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(-) Description

Title :  CRYSTAL STRUCTURE OF THE FRUCTOSE 1,6-BISPHOSPHATASE GLPX FROM E.COLI IN THE COMPLEX WITH FRUCTOSE 1,6-BISPHOSPHATE
 
Authors :  V. V. Lunin, T. Skarina, G. Brown, A. Yakunin, A. M. Edwards, A. Savchenko
Date :  11 Sep 07  (Deposition) - 19 Aug 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Glpx, 1, 6-Bisphosphatase, Carbohydrate Metabolism, Cytoplasm, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. V. Lunin, T. Skarina, G. Brown, R. Sanishvili, A. Yakunin, A. Joachimiak, A. M. Edwards, A. Savchenko
Crystal Structure Of The Fructose 1, 6-Bisphosphatase Glpx From E. Coli In The Complex With Fructose 1, 6-Bisphosphate
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FRUCTOSE-1,6-BISPHOSPHATASE CLASS II GLPX
    Chains: A
    EC Number: 3.1.3.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21
    Expression System Vector Type: PLASMID
    Gene: GLPX
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Synonym: D-FRUCTOSE- 1,6-BISPHOSPHATE 1-PHOSPHOHYDROLASE CLASS II GLPX, FBPASE II GLPX

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1FBP1Ligand/IonBETA-FRUCTOSE-1,6-DIPHOSPHATE
2UNX3Ligand/IonUNKNOWN ATOM OR ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:88 , GLY A:89 , THR A:90 , ARG A:91 , TYR A:119 , LYS A:164 , ARG A:166 , ASP A:186 , GLY A:187 , ASP A:188 , GLY A:210 , GLU A:213 , HOH A:352 , HOH A:406 , HOH A:459 , HOH A:471BINDING SITE FOR RESIDUE FBP A 337
2AC2SOFTWAREASP A:33 , ASP A:85 , ILE A:87 , HOH A:459BINDING SITE FOR RESIDUE UNX A 338
3AC3SOFTWAREASP A:85 , GLU A:88 , GLU A:213 , HOH A:406 , HOH A:459BINDING SITE FOR RESIDUE UNX A 339
4AC4SOFTWAREASP A:33 , GLU A:57 , HOH A:477BINDING SITE FOR RESIDUE UNX A 340

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2R8T)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Met A:259 -Gly A:260

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2R8T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2R8T)

(-) Exons   (0, 0)

(no "Exon" information available for 2R8T)

(-) 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:319
 aligned with GLPX_ECOLI | P0A9C9 from UniProtKB/Swiss-Prot  Length:336

    Alignment length:323
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321   
           GLPX_ECOLI     2 RRELAIEFSRVTESAALAGYKWLGRGDKNTADGAAVNAMRIMLNQVNIDGTIVIGEGEIDEAPMLYIGEKVGTGRGDAVDIAVDPIEGTRMTAMGQANALAVLAVGDKGCFLNAPDMYMEKLIVGPGAKGTIDLNLPLADNLRNVAAALGKPLSELTVTILAKPRHDAVIAEMQQLGVRVFAIPDGDVAASILTCMPDSEVDVLYGIGGAPEGVVSAAVIRALDGDMNGRLLARHDVKGDNEENRRIGEQELARCKAMGIEAGKVLRLGDMARSDNVIFSATGITKGDLLEGISRKGNIATTETLLIRGKSRTIRRIQSIHYL 324
               SCOP domains d2r8ta_ A: automated matches                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains 2r8tA01 A:2-109,A:277-324 Fructose-1,6-Bisphosphatase, subunit A, domain 1                                  2r8tA02 A:110-276  [code=3.40.190.90, no name defined]                                                                                                                 2r8tA01 A:2-109,A:277-324                        CATH domains
               Pfam domains FBPase_glpX-2r8tA01 A:2-322                                                                                                                                                                                                                                                                                                      -- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh....eeeeee...............ee......eeeeeeeeeehhhhhhhh....eeeeeeee..........eeeeeee.hhhh.......hhhhhhhhhhhhhh.hhhh.eeeee.hhhhhhhhhhhhhh..eeeee..hhhhhhhhh........eeeeeeehhhhhhhhhhhhhh..eeeeeeehhhhh.----hhhhhhhhhhhhhhhhh.....eehhhhhh....eeeeeee..........eee..eeeeeeeeee.....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2r8t A   2 RRELAIEFSRVTESAALAGYKWLGRGDKNTADGAAVNAMRIMLNQVNIDGTIVIGEGEIAEAPMLYIGEKVGTGRGDAVDIAVDPIEGTRMTAMGQANALAVLAVGDKGCFLNAPDMYMEKLIVGPGAKGTIDLNLPLADNLRNVAAALGKPLSELTVTILAKPRHDAVIAEMQQLGVRVFAIPDGDVAASILTCMPDSEVDVLYGIGGAPEGVVSAAVIRALDGDMNGRLLARHDVK----ENRRIGEQELARCKAMGIEAGKVLRLGDMARSDNVIFSATGITKGDLLEGISRKGNIATTETLLIRGKSRTIRRIQSIHYL 324
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       | -  |    251       261       271       281       291       301       311       321   
                                                                                                                                                                                                                                                                       239  244
   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, 1)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Phospoesterase (42)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GLPX_ECOLI | P0A9C9)
molecular function
    GO:0042132    fructose 1,6-bisphosphate 1-phosphatase activity    Catalysis of the reaction: D-fructose 1,6-bisphosphate + H2O = D-fructose 6-phosphate + phosphate.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0030145    manganese ion binding    Interacting selectively and non-covalently with manganese (Mn) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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.
    GO:0016311    dephosphorylation    The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
    GO:0006094    gluconeogenesis    The formation of glucose from noncarbohydrate precursors, such as pyruvate, amino acids and glycerol.
    GO:0006071    glycerol metabolic process    The chemical reactions and pathways involving glycerol, 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids.
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

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        GLPX_ECOLI | P0A9C9: 1ni9 3big 3bih 3d1r

(-) Related Entries Specified in the PDB File

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