biomedical and healthCAre Data Discovery Index Ecosystem
biomedical and healthCAre Data Discovery Index Ecosystem
| Title: | High-resolution structure of the Escherichia coli ribosome
|
| description: |
Ribosome
|
| privacy: |
not applicable
|
| aggregation: |
instance of dataset
|
| ID: |
PDB:4YBB
|
| refinement: |
curated
|
| keywords: |
RIBOSOME
Protein biosynthesis
ribosomes
RNA
transfer
exit
peptidyl
30S
70S
16S
ribosomal subunit
posttranscriptional modification
posttranslational modification
|
| creators: |
Noeske, J.
Wasserman, M.R.
Terry, D.S.
Altman, R.B.
Blanchard, S.C.
Cate, J.H.
|
| availability: |
available
|
| types: |
structure
|
| authors: |
Noeske, J.
Wasserman, M.R.
Terry, D.S.
Altman, R.B.
Blanchard, S.C.
Cate, J.H.
|
| alternateID: |
doi:10.1038/nsmb.2994
|
| year: |
2015
|
| ID: | pmid:25775265 |
| title: |
High-resolution structure of the Escherichia coli ribosome.
|
| formula: |
C11 H16 N5 O8 P
|
| name: |
1N-METHYLGUANOSINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C10 H22 O6
|
| name: |
PENTAETHYLENE GLYCOL
|
| roles: |
chemical component
|
| formula: |
C11 H16 N5 O7 P
|
| name: |
2-METHYLADENOSINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C11 H16 N5 O8 P
|
| name: |
2N-METHYLGUANOSINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C10 H15 N2 O9 P
|
| name: |
(1S)-1,4-anhydro-1-(3-methyl-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-5-O-phosphono-D-ribitol
|
| roles: |
chemical component
|
| formula: |
C6 H14 N4 O3
|
| name: |
(2S,3R)-2-azanyl-5-carbamimidamido-3-oxidanyl-pentanoic acid
|
| roles: |
chemical component
|
| formula: |
C11 H18 N3 O8 P
|
| name: |
4N,O2'-METHYLCYTIDINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C10 H16 N3 O8 P
|
| name: |
5-METHYLCYTIDINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C10 H15 N2 O9 P
|
| name: |
5-METHYLURIDINE 5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C11 H16 N5 O7 P
|
| name: |
N6-METHYLADENOSINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C10 H14 N5 O7 P
|
| name: |
ADENOSINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C2 H4 O2
|
| name: |
ACETIC ACID
|
| roles: |
chemical component
|
| formula: |
C3 H7 N O2
|
| name: |
ALANINE
|
| roles: |
chemical component
|
| formula: |
C6 H15 N4 O2 1
|
| name: |
ARGININE
|
| roles: |
chemical component
|
| formula: |
C4 H8 N2 O3
|
| name: |
ASPARAGINE
|
| roles: |
chemical component
|
| formula: |
C4 H7 N O4
|
| name: |
ASPARTIC ACID
|
| roles: |
chemical component
|
| formula: |
C9 H14 N3 O8 P
|
| name: |
CYTIDINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C3 H7 N O2 S
|
| name: |
CYSTEINE
|
| roles: |
chemical component
|
| formula: |
C5 H9 N O4 S
|
| name: |
(3R)-3-(methylsulfanyl)-L-aspartic acid
|
| roles: |
chemical component
|
| formula: |
C2 H6 O2
|
| name: |
1,2-ETHANEDIOL
|
| roles: |
chemical component
|
| formula: |
C10 H14 N5 O8 P
|
| name: |
GUANOSINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C11 H17 N5 O8 P 1
|
| name: |
N7-METHYL-GUANOSINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C5 H10 N2 O3
|
| name: |
GLUTAMINE
|
| roles: |
chemical component
|
| formula: |
C5 H9 N O4
|
| name: |
GLUTAMIC ACID
|
| roles: |
chemical component
|
| formula: |
C2 H5 N O2
|
| name: |
GLYCINE
|
| roles: |
chemical component
|
| formula: |
C5 H5 N5 O
|
| name: |
GUANINE
|
| roles: |
chemical component
|
| formula: |
C9 H15 N2 O9 P
|
| name: |
5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C6 H10 N3 O2 1
|
| name: |
HISTIDINE
|
| roles: |
chemical component
|
| formula: |
H2 O
|
| name: |
WATER
|
| roles: |
chemical component
|
| formula: |
C6 H13 N O2
|
| name: |
ISOLEUCINE
|
| roles: |
chemical component
|
| formula: |
C6 H13 N O2
|
| name: |
LEUCINE
|
| roles: |
chemical component
|
| formula: |
C6 H15 N2 O2 1
|
| name: |
LYSINE
|
| roles: |
chemical component
|
| formula: |
C12 H18 N5 O7 P
|
| name: |
6N-DIMETHYLADENOSINE-5'-MONOPHOSHATE
|
| roles: |
chemical component
|
| formula: |
C6 H12 N2 O3
|
| name: |
N5-METHYLGLUTAMINE
|
| roles: |
chemical component
|
| formula: |
C5 H11 N O2 S
|
| name: |
METHIONINE
|
| roles: |
chemical component
|
| formula: |
Mg 2
|
| name: |
MAGNESIUM ION
|
| roles: |
chemical component
|
| formula: |
C6 H14 O2
|
| name: |
(4S)-2-METHYL-2,4-PENTANEDIOL
|
| roles: |
chemical component
|
| formula: |
C10 H16 N3 O8 P
|
| name: |
O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C11 H16 N5 O8 P
|
| name: |
O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C10 H15 N2 O9 P
|
| name: |
O2'-METHYLURIDINE 5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C4 H10 O3
|
| name: |
DI(HYDROXYETHYL)ETHER
|
| roles: |
chemical component
|
| formula: |
C8 H18 O5
|
| name: |
TETRAETHYLENE GLYCOL
|
| roles: |
chemical component
|
| formula: |
C6 H14 O4
|
| name: |
TRIETHYLENE GLYCOL
|
| roles: |
chemical component
|
| formula: |
C9 H11 N O2
|
| name: |
PHENYLALANINE
|
| roles: |
chemical component
|
| formula: |
C5 H9 N O2
|
| name: |
PROLINE
|
| roles: |
chemical component
|
| formula: |
C9 H13 N2 O9 P
|
| name: |
PSEUDOURIDINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C4 H12 N2
|
| name: |
1,4-DIAMINOBUTANE
|
| roles: |
chemical component
|
| formula: |
C3 H7 N O3
|
| name: |
SERINE
|
| roles: |
chemical component
|
| formula: |
C7 H19 N3
|
| name: |
SPERMIDINE
|
| roles: |
chemical component
|
| formula: |
C4 H9 N O3
|
| name: |
THREONINE
|
| roles: |
chemical component
|
| formula: |
C11 H12 N2 O2
|
| name: |
TRYPTOPHAN
|
| roles: |
chemical component
|
| formula: |
C4 H12 N O3 1
|
| name: |
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
|
| roles: |
chemical component
|
| formula: |
C9 H11 N O3
|
| name: |
TYROSINE
|
| roles: |
chemical component
|
| formula: |
C9 H13 N2 O9 P
|
| name: |
URIDINE-5'-MONOPHOSPHATE
|
| roles: |
chemical component
|
| formula: |
C4 H9 N O2
|
| name: |
UNKNOWN
|
| roles: |
chemical component
|
| formula: |
C10 H15 N2 O9 P
|
| name: |
3-METHYLURIDINE-5'-MONOPHOSHATE
|
| roles: |
chemical component
|
| formula: |
C5 H11 N O2
|
| name: |
VALINE
|
| roles: |
chemical component
|
| formula: |
Zn 2
|
| name: |
ZINC ION
|
| roles: |
chemical component
|
| name: |
X-RAY DIFFRACTION
|
| ID: |
pdb:4YBB
|
| ID: |
wwpdb:D_1000207014
|
| accessURL: | https://files.rcsb.org/download/4YBB.xml.gz |
| storedIn: |
Protein Data Bank
|
| qualifier: |
gzip compressed
|
| license: |
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
|
| format: |
PDBML/XML
|
| accessType: |
download
|
| authentication: |
none
|
| authorization: |
none
|
| accessURL: | https://files.rcsb.org/download/4YBB.pdb.gz |
| storedIn: |
Protein Data Bank
|
| qualifier: |
gzip compressed
|
| license: |
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
|
| format: |
PDB Format
|
| accessType: |
download
|
| authentication: |
none
|
| authorization: |
none
|
| accessURL: | https://files.rcsb.org/download/4YBB.cif.gz |
| storedIn: |
Protein Data Bank
|
| qualifier: |
gzip compressed
|
| license: |
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
|
| format: |
PDBx/mmCIF
|
| accessType: |
download
|
| authentication: |
none
|
| authorization: |
none
|
| accessURL: | http://www.rcsb.org/pdb/download/downloadFile.do?fileFormat=FASTA&compression=NO&structureId=4YBB |
| storedIn: |
Protein Data Bank
|
| license: |
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
|
| format: |
FASTA
|
| accessType: |
download
|
| authentication: |
none
|
| authorization: |
none
|
| accessURL: | https://files.rcsb.org/download/4YBB-sf.cif.gz |
| storedIn: |
Protein Data Bank
|
| qualifier: |
gzip compressed
|
| license: |
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
|
| format: |
CIF
|
| accessType: |
download
|
| authentication: |
none
|
| authorization: |
none
|
| accessURL: | https://files.rcsb.org/download/4YBB.pdb1.gz |
| storedIn: |
Protein Data Bank
|
| qualifier: |
gzip compressed
|
| license: |
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
|
| format: |
PDB Format (A)
|
| accessType: |
download
|
| authentication: |
none
|
| authorization: |
none
|
| accessURL: | http://www.rcsb.org/pdb/explore/jmol.do?structureId=4YBB&bionumber=1 |
| storedIn: |
Protein Data Bank
|
| license: |
Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all copyright restrictions and made fully and freely available for both non-commercial and commercial use. Users of the data should attribute the original authors of that structural data. By using the materials available in the PDB archive, the user agrees to abide by the conditions described in the PDB Advisory Notice.
|
| format: |
JSmol
|
| accessType: |
view
|
| authentication: |
none
|
| authorization: |
none
|
| abbreviation: |
wwPDB
|
| homePage: | http://www.wwpdb.org |
| ID: |
SCR:006555
|
| name: |
Worldwide Protein Data Bank
|
| abbreviation: |
PDB
|
| homePage: | http://www.rcsb.org/pdb/ |
| ID: |
SCR:012820
|
| name: |
Protein Data Bank
|
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