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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE METHYLTRANSFERASE CMOA IN COMPLEX WITH A NOVEL SAM DERIVATIVE
 
Authors :  P. Aller, C. M. Lobley, R. T. Byrne, A. A. Antson, D. G. Waterman
Date :  24 Jan 13  (Deposition) - 29 May 13  (Release) - 19 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.73
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Putative Trna Modification Enzyme, Scm-Sah, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. T. Byrne, F. Whelan, P. Aller, L. E. Bird, A. Dowle, C. M. Lobley, Y. Reddivari, J. E. Nettleship, R. J. Owens, A. A. Antson, D. G. Waterma
S-Adenosyl-S-Carboxymethyl-L-Homocysteine: A Novel Cofactor Found In The Putative Trna-Modifying Enzyme Cmoa.
Acta Crystallogr. , Sect. D V. 69 1090 2013
PubMed-ID: 23695253  |  Reference-DOI: 10.1107/S0907444913004939

(-) Compounds

Molecule 1 - TRNA (CMO5U34)-METHYLTRANSFERASE
    Chains: A, B
    EC Number: 2.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: POPINF
    Expression System Strain: K-12 SUBSTR. MG1655
    Expression System Taxid: 511145
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 19-247
    Gene: CMOA, YECO, B1870, JW1859
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: METHYLTRANSFERASE CMOA

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1GEK2Ligand/Ion(2S)-4-[{[(2S,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL}(CARBOXYLATOMETHYL)SULFONIO]-2-AMMONIOBUTANOATE
2MPD2Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:28 , TYR A:39 , GLY A:64 , SER A:66 , ALA A:69 , ASP A:89 , ASN A:90 , SER A:91 , GLY A:116 , ASP A:117 , ILE A:118 , ASN A:132 , PHE A:133 , PHE A:137 , LEU A:138 , ARG A:199 , HOH A:405 , HOH A:408 , HOH A:413 , HOH A:462 , HOH A:541BINDING SITE FOR RESIDUE GEK A 301
2AC2SOFTWAREASN A:41 , GLY B:38 , PHE B:233 , HOH B:430BINDING SITE FOR RESIDUE MPD A 302
3AC3SOFTWAREPHE B:28 , TYR B:39 , GLY B:64 , SER B:66 , ALA B:69 , ASP B:89 , ASN B:90 , SER B:91 , GLY B:116 , ASP B:117 , ILE B:118 , ARG B:119 , ASN B:132 , PHE B:133 , THR B:134 , PHE B:137 , ARG B:199 , HOH B:417 , HOH B:440 , HOH B:442 , HOH B:471BINDING SITE FOR RESIDUE GEK B 301
4AC4SOFTWAREASN A:41 , PHE A:184 , PHE A:233 , SER B:44 , HOH B:421 , HOH B:461BINDING SITE FOR RESIDUE MPD B 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4IWN)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4IWN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IWN)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IWN)

(-) Exons   (0, 0)

(no "Exon" information available for 4IWN)

(-) 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:229
                                                                                                                                                                                                                                                                     
               SCOP domains d4iwna_ A: automated matches                                                                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhh......eeeeee.hhhhhhhhhhhhhh......eeeee..........eeeeeee.hhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh..eeeeeeee..eeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4iwn A  19 TFDERVAEVFPDMIQRSVPGYSNIISMIGMLAERFVQPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRHHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFTLQFLEPSERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDFKRANGYSELEISQKRSMLENVMLTDSVETHKARLHNAGFEHSELWFQCFNFGSLVALKAEDAA 247
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238         


Chain B from PDB  Type:PROTEIN  Length:225
                                                                                                                                                                                                                                                                 
               SCOP domains d4iwnb_ B: automated matches                                                                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhh.......eeeeee.hhhhhhhhhhhhhh......eeeee..........eeeeeee.hhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh...eeeeeeee..eeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4iwn B  20 FDERVAEVFPDMIQRSVPGYSNIISMIGMLAERFVQPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRHHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFTLQFLEPSERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDFKRANGYSELEISQKRSMLENVMLTDSVETHKARLHNAGFEHSELWFQCFNFGSLVALKAE 244
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239
   Legend:   → Mismatch (orange background)
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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, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IWN)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IWN)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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  4iwn
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  CMOA_ECOLI | P76290
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        CMOA_ECOLI | P76290: 4gek

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