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(-) Description

Title :  CRYSTAL STRUCTURE OF THE TWO-SUBUNIT TRNA M1A58 METHYLTRANSFERASE FROM SACCHAROMYCES CEREVISIAE
 
Authors :  Y. Zhu, M. Wang, C. Wang, X. Fan, X. Jiang, M. Teng, X. Li
Date :  13 Nov 15  (Deposition) - 14 Sep 16  (Release) - 14 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Trna, Complex, Methyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Wang, Y. Zhu, C. Wang, X. Fan, X. Jiang, M. Ebrahimi, Z. Qiao, L. Niu, M. Teng, X. Li
Crystal Structure Of The Two-Subunit Trna M(1)A58 Methyltransferase Trm6-Trm61 From Saccharomyces Cerevisiae.
Sci Rep V. 6 32562 2016
PubMed-ID: 27582183  |  Reference-DOI: 10.1038/SREP32562

(-) Compounds

Molecule 1 - TRNA (ADENINE(58)-N(1))-METHYLTRANSFERASE NON-CATALYTIC SUBUNIT TRM6
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: GCD10, TIF33, TRM6, YNL062C, N2422
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: GENERAL CONTROL NON-DEREPRESSIBLE PROTEIN 10,PROTEIN GCD10, TRNA(M1A58)-METHYLTRANSFERASE SUBUNIT TRM6,TRNA(M1A58)MTASE SUBUNIT TRM6
 
Molecule 2 - TRNA (ADENINE(58)-N(1))-METHYLTRANSFERASE CATALYTIC SUBUNIT TRM61
    Chains: B
    EC Number: 2.1.1.220
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: GCD14, TRM61, YJL125C, J0710
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: GENERAL CONTROL NON-DEREPRESSIBLE PROTEIN 14,PROTEIN GCD14, TRNA(M1A58)-METHYLTRANSFERASE SUBUNIT TRM61,TRNA(M1A58)MTASE SUBUNIT TRM61

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 5EQJ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala B:117 -Gly B:118

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5EQJ)

(-) Sequences/Alignments

Asymmetric 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    
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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:333
                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................eeeee.....eeeee.....eee.hhh.eee.hhhh.....eeeeee....eeeee.eeeee..hhhhhhhhhhhhh........hhhhhhhhhhhh......eeeeee...hhhhhhhhhhhhh.........eeeeee......hhhhhhh..hhhhhhhheeeeehhhhhh..hhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhh......eeee...hhhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhh...eeeeeeeeeeeeeee......ee.........eeeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5eqj A  -6 HHHSQDPMNALTTIDFNQHVIVRLPSKNYKIVELKPNTSVSLGKFGAFEVNDIIGYPFGLTFEIYYDIGKVRLLKYFTVEYLSSSNLLQFLIDKGDIQRVLDMSQESMGMLLNLANIQSEGNYLCMDETGGLLVYFLLERMFGGDNESKSKGKVIVIHENEHANLDLLKFANYSEKFIKEHVHTISLLDFFEPPTLQEIQSRFTPLPRALKGGKKNSYYRKLRWYNTQWQILELTGEFLYDGLVMATTLHLPTLVPKLAEKIHGSRPIVCYGQFKETLLELAHTLYSDLRFLAPSILETRCRPYQSIRGKLHPLMTMKGGGGYLMWCHRVIPA 451
                                     3        13        23        33        43        53      ||82   ||  194       204       214       224       234       244       254       264       274       284       294       304       314      |328       338       348       358       368       378       388       398       408       418       428       438       448   
                                                                                             60|    86|                                                                                                                                 321|                                                                                                                             
                                                                                              80    189                                                                                                                                  326                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:319
                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeeeeee..eeeeee.....eeee..eeee.hhh.......eeee...eeeeee..hhhhhhhhh.....hhhhhhhhhhhh......eeeee....hhhhhhhhhhh.eeeeee.hhhhhhhhhhhhhhh......eeeee.hhhhhh.........................eeee...hhhhhhhhhhhh......eeeeeee.hhhhhhhhhhhhhhh..eeeeeeeeeeeeeeeeeee..hhhhhhhhhhhhhhh.........eeeeeee.........eeeeeee......hhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5eqj B   4 NCFSGYKDLIKEGDLTLIWVSRDNIKPVRMHSEEVFNTRYGSFPHKDIIGKPYGSQIAIRTFAFVHVLQPTPELWTLSLPTQIVYTPDSSYIMQRLNCSPHSRVIEAGTGSGSFSHAFARSVGHLFSFEFHHIRYEQALEEFKEHGLIDDNVTITHRDVCQGGFLIKKGDTTSYEFGNNETAASLNANVVFLDLPAPWDAIPHLDSVISVDEKVGLCCFSPCIEQVDKTLDVLEKYGWTDVEMVEIQGRQYESRRQMVRSLNDALERLRDIKRHIKEGDSNYKWKEVTKMEAEIKSHTSYLTFAFKVVNRSRDDEKVNE 376
                                    13        23        33        43        53        63||      78        88|      100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280   ||  337       347       357       367         
                                                                                       64|                88|                                                                                                                                                                                              284|                                            
                                                                                        70                 91                                                                                                                                                                                               332
   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 5EQJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 16)

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  Cis Peptide Bonds
    Ala B:117 - Gly B:118   [ RasMol ]  
 
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  TRM61_YEAST | P46959
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  TRM6_YEAST | P41814
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 Related Entries

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        TRM61_YEAST | P46959: 5erg
        TRM6_YEAST | P41814: 5erg

(-) Related Entries Specified in the PDB File

5erg