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3DEG
Asym. Unit
Info
Asym.Unit (247 KB)
Biol.Unit 1 (239 KB)
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(1)
Title
:
COMPLEX OF ELONGATING ESCHERICHIA COLI 70S RIBOSOME AND EF4(LEPA)-GMPPNP
Authors
:
S. R. Connell, M. Topf, Y. Qin, D. N. Wilson, T. Mielke, P. Fucini, K. H. Ni C. M. T. Spahn
Date
:
10 Jun 08 (Deposition) - 19 Aug 08 (Release) - 16 Apr 14 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
10.90
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K (1x)
Keywords
:
Ribosome, Translation, Lepa, Ef4, Gtp-Binding, Membrane, Nucleotide- Binding, Antibiotic Resistance, Ribonucleoprotein, Ribosomal Protein, Rna-Binding, Rrna-Binding, Trna-Binding, Methylation
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
S. R. Connell, M. Topf, Y. Qin, D. N. Wilson, T. Mielke, P. Fucini, K. H. Nierhaus, C. M. T. Spahn
A New Trna Intermediate Revealed On The Ribosome During Ef4-Mediated Back-Translocation
Nat. Struct. Mol. Biol. V. 15 910 2008
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Hetero Components
(11, 15)
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)
04b: 5-METHYLURIDINE 5'-MONOPHOSPHATE (5MUb)
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: WYBUTOSINE (YGa)
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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
2
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
YG
1
Mod. Residue
WYBUTOSINE
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Sites
(0, 0)
Info
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_RS12_ECOLI_001 (K42R, chain D, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_RS12_ECOLI_001
*
K
43
R
RS12_ECOLI
---
---
D
K
42
R
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: G_TR_1 (C:42-57)
2: RIBOSOMAL_S12 (D:42-49)
3: RIBOSOMAL_L11 (H:126-141)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
G_TR_1
PS00301
Translational (tr)-type guanine nucleotide-binding (G) domain signature.
LEPA_ECOLI
42-57
1
C:42-57
2
RIBOSOMAL_S12
PS00055
Ribosomal protein S12 signature.
RS12_ECOLI
43-50
1
D:42-49
3
RIBOSOMAL_L11
PS00359
Ribosomal protein L11 signature.
RL11_ECOLI
127-142
1
H:126-141
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d3degh1 (H:73-141)
2a: SCOP_d3degd1 (D:1-123)
3a: SCOP_d3degh2 (H:1-72)
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Protein Domains
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Organisms
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Class
:
All alpha proteins
(14657)
Fold
:
DNA/RNA-binding 3-helical bundle
(1299)
Superfamily
:
Ribosomal protein L11, C-terminal domain
(96)
Family
:
Ribosomal protein L11, C-terminal domain
(96)
Protein domain
:
Ribosomal protein L11, C-terminal domain
(96)
Escherichia coli [TaxId: 562]
(29)
1a
d3degh1
H:73-141
Class
:
All beta proteins
(24004)
Fold
:
OB-fold
(1179)
Superfamily
:
Nucleic acid-binding proteins
(590)
Family
:
Cold shock DNA-binding domain-like
(310)
Protein domain
:
Ribosomal protein S12
(61)
Escherichia coli [TaxId: 562]
(25)
2a
d3degd1
D:1-123
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ribosomal L11/L12e N-terminal domain
(53)
Superfamily
:
Ribosomal L11/L12e N-terminal domain
(53)
Family
:
Ribosomal L11/L12e N-terminal domain
(53)
Protein domain
:
Ribosomal protein L11, N-terminal domain
(52)
Escherichia coli [TaxId: 562]
(29)
3a
d3degh2
H:1-72
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
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Chain K
Asymmetric Unit 1
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Asym.Unit (247 KB)
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