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(-) Description

Title :  MUTANT STRUCTURE OF METHYLTRANSFERASE FROM STREPTOMYCES HYGROSCOPICUS
 
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 :  2.10
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, 16)

Asymmetric/Biological Unit (5, 16)
No.NameCountTypeFull Name
1CA8Ligand/IonCALCIUM ION
2FE2Ligand/IonFE (III) ION
3HF22Ligand/Ion(2R)-2-HYDROXY-3-PHENYLPROPANOIC ACID
4M722Ligand/Ion(2R,3R)-2-HYDROXY-3-METHOXY-3-PHENYLPROPANOIC ACID
5SAH2Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:166 , GLY A:168 , ARG A:172 , ASP A:189 , ILE A:190 , GLY A:216 , ASP A:217 , ALA A:218 , ARG A:219 , PHE A:239 , MET A:240 , MET A:241 , HOH A:506 , HOH A:525 , HOH A:623 , HOH A:651 , HOH A:748 , HOH A:800 , HOH A:849BINDING SITE FOR RESIDUE SAH A 401
02AC2SOFTWARETRP A:99 , ILE A:132 , CYS A:136 , MET A:240 , HIS A:243 , ASP A:272 , PHE A:291 , HIS A:295 , FE A:403 , HOH A:504 , HOH A:553BINDING SITE FOR RESIDUE M72 A 402
03AC3SOFTWAREHIS A:243 , HIS A:295 , M72 A:402 , HOH A:504 , HOH A:553 , HOH A:903BINDING SITE FOR RESIDUE FE A 403
04AC4SOFTWAREASP A:309 , PHE A:312 , CYS A:319 , LYS A:321 , LYS A:322 , PHE A:334 , HOH A:568 , HOH A:768 , LEU B:305 , LYS B:322 , ALA B:324 , HF2 B:404BINDING SITE FOR RESIDUE HF2 A 404
05AC5SOFTWARELYS A:44BINDING SITE FOR RESIDUE CA A 405
06AC6SOFTWAREARG A:75 , HOH A:647 , HOH A:749BINDING SITE FOR RESIDUE CA A 406
07AC7SOFTWAREASP A:217 , HOH A:778BINDING SITE FOR RESIDUE CA A 407
08AC8SOFTWAREASP A:309 , HOH A:529 , HOH A:768 , HOH A:827 , ASP B:306 , ASP B:309 , HOH B:652BINDING SITE FOR RESIDUE CA A 408
09AC9SOFTWAREARG A:12BINDING SITE FOR RESIDUE CA A 409
10BC1SOFTWARESER B:140 , GLY B:166 , GLY B:168 , ARG B:172 , ASP B:189 , ILE B:190 , GLY B:216 , ASP B:217 , ALA B:218 , ARG B:219 , PHE B:239 , MET B:240 , MET B:241 , HOH B:510 , HOH B:514 , HOH B:681 , HOH B:728BINDING SITE FOR RESIDUE SAH B 401
11BC2SOFTWARETRP B:99 , ILE B:132 , CYS B:136 , MET B:240 , HIS B:243 , ASP B:272 , PHE B:287 , HIS B:295 , FE B:403 , HOH B:699 , HOH B:732 , HOH B:807BINDING SITE FOR RESIDUE M72 B 402
12BC3SOFTWAREHIS B:243 , HIS B:295 , M72 B:402 , HOH B:732 , HOH B:807 , HOH B:816BINDING SITE FOR RESIDUE FE B 403
13BC4SOFTWARELYS A:322 , ALA A:324 , HF2 A:404 , ASP B:309 , PHE B:312 , CYS B:319 , LYS B:321 , LYS B:322 , HOH B:533BINDING SITE FOR RESIDUE HF2 B 404
14BC5SOFTWAREHOH B:662BINDING SITE FOR RESIDUE CA B 405
15BC6SOFTWARELYS B:44 , HOH B:790BINDING SITE FOR RESIDUE CA B 406
16BC7SOFTWARELYS B:123BINDING SITE FOR RESIDUE CA B 407

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4M72)

(-) 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 4M72)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4M72)

(-) Exons   (0, 0)

(no "Exon" information available for 4M72)

(-) 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:333
                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeehhhhhhhh..hhhhhhhhhhhhhh...eeee..eeee..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhh.....eeeee.hhhhhhhh...hhhhhh.eeeee.hhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....hhhhh..hhhhhhhhhhhhh....hhhhhhhhhhhhh.eeeeeee.....eeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m72 A   5 VSEAQARRAVADIFNSTLASSAIGAAWELGALDELRENGKLDVSDFAVRHDLHEPAVVGMFTALASVGIVRREGATVVVGPYFDEANHHRSLFHWLNQGSGELFRRMPQVLPNENRTGKFYQLDAGAISYACREISERYFDPAFWAAVDGLGYTPTTVADLGSGSGERLIQIARRFPGVRGLGVDIADGAIAMAEKEVAAKGFGDQISFVRGDARTIDQVSARGEFAEVDLLTCFMMGHDFWPRENCVQTLRKLRAAFPNVRRFLLGDATRTVGIPDRELPVFTLGFEFGHDMMGEYLPTLDEWDGVFEEGGWRCVKKHAIDSLSVSVVFELE 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   


Chain B from PDB  Type:PROTEIN  Length:333
                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeehhhhhhhh..hhhhhhhhhhhhhh...eeee..eeee..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhh.....eeeee.hhhhhhhh....hhhhh.eeeee.hhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....hhhhh..hhhhhhhhhhhhh....hhhhhhh.......eeeeeee.....eeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m72 B   5 VSEAQARRAVADIFNSTLASSAIGAAWELGALDELRENGKLDVSDFAVRHDLHEPAVVGMFTALASVGIVRREGATVVVGPYFDEANHHRSLFHWLNQGSGELFRRMPQVLPNENRTGKFYQLDAGAISYACREISERYFDPAFWAAVDGLGYTPTTVADLGSGSGERLIQIARRFPGVRGLGVDIADGAIAMAEKEVAAKGFGDQISFVRGDARTIDQVSARGEFAEVDLLTCFMMGHDFWPRENCVQTLRKLRAAFPNVRRFLLGDATRTVGIPDRELPVFTLGFEFGHDMMGEYLPTLDEWDGVFEEGGWRCVKKHAIDSLSVSVVFELE 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)
  - → 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 4M72)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4M72)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4M72)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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  4m72
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  MPPJ_STRHY | Q643C8
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  2.1.1.-
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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 4m6x 4m6y 4m71 4m73 4m74

(-) Related Entries Specified in the PDB File

4kib WILD TYPE PROTEIN
4kic
4kif
4kig
4m6x
4m6y
4m71
4m73
4m74