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(-) Description

Title :  MUTANT STRUCTURE OF METHYLTRANSFERASE FROM STREPTOMYCES HYGROSCOPICUS COMPLEXED WITH S-ADENOSYL-L-HOMOCYSTEINE AND METHYLPHENYLPYRUVIC ACID
 
Authors :  Y. C. Liu, X. W. Zou, H. C. Chan, C. J. Huang, T. L. Li
Date :  12 Aug 13  (Deposition) - 25 Jun 14  (Release) - 25 Jun 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Rossmann Fold, Methyltransferase, Sam/Ppy Binding, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. W. Zou, Y. C. Liu, N. S. Hsu, C. J. Huang, S. Y. Lyu, H. C. Chan, C. Y. Chang, H. W. Yeh, K. H. Lin, C. J. Wu, M. D. Tsai, T. L. Li
Structure And Mechanism Of A Nonhaem-Iron Sam-Dependent C-Methyltransferase And Its Engineering To A Hydratase And An O-Methyltransferase
Acta Crystallogr. , Sect. D V. 70 1549 2014
PubMed-ID: 24914966  |  Reference-DOI: 10.1107/S1399004714005239

(-) Compounds

Molecule 1 - METHYLTRANSFERASE MPPJ
    Chains: A, B
    EC Number: 2.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MPPJ
    Mutation: YES
    Organism Scientific: STREPTOMYCES HYGROSCOPICUS
    Organism Taxid: 1912

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 13)

Asymmetric/Biological Unit (5, 13)
No.NameCountTypeFull Name
156D2Ligand/Ion(3R)-2-OXO-3-PHENYLBUTANOIC ACID
2CA5Ligand/IonCALCIUM ION
3FE2Ligand/IonFE (III) ION
4HF22Ligand/Ion(2R)-2-HYDROXY-3-PHENYLPROPANOIC ACID
5SAH2Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:140 , GLY A:166 , GLY A:168 , ARG A:172 , ASP A:189 , ILE A:190 , ALA A:191 , GLY A:216 , ASP A:217 , ALA A:218 , ARG A:219 , PHE A:239 , MET A:240 , MET A:241 , HOH A:521 , HOH A:624BINDING SITE FOR RESIDUE SAH A 401
02AC2SOFTWARETRP A:99 , ARG A:127 , CYS A:136 , MET A:240 , HIS A:243 , ASP A:272 , HIS A:295 , FE A:403 , HOH A:502BINDING SITE FOR RESIDUE 56D A 402
03AC3SOFTWAREHIS A:243 , HIS A:295 , 56D A:402 , HOH A:501 , HOH A:502BINDING SITE FOR RESIDUE FE A 403
04AC4SOFTWAREASP A:309 , PHE A:312 , CYS A:319 , LYS A:321 , LYS A:322 , HOH A:571 , LYS B:322 , HF2 B:404BINDING SITE FOR RESIDUE HF2 A 404
05AC5SOFTWAREASP A:306 , ASP A:309 , ASP B:306 , ASP B:309BINDING SITE FOR RESIDUE CA A 405
06AC6SOFTWARESER A:-1 , HIS A:0 , MET A:1 , SER A:2 , ALA B:204BINDING SITE FOR RESIDUE CA A 406
07AC7SOFTWARESER B:140 , GLY B:166 , GLY B:168 , ARG B:172 , ASP B:189 , ILE B:190 , ALA B:191 , GLY B:216 , ASP B:217 , ALA B:218 , PHE B:239 , MET B:241 , HOH B:517 , HOH B:521 , HOH B:634 , HOH B:637BINDING SITE FOR RESIDUE SAH B 401
08AC8SOFTWARETRP B:99 , ARG B:127 , MET B:240 , HIS B:243 , ASP B:272 , PHE B:287 , PHE B:291 , HIS B:295 , FE B:403 , HOH B:721BINDING SITE FOR RESIDUE 56D B 402
09AC9SOFTWAREHIS B:243 , HIS B:295 , 56D B:402 , HOH B:501 , HOH B:721BINDING SITE FOR RESIDUE FE B 403
10BC1SOFTWARELEU A:305 , LYS A:322 , ALA A:324 , HF2 A:404 , HOH A:553 , ASP B:309 , PHE B:312 , CYS B:319 , VAL B:320 , LYS B:321 , LYS B:322 , HOH B:538BINDING SITE FOR RESIDUE HF2 B 404
11BC2SOFTWAREGLY B:228 , PHE B:230 , HOH B:714BINDING SITE FOR RESIDUE CA B 405
12BC3SOFTWAREGLY B:84 , PRO B:85 , PHE B:87 , ASP B:88BINDING SITE FOR RESIDUE CA B 406
13BC4SOFTWARETYR B:134BINDING SITE FOR RESIDUE CA B 407

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4M6X)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Trp A:246 -Pro A:247
2Trp B:246 -Pro B:247

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4M6X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4M6X)

(-) Exons   (0, 0)

(no "Exon" information available for 4M6X)

(-) 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:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeehhhhhhhhh.hhhhhhhhhhhhhhh..eeee..eeee..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhh.....eeeee.hhhhhhhh.hhhhhhhh.eeeee.hhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....hhhhh..hhhhhhhhhhhhh....hhhhhhh.......eeeeeee.....eeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m6x A  -1 SHMSTEVSEAQARRAVADIFNSTLASSAIGAAWELGALDELRENGKLDVSDFAVRHDLHEPAVVGMFTALASVGIVRREGATVVVGPYFDEANHHRSLFHWLNQGSGELFRRMPQVLPNENRTGKFYQRDAGAISYACREISERYFDPAFWAAVDGLGYTPTTVADLGSGSGERLIQIARRFPGVRGLGVDIADGAIAMAEKEVAAKGFGDQISFVRGDARTIDQVSARGEFAEVDLLTCFMMGHEFWPRENCVQTLRKLRAAFPNVRRFLLGDATRTVGIPDRELPVFTLGFEFGHDMMGVYLPTLDEWDGVFEEGGWRCVKKHAIDSLSVSVVFELE 337
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328         


Chain B from PDB  Type:PROTEIN  Length:333
                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeehhhhhhhhh.hhhhhhhhhhhhhh...eeee..eeee..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhhh....eeeee.hhhhhhhh...hhhhhh.eeeee.hhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....hhhhh..hhhhhhhhhhhhh....hhhhhhh.......eeeeeee.....eeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m6x B   5 VSEAQARRAVADIFNSTLASSAIGAAWELGALDELRENGKLDVSDFAVRHDLHEPAVVGMFTALASVGIVRREGATVVVGPYFDEANHHRSLFHWLNQGSGELFRRMPQVLPNENRTGKFYQRDAGAISYACREISERYFDPAFWAAVDGLGYTPTTVADLGSGSGERLIQIARRFPGVRGLGVDIADGAIAMAEKEVAAKGFGDQISFVRGDARTIDQVSARGEFAEVDLLTCFMMGHEFWPRENCVQTLRKLRAAFPNVRRFLLGDATRTVGIPDRELPVFTLGFEFGHDMMGVYLPTLDEWDGVFEEGGWRCVKKHAIDSLSVSVVFELE 337
                                    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       274       284       294       304       314       324       334
   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  (0, 0)

(no "SCOP Domain" information available for 4M6X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4M6X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4M6X)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        MPPJ_STRHY | Q643C8: 4kib 4kic 4kif 4kig 4m6y 4m71 4m72 4m73 4m74

(-) Related Entries Specified in the PDB File

4kib WILD TYPE PROTEIN
4m6y
4m71
4m72
4m73
4m74