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(-) Description

Title :  STRUCTURAL AND FUNCTIONAL CHARACTERIZATION OF A 5,10-METHENYLTETRAHYDROFOLATE SYNTHETASE FROM MYCOPLASMA PNEUMONIAE (GI: 13508087)
 
Authors :  S. Chen, A. F. Yakunin, M. Proudfoot, R. Kim, S. -H. Kim, Berkeley Structural Genomics Center (Bsgc)
Date :  21 Jul 04  (Deposition) - 07 Dec 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Mycoplasma Pneumoniae; 5, 10-Methenyltetrahydrofolate Synthetase; 5-Formyltetrahydrofolate Cyclo-Ligase; Mthfs; Atp Binding; Ligase; Structural Genomics; Bsgc Structure Funded By Nih; Protein Structure Initiative; Psi; Berkeley Structural Genomics Center (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Chen, D. H. Shin, R. Pufan, R. Kim, S. -H. Kim
Crystal Structure Of Methenyltetrahydrofolate Synthetase From Mycoplasma Pneumoniae (Gi: 13508087) At 2. 2 A Resolution
Proteins V. 56 839 2004
PubMed-ID: 15281135  |  Reference-DOI: 10.1002/PROT.20214
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 5,10-METHENYLTETRAHYDROFOLATE SYNTHETASE
    Chains: A
    EC Number: 6.3.3.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: MYCOPLASMA PNEUMONIAE
    Organism Taxid: 2104
    Synonym: H91_ORF164, HYPOTHETICAL PROTEIN MG245 HOMOLOG

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric/Biological Unit (4, 4)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG1Ligand/IonMAGNESIUM ION
3PO41Ligand/IonPHOSPHATE ION
4THF1Ligand/Ion5-HYDROXYMETHYLENE-6-HYDROFOLIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:115 , GLY A:117 , PHE A:118 , GLY A:119 , LYS A:120 , GLY A:121 , TYR A:122 , TYR A:123 , ADP A:301 , THF A:501 , HOH A:613BINDING SITE FOR RESIDUE PO4 A 201
2AC2SOFTWARELYS A:3 , ASP A:124 , ASP A:154 , ADP A:301 , HOH A:662BINDING SITE FOR RESIDUE MG A 401
3AC3SOFTWARELYS A:3 , ARG A:7 , GLY A:117 , PHE A:118 , GLY A:119 , LYS A:120 , GLY A:121 , ASP A:124 , ARG A:125 , MET A:128 , TRP A:153 , ASP A:154 , PO4 A:201 , MG A:401 , HOH A:613 , HOH A:662BINDING SITE FOR RESIDUE ADP A 301
4AC4SOFTWARETYR A:49 , GLU A:50 , ILE A:52 , GLU A:55 , PRO A:76 , PRO A:105 , ARG A:115 , PHE A:118 , TYR A:123 , PO4 A:201 , HOH A:608 , HOH A:670BINDING SITE FOR RESIDUE THF A 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1U3G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1U3G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1U3G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1U3G)

(-) Exons   (0, 0)

(no "Exon" information available for 1U3G)

(-) 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:164
 aligned with MTHFS_MYCPN | P75430 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160    
          MTHFS_MYCPN     1 MDKNALRKQILQKRMALSTIEKSHLDQKINQKLVAFLTPKPCIKTIALYEPIKNEVTFVDFFFEFLKINQIRAVYPKVISDTEIIFIDQETNTFEPNQIDCFLIPLVGFNKDNYRLGFGKGYYDRYLMQLTRQQPKIGIAYSFQKGDFLADPWDVQLDLIINDE 164
               SCOP domains d1u3ga_ A: 5,10-methenyltetrahydrofolate synthetase homolog MPN348                                                                                                   SCOP domains
               CATH domains 1u3gA00 A:1-164 NagB/RpiA/CoA transferase-like                                                                                                                       CATH domains
               Pfam domains --5-FTHF_cyc-lig-1u3gA01 A:3-163                                                                                                                                   - Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh......eee...........hhhhhhhhhh...eeeeeee.....eeee.....eehhhhh.eeeee..ee.....ee....hhhhhhh........eeee.hhhhh.............eee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1u3g A   1 MDKNALRKQILQKRMALSTIEKSHLDQKINQKLVAFLTPKPCIKTIALYEPIKNEVTFVDFFFEFLKINQIRAVYPKVISDTEIIFIDQETNTFEPNQIDCFLIPLVGFNKDNYRLGFGKGYYDRYLMQLTRQQPKIGIAYSFQKGDFLADPWDVQLDLIINDE 164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: ISOCOT_Fold (53)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MTHFS_MYCPN | P75430)
molecular function
    GO:0030272    5-formyltetrahydrofolate cyclo-ligase activity    Catalysis of the reaction: 5-formyltetrahydrofolate + ATP = 5,10-methenyltetrahydrofolate + ADP + H(+) + phosphate.
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.
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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 Related Entries

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

UniProtKB/Swiss-Prot
        MTHFS_MYCPN | P75430: 1sbq 1u3f

(-) Related Entries Specified in the PDB File

1u3f RELATED ID: BSGCAIR30461 RELATED DB: TARGETDB