Your browser does not support JavaScript or JavaScript is disabled. This site does not function correctly with JavaScript disabled.
Interaction information
Interaction summary
Short label
50S ribosomal protein L5-5S rRNA fragment
Full name
50S ribosomal protein L5 interacts with 5S rRNA fragment
Source database
RCSB PDB ID
Date modified
2011-03-25 21:11:07 JST
Protein information
Short label
50S ribosomal protein L5
Full name
Chain A,B of model 1MJI: 50S ribosomal protein L5
Origin
Thermus thermophilus
NCBI Taxonomy ID
Name
Thermus thermophilus
Synonyms
11 synonym(s).
"Thermus thermophilus" Oshima and Imahori 1974
Flavobacterium thermophilum
Thermua flavus
Thermus aquaticus (SUBSP. FLAVUS)
Thermus aquaticus (SUBSP. THERMOPHILUS)
Thermus aquaticus flavus
Thermus aquaticus subsp. thermophilus
Thermus aquaticus thermophilus
Thermus flavus
Thermus themophilus
Thermus thermophilus (ex Oshima and Imahori 1974) Manaia et al.
Cross references
1 item(s)
UniProt
Sequence
RNA information
Short label
5S rRNA fragment
Full name
Chain C,D of model 1MJI: 5S rRNA fragment
Origin
Escherichia coli
NCBI Taxonomy ID
Name
Escherichia coli
Synonyms
16 synonym(s).
"Bacillus coli" Migula 1895
"Bacterium coli commune" Escherich 1885
"Bacterium coli" (Migula 1895) Lehmann and Neumann 1896
Bacillus coli
Bacterium coli
Bacterium coli commune
Enterococcus coli
Escherchia coli
Escherichia coli (Migula 1895) Castellani and Chalmers 1919
Escherichia coli retron Ec107
Escherichia coli retron Ec67
Escherichia coli retron Ec79
Escherichia coli retron Ec86
Eschericia coli
bacterium 10a
bacterium E3
Sequence
Experiments (1)
Experiment 1
perederina-2002
Full name
X-ray diffraction
Detection method
x-ray crystallography (MI:0114)
Term ID
Name
x-ray crystallography
Definition
Analysis of a diffraction pattern generated by a single crystal. X-rays have a wavelength, typically around 1 Angstrom (the diameter of a hydrogen atom). If a narrow parallel beam of X-rays is directed at a sample of a pure protein, most of the X-rays will pass straight through it. A small fraction, however, will be scattered by the atoms in the sample. If the sample is a well-ordered crystal, the scattered waves will reinforce one another at certain points and will appear as diffraction spots when the X-rays are recorded by a suitable detector. The position and intensity of each spot in the X-ray diffraction pattern contain information about the position and nature of the atoms in the crystal. The three-dimensional structure of a large molecule can be deduced from the electron-density map of its crystal. In recent years X-ray diffraction analysis has become increasingly automated, and now the slowest step is likely to be the production of suitable macromolecule crystals. This requires high concentration of very pure macromolecule and empirical searching for the proper crystallisation conditions.
Synonyms
2 synonym(s)
X-ray (PSI-MI-alternate)
x-ray diffraction (PSI-MI-short)
Is-a
2 item(s)
MI:0013
biophysical
MI:0659
experimental feature detection
Host organisms
1 host organism(s)
Origin
Escherichia coli
NCBI Taxonomy ID
Name
Escherichia coli
Synonyms
16 synonym(s).
"Bacillus coli" Migula 1895
"Bacterium coli commune" Escherich 1885
"Bacterium coli" (Migula 1895) Lehmann and Neumann 1896
Bacillus coli
Bacterium coli
Bacterium coli commune
Enterococcus coli
Escherchia coli
Escherichia coli (Migula 1895) Castellani and Chalmers 1919
Escherichia coli retron Ec107
Escherichia coli retron Ec67
Escherichia coli retron Ec79
Escherichia coli retron Ec86
Eschericia coli
bacterium 10a
bacterium E3
Reference
PEREDERINA, Anna, et al. , RNA 2002 Dec;8(12):1548-57
PMID
Title
Detailed analysis of RNA-protein interactions within the bacterial ribosomal protein L5/5S rRNA complex.
Authors
PEREDERINA, Anna, et al.
PEREDERINA, Anna
NEVSKAYA, Natalia
NIKONOV, Oleg
NIKULIN, Alexei
DUMAS, Philippe
YAO, Min
TANAKA, Isao
GARBER, Maria
GONGADZE, George
NIKONOV, Stanislav
Citation
RNA 2002 Dec;8(12):1548-57
References (1)
Reference 1
PEREDERINA, Anna, et al. , RNA 2002 Dec;8(12):1548-57
PMID
Title
Detailed analysis of RNA-protein interactions within the bacterial ribosomal protein L5/5S rRNA complex.
Authors
PEREDERINA, Anna, et al.
PEREDERINA, Anna
NEVSKAYA, Natalia
NIKONOV, Oleg
NIKULIN, Alexei
DUMAS, Philippe
YAO, Min
TANAKA, Isao
GARBER, Maria
GONGADZE, George
NIKONOV, Stanislav
Citation
RNA 2002 Dec;8(12):1548-57
Related articles (1)
Article 1
PEREDERINA, Anna, et al. , RNA 2002 Dec;8(12):1548-57
PMID
Title
Detailed analysis of RNA-protein interactions within the bacterial ribosomal protein L5/5S rRNA complex.
Authors
PEREDERINA, Anna, et al.
PEREDERINA, Anna
NEVSKAYA, Natalia
NIKONOV, Oleg
NIKULIN, Alexei
DUMAS, Philippe
YAO, Min
TANAKA, Isao
GARBER, Maria
GONGADZE, George
NIKONOV, Stanislav
Citation
RNA 2002 Dec;8(12):1548-57
Attributes (3)
Attributes
3 attribute(s)
3d-structure
DETAILED ANALYSIS OF RNA-PROTEIN INTERACTIONS WITHIN THE BACTERIAL RIBOSOMAL PROTEIN L5/5S RRNA COMPLEX
3d-resolution
2.50A
3d-r-factors
working 21.000%, free 28.800%
1MJI
274
P41201
1MJIA:50S ribosomal protein L5
MI:0114
12515387