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(-) Description

Title :  CRYSTAL STRUCTURE OF LIGAND-FREE BIFUNCTIONAL FOLYLPOLYGLUTAMATE SYNTHASE/DIHYDROFOLATE SYNTHASE FROM YERSINIA PESTIS C092
 
Authors :  B. Nocek, N. Maltseva, M. Makowska-Grzyska, L. Papazisi, W. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious D (Csgid)
Date :  30 Jun 10  (Deposition) - 04 Aug 10  (Release) - 04 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Tetrahydrofolate Synthase, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Nocek, N. Maltseva, M. Makowska-Grzyska, L. Papazisi, W. Anderson A. Joachimiak
Crystal Structure Of Ligand-Free Bifunctional Folylpolyglutamate Synthase/Dihydrofolate Synthase From Yersinia Pestis C092
To Be Published
PubMed: search

(-) Compounds

Molecule 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: FOLC, YP_2395, Y1602
    Organism Scientific: YERSINIA PESTIS
    Organism Taxid: 214092
    Strain: CO92
    Synonym: PUTATIVE FOLC BIFUNCTIONAL PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
1GOL3Ligand/IonGLYCEROL
2MES1Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3TLA3Ligand/IonL(+)-TARTARIC ACID

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:57 , LEU A:149 , GLY A:150 , ALA A:170 , LEU A:171 , ASP A:172 , HIS A:173 , TYR A:179 , ILE A:184 , LYS A:188 , HOH A:506 , HOH A:567 , HOH A:725BINDING SITE FOR RESIDUE TLA A 1001
2AC2SOFTWARETHR A:57 , ASN A:58 , GLY A:59 , LYS A:60 , GLY A:61 , SER A:83 , PRO A:84 , GLU A:146 , HIS A:317 , PHE A:422 , HOH A:490 , HOH A:505 , HOH A:513 , HOH A:538 , HOH A:547 , HOH A:660BINDING SITE FOR RESIDUE TLA A 1002
3AC3SOFTWAREARG A:77 , ILE A:95 , GLN A:96 , LEU A:100 , GLU A:400 , ARG A:404 , HOH A:595 , HOH A:724BINDING SITE FOR RESIDUE TLA A 1003
4AC4SOFTWAREASN A:58 , GLY A:59 , ASN A:269 , HOH A:491 , HOH A:710BINDING SITE FOR RESIDUE GOL A 1100
5AC5SOFTWAREHIS A:320 , ARG A:323 , HOH A:673BINDING SITE FOR RESIDUE GOL A 1101
6AC6SOFTWAREHIS A:317 , LEU A:351 , LYS A:354 , SER A:421 , PHE A:422 , HIS A:423 , HOH A:466 , HOH A:543 , HOH A:545 , HOH A:547BINDING SITE FOR RESIDUE MES A 501
7AC7SOFTWARETRP A:176 , TYR A:179 , ARG A:255 , GLN A:256BINDING SITE FOR RESIDUE GOL A 435

(-) SS Bonds  (0, 0)

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

(-) 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 3NRS)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3NRS)

(-) 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:401
 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 -------------------       -----------------------Mur_ligase_M-3nrsA02 A:54-277                                                                                                                                                                                                   --------------------Mur_ligase_C-3nrsA01 A:298-384                                                         -------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhh.-------.hhhhhhhhhhh.......eeeeee...hhhhhhhhhhhhhhhh...eeee......hhhh.eee..ee.hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh...eeeee.......hhhhhh...eeee.............hhhhhhhhhhhhh....eeee.....hhhhhhhhhhhh.eeee....eeee.--------------..eeeee..eeeeee.....hhhhhhhhhhhhhhhh...hhhhhhhhhhhh......eeee...eeee....hhhhhhhhhhhhhhh.--------..eeeee......hhhhhhhhhh....eeee.........hhhhhhh.....ee..hhhhhhhhhhhhh....eeeee.hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3nrs A   5 QTPQATSPLAAWLCYLEHL-------GLERVKQVAERLDLLKPAPKIFTVAGTNGKGTTCCTLEAILLAAGLRVGVYSSPHLLRYTERVRIQGQELSEAEHSHSFAQIEAGRGDISLTYFEFGTLSALQLFKQAKLDVVILEVGLGGRLDATNIVDSDVAAITSIALDHTDWLGYDRESIGREKAGVFRGGKPAVVGEPDMPQSIADVAAELGAQLYRRDVAWKFSQ--------------NGWHWQCGERQLTGLPVPNVPLANAATALAVLHYSELPLSDEAIRQGLQAASLPGRFQVVSEQPLLILDVAHNPHAARYLVNRLAQVI--------GKVRAVVGMLSDKDIAGTLACLSERVDEWYCAPLEGPRGASAGQLAEHLVSARQFSDVETAWRQAMQDADTQDVVIVCGSFHTVAHVMAALHL 434
                                    14        |-      | 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
                                             23      31                                                                                                                                                                                                     231            246                                                                                    333      342
   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 3NRS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Mur_ligase_C] (24)
(-)
Clan: no clan defined [family: Mur_ligase_M] (23)

(-) 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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(-) Related Entries Specified in the PDB File

3n2a RELATED ID: IDP90784 RELATED DB: TARGETDB