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(-) Description

Title :  STRUCTURE OF THE NOSIHEPTIDE-RESISTANCE METHYLTRANSFERASE S-ADENOSYL-L-METHIONINE COMPLEX
 
Authors :  H. Yang, Z. Wang, Y. Shen, P. Wang, A. Murchie, Y. Xu
Date :  18 Jun 10  (Deposition) - 21 Jul 10  (Release) - 11 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Nosiheptide, Nosiheptide-Resistance Methyltransferase, 23S Rrna Methyltransferase, Sam, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Yang, Z. Wang, Y. Shen, P. Wang, X. Jia, L. Zhao, P. Zhou, R. Gong, Z. Li Y. Yang, D. Chen, A. I. H. Murchie, Y. Xu
Crystal Structure Of The Nosiheptide-Resistance Methyltransferase Of Streptomyces Actuosus
Biochemistry V. 49 6440 2010
PubMed-ID: 20550164  |  Reference-DOI: 10.1021/BI1005915

(-) Compounds

Molecule 1 - 23S RRNA METHYLTRANSFERASE
    Chains: A, B
    EC Number: 2.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETDUET
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: NSR
    Organism Scientific: STREPTOMYCES ACTUOSUS
    Organism Taxid: 1885
    Synonym: RRNA (ADENOSINE-2'-O-)-METHYLTRANSFERASE, 23S RRNA METHYLASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1SAM2Ligand/IonS-ADENOSYLMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:195 , ASP A:196 , GLY A:218 , SER A:219 , GLU A:220 , GLY A:223 , VAL A:236 , ILE A:238 , MET A:240 , SER A:246 , LEU A:247 , ASN A:248 , VAL A:249 , SER A:252 , HOH A:336 , ARG B:135 , ARG B:165BINDING SITE FOR RESIDUE SAM A 770
2AC2SOFTWAREARG A:135 , ARG A:165 , ASN B:129 , LEU B:195 , ASP B:196 , PHE B:217 , GLY B:218 , SER B:219 , GLU B:220 , GLY B:223 , VAL B:236 , SER B:237 , ILE B:238 , MET B:240 , SER B:246 , LEU B:247 , ASN B:248 , VAL B:249 , SER B:252BINDING SITE FOR RESIDUE SAM B 770

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3NK7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3NK7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3NK7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3NK7)

(-) Exons   (0, 0)

(no "Exon" information available for 3NK7)

(-) 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:265
 aligned with NSHR_STRAS | P52391 from UniProtKB/Swiss-Prot  Length:274

    Alignment length:274
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270    
           NSHR_STRAS     1 MTEPAIITNASDPAVQRIIDVTKHSRASIKTTLIEDTEPLMECIRAGVQFIEVYGSSGTPLDPALLDLCRQREIPVRLIDVSIVNQLFKAERKAKVFGIARVPRPARLADIAERGGDVVVLDGVKIVGNIGAIVRTSLALGAAGIVLVDSDLATIADRRLLRASRGYVFSLPVVLADREEAVSFLRDNDIALMVLDTDGDLGVKDLGDRADRMALVFGSEKGGPSGLFQEASAGTVSIPMLSSTESLNVSVSVGIALHERSARNFAVRRAAAQA 274
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhh.---..eeeeehhhhhhhhhhhh..eeeeeee.....hhhhhhhhhhh...eeeehhhhhh..------..eeeeee.....hhhhhhhhh..eeeee...hhhhhhhhhhhhhhh...eeeee........hhhhhhhh........eeeehhhhhhhhhhh....eeee.....ee.hhhhhh....eeeee......hhhhhhhh..eee..........hhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3nk7 A   1 MTEPAIITNASDPAVQRIIDVTKHS---IKTTLIEDTEPLMECIRAGVQFIEVYGSSGTPLDPALLDLCRQREIPVRLIDVSIVNQL------AKVFGIARVPRPARLADIAERGGDVVVLDGVKIVGNIGAIVRTSLALGAAGIVLVDSDLATIADRRLLRASRGYVFSLPVVLADREEAVSFLRDNDIALMVLDTDGDLGVKDLGDRADRMALVFGSEKGGPSGLFQEASAGTVSIPMLSSTESLNVSVSVGIALHERSARNFAVRRAAAQA 274
                                    10        20    |   30        40        50        60        70        80      |  -   |   100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270    
                                                   25  29                                                        87     94                                                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:267
 aligned with NSHR_STRAS | P52391 from UniProtKB/Swiss-Prot  Length:274

    Alignment length:267
                                    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       
           NSHR_STRAS     5 AIITNASDPAVQRIIDVTKHSRASIKTTLIEDTEPLMECIRAGVQFIEVYGSSGTPLDPALLDLCRQREIPVRLIDVSIVNQLFKAERKAKVFGIARVPRPARLADIAERGGDVVVLDGVKIVGNIGAIVRTSLALGAAGIVLVDSDLATIADRRLLRASRGYVFSLPVVLADREEAVSFLRDNDIALMVLDTDGDLGVKDLGDRADRMALVFGSEKGGPSGLFQEASAGTVSIPMLSSTESLNVSVSVGIALHERSARNFAVRRAA 271
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee....hhhhhhhhhh........eeeeehhhhhhhhhhh...eeeeeee.....hhhhhhhhhhh...eeeehhhhhhhhh.......eeeeee.....hhhhhhhhh..eeeee...hhhhhhhhhhhhhhh...eeeee........hhhhhhhh........eeeehhhhhhhhhhhh...eeee.....ee.hhhhhh....eeeee......hhhhhhhh..eee..........hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3nk7 B   5 AIITNASDPAVQRIIDVTKHSRASIKTTLIEDTEPLMECIRAGVQFIEVYGSSGTPLDPALLDLCRQREIPVRLIDVSIVNQLFKAERKAKVFGIARVPRPARLADIAERGGDVVVLDGVKIVGNIGAIVRTSLALGAAGIVLVDSDLATIADRRLLRASRGYVFSLPVVLADREEAVSFLRDNDIALMVLDTDGDLGVKDLGDRADRMALVFGSEKGGPSGLFQEASAGTVSIPMLSSTESLNVSVSVGIALHERSARNFAVRRAA 271
                                    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
   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  (0, 0)

(no "SCOP Domain" information available for 3NK7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3NK7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3NK7)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (NSHR_STRAS | P52391)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0008173    RNA methyltransferase activity    Catalysis of the transfer of a methyl group from a donor to a nucleoside residue in an RNA molecule.
    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:0001510    RNA methylation    Posttranscriptional addition of a methyl group to either a nucleotide or 2'-O ribose in a polyribonucleotide. Usually uses S-adenosylmethionine as a cofactor.
    GO:0006396    RNA processing    Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
    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/Swiss-Prot
        NSHR_STRAS | P52391: 3nk6

(-) Related Entries Specified in the PDB File

3nk6 NOSIHEPTIDE-RESISTANCE METHYLTRANSFERASE