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(-) Description

Title :  CRYSTAL STRUCTURE OF VIOD HYDROXYLASE IN COMPLEX WITH FAD FROM CHROMOBACTERIUM VIOLACEUM. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET CVR158
 
Authors :  F. Forouhar, H. Neely, J. Seetharaman, H. Janjua, R. Xiao, M. Maglaqui, H. Wang, M. C. Baran, T. B. Acton, G. T. Montelione, J. F. Hunt, L. Tong, Northeast Structural Genomics Consortium (Nesg)
Date :  29 Jan 08  (Deposition) - 05 Feb 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha-Beta Protein, Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Antibiotic Biosynthesis, Fad, Flavoprotein, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Forouhar, H. Neely, J. Seetharaman, H. Janjua, R. Xiao, M. Maglaqui, H. Wang, M. C. Baran, T. B. Acton, G. T. Montelione, J. F. Hunt, L. Tong
Crystal Structure Of Viod Hydroxylase In Complex With Fad From Chromobacterium Violaceum.
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROBABLE TRYPTOPHAN HYDROXYLASE VIOD
    Chains: A
    EC Number: 1.-.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21
    Expression System Strain: BL21(DE3)+MAGIC
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: VIOD, CV_3271
    Organism Scientific: CHROMOBACTERIUM VIOLACEUM ATCC 12472
    Organism Taxid: 243365
    Strain: DSM 30191 / IFO 12614 / JCM 1249 / NCIB 9131

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric/Biological Unit (2, 9)
No.NameCountTypeFull Name
1FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
2MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:6 , GLY A:7 , GLY A:9 , PRO A:10 , ALA A:11 , GLU A:32 , LYS A:33 , ASN A:34 , VAL A:44 , VAL A:45 , ARG A:97 , LEU A:121 , LEU A:122 , ALA A:138 , ASN A:139 , GLY A:140 , ASN A:142 , TYR A:163 , TRP A:165 , TYR A:192 , ILE A:202 , GLY A:268 , ASP A:269 , PHE A:276 , GLY A:281 , THR A:282 , HOH A:403 , HOH A:404BINDING SITE FOR RESIDUE FAD A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3C4A)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3C4A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3C4A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3C4A)

(-) Exons   (0, 0)

(no "Exon" information available for 3C4A)

(-) 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:365
 aligned with VIOD_CHRVO | Q9S3U8 from UniProtKB/Swiss-Prot  Length:373

    Alignment length:371
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370 
           VIOD_CHRVO     1 MKILVIGAGPAGLVFASQLKQARPLWAIDIVEKNDEQEVLGWGVVLPGRPGQHPANPLSYLDAPERLNPQFLEDFKLVHHNEPSLMSTGVLLCGVERRGLVHALRDKCRSQGIAIRFESPLLEHGELPLADYDLVVLANGVNHKTAHFTEALVPQVDYGRNKYIWYGTSQLFDQMNLVFRTHGKDIFIAHAYKYSDTMSTFIVECSEETYARARLGEMSEEASAEYVAKVFQAELGGHGLVSQPGLGWRNFMTLSHDRCHDGKLVLLGDALQSGHFSIGHGTTMAVVVAQLLVKALCTEDGVPAALKRFEERALPLVQLFRGHADNSRVWFETVEERMHLSSAEFVQSFDARRKSLPPMPEALAQNLRYAL 371
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -3c4aA01 A:2-39,A:97-159,A:251-371     ---------------------------------------------------------3c4aA01 A:2-39,A:97-159,A:251-371                              -------------------------------------------------------------------------------------------3c4aA01 A:2-39,A:97-159,A:251-371  [code=3.50.50.60, no name defined]                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhh...eeeee...........eeeee........hhhhhh.hhhhhh.eee..eeeee...eee......eeeeehhhhhhhhhhhhhhh..eee......hhhhhhhhhh.eeee.hhhhhhh...hhhhh...eeeeeeeeeeee......eeeeeeee..eeeeeeeee.....eeeeeeehhhhhhhh.....hhhhhhhhhhhhhhhhhh............eeeee......ee..eee.hhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....------hhhhhhhhh.....hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3c4a A   1 mKILVIGAGPAGLVFASQLKQARPLWAIDIVEKNDEQEVLGWGVVLPGRPGQHPANPLSYLDAPERLNPQFLEDFKLVHHNEPSLmSTGVLLCGVERRGLVHALRDKCRSQGIAIRFESPLLEHGELPLADYDLVVLANGVNHKTAHFTEALVPQVDYGRNKYIWYGTSQLFDQmNLVFRTHGKDIFIAHAYKYSDTmSTFIVECSEETYARARLGEmSEEASAEYVAKVFQAELGGHGLVSQPGLGWRNFmTLSHDRCHDGKLVLLGDALQSGHFSIGHGTTmAVVVAQLLVKALCTEDGVPAALKRFEERALPLVQLFRGHADNSRVWFETVEER------EFVQSFDARRKSLPPmPEALAQNLRYAL 371
                            |       10        20        30        40        50        60        70        80     |  90       100       110       120       130       140       150       160       170    |  180       190       200       210       220       230       240       250 |     260       270       280   |   290       300       310       320       330      |  -   |   350       360       370 
                            |                                                                                   86-MSE                                                                                  175-MSE                198-MSE             218-MSE                           252-MSE                         284-MSE                                              337    344            359-MSE        
                            1-MSE
   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 3C4A)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3C4A)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (VIOD_CHRVO | Q9S3U8)
molecular function
    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:0017000    antibiotic biosynthetic process    The chemical reactions and pathways resulting in the formation of an antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.
    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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  3c4a
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