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(-) Description

Title :  IF2-G2 GDP COMPLEX
 
Authors :  H. Wienk, E. Tishchenko, R. Belardinelli, S. Tomaselli, R. Dongre, R. S G. E. Folkers, C. O. Gualerzi, R. Boelens
Date :  10 Oct 11  (Deposition) - 15 Feb 12  (Release) - 18 Jul 12  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (18x)
NMR Structure *:  A  (1x)
Keywords :  Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Wienk, E. Tishchenko, R. Belardinelli, S. Tomaselli, R. Dongre, R. Spurio, G. E. Folkers, C. O. Gualerzi, R. Boelens
Structural Dynamics Of Bacterial Translation Initiation Factor If2.
J. Biol. Chem. V. 287 10922 2012
PubMed-ID: 22308033  |  Reference-DOI: 10.1074/JBC.M111.333393

(-) Compounds

Molecule 1 - TRANSLATION INITIATION FACTOR IF-2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: PGST
    Fragment: G-DOMAIN REGION RESIDUES 241-414
    Gene: INFB
    Organism Scientific: GEOBACILLUS STEAROTHERMOPHILUS
    Organism Taxid: 1422

 Structural Features

(-) Chains, Units

  1
NMR Structure (18x): A
NMR Structure * (1x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

NMR Structure (1, 1)
No.NameCountTypeFull Name
1GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
NMR Structure * (1, 1)
No.NameCountTypeFull Name
1GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:17 , ASP A:18 , GLY A:20 , LYS A:21 , THR A:22 , THR A:23 , LEU A:24 , ASN A:115 , LYS A:116 , ASP A:118 , LYS A:119 , ALA A:152 , LYS A:153BINDING SITE FOR RESIDUE GDP A 179

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2LKD)

(-) 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:178
 aligned with IF2_GEOSE | P04766 from UniProtKB/Swiss-Prot  Length:741

    Alignment length:178
                                   246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406        
            IF2_GEOSE   237 PEDLVERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDKKITFLDTPGHEAFTTMRARGRQVTDIVILVVAADDGVMPQTVEAINHAKAANVPIIVAINKMDKPEANPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEMEELKANP 414
               SCOP domains d2lkda_ A: automated matches                                                                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeee......hhhhhhh.....................................................eeeeee.....hhhhhhhhhhhhhhh..eeeeee.......hhhhhhhhhhhh..........eeeee......hhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2lkd A   1 GSHMVERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVPIIVAINKMDKPEANPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEMEELKANP 178
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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  (1, 1)

NMR Structure
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

NMR Structure(hide GO term definitions)
Chain A   (IF2_GEOSE | P04766)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    GO:0003924    GTPase activity    Catalysis of the reaction: GTP + H2O = GDP + phosphate.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0003743    translation initiation factor activity    Functions in the initiation of ribosome-mediated translation of mRNA into a polypeptide.
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:0006413    translational initiation    The process preceding formation of the peptide bond between the first two amino acids of a protein. This includes the formation of a complex of the ribosome, mRNA or circRNA, and an initiation complex that contains the first aminoacyl-tRNA.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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  2lkd
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 Related Entries

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

UniProtKB/Swiss-Prot
        IF2_GEOSE | P04766: 1d1n 1z9b 2lkc 2nbg

(-) Related Entries Specified in the PDB File

2lkc
6995