: VAR_RS12_THETH_005 (K91E, chain L, )
6: VAR_RS12_THETH_006 (K91R, chain L, )
7: VAR_RS12_THETH_007 (P94L, chain L, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_RS12_THETH_001
*
P
42
S
RS12_THETH
---
---
L
P
45
S
2
UniProt
VAR_RS12_THETH_002
*
K
43
R
RS12_THETH
---
---
L
K
46
R
3
UniProt
VAR_RS12_THETH_003
*
R
86
C
RS12_THETH
---
---
L
R
89
C
4
UniProt
VAR_RS12_THETH_004
*
R
86
H
RS12_THETH
---
---
L
R
89
H
5
UniProt
VAR_RS12_THETH_005
*
K
88
E
RS12_THETH
---
---
L
K
91
E
6
UniProt
VAR_RS12_THETH_006
*
K
88
R
RS12_THETH
---
---
L
K
91
R
7
UniProt
VAR_RS12_THETH_007
*
P
91
L
RS12_THETH
---
---
L
P
94
L
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(22, 22)
Info
All PROSITE Patterns/Profiles
01: RIBOSOMAL_S13_2 (M:4-112)
02: S5_DSRBD (E:6-69,E:6-69)
03: RIBOSOMAL_S2_1 (B:7-18)
04: RIBOSOMAL_S7 (G:20-46)
05: RIBOSOMAL_S14 (N:23-45,N:23-45)
06: RIBOSOMAL_S5 (E:23-55,E:23-55)
07: RIBOSOMAL_S10 (J:27-42,J:27-42)
08: RIBOSOMAL_S18 (R:32-55)
09: KH_TYPE_2 (C:39-107)
10: RIBOSOMAL_S15 (O:39-69,O:39-69)
11: RIBOSOMAL_S12 (L:46-53,L:46-53)
12: RIBOSOMAL_S6 (F:44-53,F:44-53)
13: G_TR_1 (1:51-66)
14: RIBOSOMAL_S19 (S:53-77,S:53-77)
15: RIBOSOMAL_S17 (Q:54-66)
16: RIBOSOMAL_S9 (I:67-85)
17: RIBOSOMAL_S13_1 (M:88-101)
18: RIBOSOMAL_S11 (K:95-117)
19: RIBOSOMAL_S4 (D:97-121)
20: S4 (D:99-161)
21: RIBOSOMAL_S8 (H:108-125)
22: RIBOSOMAL_S3 (C:163-197)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RIBOSOMAL_S13_2
PS50159
Ribosomal protein S13 family profile.
RS13_THET8
4-112
1
M:4-112
2
S5_DSRBD
PS50881
S5 double stranded RNA-binding domain profile.
RS5_THET8
6-69
1
E:6-69
RS5_THETH
6-69
1
E:6-69
3
RIBOSOMAL_S2_1
PS00962
Ribosomal protein S2 signature 1.
RS2_THET8
7-18
1
B:7-18
4
RIBOSOMAL_S7
PS00052
Ribosomal protein S7 signature.
RS7_THET8
20-46
1
G:20-46
5
RIBOSOMAL_S14
PS00527
Ribosomal protein S14 signature.
RS14Z_THET8
23-45
1
N:23-45
RS14Z_THETH
23-45
1
N:23-45
6
RIBOSOMAL_S5
PS00585
Ribosomal protein S5 signature.
RS5_THET8
23-55
1
E:23-55
RS5_THETH
23-55
1
E:23-55
7
RIBOSOMAL_S10
PS00361
Ribosomal protein S10 signature.
RS10_THET8
27-42
1
J:27-42
RS10_THETH
27-42
1
J:27-42
8
RIBOSOMAL_S18
PS00057
Ribosomal protein S18 signature.
RS18_THET8
32-55
1
R:32-55
9
KH_TYPE_2
PS50823
Type-2 KH domain profile.
RS3_THET8
39-107
1
C:39-107
10
RIBOSOMAL_S15
PS00362
Ribosomal protein S15 signature.
RS15_THET8
39-69
1
O:39-69
RS15_THETH
39-69
1
O:39-69
11
RIBOSOMAL_S12
PS00055
Ribosomal protein S12 signature.
RS12_THET8
43-50
1
L:46-53
RS12_THETH
43-50
1
L:46-53
12
RIBOSOMAL_S6
PS01048
Ribosomal protein S6 signature.
RS6_THET8
44-53
1
F:44-53
RS6_THETH
44-53
1
F:44-53
13
G_TR_1
PS00301
Translational (tr)-type guanine nucleotide-binding (G) domain signature.
EFTU_THEAQ
52-67
1
1:51-66
14
RIBOSOMAL_S19
PS00323
Ribosomal protein S19 signature.
RS19_THET8
53-77
1
S:53-77
RS19_THETH
53-77
1
S:53-77
15
RIBOSOMAL_S17
PS00056
Ribosomal protein S17 signature.
RS17_THET8
54-66
1
Q:54-66
16
RIBOSOMAL_S9
PS00360
Ribosomal protein S9 signature.
RS9_THET8
67-85
1
I:67-85
17
RIBOSOMAL_S13_1
PS00646
Ribosomal protein S13 signature.
RS13_THET8
88-101
1
M:88-101
18
RIBOSOMAL_S11
PS00054
Ribosomal protein S11 signature.
RS11_THET8
95-117
1
K:95-117
19
RIBOSOMAL_S4
PS00632
Ribosomal protein S4 signature.
RS4_THET8
97-121
1
D:97-121
20
S4
PS50889
S4 RNA-binding domain profile.
RS4_THET8
99-161
1
D:99-161
21
RIBOSOMAL_S8
PS00053
Ribosomal protein S8 signature.
RS8_THET8
108-125
1
H:108-125
22
RIBOSOMAL_S3
PS00548
Ribosomal protein S3 signature.
RS3_THET8
163-197
1
C:163-197
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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CATH Domains
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all CATH domains
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Pfam Domains
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all PFAM domains
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