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(-) Description

Title :  STRUCTURE OF A PHOSPHOHEPTOSE ISOMERASE FROM FRANCISELLA TULARENSIS
 
Authors :  J. Cheung, M. C. Franklin, M. Rudolph, M. Cassidy, E. Gary, F. Burshteyn
Date :  09 Sep 11  (Deposition) - 21 Sep 11  (Release) - 20 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Lipopolysaccharide Biosynthesis, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Chaudhury, M. D. Abdulhameed, N. Singh, G. J. Tawa, P. M. D'Haeseleer, A. T. Zemla, A. Navid, C. E. Zhou, M. C. Franklin, J. Cheung, M. J. Rudolph, J. Love, J. F. Graf, D. A. Rozak, J. L. Dankmeyer, K. Amemiya, S. Daefler, A. Wallqvist
Rapid Countermeasure Discovery Against Francisella Tularensis Based On A Metabolic Network Reconstruction.
Plos One V. 8 63369 2013
PubMed-ID: 23704901  |  Reference-DOI: 10.1371/JOURNAL.PONE.0063369

(-) Compounds

Molecule 1 - PHOSPHOHEPTOSE ISOMERASE
    Chains: A, B, C, D
    EC Number: 5.-.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: FTT_1681C, LPCA
    Organism Scientific: FRANCISELLA TULARENSIS SUBSP. TULARENSIS
    Organism Taxid: 119856
    Strain: SCHU S4

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 17)

Asymmetric/Biological Unit (1, 17)
No.NameCountTypeFull Name
1MSE17Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3TRJ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3TRJ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3TRJ)

(-) 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:184
 aligned with Q5NEF5_FRATT | Q5NEF5 from UniProtKB/TrEMBL  Length:198

    Alignment length:191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 
         Q5NEF5_FRATT     1 MTSLDKINSYFESSIQAKIETANALPPAIAQAAKAMVSCLENGGKVLVCGNGSSGVIAQHFTSKLLNHFEMERPPLPAIALTGDVATITAVGNHYGFSQIFAKQVAALGNEDDILLVITTSGDSENILSAVEEAHDLEMKVIALTGGSGGALQNMYNTDDIELRVPSDNIANIQENHFLIVHCLCDIIDQK 191
               SCOP domains d3trja_ A: automated matches                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhh-------...eee...hhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhh..eeeeeee...hhhhhh.....eeeee...hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3trj A   1 mTSLDKINSYFESSIQAKIETANALPPAIAQAAKAmVSCLENGGKVLVCGNGSSGVIAQHFTSKLLN-------PLPAIALTGDVATITAVGNHYGFSQIFAKQVAALGNEDDILLVITTSGDSENILSAVEEAHDLEmKVIALTGGSGGALQNmYNTDDIELRVPSDNIANIQENHFLIVHCLCDIIDQK 191
                            |       10        20        30     |  40        50        60      |  -    |   80        90       100       110       120       130       140       150    |  160       170       180       190 
                            |                                 36-MSE                         67      75                                                             139-MSE         155-MSE                                
                            1-MSE                                                                                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:184
 aligned with Q5NEF5_FRATT | Q5NEF5 from UniProtKB/TrEMBL  Length:198

    Alignment length:191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 
         Q5NEF5_FRATT     1 MTSLDKINSYFESSIQAKIETANALPPAIAQAAKAMVSCLENGGKVLVCGNGSSGVIAQHFTSKLLNHFEMERPPLPAIALTGDVATITAVGNHYGFSQIFAKQVAALGNEDDILLVITTSGDSENILSAVEEAHDLEMKVIALTGGSGGALQNMYNTDDIELRVPSDNIANIQENHFLIVHCLCDIIDQK 191
               SCOP domains d3trjb_ B: automated matches                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhhhh.-------...eee...hhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhh..eeeeeee...hhhhhh.....eeeee...hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3trj B   1 mTSLDKINSYFESSIQAKIETANALPPAIAQAAKAmVSCLENGGKVLVCGNGSSGVIAQHFTSKLLN-------PLPAIALTGDVATITAVGNHYGFSQIFAKQVAALGNEDDILLVITTSGDSENILSAVEEAHDLEmKVIALTGGSGGALQNmYNTDDIELRVPSDNIANIQENHFLIVHCLCDIIDQK 191
                            |       10        20        30     |  40        50        60      |  -    |   80        90       100       110       120       130       140       150    |  160       170       180       190 
                            1-MSE                             36-MSE                         67      75                                                             139-MSE         155-MSE                                


Chain C from PDB  Type:PROTEIN  Length:184
 aligned with Q5NEF5_FRATT | Q5NEF5 from UniProtKB/TrEMBL  Length:198

    Alignment length:191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 
         Q5NEF5_FRATT     1 MTSLDKINSYFESSIQAKIETANALPPAIAQAAKAMVSCLENGGKVLVCGNGSSGVIAQHFTSKLLNHFEMERPPLPAIALTGDVATITAVGNHYGFSQIFAKQVAALGNEDDILLVITTSGDSENILSAVEEAHDLEMKVIALTGGSGGALQNMYNTDDIELRVPSDNIANIQENHFLIVHCLCDIIDQK 191
               SCOP domains d3trjc_ C: automated matches                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhh-------...eee...hhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhh..eeeeeee...hhhhhh.....eeeee...hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3trj C   1 mTSLDKINSYFESSIQAKIETANALPPAIAQAAKAmVSCLENGGKVLVCGNGSSGVIAQHFTSKLLN-------PLPAIALTGDVATITAVGNHYGFSQIFAKQVAALGNEDDILLVITTSGDSENILSAVEEAHDLEmKVIALTGGSGGALQNmYNTDDIELRVPSDNIANIQENHFLIVHCLCDIIDQK 191
                            |       10        20        30     |  40        50        60      |  -    |   80        90       100       110       120       130       140       150    |  160       170       180       190 
                            1-MSE                             36-MSE                         67      75                                                             139-MSE         155-MSE                                


Chain D from PDB  Type:PROTEIN  Length:191
 aligned with Q5NEF5_FRATT | Q5NEF5 from UniProtKB/TrEMBL  Length:198

    Alignment length:191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 
         Q5NEF5_FRATT     1 MTSLDKINSYFESSIQAKIETANALPPAIAQAAKAMVSCLENGGKVLVCGNGSSGVIAQHFTSKLLNHFEMERPPLPAIALTGDVATITAVGNHYGFSQIFAKQVAALGNEDDILLVITTSGDSENILSAVEEAHDLEMKVIALTGGSGGALQNMYNTDDIELRVPSDNIANIQENHFLIVHCLCDIIDQK 191
               SCOP domains d3trjd_ D: automated matches                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhh..........eee...hhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhh..eeeeeee...hhhhhh.....eeeee...hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3trj D   1 mTSLDKINSYFESSIQAKIETANALPPAIAQAAKAmVSCLENGGKVLVCGNGSSGVIAQHFTSKLLNHFEmERPPLPAIALTGDVATITAVGNHYGFSQIFAKQVAALGNEDDILLVITTSGDSENILSAVEEAHDLEmKVIALTGGSGGALQNmYNTDDIELRVPSDNIANIQENHFLIVHCLCDIIDQK 191
                            |       10        20        30     |  40        50        60        70|       80        90       100       110       120       130       140       150    |  160       170       180       190 
                            1-MSE                             36-MSE                             71-MSE                                                             139-MSE         155-MSE
   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, 4)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (Q5NEF5_FRATT | Q5NEF5)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.

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