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(-) Description

Title :  CRYSTAL STRUCTURE OF TRMJ FROM Z. MOBILIS ZM4
 
Authors :  D. -H. Gu, J. -S. Kim
Date :  09 Aug 16  (Deposition) - 21 Jun 17  (Release) - 21 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.01
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Methyltransferase, Trna, Trmj, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. -H. Gu, M. -Y. Park, J. -S. Kim
An Asymmetric Dimeric Structure Of Trmj Trna Methyltransferase From Zymomonas Mobilis With A Flexible C-Terminal Dimer
Biochem. Biophys. Res. V. 488 407 2017 Commun.
PubMed-ID: 28506829  |  Reference-DOI: 10.1016/J.BBRC.2017.05.068

(-) Compounds

Molecule 1 - TRNA (CYTIDINE/URIDINE-2'-O-)-METHYLTRANSFERASE TRMJ
    Chains: A, B
    EC Number: 2.1.1.200
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TRMJ, ZMO1203
    Organism Scientific: ZYMOMONAS MOBILIS SUBSP. MOBILIS ZM4 ATCC 31821
    Organism Taxid: 264203
    Strain: ATCC 31821 / ZM4 / CP4
    Synonym: TRNA METHYLTRANSFERASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5GRA)

(-) Sites  (0, 0)

(no "Site" information available for 5GRA)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5GRA)

(-) Cis Peptide Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1Trp A:43 -Pro A:44
2Trp B:43 -Pro B:44
3Arg B:86 -Gly B:87
4Gly B:87 -Val B:88
5Glu B:106 -Gly B:107
6Glu B:171 -Pro B:172
7Pro B:173 -Ala B:174
8Ala B:174 -Pro B:175
9Phe B:197 -Pro B:198

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5GRA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5GRA)

(-) Exons   (0, 0)

(no "Exon" information available for 5GRA)

(-) 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:224
                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee...hhhhhhhhhhhhhhh....eeee.........hhhhhhh.hhhhhhhheee.hhhhhh....eeeeee.........eehhhhhhhhhhhh...eeeee.......hhhhhhhh.eeee...hhhhh..hhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gra A   4 AVPAIILVRPQLGENIGKAARAMLNFGLDDLRLVAPRDGWPNPSAGPAASGADRVLQQARVFPTVAEAVADCAHVYATTVRKRGVTKPVMTPEQAAQTIHEQEGGVGILFGPERAGLETDDVALARTIITVPVNPEFSSLNLAQAVILVAYEWSKGQDMEPPAPQEELEAMIGHLENMLDKNGYFFPIPRIPTIKRTLRTLLTKPSWNSMEIRTLRGVLSTLEK 235
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153      |171       181       191       201       211       221       231    
                                                                                                                                                                                      160|                                                                  
                                                                                                                                                                                       169                                                                  


Chain B from PDB  Type:PROTEIN  Length:223
                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee...hhhhhhhhhhhhhhh....eeee.........hhhhhh..hhhhhhh.eee.hhhhhhh...eeeee..........eehhhhhhhhhhhh...eeeee.......hhhhhhh..eee...........hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gra B   4 AVPAIILVRPQLGENIGKAARAMLNFGLDDLRLVAPRDGWPNPSAGPAASGADRVLQQARVFPTVAEAVADCAHVYATTVRKRGVTKPVMTPEQAAQTIHEQEGGVGILFGPERAGLETDDVALARTIITVPVNPEFSSLNLAQAVILVAYEWSKGQTEPPAPQEELEAMIGHLENMLDKNGYFFPIPRIPTIKRTLRTLLTKPSWNSMEIRTLRGVLSTLEK 235
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       172       182       192       202       212       222       232   
                                                                                                                                                                                       161|                                                                
                                                                                                                                                                                        171
   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 5GRA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5GRA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5GRA)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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  Sites
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  Cis Peptide Bonds
    Ala B:174 - Pro B:175   [ RasMol ]  
    Arg B:86 - Gly B:87   [ RasMol ]  
    Glu B:106 - Gly B:107   [ RasMol ]  
    Glu B:171 - Pro B:172   [ RasMol ]  
    Gly B:87 - Val B:88   [ RasMol ]  
    Phe B:197 - Pro B:198   [ RasMol ]  
    Pro B:173 - Ala B:174   [ RasMol ]  
    Trp A:43 - Pro A:44   [ RasMol ]  
    Trp B:43 - Pro B:44   [ RasMol ]  
 

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 Related Entries

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