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(-) Description

Title :  CRYSTAL STRUCTURE OF BENZOYLFORMATE DECARBOXYLASE MUTANT T377L/A460Y
 
Authors :  F. H. Andrews, M. J. Mcleish
Date :  30 Sep 13  (Deposition) - 01 Apr 15  (Release) - 01 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.56
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Thdp, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. H. Andrews, M. R. Rogers, C. Wechsler, D. Meyer, K. Tittmann, M. J. Mcleish
Mechanistic And Structural Insight To An Evolved Benzoylformate Decarboxylase With Enhanced Activity Towards Pyruvate
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BENZOYLFORMATE DECARBOXLYASE
    ChainsA
    EC Number4.1.1.7
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET24
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneMDLC
    MutationYES
    Organism ScientificPSEUDOMONAS PUTIDA
    Organism Taxid303
    SynonymBFD, BFDC

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (4x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric Unit (4, 5)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2GOL2Ligand/IonGLYCEROL
3NA1Ligand/IonSODIUM ION
4TZD1Ligand/Ion2-{3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-4-METHYL-2-OXO-2,3-DIHYDRO-1,3-THIAZOL-5-YL}ETHYL TRIHYDROGENDIPHOSPHATE
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GOL8Ligand/IonGLYCEROL
3NA-1Ligand/IonSODIUM ION
4TZD4Ligand/Ion2-{3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-4-METHYL-2-OXO-2,3-DIHYDRO-1,3-THIAZOL-5-YL}ETHYL TRIHYDROGENDIPHOSPHATE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:428 , ASN A:455 , THR A:457 , TZD A:604 , HOH A:710BINDING SITE FOR RESIDUE CA A 601
2AC2SOFTWAREALA A:196 , ARG A:294 , ILE A:296 , ASP A:312 , HOH A:786 , HOH A:1056BINDING SITE FOR RESIDUE GOL A 602
3AC3SOFTWARELEU A:43 , GLN A:443 , GLY A:475 , LEU A:476 , ASP A:477 , HOH A:1036 , HOH A:1113 , HOH A:1129BINDING SITE FOR RESIDUE GOL A 603
4AC4SOFTWAREASN A:23 , PRO A:24 , GLY A:25 , GLU A:47 , HIS A:70 , ASN A:77 , LEU A:377 , SER A:378 , GLY A:401 , LEU A:403 , GLY A:427 , ASP A:428 , GLY A:429 , SER A:430 , TYR A:433 , ASN A:455 , THR A:457 , TYR A:458 , GLY A:459 , TYR A:460 , CA A:601 , HOH A:748 , HOH A:868 , HOH A:879BINDING SITE FOR RESIDUE TZD A 604
5AC5SOFTWAREASN A:117 , LEU A:118 , ARG A:120BINDING SITE FOR RESIDUE NA A 605

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Arg A:120 -Pro A:121
2Ala A:149 -Pro A:150
3Val A:277 -Phe A:278

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MZX)

(-) 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    
   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:525
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh...eeee..hhhhhhhhh......eeee..hhhhhhhhhhhhhhhhh..eeeeeehhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhh........hhhhh......eee...hhhhhhhhhhhhhhhhhh.....eeeeee.hhh....hhhhhhhh..........hhhhhhhhhhhhhhh...eeeehhhhhhh.hhhhhhhhhhhhh..eee...............eeee...hhhhhhhhhh...eeeee....................eeeeee.hhhhhhhh...eeee.hhhhhhhhhhhhh........................hhhhhhhhhhhhh....eeeeehhhhhhhhhhhh.......eee.......hhhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhh............hhhhhhhhh..eeeee.hhhhhhhhhhhhhhh...eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mzx A   2 ASVHGTTYELLRRQGIDTVFGNPGSNELPFLKDFPEDFRYILALQEACVVGIADGYAQASRKPAFINLHSAAGTGNAMGALSNAWNSHSPLIVTAGQQTRAMIGVEALLTNVDAANLPRPLVKWSYEPASAAEVPHAMSRAIHMASMAPQGPVYLSVPYDDWDKDADPQSHHLFDRHVSSSVRLNDQDLDILVKALNSASNPAIVLGPDVDAANANADCVMLAERLKAPVWVAPSAPRCPFPTRHPCFRGLMPAGIAAISQLLEGHDVVLVIGAPVFRYHQYDPGQYLKPGTRLISVTCDPLEAARAPMGDAIVADIGAMASALANLVEESSRQLPTAAPEPAKVDQDAGRLHPETVFDTLNDMAPENAIYLNESLSTTAQMWQRLNMRNPGSYYFCAAGGLGFALPAAIGVQLAEPERQVIAVIGDGSANYSISALWTAAQYNIPTIFVIMNNGTYGYLRWFAGVLEAENVPGLDVPGIDFRALAKGYGVQALKADNLEQLKGSLQEALSAKGPVLIEVSTVSP 526
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521     

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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 4MZX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        MDLC_PSEPU | P209061bfd 1mcz 1pi3 1po7 1q6z 1yno 2fn3 2fwn 2v3w 3f6b 3f6e 3fsj 3fzn 4gg1 4gm0 4gm1 4gm4 4gp9 4gpe 4jd5 4ju8 4ju9 4jua 4jub 4juc 4jud 4juf 4k9k 4k9l 4k9m 4k9n 4k9o 4k9p 4mpj 4mpp 4mpr 4mq5 4qel 5dei 5dgd 5dgt

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4MZX)