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(-) Description

Title :  STRUCTURAL BASIS OF THE IMPROVEMENT OF CHRR - A MULTI-PURPOSE ENZYME
 
Authors :  S. Poulain, S. Eswaramoorthy, R. Hienerwadel, N. Bremond, M. D. Sylves Y. B. Zhang, D. Van Der Lelie, C. Berthomieu, A. C. Matin
Date :  12 Jul 11  (Deposition) - 30 May 12  (Release) - 30 May 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Biol. Unit 2:  A,B  (1x)
Keywords :  E. Coli Chrr Enzyme, Chromate Bioremediation, Tetramer Role, Improved Mutant Enzymes, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Eswaramoorthy, S. Poulain, R. Hienerwadel, N. Bremond, M. D. Sylvester, Y. B. Zhang, C. Berthomieu, D. Van Der Lelie, A. Mati
Crystal Structure Of Chrr-A Quinone Reductase With The Capacity To Reduce Chromate.
Plos One V. 7 36017 2012
PubMed-ID: 22558308  |  Reference-DOI: 10.1371/JOURNAL.PONE.0036017

(-) Compounds

Molecule 1 - PROTEIN YIEF
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTYB3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: YIEF, B3713, JW3691
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2FMN4Ligand/IonFLAVIN MONONUCLEOTIDE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:13 , ARG A:15 , SER A:18 , PHE A:19 , ASN A:20 , PRO A:81 , GLU A:82 , TYR A:83 , ASN A:84 , TYR A:85 , SER A:117 , MET A:118 , HOH A:231 , HOH A:234 , HOH A:244 , HOH A:245 , TYR B:49 , ARG B:100BINDING SITE FOR RESIDUE FMN A 200
2AC2SOFTWAREASP A:50 , ASP A:52 , HOH A:284 , HOH A:285 , LEU B:14 , HOH B:251BINDING SITE FOR RESIDUE CA A 201
3AC3SOFTWARETYR A:49 , ASP A:96 , ARG A:100 , PHE A:136 , SER B:13 , ARG B:15 , SER B:18 , PHE B:19 , ASN B:20 , PRO B:81 , GLU B:82 , TYR B:83 , ASN B:84 , TYR B:85 , SER B:117 , MET B:118 , HOH B:220 , HOH B:233 , HOH B:255 , HOH B:265BINDING SITE FOR RESIDUE FMN B 200

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3SVL)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Lys A:144 -Pro A:145
2Lys B:144 -Pro B:145

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SVL)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SVL)

(-) Exons   (0, 0)

(no "Exon" information available for 3SVL)

(-) 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:181
 aligned with CHRR_ECOLI | P0AGE6 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:181
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183 
           CHRR_ECOLI     4 KLQVVTLLGSLRKGSFNGMVARTLPKIAPASMEVNALPSIADIPLYDADVQQEEGFPATVEALAEQIRQADGVVIVTPEYNYSVPGGLKNAIDWLSRLPDQPLAGKPVLIQTSSMGVIGGARCQYHLRQILVFLDAMVMNKPEFMGGVIQNKVDPQTGEVIDQGTLDHLTGQLTAFGEFIQ 184
               SCOP domains d3svla_ A: automated matches                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee......hhhhhhhhhhhhh....eeeee..........hhhhhhhh..hhhhhhhhhhhhhh.eeeeee.......hhhhhhhhhhhhh.........eeeeeee......hhhhhhhhhhhhhhh..ee.....eee.hhhh.ee....ee.hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3svl A   4 KLQVVTLLGSLRKGSFNGMVARTLPKIAPASMEVNALPSIADIPLYDADVQQEEGFPATVEALAEQIRQADGVVIVTPEYNYSVPGGLKNAIDWLSRLPDQPLAGKPVLIQTSSMGVIGGARCQYHLRQILVFLDAMVMNKPEFMGGVIQNKVDPQTGEVIDQGTLDHLTGQLTAFGEFIQ 184
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183 


Chain B from PDB  Type:PROTEIN  Length:182
 aligned with CHRR_ECOLI | P0AGE6 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:182
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183  
           CHRR_ECOLI     4 KLQVVTLLGSLRKGSFNGMVARTLPKIAPASMEVNALPSIADIPLYDADVQQEEGFPATVEALAEQIRQADGVVIVTPEYNYSVPGGLKNAIDWLSRLPDQPLAGKPVLIQTSSMGVIGGARCQYHLRQILVFLDAMVMNKPEFMGGVIQNKVDPQTGEVIDQGTLDHLTGQLTAFGEFIQR 185
               SCOP domains d3svlb_ B: automated matches                                                                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee......hhhhhhhhhhhhhh...eeeee..........hhhhhhhh..hhhhhhhhhhhhhh.eeeeee.......hhhhhhhhhhhh..........eeeeeee......hhhhhhhhhhhhhhh..ee.....eee.hhhh.ee....ee.hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3svl B   4 KLQVVTLLGSLRKGSFNGMVARTLPKIAPASMEVNALPSIADIPLYDADVQQEEGFPATVEALAEQIRQADGVVIVTPEYNYSVPGGLKNAIDWLSRLPDQPLAGKPVLIQTSSMGVIGGARCQYHLRQILVFLDAMVMNKPEFMGGVIQNKVDPQTGEVIDQGTLDHLTGQLTAFGEFIQR 185
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183
   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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3SVL)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SVL)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (CHRR_ECOLI | P0AGE6)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    GO:0003955    NAD(P)H dehydrogenase (quinone) activity    Catalysis of the reaction: NAD(P)H + H+ + a quinone = NAD(P)+ + a hydroquinone.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0006805    xenobiotic metabolic process    The chemical reactions and pathways involving a xenobiotic compound, a compound foreign to living organisms. Used of chemical compounds, e.g. a xenobiotic chemical, such as a pesticide.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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