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(-) Description

Title :  STRUCTURE OF THE 16S RRNA METHYLASE RMTB, I222
 
Authors :  E. Schmitt, M. Galimand, M. Panvert, M. Dupechez, P. Courvalin, Y. Mechulam
Date :  08 Jan 09  (Deposition) - 11 Aug 09  (Release) - 02 Mar 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Methyltransferase Domain, N-Terminal Helical Domain, Methyltransferase, Plasmid, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Schmitt, M. Galimand, M. Panvert, P. Courvalin, Y. Mechulam
Structural Bases For 16 S Rrna Methylation Catalyzed By Arma And Rmtb Methyltransferases
J. Mol. Biol. V. 388 570 2009
PubMed-ID: 19303884  |  Reference-DOI: 10.1016/J.JMB.2009.03.034

(-) Compounds

Molecule 1 - 16S RRNA METHYLASE
    Chains: A
    EC Number: 2.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21-ROSETTA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: RMTB
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: RMTB, 16S RIBOSOMAL RNA METHYLASE, RMTB PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1SAH1Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:26 , ILE A:52 , CYS A:53 , SER A:83 , ARG A:87 , ALA A:111 , CYS A:112 , ASP A:131 , ILE A:132 , GLN A:156 , ASP A:157 , VAL A:158 , PHE A:173 , LYS A:174 , HOH A:368 , HOH A:375 , HOH A:396 , HOH A:401 , HOH A:402BINDING SITE FOR RESIDUE SAH A 260

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3FRI)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3FRI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3FRI)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3FRI)

(-) Exons   (0, 0)

(no "Exon" information available for 3FRI)

(-) 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:241
 aligned with Q763K9_ECOLX | Q763K9 from UniProtKB/TrEMBL  Length:251

    Alignment length:250
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251
         Q763K9_ECOLX     2 NINDALTSILASKKYRALCPDTVRRILTEEWGRHKSPKQTVEAARTRLHGICGAYVTPESLKAAAAALSAGDVKKALSLHASTKERLAELDTLYDFIFSAETPRRVLDIACGLNPLALYERGIASVWGCDIHQGLGDVITPFAREKDWDFTFALQDVLCAPPAEAGDLALIFKLLPLLEREQAGSAMALLQSLNTPRMAVSFPTRSLGGRGKGMEANYAAWFEGGLPAEFEIEDKKTIGTELIYLIKKNG 251
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3friA01 A:2-55                                         3friA02 A:57-251 Vaccinia Virus protein VP39                                                                                                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh......hhhhhhhhhhhhhh...hhhhhhhhhhhhhhh....-.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee....hhhhhhh....eeeeee.hhhhhhhhhhhhhhh..eeeeee.............eeeee.hhhhhhhhh.hhhhhhhhhh...eeeeeee...--------..hhhhhhhhhh...eeeeeeeee..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fri A   2 NINDALTSILASKKYRALCPDTVRRILTEEWGRHKSPKQTVEAARTRLHGICGA-VTPESLKAAAAALSAGDVKKALSLHASTKERLAELDTLYDFIFSAETPRRVLDIACGLNPLALYERGIASVWGCDIHQGLGDVITPFAREKDWDFTFALQDVLCAPPAEAGDLALIFKLLPLLEREQAGSAMALLQSLNTPRMAVSFPTRS--------EANYAAWFEGGLPAEFEIEDKKTIGTELIYLIKKNG 251
                                    11        21        31        41        51   | |  61        71        81        91       101       111       121       131       141       151       161       171       181       191       201     |   -    |  221       231       241       251
                                                                                55 |                                                                                                                                                   207      216                                   
                                                                                  57
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 3FRI)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3FRI)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q763K9_ECOLX | Q763K9)
molecular function
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    GO:0008649    rRNA methyltransferase activity    Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to a nucleoside residue in an rRNA molecule.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.
    GO:0031167    rRNA methylation    The posttranscriptional addition of methyl groups to specific residues in an rRNA molecule.
    GO:0046677    response to antibiotic    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.

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 Related Entries

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

UniProtKB/TrEMBL
        Q763K9_ECOLX | Q763K9: 3b89 3frh

(-) Related Entries Specified in the PDB File

3frh THE SAME PROTEIN IN P 1 21 1
3fzg A HOMOLOGOUS PROTEIN IN C 2 2 21