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Title :   BINDING POSITION OF RIBOSOME RECYCLING FACTOR (RRF) ON THE E. COLI 70S RIBOSOME

Authors :   R. K. Agrawal, M. R. Sharma, M. C. Kiel, G. Hirokawa, T. M. Booth, C. M. Spahn, R. A. Grassucci, A. Kaji, J. Frank

Date :   16 Apr 04 (Deposition) - 15 Jun 04 (Release) - 24 Feb 09 (Revision)

Method :   ELECTRON MICROSCOPY

Resolution :   12.00

Chains :   Asym./Biol. Unit : A,B,C

Keywords :   Rrf Binding Position On The Ribosome (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. K. Agrawal, M. R. Sharma, M. C. Kiel, G. Hirokawa, T. M. Booth, C. M. Spahn, R. A. Grassucci, A. Kaji, J. Frank
Visualization Of Ribosome-Recycling Factor On The Escherichia Coli 70S Ribosome: Functional Implications
Proc. Natl. Acad. Sci. Usa V. 101 8900 2004
PubMed-ID: 15178758 | Reference-DOI: 10.1073/PNAS.0401904101
(for further references see the PDB file header)

Compounds

Molecule 1 - DODECAMER FRAGMENT OF DOUBLE HELIX FROM 23S RRNA
	Chains	:	A
	Fragment	:	APICAL LOOP OF HELIX 43
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Other Details	:	FITTED INTO THE CRYO-EM MAP OF THE 70S RIBOSOME
	Strain	:	MRE600

Molecule 2 - 42-MER FRAGMENT OF DOUBLE HELIX FROM 16S RRNA
	Chains	:	B
	Fragment	:	TOP PORTION OF HELIX 44
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Other Details	:	FITTED INTO THE CRYO-EM MAP OF THE 70S RIBOSOME
	Strain	:	MRE600

Molecule 3 - RIBOSOME RECYCLING FACTOR
	Chains	:	C
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Other Details	:	FITTED INTO THE CRYO-EM MAP OF THE 70S RIBOSOME
	Other Details - Source	:	SEQUENCE TAKEN FROM THERMOTOGA MARITIMA
	Strain	:	MRE600
	Synonym	:	RIBOSOME RELEASING FACTOR; RRF

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

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Chain A from PDB  Type:RNA  Length:12
                                             
                1t1m A 1061 UGGCUUAGAAGC 1072
                                  1070

Chain B from PDB  Type:RNA  Length:42
                                                                           
                1t1m B 1401 GCCCGUCACACCAUGGGAGUAUGACUGGGGUGAAGUCGUAAC 1501
                                  1410      1420|     1489      1499  
                                            1420|                     
                                             1480

Chain C from PDB  Type:PROTEIN  Length:184
 aligned with P84154_ECOLX | P84154 from UniProtKB/TrEMBL  Length:185

    Alignment length:184
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181    
        P84154_ECOLX      2 VNPFIKEAKEKMKRTLEKIEDELRKMRTGKPSPAILEEIKVDYYGVPTPVNQLATISISEERTLVIKPWDKSVLSLIEKAINASDLGLNPINDGNVIRLVFPSPTTEQREKWVKKAKEIVEEGKIAIRNIRREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKKEEIMEF  185
               SCOP domains d1t1mc_ C: 70S ribosome functional complex                                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........................................................................................................................................................................................ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1t1m C    1 VNPFIKEAKEKMKRTLEKIEDELRKMRTGKPSPAILEEIKVDYYGVPTPVNQLATISISEERTLVIKPWDKSVLSLIEKAINASDLGLNPINDGNVIRLVFPSPTTEQREKWVKKAKEIVEEGKIAIRNIRREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKKEEIMEF  184
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

Chain C (P84154_ECOLX | P84154)

biological process
	GO:0006412	translation	The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
	GO:0006415	translational termination	The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code).
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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