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(-) Description

Title :  BIOCHEMICAL AND STRUCTURAL ANALYSIS OF THE MOLYBDENUM COFACTOR BIOSYNTHESIS PROTEIN MOBA
 
Authors :  A. Guse, C. E. M. Stevenson, J. Kuper, G. Buchanan, G. Schwarz, R. R. Mendel, D. M. Lawson, T. Palmer
Date :  26 Feb 03  (Deposition) - 08 May 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.74
Chains :  Asym./Biol. Unit :  A
Keywords :  Molybdopterin Nucleotidyl-Transferase, Molybdenum Cofactor Biosynthesis, Gtp-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Guse, C. E. M. Stevenson, J. Kuper, G. Buchanan, G. Schwarz, G. Giordano, A. Magalon, R. R. Mendel, D. M. Lawson, T. Palmer
Biochemical And Structural Analysis Of The Molybdenum Cofactor Biosynthesis Protein Moba
J. Biol. Chem. V. 278 25302 2003
PubMed-ID: 12719427  |  Reference-DOI: 10.1074/JBC.M302639200

(-) Compounds

Molecule 1 - MOLYBDOPTERIN-GUANINE DINUCLEOTIDE BIOSYNTHESIS PROTEIN A
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKK223-3
    Expression System Strain: JM109
    Expression System Taxid: 562
    Expression System Variant: M15[PREP4]
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Other Details: THE FULL LENGTH CONSTRUCT WAS C-TERMINALLY EXTENDED WITH A 7-RESIDUE NICKEL AFFINITY TAG OF SEQUENCE SER-HIS-HIS-HIS-HIS-HIS-HIS.
    Other Details - Source: MUTATION INTRODUCED BY 3-WAY PCR AND VERIFIED BY DNA SEQUENCING
    Strain: JM109
    Synonym: PROTEIN FA
    Variant: M15[PREP4]

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1CIT2Ligand/IonCITRIC ACID
2LI1Ligand/IonLITHIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:57 , CIT A:302 , CIT A:303BINDING SITE FOR RESIDUE LI A 301
2AC2SOFTWAREGLY A:21 , LEU A:22 , ASP A:24 , ARG A:56 , HIS A:57 , ARG A:155 , ARG A:156 , VAL A:157 , MET A:158 , VAL A:159 , ARG A:162 , LI A:301 , CIT A:303 , HOH A:2178 , HOH A:2179BINDING SITE FOR RESIDUE CIT A 302
3AC3SOFTWAREMET A:20 , GLY A:21 , ARG A:56 , HIS A:57 , PRO A:133 , VAL A:157 , MET A:158 , LI A:301 , CIT A:302 , HOH A:2179 , HOH A:2180 , HOH A:2181 , HOH A:2182 , HOH A:2183 , HOH A:2184 , HOH A:2185BINDING SITE FOR RESIDUE CIT A 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1H4D)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1H4D)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1H4D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1H4D)

(-) Exons   (0, 0)

(no "Exon" information available for 1H4D)

(-) 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:188
 aligned with MOBA_ECOLI | P32173 from UniProtKB/Swiss-Prot  Length:194

    Alignment length:188
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183        
           MOBA_ECOLI     4 MTTITGVVLAGGKARRMGGVDKGLLELNGKPLWQHVADALMTQLSHVVVNANRHQEIYQASGLKVIEDSLADYPGPLAGMLSVMQQEAGEWFLFCPCDTPYIPPDLAARLNHQRKDAPVVWVHDGERDHPTIALVNRAIEPLLLEYLQAGERRVMVFMRLAGGHAVDFSDHKDAFVNVNTPEELARWQ 191
               SCOP domains d1h4da_ A: Molybdenum cofactor biosynthesis protein MobA                                                                                                                                     SCOP domains
               CATH domains 1h4dA00 A:4-191 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee...........hhhh.ee..eehhhhhhhhhhhhh..eeee...hhhhhhh....ee........hhhhhhhhhhhhh...eeeeee........hhhhhhhhh.....eeeee....eeeeeeeee..hhhhhhhhhhh...hhhhhhhhh..eeee............hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1h4d A   4 MTTITGVVLAGGKARRMGLVDKGLLELNGKPLWQHVADALMTQLSHVVVNANRHQEIYQASGLKVIEDSLADYPGPLAGMLSVMQQEAGEWFLFCPCDTPYIPPDLAARLNHQRKDAPVVWVHDGERDHPTIALVNRAIEPLLLEYLQAGERRVMVFMRLAGGHAVDFSDHKDAFVNVNTPEELARWQ 191
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1H4D)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MOBA_ECOLI | P32173)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    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:0070568    guanylyltransferase activity    Catalysis of the transfer of a guanylyl group to an acceptor.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0061603    molybdenum cofactor guanylyltransferase activity    Catalysis of the reaction GTP + molybdenum cofactor = diphosphate + guanylyl molybdenum cofactor.
    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.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0006777    Mo-molybdopterin cofactor biosynthetic process    The chemical reactions and pathways resulting in the formation of the Mo-molybdopterin cofactor, essential for the catalytic activity of some enzymes. The cofactor consists of a mononuclear molybdenum (Mo) ion coordinated by one or two molybdopterin ligands.
    GO:0019720    Mo-molybdopterin cofactor metabolic process    The chemical reactions and pathways involving the Mo-molybdopterin cofactor, essential for the catalytic activity of some enzymes. The cofactor consists of a mononuclear molybdenum (Mo) ion coordinated by one or two molybdopterin ligands.
    GO:1902758    bis(molybdopterin guanine dinucleotide)molybdenum biosynthetic process    The chemical reactions and pathways resulting in the formation of bis(molybdopterin guanine dinucleotide)molybdenum.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  1h4d
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 Related Entries

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

UniProtKB/Swiss-Prot
        MOBA_ECOLI | P32173: 1e5k 1fr9 1frw 1h4c 1h4e 1hjj 1hjl

(-) Related Entries Specified in the PDB File

1e5k CRYSTAL STRUCTURE OF THE MOLYBDENUM COFACTOR BIOSYNTHESIS PROTEIN MOBA (PROTEIN FA) FROM ESCHERICHIA COLI AT NEAR ATOMIC RESOLUTION
1fr9 STRUCTURE OF E. COLI MOBA
1frw STRUCTURE OF E. COLI MOBA WITH BOUND GTP AND MANGANESE
1h4c BIOCHEMICAL AND STRUCTURAL ANALYSIS OF THE MOLYBDENUM COFACTOR BIOSYNTHESIS PROTEIN MOBA
1h4e BIOCHEMICAL AND STRUCTURAL ANALYSIS OF THE MOLYBDENUM COFACTOR BIOSYNTHESIS PROTEIN MOBA
1hjj BIOCHEMICAL AND STRUCTURAL ANALYSIS OF THE MOLYBDENUM COFACTOR BIOSYNTHESIS PROTEIN MOBA
1hjl BIOCHEMICAL AND STRUCTURAL ANALYSIS OF THE MOLYBDENUM COFACTOR BIOSYNTHESIS PROTEIN MOBA