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(-) Description

Title :  CRYSTAL STRUCTURE OF BURKHOLDERIA XENOVORANS DMRB IN COMPLEX WITH FMN: A CUBIC PROTEIN CAGE FOR REDOX TRANSFER
 
Authors :  T. A. Bobik, D. Cascio, J. Jorda, D. E. Mcnamara, C. Bustos, T. C. Wang, M. T. O. Yeates
Date :  25 Sep 13  (Deposition) - 19 Feb 14  (Release) - 23 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (24x)
Keywords :  Methanopterin, Dihydromethanopterin Reductase, Flavin, Protein Cage, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. E. Mcnamara, D. Cascio, J. Jorda, C. Bustos, T. C. Wang, M. E. Rasche, T. O. Yeates, T. A. Bobik
Structure Of Dihydromethanopterin Reductase, A Cubic Protei Cage For Redox Transfer
J. Biol. Chem. V. 289 8852 2014
PubMed-ID: 24523405  |  Reference-DOI: 10.1074/JBC.M113.522342

(-) Compounds

Molecule 1 - PUTATIVE DIHYDROMETHANOPTERIN REDUCTASE (AFPA)
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET41A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BXENO_B0583, BXE_B2440, DMRB
    Organism Scientific: BURKHOLDERIA XENOVORANS
    Organism Taxid: 266265
    Strain: LB400

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (24x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
2SO44Ligand/IonSULFATE ION
Biological Unit 1 (2, 144)
No.NameCountTypeFull Name
1FMN48Ligand/IonFLAVIN MONONUCLEOTIDE
2SO496Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:23 , GLY A:24 , SER A:25 , GLY A:26 , HIS A:27 , SER A:47 , ALA A:49 , TYR A:57 , ALA A:76 , SER A:77 , THR A:98 , SER A:99 , ASN A:100 , THR A:101 , SER A:110 , ASN A:116 , LYS A:123 , FMN A:202 , HOH A:301 , HOH A:302 , HOH A:303 , HOH A:304 , HOH A:310BINDING SITE FOR RESIDUE FMN A 201
2AC2SOFTWAREGLY A:26 , HIS A:27 , TYR A:57 , GLY A:82 , TYR A:85 , GLN A:120 , LYS A:123 , THR A:138 , GLN A:142 , LEU A:150 , FMN A:201BINDING SITE FOR RESIDUE FMN A 202
3AC3SOFTWAREARG A:65 , ARG A:72 , HOH A:332BINDING SITE FOR RESIDUE SO4 A 203
4AC4SOFTWAREARG A:72 , ASN A:74BINDING SITE FOR RESIDUE SO4 A 204
5AC5SOFTWARELYS A:179 , LEU A:186BINDING SITE FOR RESIDUE SO4 A 205
6AC6SOFTWAREARG A:63 , LYS A:66 , HIS A:67BINDING SITE FOR RESIDUE SO4 A 206

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:95 -Pro A:96

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3WIS)

(-) 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:180
 aligned with Q13QT8_PARXL | Q13QT8 from UniProtKB/TrEMBL  Length:192

    Alignment length:180
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191
         Q13QT8_PARXL    12 FKPDARFAWCVTGSGHLLDESIALALELPRADLFLSAAAEEVLPLYGWALPRLRKHFRVFRDNSASGVPVGMLYHGMYHTVVIAPATSNTVAKCAFGISDTLPTNMYAQAGKQCIPGIVFACDTEPTVVTQSPNEWVELRPRAIELDNVERLSRFEYTTLVRSLDELKAALGERLSTLDL 191
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeee.....hhhhhhhhhhhh..eeeeehhhhhhhhhhhh.hhhhhh....ee......hhhhhhhhhh.eeeeeeeeehhhhhhhhhhh...hhhhhhhhhhhhh...eeeee.....eeeeee..eeeee..hhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3wis A  12 FKPDARFAWCVTGSGHLLDESIALALELPRADLFLSAAAEEVLPLYGWALPRLRKHFRVFRDNSASGVPVGMLYHGMYHTVVIAPATSNTVAKCAFGISDTLPTNMYAQAGKQCIPGIVFACDTEPTVVTQSPNEWVELRPRAIELDNVERLSRFEYTTLVRSLDELKAALGERLSTLDL 191
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191
   Legend:   → Mismatch (orange background)
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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 3WIS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q13QT8_PARXL | Q13QT8)
molecular function
    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:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.

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 Related Entries

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

UniProtKB/TrEMBL
        Q13QT8_PARXL | Q13QT8: 4mwg

(-) Related Entries Specified in the PDB File

4mwg