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(-) Description

Title :  6-PHOSPHOFRUCTO-2-KINASE/FRUCTOSE-2,6-BISPHOSPHATASE BIFUNCTIONAL ENZYME COMPLEXED WITH ATP-G-S AND PHOSPHATE
 
Authors :  C. A. Hasemann, J. Deisenhofer
Date :  08 Nov 96  (Deposition) - 12 Nov 97  (Release) - 15 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Kinase, Transferase (Phospho), Phosphatase, Hydrolase (Phospho), Glycolysis, Bifunctional Enzyme (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. A. Hasemann, E. S. Istvan, K. Uyeda, J. Deisenhofer
The Crystal Structure Of The Bifunctional Enzyme 6-Phosphofructo-2-Kinase/Fructose-2, 6-Bisphosphatase Reveal Distinct Domain Homologies.
Structure V. 4 1017 1996
PubMed-ID: 8805587  |  Reference-DOI: 10.1016/S0969-2126(96)00109-8

(-) Compounds

Molecule 1 - 6-PHOSPHOFRUCTO-2-KINASE/ FRUCTOSE-2,6-BISPHOSPHATASE
    Cell LineBL21
    ChainsA
    EC Number2.7.1.105, 3.1.3.46
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Cell LineBL21
    Expression System GeneRT2K
    Expression System PlasmidPT7-7
    Expression System Taxid562
    GeneRT2K
    MutationYES
    OrganTESTIS
    Organism CommonNORWAY RAT
    Organism ScientificRATTUS NORVEGICUS
    Organism Taxid10116

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (2x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric Unit (4, 5)
No.NameCountTypeFull Name
1AGS1Ligand/IonPHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2GOL1Ligand/IonGLYCEROL
3MG1Ligand/IonMAGNESIUM ION
4PO42Ligand/IonPHOSPHATE ION
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
1AGS2Ligand/IonPHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2GOL2Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4PO44Ligand/IonPHOSPHATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:51 , THR A:52 , ASP A:128 , AGS A:500BINDING SITE FOR RESIDUE MG A 501
2AC2SOFTWAREARG A:255 , HIS A:256 , ASN A:262 , ARG A:305 , GLU A:325 , HIS A:390 , GLN A:391 , HOH A:731 , HOH A:918BINDING SITE FOR RESIDUE PO4 A 510
3AC3SOFTWARETYR A:336 , ARG A:350 , LYS A:354 , TYR A:365 , GLN A:391 , ARG A:395 , HOH A:728 , HOH A:730 , HOH A:737 , HOH A:915BINDING SITE FOR RESIDUE PO4 A 520
4AC4SOFTWAREPRO A:47 , ALA A:48 , ARG A:49 , GLY A:50 , LYS A:51 , THR A:52 , TYR A:53 , ASN A:167 , GLN A:170 , LYS A:172 , VAL A:220 , VAL A:246 , TYR A:427 , MG A:501 , HOH A:660 , HOH A:688 , HOH A:908 , HOH A:909BINDING SITE FOR RESIDUE AGS A 500
5AC5SOFTWAREPHE A:299 , LEU A:323 , VAL A:375 , GLU A:378BINDING SITE FOR RESIDUE GOL A 530

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PG_MUTASEPS00175 Phosphoglycerate mutase family phosphohistidine signature.F264_RAT254-263  1A:253-262
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PG_MUTASEPS00175 Phosphoglycerate mutase family phosphohistidine signature.F264_RAT254-263  2A:253-262

(-) Exons   (13, 13)

Asymmetric Unit (13, 13)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENSRNOT000000280391ENSRNOE00000280705chr8:114012543-11401256927F264_RAT-00--
1.2aENSRNOT000000280392aENSRNOE00000201362chr8:114012889-114012992104F264_RAT1-33330--
1.3ENSRNOT000000280393ENSRNOE00000201367chr8:114019691-114019807117F264_RAT33-72401A:37-7135
1.4ENSRNOT000000280394ENSRNOE00000201368chr8:114019949-11402004597F264_RAT72-104331A:71-10333
1.5ENSRNOT000000280395ENSRNOE00000201372chr8:114026200-11402626667F264_RAT104-126231A:103-12523
1.6ENSRNOT000000280396ENSRNOE00000201377chr8:114028370-11402844475F264_RAT127-151251A:126-15025
1.7ENSRNOT000000280397ENSRNOE00000201385chr8:114028761-11402881757F264_RAT152-170191A:151-16919
1.8ENSRNOT000000280398ENSRNOE00000201392chr8:114029422-114029543122F264_RAT171-211411A:170-21041
1.10ENSRNOT0000002803910ENSRNOE00000201396chr8:114031424-114031631208F264_RAT211-280701A:210-27970
1.11ENSRNOT0000002803911ENSRNOE00000201403chr8:114032132-114032278147F264_RAT281-329491A:280-32849
1.15ENSRNOT0000002803915ENSRNOE00000201411chr8:114045247-114045351105F264_RAT330-364351A:329-36335
1.16ENSRNOT0000002803916ENSRNOE00000201415chr8:114047233-114047362130F264_RAT365-408441A:364-40744
1.17ENSRNOT0000002803917ENSRNOE00000300921chr8:114047457-11404751963F264_RAT408-429221A:407-42822
1.18ENSRNOT0000002803918ENSRNOE00000348609chr8:114048504-11404856865F264_RAT429-450221A:428-44922
1.19cENSRNOT0000002803919cENSRNOE00000365772chr8:114050180-114050534355F264_RAT451-469191A:450-46819

(-) Sequences/Alignments

Asymmetric 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:432
 aligned with F264_RAT | P25114 from UniProtKB/Swiss-Prot  Length:469

    Alignment length:432
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467  
             F264_RAT    38 CPTLIVMVGLPARGKTYISKKLTRYLNWIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKFLSEEGGHVAVFDATNTTRERRAMIFNFGEQNGYKTFFVESICVDPEVIAANIVQVKLGSPDYVNRDSDEATEDFMRRIECYENSYESLDEEQDRDLSYIKIMDVGQSYVVNRVADHIQSRIVYYLMNIHVTPRSIYLCRHGESELNLKGRIGGDPGLSPRGREFSKHLAQFISDQNIKDLKVWTSQMKRTIQTAEALSVPYEQWKVLNEIDAGVCEEMTYEEIQDHYPLEFALRDQDKYRYRYPKGESYEDLVQRLEPVIMELERQENVLVICHQAVMRCLLAYFLDKAAEELPYLKCPLHTVLKLTPVAYGCKVESIFLNVAAVNTHRDRPQNVDISRPSEEALVTVPAHQ 469
               SCOP domains d1bifa1 A:37-249 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain                                                                                                                                 d1bifa2 A:250-468 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, phosphatase domain                                                                                                                                  SCOP domains
               CATH domains 1bifA01 A:37-242 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                         ----1bifA02 A:247-467 Phosphoglycerate mutase-like                                                                                                                                                                               - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhh....eeeeehhhhhhhhh.....hhhh....hhhhhhhhhhhhhhhhhhhhhhh.....eeeee.....hhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhh...........hhhhhhhhhhhhhhhh...............eeeee....eeeee....hhhhhhhhhhhh.......eeeee....hhhhh..........hhhhhhhhhhhhhhhhh.....eeee...hhhhhhhhh........hhh.....hhh....hhhhhhh.hhhhhhhhh............hhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhh....hhhhhh......eeeeeee....eeeeeee.....................hhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PG_MUTASE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.3  PDB: A:37-71 [INCOMPLETE]-------------------------------Exon 1.5  PDB: A:103-12Exon 1.6  PDB: A:126-150 Exon 1.7           ----------------------------------------Exon 1.10  PDB: A:210-279 UniProt: 211-280                            Exon 1.11  PDB: A:280-328 UniProt: 281-329       Exon 1.15  PDB: A:329-363          Exon 1.16  PDB: A:364-407 UniProt: 365-408  --------------------Exon 1.18             Exon 1.19c          Transcript 1 (1)
           Transcript 1 (2) ----------------------------------Exon 1.4  PDB: A:71-103          ------------------------------------------------------------------Exon 1.8  PDB: A:170-210 UniProt: 171-211----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.17             ---------------------------------------- Transcript 1 (2)
                 1bif A  37 CPTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKFLSEEGGHVAVFDATNTTRERRAMIFNFGEQNGYKTFFVESICVDPEVIAANIVQVKLGSPDYVNRDSDEATEDFMRRIECYENSYESLDEEQDRDLSYIKIMDVGQSYVVNRVADHIQSRIVYYLMNIHVTPRSIYLCRHGESELNLKGRIGGDPGLSPRGREFSKHLAQFISDQNIKDLKVFTSQMKRTIQTAEALSVPYEQFKVLNEIDAGVCEEMTYEEIQDHYPLEFALRDQDKYRYRYPKGESYEDLVQRLEPVIMELERQENVLVICHQAVMRCLLAYFLDKAAEELPYLKCPLHTVLKLTPVAYGCKVESIFLNVAAVNTHRDRPQNVDISRPSEEALVTVPAHQ 468
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466  

   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  (2, 2)

Asymmetric Unit

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1BIF)

(-) Gene Ontology  (14, 14)

Asymmetric Unit(hide GO term definitions)
Chain A   (F264_RAT | P25114)
molecular function
    GO:0003873    6-phosphofructo-2-kinase activity    Catalysis of the reaction: beta-D-fructose 6-phosphate + ATP = beta-D-fructose 2,6-bisphosphate + ADP + 2 H(+).
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0004331    fructose-2,6-bisphosphate 2-phosphatase activity    Catalysis of the reaction: D-fructose 2,6-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:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    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:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0046835    carbohydrate phosphorylation    The process of introducing a phosphate group into a carbohydrate, any organic compound based on the general formula Cx(H2O)y.
    GO:0016311    dephosphorylation    The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
    GO:0006003    fructose 2,6-bisphosphate metabolic process    The chemical reactions and pathways involving fructose 2,6-bisphosphate. The D enantiomer is an important regulator of the glycolytic and gluconeogenic pathways. It inhibits fructose 1,6-bisphosphatase and activates phosphofructokinase.
    GO:0006000    fructose metabolic process    The chemical reactions and pathways involving fructose, the ketohexose arabino-2-hexulose. Fructose exists in a open chain form or as a ring compound. D-fructose is the sweetest of the sugars and is found free in a large number of fruits and honey.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.

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 Related Entries

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

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        F264_RAT | P251142bif 3bif

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