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(-) Description

Title :  ATOMIC RESOLUTION CRYSTAL STRUCTURE OF E.COLI DIHYDRONEOPTERIN ALDOLASE IN COMPLEX WITH NEOPTERIN
 
Authors :  J. Blaszczyk, X. Ji, H. Yan
Date :  12 Dec 06  (Deposition) - 25 Dec 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.07
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (8x)
Keywords :  Dihydroneopterin Aldolase, Dhna, Neopterin, Monapterin, 7, 8- Dihydroneopterin, Drug Design, Atomic Resolution, X-Ray Crystallography, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Blaszczyk, Y. Li, X. Ji, H. Yan
Active Site Architecture Of Dihydroneopterin Aldolase From Escherichia Coli
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DIHYDRONEOPTERIN ALDOLASE
    Chains: A
    EC Number: 4.1.2.25
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET17B
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: FOLB
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: DHNA

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (8x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1NEU1Ligand/IonL-NEOPTERIN
Biological Unit 1 (1, 8)
No.NameCountTypeFull Name
1NEU8Ligand/IonL-NEOPTERIN

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:16 , VAL A:17 , TYR A:18 , GLU A:21 , CYS A:50 , LEU A:51 , SER A:52 , TYR A:53 , LEU A:71 , VAL A:72 , GLU A:73 , LYS A:98 , ALA A:101 , HOH A:145 , HOH A:195 , HOH A:258 , HOH A:320 , HOH A:334BINDING SITE FOR RESIDUE NEU A 131

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O90)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2O90)

 Sequence-Structure Mapping

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2O90)

(-) 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    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:115
 aligned with FOLB_ECOLI | P0AC16 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:115
                                    10        20        30        40        50        60        70        80        90       100       110     
           FOLB_ECOLI     1 MDIVFIEQLSVITTIGVYDWEQTIEQKLVFDIEMAWDNRKAAKSDDVADCLSYADIAETVVSHVEGARFALVERVAEEVAELLLARFNSPWVRIKLSKPGAVARAANVGVIIERG 115
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---FolB-2o90A01 A:4-114                                                                                           - Pfam domains
         Sec.struct. author .eeeeeeeeeeeeee..hhhhhhh.eeeeeeeeeee.hhhhhhhhhhhhh.hhhhhhhhhhhhhh..ee.hhhhhhhhhhhhhhhhh....eeeeee...........eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 2o90 A   1 MDIVFIEQLSVITTIGVYDWEQTIEQKLVFDIEMAWDNRKAAKSDDVADCLSYADIAETVVSHVEGARFALVERVAEEVAELLLARFNSPWVRIKLSKPGAVARAANVGVIIERG 115
                                    10        20        30        40        50        60        70        80        90       100       110
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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 2O90)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2O90)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: THBO-biosyn (64)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (FOLB_ECOLI | P0AC16)
molecular function
    GO:0004150    dihydroneopterin aldolase activity    Catalysis of the reaction: 2-amino-4-hydroxy-6-(D-erythro-1,2,3-trihydroxypropyl)-7,8-dihydropteridine = 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine + glycolaldehyde.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
biological process
    GO:0046656    folic acid biosynthetic process    The chemical reactions and pathways resulting in the formation of folic acid, pteroylglutamic acid.
    GO:0006760    folic acid-containing compound metabolic process    The chemical reactions and pathways involving a folic acid-containing compound, i.e. any of a group of heterocyclic compounds based on the pteroic acid skeleton conjugated with one or more L-glutamic acid or L-glutamate units.
    GO:0046654    tetrahydrofolate biosynthetic process    The chemical reactions and pathways resulting in the formation of tetrahydrofolate, 5,6,7,8-tetrahydrofolic acid, a folate derivative bearing additional hydrogens on the pterin group.

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 Related Entries

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(-) Related Entries Specified in the PDB File

1dhn CRYSTAL STRUCTURE OF S.AUREUS DIHYDRONEOPTERIN ALDOLASE APO FORM
2dhn CRYSTAL STRUCTURE OF S.AUREUS DIHYDRONEOPTERIN ALDOLASE IN COMPLEX WITH 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN
2nm2 CRYSTAL STRUCTURE OF S.AUREUS DIHYDRONEOPTERIN ALDOLASE IN COMPLEX WITH NEOPTERIN
2nm3 CRYSTAL STRUCTURE OF S.AUREUS DIHYDRONEOPTERIN ALDOLASE IN COMPLEX WITH MONAPTERIN
2o9m CRYSTAL STRUCTURE OF E.COLI DIHYDRONEOPTERIN ALDOLASE IN COMPLEX WITH 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN
2oak CRYSTAL STRUCTURE OF E.COLI DIHYDRONEOPTERIN ALDOLASE IN COMPLEX WITH MONAPTERIN