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(-) Description

Title :  THE ACTIVE SITE OF THE MOLYBDENUM COFACTOR BIOSYNTHETIC PROTEIN DOMAIN CNX1G
 
Authors :  J. Kuper, J. Winking, H. J. Hecht, G. Schwarz, R. R. Mendel
Date :  28 Nov 02  (Deposition) - 27 Feb 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Molybdenum Cofactor Biosynthesis, Cnx1G, Mutants (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Kuper, J. Winking, H. J. Hecht, R. R. Mendel, G. Schwarz
The Active Site Of The Molybdenum Cofactor Biosynthetic Protein Domain Cnx1G
Arch. Biochem. Biophys. V. 411 36 2003
PubMed-ID: 12590921  |  Reference-DOI: 10.1016/S0003-9861(02)00714-2

(-) Compounds

Molecule 1 - MOLYBDOPTERIN BIOSYNTHESIS CNX1 PROTEIN
    ChainsA, B, C
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainRK5206
    Expression System Taxid562
    Expression System VectorPQE60
    FragmentCNX1 G-DOMAIN, RESIDUES 462-628
    MutationYES
    Organism CommonMOUSE-EAR CRESS
    Organism ScientificARABIDOPSIS THALIANA
    Organism Taxid3702
    StrainCV. COLUMBIA
    SynonymMOLYBDENUM COFACTOR, BIOSYNTHESIS ENZYME CNX1

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1O8N)

(-) Sites  (0, 0)

(no "Site" information available for 1O8N)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1O8N)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1O8N)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1O8N)

(-) PROSITE Motifs  (1, 3)

Asymmetric/Biological Unit (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MOCF_BIOSYNTHESIS_1PS01078 Molybdenum cofactor biosynthesis proteins signature 1.CNX1_ARATH535-548
 
 
  3A:74-87
B:74-87
C:74-87

(-) Exons   (0, 0)

(no "Exon" information available for 1O8N)

(-) 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:163
 aligned with CNX1_ARATH | Q39054 from UniProtKB/Swiss-Prot  Length:670

    Alignment length:163
                                   473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623   
           CNX1_ARATH   464 GPEYKVAILTVSDTVSAGAGPDRSGPRAVSVVDSSSEKLGGAKVVATAVVPDEVERIKDILQKWSDVDEMDLILTLGGTGFTPRDVTPEATKKVIERETPGLLFVMMQESLKITPFAMLSRSAAGIRGSTLIINMPGNPNAVAECMEALLPALKHALKQIKGD 626
               SCOP domains d1o8na_ A: Plant CNX1 G domain                                                                                                                                      SCOP domains
               CATH domains 1o8nA00 A:3-165 Molybdenum Cofactor Biosythetic Enzyme; Chain A                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeehhhhhh.....hhhhhhhhhhhhh......eeeeeeeee..hhhhhhhhhhhhhhh....eeeee.........hhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhh...eeee..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------MOCF_BIOSYNTHE------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o8n A   3 GPEYKVAILTVSDTVSAGAGPDRSGPRAVSVVDSSSEKLGGAKVVATAVVPDEVERIKDILQKWSDVDEMDLILTLGGAGFTPRDVTPEATKKVIERETPGLLFVMMQESLKITPFAMLSRSAAGIRGSTLIINMPGNPNAVAECMEALLPALKHALKQIKGD 165
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162   

Chain B from PDB  Type:PROTEIN  Length:163
 aligned with CNX1_ARATH | Q39054 from UniProtKB/Swiss-Prot  Length:670

    Alignment length:163
                                   473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623   
           CNX1_ARATH   464 GPEYKVAILTVSDTVSAGAGPDRSGPRAVSVVDSSSEKLGGAKVVATAVVPDEVERIKDILQKWSDVDEMDLILTLGGTGFTPRDVTPEATKKVIERETPGLLFVMMQESLKITPFAMLSRSAAGIRGSTLIINMPGNPNAVAECMEALLPALKHALKQIKGD 626
               SCOP domains d1o8nb_ B: Plant CNX1 G domain                                                                                                                                      SCOP domains
               CATH domains 1o8nB00 B:3-165 Molybdenum Cofactor Biosythetic Enzyme; Chain A                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeehhhhhh......hhhhhhhhhhhh......eeeeeeeee..hhhhhhhhhhhhhhh....eeeee.........hhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhh...eeee..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------MOCF_BIOSYNTHE------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o8n B   3 GPEYKVAILTVSDTVSAGAGPDRSGPRAVSVVDSSSEKLGGAKVVATAVVPDEVERIKDILQKWSDVDEMDLILTLGGAGFTPRDVTPEATKKVIERETPGLLFVMMQESLKITPFAMLSRSAAGIRGSTLIINMPGNPNAVAECMEALLPALKHALKQIKGD 165
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162   

Chain C from PDB  Type:PROTEIN  Length:163
 aligned with CNX1_ARATH | Q39054 from UniProtKB/Swiss-Prot  Length:670

    Alignment length:163
                                   473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623   
           CNX1_ARATH   464 GPEYKVAILTVSDTVSAGAGPDRSGPRAVSVVDSSSEKLGGAKVVATAVVPDEVERIKDILQKWSDVDEMDLILTLGGTGFTPRDVTPEATKKVIERETPGLLFVMMQESLKITPFAMLSRSAAGIRGSTLIINMPGNPNAVAECMEALLPALKHALKQIKGD 626
               SCOP domains d1o8nc_ C: Plant CNX1 G domain                                                                                                                                      SCOP domains
               CATH domains 1o8nC00 C:3-165 Molybdenum Cofactor Biosythetic Enzyme; Chain A                                                                                                     CATH domains
           Pfam domains (1) ------MoCF_biosynth-1o8nC01 C:9-157                                                                                                                        -------- Pfam domains (1)
           Pfam domains (2) ------MoCF_biosynth-1o8nC02 C:9-157                                                                                                                        -------- Pfam domains (2)
           Pfam domains (3) ------MoCF_biosynth-1o8nC03 C:9-157                                                                                                                        -------- Pfam domains (3)
         Sec.struct. author ...eeeeeeeehhhhhh.....hhhhhhhhhhhhhh.....eeeeeeeee..hhhhhhhhhhhhhhh....eeeee.........hhhhhhhhhh.eehhhhhhhhhhhhhh.hhhhhhh...eeee..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------MOCF_BIOSYNTHE------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o8n C   3 GPEYKVAILTVSDTVSAGAGPDRSGPRAVSVVDSSSEKLGGAKVVATAVVPDEVERIKDILQKWSDVDEMDLILTLGGAGFTPRDVTPEATKKVIERETPGLLFVMMQESLKITPFAMLSRSAAGIRGSTLIINMPGNPNAVAECMEALLPALKHALKQIKGD 165
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162   

   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  (1, 3)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 3)

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

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (CNX1_ARATH | Q39054)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0030151    molybdenum ion binding    Interacting selectively and non-covalently with molybdenum (Mo) ions.
    GO:0061598    molybdopterin adenylyltransferase activity    Catalysis of the reaction ATP + molybdopterin = diphosphate + adenylyl-molybdopterin.
    GO:0061599    molybdopterin molybdotransferase activity    Catalysis of the reaction adenylyl-molybdopterin + molybdate = molybdenum cofactor + AMP.
    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: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:0009734    auxin-activated signaling pathway    A series of molecular signals generated by the binding of the plant hormone auxin to a receptor, and ending with modulation of a downstream cellular process, e.g. transcription.
    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.
    GO:0018315    molybdenum incorporation into molybdenum-molybdopterin complex    The incorporation of molybdenum into a molybdenum-molybdopterin complex.
    GO:0032324    molybdopterin cofactor biosynthetic process    The chemical reactions and pathways resulting in the formation of the molybdopterin cofactor (Moco), essential for the catalytic activity of some enzymes, e.g. sulfite oxidase, xanthine dehydrogenase, and aldehyde oxidase. The cofactor consists of a mononuclear molybdenum (Mo-molybdopterin) or tungsten ion (W-molybdopterin) coordinated by one or two molybdopterin ligands.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CNX1_ARATH | Q390541eav 1o8o 1o8q 1uux 1uuy 5g2r 5g2s

(-) Related Entries Specified in the PDB File

1eav CRYSTAL STRUCTURES OF HUMAN GEPHYRIN AND PLANT CNX1 G DOMAINS - COMPARATIVE ANALYSIS AND FUNCTIONAL IMPLICATIONS
1o8o THE ACTIVE SITE OF THE MOLYBDENUM COFACTOR BIOSENTHETIC PROTEIN DOMAIN CNX1G
1o8q THE ACTIVE SITE OF THE MOLYBDENUM COFACTOR BIOSENTHETIC PROTEIN DOMAIN CNX1G