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(-) Description

Title :  BACKBONE 1H, 13C, AND 15N CHEMICAL SHIFT ASSIGNMENTS FOR QFM(Y)F
 
Authors :  L. E. Wong, Y. Li, S. Pillay, K. Pervushin
Date :  02 Aug 11  (Deposition) - 14 Mar 12  (Release) - 14 Mar 12  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
NMR Structure *:  A  (1x)
Keywords :  Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  L. E. Wong, Y. Li, S. Pillay, L. Frolova, K. Pervushin
Selectivity Of Stop Codon Recognition In Translation Termination Is Modulated By Multiple Conformations Of Gts Loop In Erf1
Nucleic Acids Res. 2012
PubMed-ID: 22383581  |  Reference-DOI: 10.1093/NAR/GKS192

(-) Compounds

Molecule 1 - EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System VectorPET
    Expression System Vector TypeVECTOR
    FragmentUNP RESIDUES 1-142
    GeneETF1, ERF1, RF1, SUP45L1
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymEUKARYOTIC RELEASE FACTOR 1, ERF1, PROTEIN CL1, TB3-1

 Structural Features

(-) Chains, Units

  1
NMR Structure (20x)A
NMR Structure * (1x)A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2LGT)

(-) Sites  (0, 0)

(no "Site" information available for 2LGT)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2LGT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2LGT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2LGT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2LGT)

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003605411aENSE00002085161chr5:137878989-137878786204ERF1_HUMAN-00--
1.2aENST000003605412aENSE00002162727chr5:137878625-137878522104ERF1_HUMAN1-29291A:1-2929
1.5ENST000003605415ENSE00000764447chr5:137854556-137854381176ERF1_HUMAN29-88601A:29-8860
1.6aENST000003605416aENSE00001129292chr5:137853389-137853250140ERF1_HUMAN88-134471A:88-13447
1.7bENST000003605417bENSE00001129287chr5:137849395-137849257139ERF1_HUMAN135-181471A:135-144 (gaps)28
1.8aENST000003605418aENSE00001129281chr5:137848643-137848453191ERF1_HUMAN181-244640--
1.9bENST000003605419bENSE00001129277chr5:137847293-137847164130ERF1_HUMAN245-288440--
1.9dENST000003605419dENSE00001129273chr5:137846889-137846734156ERF1_HUMAN288-340530--
1.10ENST0000036054110ENSE00001129268chr5:137846318-13784625465ERF1_HUMAN340-361220--
1.11ENST0000036054111ENSE00001129265chr5:137844505-137844358148ERF1_HUMAN362-411500--
1.12bENST0000036054112bENSE00001418290chr5:137844076-1378417882289ERF1_HUMAN411-437270--

(-) Sequences/Alignments

NMR Structure
   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:144
 aligned with ERF1_HUMAN | P62495 from UniProtKB/Swiss-Prot  Length:437

    Alignment length:162
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160  
           ERF1_HUMAN     1 MADDPSAADRNVEIWKIKKLIKSLEAARGNGTSMISLIIPPKDQISRVAKMLADEFGTASNIKSRVNRLSVLGAITSVQQRLKLYNKVPPNGLVVYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLSDDSKFGFIVIDGSGALFGTLQ 162
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhh.........eeeee....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.........eeeeeeeee.....eeeeeeee..................hhhhhhhhhh------------------hh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.2a  PDB: A:1-29       ----------------------------------------------------------Exon 1.6a  PDB: A:88-134 UniProt: 88-134       Exon 1.7b UniProt: 135-181   Transcript 1 (1)
           Transcript 1 (2) ----------------------------Exon 1.5  PDB: A:29-88 UniProt: 29-88                       -------------------------------------------------------------------------- Transcript 1 (2)
                 2lgt A   1 MADDPSAADRNVEIWKIKKLIKSLEAARGNGTSMISLIIPPKDQISRVAKMLADEFGTASNIKSRVNRLSVLGAITSVQQRLKLYNKVPPNGLVVYCGTIVTEEGKEKKVNIDFEPFKPINQFMYFCDNKFHTEALTALLSD------------------LE 144
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140 |       -         -| 
                                                                                                                                                                       142                143 

   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  (0, 0)

(no "SCOP Domain" information available for 2LGT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2LGT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2LGT)

(-) Gene Ontology  (14, 14)

NMR Structure(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)

UniProtKB/Swiss-Prot
        ERF1_HUMAN | P624951dt9 2hst 2ktu 2ktv 2llx 2mq6 2mq9 3e1y 3j5y 3jag 3jah 3jai 4d5n 4d61 5a8l 5lzt 5lzu 5lzv

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