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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN GLUCOKINASE IN COMPLEX WITH A SMALL MOLECULE ACTIVATOR.
 
Authors :  D. J. Ogg, D. Hargreaves, S. Gerhardt
Date :  25 Jan 13  (Deposition) - 24 Apr 13  (Release) - 24 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Allosteric Regulation, Binding Sites, Catalytic Domain, Diabetes Mellitus, Type 2, Enzyme Activators, Glucokinase, Hexokinase, Humans, Models, Molecular, Mutation, Protein Conformation, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. J. Waring, S. N. L. Bennett, S. Boyd, L. Campbell, R. D. M. Davies, S. Gerhardt, D. Hargreaves, N. G Martin, G. R. Robb, G. Wilkinson
Matched Triplicate Design Sets In The Optimisation Of Glucokinase Activators Maximising Medicinal Chemistry Information Content
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - GLUCOKINASE ISOFORM 3
    Chains: A
    EC Number: 2.7.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: GLUCOKINASE
    Gene: GCK
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HEXOKINASE TYPE IV, HK IV, HEXOKINASE-4, HK4, HEXOKINASE-D

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
11JD1Ligand/Ion(2S)-2-{[1-(3-CHLOROPYRIDIN-2-YL)-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4-YL]OXY}-N-(5-METHYLPYRIDIN-2-YL)-3-(PROPAN-2-YLOXY)PROPANAMIDE
2GLC1Ligand/IonALPHA-D-GLUCOSE
3NA1Ligand/IonSODIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:238 , VAL A:241 , VAL A:244 , GLY A:246 , HOH A:797BINDING SITE FOR RESIDUE NA A 501
2AC2SOFTWARESER A:151 , PHE A:152 , PRO A:153 , THR A:168 , LYS A:169 , ASN A:204 , ASP A:205 , ILE A:225 , GLY A:229 , CYS A:230 , ASN A:231 , GLU A:256 , GLN A:287 , GLU A:290 , HOH A:611 , HOH A:720BINDING SITE FOR RESIDUE GLC A 502
3AC3SOFTWARETYR A:61 , VAL A:62 , ARG A:63 , THR A:65 , PRO A:66 , GLU A:67 , GLY A:68 , SER A:69 , TRP A:99 , MET A:210 , TYR A:214 , MET A:235 , VAL A:455 , HOH A:625BINDING SITE FOR RESIDUE 1JD A 503

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:220 -A:213

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4IXC)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IXC)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IXC)

(-) Exons   (0, 0)

(no "Exon" information available for 4IXC)

(-) 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:443
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4ixca1 A:13-218 automated matches                                                                                                                                                                         d4ixca2 A:219-459 automated matches                                                                                                                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeee........eeeeeeee...eeeeeeeeee....eeeeeeeeee.hhhhhh.hhhhhhhhhhhhhhhhhhhh......eeeeeee...eeeee..eeee...............hhhhhhhhhhhhhh...eeeeeeehhhhhhhhhhhhhh..eeeeeee...eeeeeeee.hhh........eeeee.hhhhh..........hhhhhhhhhh......hhhhhh.hhhhhhhhhhhhhhhhhh...hhhhh..hhhhh....hhhhhhhhhhh..hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeehhhhhhh.hhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ixc A  13 NSQVEQILAEFQLQAADLKKVMRRMQKEMDRGLRLETHAAASVKMLPTYVRSTPEGSEVGDFLSLDLGGTNFRVMLVKVGEGQWSVKTKHQMYSIPEDAMTGTAEMLFDYISECISDFLDKHQMKHKKLPLGFTFSFPVRHEDIDKGILLNWTKGFKASGAEGNNVVGLLRDAIKRRGDFEMDVVAMVNDTVATMISCYYEDHQCEVGMIVGTGCNACYMEEMQNVELVEGDEGRMCVNTEWGAFGDSGELDEFLLEYDRLVDESSANPGQQLYEKLIGGKYMGELVRLVLLRLVDENLLFHGEASEQLRTRGAFETRFVSQVESDGDRKQIYNILSTLGLRPSTTDCDIVRRACESVSTRAAHMCSAGLAGVINRMRESRSEDVMRITVGVDGSVYKLHPSFKERFHASVRRLTPSCEITFIESEEGSGRGAALVSAVACKK 459
                                    22        32        42        52        62        72        82        92 ||    105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335     ||346       356       366       376       386       396       406       416       426       436       446       456   
                                                                                                            94|                                                                                                                                                                                                                                                341|                                                                                                                    
                                                                                                             98                                                                                                                                                                                                                                                 343
   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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IXC)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IXC)

(-) Gene Ontology  (57, 57)

Asymmetric/Biological Unit(hide GO term definitions)

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  4ixc
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  HXK4_HUMAN | P35557
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  2.7.1.2
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 Related Entries

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

UniProtKB/Swiss-Prot
        HXK4_HUMAN | P35557: 1glk 1v4s 1v4t 3a0i 3f9m 3fgu 3fr0 3goi 3h1v 3id8 3idh 3imx 3qic 3s41 3vev 3vey 3vf6 4dch 4dhy 4ise 4isf 4isg 4iwv 4l3q 4lc9 4mle 4mlh 4no7 4rch 5v4w 5v4x

(-) Related Entries Specified in the PDB File

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