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(-) Description

Authors :  L. Frolova
Date :  12 Jan 00  (Deposition) - 02 Feb 00  (Release) - 24 Feb 09  (Revision)
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Erf1, Trna Mimicry, Protein Sythesis, Stop Codon Recognition, Peptidyl-Trna Hydrolysis, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  H. Song, P. Mugnier, A. K. Das, H. M. Webb, D. R. Evans, M. F. Tuite, B. A. Hemmings, D. Barford
The Crystal Structure Of Human Eukaryotic Release Factor Erf1--Mechanism Of Stop Codon Recognition And Peptidyl-Trna Hydrolysis.
Cell(Cambridge, Mass. ) V. 100 311 2000
PubMed-ID: 10676813  |  Reference-DOI: 10.1016/S0092-8674(00)80667-4
(for further references see the PDB file header)

(-) Compounds

    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1DT9)

(-) Sites  (0, 0)

(no "Site" information available for 1DT9)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1DT9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1DT9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1DT9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1DT9)

(-) Exons   (10, 10)

Asymmetric/Biological Unit (10, 10)
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength

(-) 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    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:398
 aligned with ERF1_HUMAN | P62495 from UniProtKB/Swiss-Prot  Length:437

    Alignment length:418
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414        
               SCOP domains d1dt9a3 A:5-142 N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1                                              d1dt9a1 A:143-276 Middle domain of eukaryotic peptide chain release factor subunit 1, ERF1                                            d1dt9a2 A:277-422 C-terminal domain of eukaryotic peptide          chain release f           actor subunit 1, ERF1                                 SCOP domains
               CATH domains -----------------------1dt9A01 A:28-132 Translation, Eukaryotic Peptide Chain Release Factor Subunit 1; Chain A, domain 1       ----------1dt9A02 A:143-174,A:198-277     -----------------------1dt9A02 A:143-174,A:198-277  [code=3.30.420.60, no name defined]                1dt9A03 A:278-422  [code=3.30.1330.30, no name defined]                                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhh.......eeeeee....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.........eeeeeeeee.hhh.eeeeeeee.........eeeee....hhhhhhhh....eeeeee.......eeeee..eeeeee................hhhhhhhhhhhh....hhhhhhh...............eeee....hhhhhh..............eee.....hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhh....eeeee..........---------................-----------...hhhhhhhhh.......eeee...hhhhhhhhhh...eeee.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2a  PDB: A:5-29   ----------------------------------------------------------Exon 1.6a  PDB: A:88-134 UniProt: 88-134       Exon 1.7b  PDB: A:135-181 UniProt: 135-181     ---------------------------------------------------------------Exon 1.9b  PDB: A:245-288 UniProt: 245-288  ---------------------------------------------------Exon 1.10 [INCOMPLETE]Exon 1.11  PDB: A:370-411 UniProt: 362-411        ----------- Transcript 1 (1)
           Transcript 1 (2) ------------------------Exon 1.5  PDB: A:29-88 UniProt: 29-88                       --------------------------------------------------------------------------------------------Exon 1.8a  PDB: A:181-244 UniProt: 181-244                      -------------------------------------------Exon 1.9d  PDB: A:288-333 UniProt: 288-340           ----------------------------------------------------------------------Exon 1.12b   Transcript 1 (2)
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324        |-       344       354   |     -     | 374       384       394       404       414        
                                                                                                                                                                                                                                                                                                                                                                  333       343            358         370                                                    

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (3, 3)

Asymmetric/Biological Unit

(-) CATH Domains  (3, 3)

Asymmetric/Biological Unit
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1DT9)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (ERF1_HUMAN | P62495)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0043022    ribosome binding    Interacting selectively and non-covalently with any part of a ribosome.
    GO:0003747    translation release factor activity    Involved in catalyzing the release of a nascent polypeptide chain from a ribosome.
    GO:0016149    translation release factor activity, codon specific    A translation release factor that is specific for one or more particular termination codons; acts at the ribosomal A-site and require polypeptidyl-tRNA at the P-site.
    GO:0008079    translation termination factor activity    Functions in the termination of translation.
biological process
    GO:0000184    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay    The nonsense-mediated decay pathway for nuclear-transcribed mRNAs degrades mRNAs in which an amino-acid codon has changed to a nonsense codon; this prevents the translation of such mRNAs into truncated, and potentially harmful, proteins.
    GO:0006479    protein methylation    The addition of a methyl group to a protein amino acid. A methyl group is derived from methane by the removal of a hydrogen atom.
    GO:0006449    regulation of translational termination    Any process that modulates the frequency, rate or extent of translational termination.
    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.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.


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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

        ERF1_HUMAN | P624952hst 2ktu 2ktv 2lgt 2llx 2mq6 2mq9 3e1y 3j5y 3jag 3jah 3jai 4d5n 4d61 5a8l 5lzt 5lzu 5lzv

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1DT9)