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(-) Description

Title :  CRYSTAL STRUCTURE OF BIFUNCTIONAL FOLYLPOLYGLUTAMATE SYNTHASE/DIHYDROFOLATE SYNTHASE COMPLEXED WITH AMPPNP AND MN ION FROM YERSINIA PESTIS C092
 
Authors :  B. Nocek, M. Makowska-Grzyska, N. Maltseva, W. Anderson, A. Joachimia For Structural Genomics Of Infectious Diseases (Csgid)
Date :  13 Dec 10  (Deposition) - 19 Jan 11  (Release) - 19 Jan 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Folc, Csgid, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Folylpolyglutamate Synthase/Dihydrofolate Synthase, Amppnp, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Nocek, M. Makowska-Grzyska, N. Maltseva, W. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious Diseases (Csgid)
Crystal Structure Of Bifunctional Folylpolyglutamate Synthase/Dihydrofolate Synthase Complexed With Amppnp And M Ion From Yersinia Pestis C092
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BIFUNCTIONAL FOLYLPOLYGLUTAMATE SYNTHASE/DIHYDROFOLATE SYNTHASE
    Chains: A
    EC Number: 6.3.2.12, 6.3.2.17
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Strain: BL21 MAGIC
    Expression System Taxid: 511693
    Expression System Vector Type: PMCSG7
    Gene: FOLC, YPN_2178, YP516_2438
    Organism Scientific: YERSINIA PESTIS
    Organism Taxid: 214092
    Strain: CO92
    Synonym: FOLC BIFUNCTIONAL PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MN1Ligand/IonMANGANESE (II) ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:57 , ASN A:58 , GLY A:59 , LYS A:60 , GLY A:61 , THR A:62 , SER A:83 , PRO A:84 , GLU A:146 , ASN A:269 , ARG A:301 , ASP A:314 , VAL A:315 , ALA A:316 , HIS A:317 , HIS A:320 , ALA A:321 , TYR A:324 , PHE A:422 , HOH A:496 , HOH A:498 , MN A:501BINDING SITE FOR RESIDUE ANP A 601
2AC2SOFTWARESER A:83 , GLU A:146 , HOH A:496 , HOH A:498 , ANP A:601BINDING SITE FOR RESIDUE MN A 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3PYZ)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:83 -Pro A:84
2Gln A:308 -Pro A:309

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3PYZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3PYZ)

(-) Exons   (0, 0)

(no "Exon" information available for 3PYZ)

(-) 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:410
 aligned with Q8D0U0_YERPE | Q8D0U0 from UniProtKB/TrEMBL  Length:460

    Alignment length:430
                                    40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460
         Q8D0U0_YERPE    31 QTPQATSPLAAWLCYLEHLHSQPIELGLERVKQVAERLDLLKPAPKIFTVAGTNGKGTTCCTLEAILLAAGLRVGVYSSPHLLRYTERVRIQGQELSEAEHSHSFAQIEAGRGDISLTYFEFGTLSALQLFKQAKLDVVILEVGLGGRLDATNIVDSDVAAITSIALDHTDWLGYDRESIGREKAGVFRGGKPAVVGEPDMPQSIADVAAELGAQLYRRDVAWKFSQQEPFDQQEPVDQQINGWHWQCGERQLTGLPVPNVPLANAATALAVLHYSELPLSDEAIRQGLQAASLPGRFQVVSEQPLLILDVAHNPHAARYLVNRLAQVINPVNASKQGKVRAVVGMLSDKDIAGTLACLSERVDEWYCAPLEGPRGASAGQLAEHLVSARQFSDVETAWRQAMQDADTQDVVIVCGSFHTVAHVMAALHL 460
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhh.........hhhhhhhhhhh.......eeeeee...hhhhhhhhhhhhhhhh...eeee......hhhh.eee..ee.hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh...eeeee.......hhhhhh...eeee.............hhhhhhhhhhh......eeee.....hhhhhhhhhhhh.eeee....eeeee.-------------..eeeee..eeeeee.....hhhhhhhhhhhhhhhh...hhhhhhhhhhhh......eeee...eeee....hhhhhhhhhhhhhh..-------...eeeee......hhhhhhhhhh....eeee.........hhhhhhh.....ee..hhhhhhhhhhhhh....eeeee.hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pyz A   5 QTPQATSPLAAWLCYLEHLHSQPIELGLERVKQVAERLDLLKPAPKIFTVAGTNGKGTTCCTLEAILLAAGLRVGVYSSPHLLRYTERVRIQGQELSEAEHSHSFAQIEAGRGDISLTYFEFGTLSALQLFKQAKLDVVILEVGLGGRLDATNIVDSDVAAITSIALDHTDWLGYDRESIGREKAGVFRGGKPAVVGEPDMPQSIADVAAELGAQLYRRDVAWKFSQQ-------------NGWHWQCGERQLTGLPVPNVPLANAATALAVLHYSELPLSDEAIRQGLQAASLPGRFQVVSEQPLLILDVAHNPHAARYLVNRLAQVI-------QGKVRAVVGMLSDKDIAGTLACLSERVDEWYCAPLEGPRGASAGQLAEHLVSARQFSDVETAWRQAMQDADTQDVVIVCGSFHTVAHVMAALHL 434
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       | -         - |     254       264       274       284       294       304       314       324        |-      |344       354       364       374       384       394       404       414       424       434
                                                                                                                                                                                                                                                             232           246                                                                                    333     341
   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  (0, 0)

(no "SCOP Domain" information available for 3PYZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3PYZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3PYZ)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q8D0U0_YERPE | Q8D0U0)
molecular function
    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: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:0004326    tetrahydrofolylpolyglutamate synthase activity    Catalysis of the reaction: ATP + tetrahydrofolyl-(Glu)(n) + L-glutamate = ADP + phosphate + tetrahydrofolyl-(Glu)(n+1).
biological process
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    GO:0009396    folic acid-containing compound biosynthetic process    The chemical reactions and pathways resulting in the formation of folic acid and its derivatives.
    GO:0046901    tetrahydrofolylpolyglutamate biosynthetic process    The chemical reactions and pathways resulting in the formation of tetrahydrofolylpolyglutamate, a folate derivative comprising tetrahydrofolate attached to a chain of glutamate residues.

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        Q8D0U0_YERPE | Q8D0U0: 3nrs

(-) Related Entries Specified in the PDB File

3n2a
3nrs RELATED ID: IDP90784 RELATED DB: TARGETDB