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(-) Description

Title :  STRUCTURE OF PURE (N5-CARBOXYAMINOIMIDAZOLE RIBONUCLEOTIDE MUTASE) H59N FROM THE ACIDOPHILIC BACTERIUM ACETOBACTER ACETI, BOUND TO ISOCAIR
 
Authors :  C. M. Starks, T. J. Kappock
Date :  02 Feb 06  (Deposition) - 13 Jun 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (4x)
Keywords :  Acidophile, Pure, Purine Biosynthesis, Isocair, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Z. Constantine, C. M. Starks, C. P. Mill, A. E. Ransome, S. J. Karpowicz, J. A. Francois, R. A. Goodman, T. J. Kappock
Biochemical And Structural Studies Of N(5)-Carboxyaminoimidazole Ribonucleotide Mutase From The Acidophilic Bacterium Acetobacter Aceti.
Biochemistry V. 45 8193 2006
PubMed-ID: 16819818  |  Reference-DOI: 10.1021/BI060465N
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - N5-CARBOXYAMINOIMIDAZOLE RIBONUCLEOTIDE MUTASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-23A(+)
    Expression System Strain: BL21-CODONPLUS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PURE
    Mutation: YES
    Organism Scientific: ACETOBACTER ACETI
    Organism Taxid: 435
    Strain: 1023

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (4x): AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
2ICR1Ligand/Ion(4R)-5-IMINO-1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-4,5-DIHYDRO-1H-IMIDAZOLE-4-CARBOXYLIC ACID
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1CIT4Ligand/IonCITRIC ACID
2ICR4Ligand/Ion(4R)-5-IMINO-1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-4,5-DIHYDRO-1H-IMIDAZOLE-4-CARBOXYLIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:29 , SER A:30 , SER A:32 , ASP A:33 , SER A:57 , ALA A:58 , ASN A:59 , ARG A:60 , ALA A:84 , GLY A:85 , ALA A:88 , HIS A:89 , LEU A:90 , HOH A:1015 , HOH A:1073 , HOH A:1101 , HOH A:1157BINDING SITE FOR RESIDUE ICR A 1001
2AC2SOFTWAREPRO A:125 , GLY B:29 , SER B:30 , ASP B:33 , SER B:57 , ALA B:58 , ASN B:59 , ARG B:60 , ALA B:84 , GLY B:85 , HIS B:89 , LEU B:90 , HOH B:1026 , HOH B:1084 , HOH B:1087BINDING SITE FOR RESIDUE CIT B 1002

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2FWP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2FWP)

(-) Exons   (0, 0)

(no "Exon" information available for 2FWP)

(-) 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:159
 aligned with Q2QJL3_ACEAC | Q2QJL3 from UniProtKB/TrEMBL  Length:182

    Alignment length:159
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169         
         Q2QJL3_ACEAC    20 SAPVVGIIMGSQSDWETMRHADALLTELEIPHETLIVSAHRTPDRLADYARTAAERGLNVIIAGAGGAAHLPGMCAAWTRLPVLGVPVESRALKGMDSLLSIVQMPGGVPVGTLAIGASGAKNAALLAASILALYNPALAARLETWRALQTASVPNSPI 178
               SCOP domains d2fwpa_ A: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)                                                                                      SCOP domains
               CATH domains 2fwpA00 A:20-178  [code=3.40.50.7700, no name defined]                                                                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee.hhhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhh......eeeeee....hhhhhhhhhh...eeeee.......hhhhhhhhhh.......ee...hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fwp A  20 SAPVVGIIMGSQSDWETMRHADALLTELEIPHETLIVSANRTPDRLADYARTAAERGLNVIIAGAGGAAHLPGMCAAWTRLPVLGVPVESRALKGMDSLLSIVQMPGGVPVGTLAIGASGAKNAALLAASILALYNPALAARLETWRALQTASVPNSPI 178
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169         


Chain B from PDB  Type:PROTEIN  Length:161
 aligned with Q2QJL3_ACEAC | Q2QJL3 from UniProtKB/TrEMBL  Length:182

    Alignment length:161
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179 
         Q2QJL3_ACEAC    20 SAPVVGIIMGSQSDWETMRHADALLTELEIPHETLIVSAHRTPDRLADYARTAAERGLNVIIAGAGGAAHLPGMCAAWTRLPVLGVPVESRALKGMDSLLSIVQMPGGVPVGTLAIGASGAKNAALLAASILALYNPALAARLETWRALQTASVPNSPITE 180
               SCOP domains d2fwpb_ B: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)                                                                                        SCOP domains
               CATH domains 2fwpB00 B:20-180  [code=3.40.50.7700, no name defined]                                                                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee.hhhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhh......eeeeeee...hhhhhhhhhh...eeeeee......hhhhhhhhhh.......ee...hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fwp B  20 SAPVVGIIMGSQSDWETMRHADALLTELEIPHETLIVSANRTPDRLADYARTAAERGLNVIIAGAGGAAHLPGMCAAWTRLPVLGVPVESRALKGMDSLLSIVQMPGGVPVGTLAIGASGAKNAALLAASILALYNPALAARLETWRALQTASVPNSPITE 180
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179
   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  (1, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2FWP)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q2QJL3_ACEAC | Q2QJL3)
molecular function
    GO:0034023    5-(carboxyamino)imidazole ribonucleotide mutase activity    Catalysis of the reaction: 5-carboxyamino-1-(5-phospho-D-ribosyl)imidazole = 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate.
    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.
biological process
    GO:0006189    'de novo' IMP biosynthetic process    The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate, by the stepwise assembly of a purine ring on ribose 5-phosphate.
    GO:0006164    purine nucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.

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 Related Entries

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

UniProtKB/TrEMBL
        Q2QJL3_ACEAC | Q2QJL3: 1u11 2fw1 2fw6 2fw7 2fw8 2fw9 2fwa 2fwb 2fwi 2fwj

(-) Related Entries Specified in the PDB File

1u11 WILD-TYPE STRUCTURE