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(-) Description

Title :  XENOBIOTIC REDUCTASE A - C25S VARIANT
 
Authors :  O. Spiegelhauer, H. Dobbek
Date :  23 Dec 09  (Deposition) - 23 Mar 10  (Release) - 26 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Fmn, Flavin, Old-Yellow-Enzyme Family, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Spiegelhauer, S. Mende, F. Dickert, S. H. Knauer, G. M. Ullmann, H. Dobbek
Cysteine As A Modulator Residue In The Active Site Of Xenobiotic Reductase A: A Structural, Thermodynamic And Kinetic Study
J. Mol. Biol. V. 398 66 2010
PubMed-ID: 20206186  |  Reference-DOI: 10.1016/J.JMB.2010.02.044

(-) Compounds

Molecule 1 - XENOBIOTIC REDUCTASE A
    Chains: A
    EC Number: 1.6.99.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: XENA
    Mutation: YES
    Organism Scientific: PSEUDOMONAS PUTIDA
    Organism Taxid: 303
    Strain: 86

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
1BU31Ligand/Ion(R,R)-2,3-BUTANEDIOL
2FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
3SO47Ligand/IonSULFATE ION
Biological Unit 1 (3, 18)
No.NameCountTypeFull Name
1BU32Ligand/Ion(R,R)-2,3-BUTANEDIOL
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
3SO414Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:346 , ALA A:347 , SER A:348 , HOH A:444 , HOH A:446 , HOH A:726BINDING SITE FOR RESIDUE SO4 A 1501
2AC2SOFTWARETYR A:8 , ARG A:18 , HOH A:628 , HOH A:632 , HOH A:703BINDING SITE FOR RESIDUE SO4 A 1502
3AC3SOFTWARELYS A:295 , HOH A:661 , HOH A:843BINDING SITE FOR RESIDUE SO4 A 1503
4AC4SOFTWARETRP A:278 , GLY A:279 , TRP A:302 , HOH A:686BINDING SITE FOR RESIDUE SO4 A 1504
5AC5SOFTWAREASP A:205 , ARG A:209 , ARG A:254 , HOH A:645 , HOH A:761 , HOH A:777 , HOH A:785BINDING SITE FOR RESIDUE SO4 A 1505
6AC6SOFTWAREARG A:111 , ARG A:125 , HOH A:460BINDING SITE FOR RESIDUE SO4 A 1506
7AC7SOFTWAREHIS A:178 , HIS A:181 , TYR A:183 , HOH A:878 , FMN A:1401BINDING SITE FOR RESIDUE SO4 A 1507
8AC8SOFTWAREHIS A:181 , ARG A:231 , SER A:266 , TRP A:302 , FMN A:1401BINDING SITE FOR RESIDUE BU3 A 1508
9AC9SOFTWAREPRO A:22 , PRO A:23 , MET A:24 , SER A:25 , ALA A:57 , GLN A:99 , HIS A:178 , HIS A:181 , ARG A:231 , ALA A:301 , TRP A:302 , GLY A:303 , GLY A:325 , ARG A:326 , TRP A:358 , HOH A:409 , HOH A:567 , HOH A:611 , HOH A:895 , SO4 A:1507 , BU3 A:1508BINDING SITE FOR RESIDUE FMN A 1401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3L67)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3L67)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3L67)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3L67)

(-) Exons   (0, 0)

(no "Exon" information available for 3L67)

(-) 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:358
 aligned with Q3ZDM6_PSEPU | Q3ZDM6 from UniProtKB/TrEMBL  Length:363

    Alignment length:358
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352        
         Q3ZDM6_PSEPU     3 ALFEPYTLKDVTLRNRIAIPPMCQYMAEDGMINDWHHVHLAGLARGGAGLLVVEATAVAPEGRITPGCAGIWSDAHAQAFVPVVQAIKAAGSVPGIQIAHAGRKASANRPWEGDDHIAADDARGWETIAPSAIAFGAHLPKVPREMTLDDIARVKQDFVDAARRARDAGFEWIELHFAHGYLGQSFFSEHSNKRTDAYGGSFENRSRFLLETLAAVREVWPENLPLTARFGVLEYDGRDEQTLEESIELARRFKAGGLDLLSVSVGFTIPDTHIPWGPAFMGPIAERVRREAKLPVTSAWGFGTPQLAEAALQANQLDLVSVGRAHLADPHWAYFAAKELGVEKASWTLPAPYAHWLE 360
               SCOP domains d3l67a_ A: automated matches                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains Oxidored_FMN-3l67A01 A:3-343                                                                                                                                                                                                                                                                                                                         ----------------- Pfam domains
         Sec.struct. author .....eee..eee...eee.............hhhhhhhhhhhhhh...eeeeeeee.hhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhh...hhhhh..............ee..............ee.hhhhhhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhh............hhhhhhhhhhhhhhhhhh.......eeeeeeee....hhhhhhhhhhhhhhhhhhh...eeeeee...............hhhhhhhhhhhhh..eee.....hhhhhhhhhhh....eee.hhhhhhh.hhhhhhhhhh...hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3l67 A   3 ALFEPYTLKDVTLRNRIAIPPMSQYMAEDGMINDWHHVHLAGLARGGAGLLVVEATAVAPEGRITPGCAGIWSDAHAQAFVPVVQAIKAAGSVPGIQIAHAGRKASANRPWEGDDHIAADDTRGWETIAPSAIAFGAHLPKVPREMTLDDIARVKQDFVDAARRARDAGFEWIELHFAHGYLGQSFFSEHSNKRTDAYGGSFDNRSRFLLETLAAVREVWPENLPLTARFGVLEYDGRDEQTLEESIELARRFKAGGLDLLSVSVGFTIPDTNIPWGPAFMGPIAERVRREAKLPVTSAWGFGTPQLAEAALQANQLDLVSVGRAHLADPHWAYFAAKELGVEKASWTLPAPYAHWLE 360
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352
   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, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L67)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: TIM_barrel (694)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q3ZDM6_PSEPU | Q3ZDM6)
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:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q3ZDM6_PSEPU | Q3ZDM6: 3l5l 3l5m 3l65 3l66 3l68 3n14 3n19 4uth 4uti 4utj 4utk 4utl 4utm

(-) Related Entries Specified in the PDB File

3l5l 3l5m 3l65 3l66 3l68