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(-) Description

Title :  STRUCTURE OF PHENAZINE ANTIBIOTIC BIOSYNTHESIS PROTEIN WITH SUBSTRATE
 
Authors :  A. K. Bera, V. Atanasova, J. F. Parsons
Date :  15 Dec 09  (Deposition) - 26 May 10  (Release) - 21 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Phenazine, Antibiotic, Biosynthetic Protein, Pdc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. K. Bera, V. Atanasova, S. Gamage, H. Robinson, J. F. Parsons
Structure Of The D-Alanylgriseoluteic Acid Biosynthetic Protein Ehpf, An Atypical Member Of The Anl Superfamily Of Adenylating Enzymes.
Acta Crystallogr. , Sect. D V. 66 664 2010
PubMed-ID: 20516619  |  Reference-DOI: 10.1107/S0907444910008425

(-) Compounds

Molecule 1 - EHPF
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: EHPF
    Organism Common: ERWINIA HERBICOLA
    Organism Scientific: PANTOEA AGGLOMERANS
    Organism Taxid: 549

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1PXC2Ligand/IonPHENAZINE-1,6-DICARBOXYLIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:120 , TYR A:124 , ARG A:127 , PRO A:131 , ARG A:153 , LEU A:157 , PHE A:205 , GLU A:257 , SER A:259 , ARG A:272 , SER A:273 , LEU A:275BINDING SITE FOR RESIDUE PXC A 400
2AC2SOFTWAREARG B:120 , TYR B:124 , ARG B:127 , PRO B:131 , ARG B:153 , PHE B:205 , GLN B:232 , THR B:234 , GLU B:257 , SER B:259BINDING SITE FOR RESIDUE PXC B 400

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3L2K)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Ser A:289 -Pro A:290
2Ser A:340 -Gly A:341
3Gly A:341 -Phe A:342
4Ala B:102 -Pro B:103
5Ser B:289 -Pro B:290

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3L2K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3L2K)

(-) Exons   (0, 0)

(no "Exon" information available for 3L2K)

(-) 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:352
 aligned with Q8GPH0_ENTAG | Q8GPH0 from UniProtKB/TrEMBL  Length:366

    Alignment length:352
                                    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  
         Q8GPH0_ENTAG     3 DYSLEIDAVMKAAQINDTNNFVQALMRWHFSKETGSPFWLGMREQLNFDPIKDVKTINDLRQFSDISHCLRQEPVANLVPQGLPADSHPQVYESGGTTGAPKYVVAYDAWIEALISWRMSGYQHRPGRPSGNTLAAIPTGPHIVGAINKERALRLGGMFFSIDIDPRWVKRSLSEGDTATVRKYTHHLVDQVQNTLMNQDIRFLVTTPPVLRELLKRPEVVLQMKQSLAQITLGGTELNLDEIKFIASEILPDCEFSASYGSTSALGVSRSLLITSESQQVIYDSFSPFITYDVVDSITAQTVEYGERGNVIVTHLSPWAFYPRVAERDTAIRLPGVSGFAGDRLADIEPLK 354
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh.hhhhhhhhhhhhhhh....hhhhhhhhh............hhhhhhh...hhhhhh.hhhhhh....hhhhh..ee...........ee.hhhhhhhhhhhhhh............eee......hhhhhhhhhhhhhh...eee...hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...eeeehhhhhhhhh.hhhhhhhhhhhh.eeee.....hhhhhhhhhhhh....eeeeeeeehhhheeeee..........eee.....eeeeee............eeeeeeeeee..eeeeeeeeeeeeeee.........eeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3l2k A   3 DYSLEIDAVMKAAQINDTNNFVQALMRWHFSKETGSPFWLGMREQLNFDPIKDVKTINDLRQFSDISHCLRQEPVANLVPQGLPADSHPQVYESGGTTGAPKYVVAYDAWIEALISWRMSGYQHRPGRPSGNTLAAIPTGPHIVGAINKERALRLGGMFFSIDIDPRWVKRSLSEGDTATVRKYTHHLVDQVQNTLMNQDIRFLVTTPPVLRELLKRPEVVLQMKQSLAQITLGGTELNLDEIKFIASEILPDCEFSASYGSTSALGVSRSLLITSESQQVIYDSFSPFITYDVVDSITAQTVEYGERGNVIVTHLSPWAFYPRVAERDTAIRLPGVSGFAGDRLADIEPLK 354
                                    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  


Chain B from PDB  Type:PROTEIN  Length:352
 aligned with Q8GPH0_ENTAG | Q8GPH0 from UniProtKB/TrEMBL  Length:366

    Alignment length:352
                                    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  
         Q8GPH0_ENTAG     3 DYSLEIDAVMKAAQINDTNNFVQALMRWHFSKETGSPFWLGMREQLNFDPIKDVKTINDLRQFSDISHCLRQEPVANLVPQGLPADSHPQVYESGGTTGAPKYVVAYDAWIEALISWRMSGYQHRPGRPSGNTLAAIPTGPHIVGAINKERALRLGGMFFSIDIDPRWVKRSLSEGDTATVRKYTHHLVDQVQNTLMNQDIRFLVTTPPVLRELLKRPEVVLQMKQSLAQITLGGTELNLDEIKFIASEILPDCEFSASYGSTSALGVSRSLLITSESQQVIYDSFSPFITYDVVDSITAQTVEYGERGNVIVTHLSPWAFYPRVAERDTAIRLPGVSGFAGDRLADIEPLK 354
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------------------------------------------------AMP-binding-3l2kB01 B:53-324                                                                                                                                                                                                                                                    ------------------------------ Pfam domains (1)
           Pfam domains (2) --------------------------------------------------AMP-binding-3l2kB02 B:53-324                                                                                                                                                                                                                                                    ------------------------------ Pfam domains (2)
         Sec.struct. author .hhhhhhhhhhhhhh.hhhhhhhhhhhhhhh....hhhhhhhhhhh..hhhhhh..hhhhhhh..........hhhhhh..........eeeee.......eeeeehhhhhhhhhhhhhh...........eeee......hhhhhhhhhhhhh....eee...hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.eeeeeehhhhhhhhh.hhhhhhhhhhhh.eeee.....hhhhhhhhhhh.....eeeeeeeehhhheeeee..........eee.....eeeeee............eeeeeeeee....eeeeeeeeeeeeee.........eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3l2k B   3 DYSLEIDAVMKAAQINDTNNFVQALMRWHFSKETGSPFWLGMREQLNFDPIKDVKTINDLRQFSDISHCLRQEPVANLVPQGLPADSHPQVYESGGTTGAPKYVVAYDAWIEALISWRMSGYQHRPGRPSGNTLAAIPTGPHIVGAINKERALRLGGMFFSIDIDPRWVKRSLSEGDTATVRKYTHHLVDQVQNTLMNQDIRFLVTTPPVLRELLKRPEVVLQMKQSLAQITLGGTELNLDEIKFIASEILPDCEFSASYGSTSALGVSRSLLITSESQQVIYDSFSPFITYDVVDSITAQTVEYGERGNVIVTHLSPWAFYPRVAERDTAIRLPGVSGFAGDRLADIEPLK 354
                                    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)
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  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 3L2K)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L2K)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: ANL (32)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8GPH0_ENTAG | Q8GPH0)
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.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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 Related Entries

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UniProtKB/TrEMBL
        Q8GPH0_ENTAG | Q8GPH0: 3hgu 3hgv

(-) Related Entries Specified in the PDB File

3hgu 3hgv