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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN HEXOKINASE 2 WITH CMPD 27, A 2-AMIDO-6-BENZENESULFONAMIDE GLUCOSAMINE
 
Authors :  N. Campobasso, B. Zhao, A. Smallwood
Date :  07 Jan 16  (Deposition) - 30 Mar 16  (Release) - 30 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.92
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Metabolism, Inhibitor Complex, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Lin, J. Zeng, R. Xie, M. J. Schulz, R. Tedesco, J. Qu, K. F. Erhard, J. F. Mack, K. Raha, A. R. Rendina, L. M. Szewczuk, P. M. Kratz, A. J. Jurewicz, T. Cecconie, S. Martens, P. J. Mcdevitt, J. D. Martin, S. B. Chen, Y. Jiang, L. Nickels, B. J. Schwartz, A. Smallwood, B. Zhao, N. Campobasso, Y. Qian, J. Briand, C. M. Rominger, C. Oleykowski, M. A. Hardwicke, J. I. Luengo
Discovery Of A Novel 2, 6-Disubstituted Glucosamine Series O Potent And Selective Hexokinase 2 Inhibitors.
Acs Med. Chem. Lett. V. 7 217 2016
PubMed-ID: 26985301  |  Reference-DOI: 10.1021/ACSMEDCHEMLETT.5B00214

(-) Compounds

Molecule 1 - HEXOKINASE-2
    ChainsA, B
    EC Number2.7.1.1
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneHK2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymHEXOKINASE TYPE II,HK II,MUSCLE FORM HEXOKINASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
16034Ligand/Ion~{N}-[(2~{S},3~{R},4~{R},5~{S},6~{R})-6-[[(4-CYANOPHENYL)SULFONYLAMINO]METHYL]-2,4,5-TRIS(OXIDANYL)OXAN-3-YL]-3-PHENYL-BENZAMIDE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
16032Ligand/Ion~{N}-[(2~{S},3~{R},4~{R},5~{S},6~{R})-6-[[(4-CYANOPHENYL)SULFONYLAMINO]METHYL]-2,4,5-TRIS(OXIDANYL)OXAN-3-YL]-3-PHENYL-BENZAMIDE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
16032Ligand/Ion~{N}-[(2~{S},3~{R},4~{R},5~{S},6~{R})-6-[[(4-CYANOPHENYL)SULFONYLAMINO]METHYL]-2,4,5-TRIS(OXIDANYL)OXAN-3-YL]-3-PHENYL-BENZAMIDE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:62 , SER A:155 , PRO A:157 , CYS A:158 , ASN A:208 , ASP A:209 , THR A:232 , GLY A:233 , SER A:234 , ASN A:235 , GLU A:260 , GLN A:291 , GLU A:294binding site for residue 603 A 1001
2AC2SOFTWARELYS A:510 , LYS A:621 , ASN A:656 , ASP A:657 , THR A:658 , ILE A:677 , THR A:680 , GLY A:681 , SER A:682 , ASN A:683 , GLU A:708 , GLN A:739 , GLU A:742binding site for residue 603 A 1002
3AC3SOFTWARELYS B:62 , LEU B:64 , SER B:155 , PRO B:157 , CYS B:158 , THR B:172 , ASN B:208 , ASP B:209 , ILE B:229 , THR B:232 , GLY B:233 , SER B:234 , ASN B:235 , GLU B:260 , GLU B:294binding site for residue 603 B 1001
4AC4SOFTWARELEU B:512 , SER B:603 , LYS B:621 , ASN B:656 , ASP B:657 , THR B:658 , THR B:680 , GLY B:681 , SER B:682 , ASN B:683 , GLU B:708 , GLU B:742 , HOH B:1119binding site for residue 603 B 1002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5HFU)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Glu A:645 -Glu A:646
2Asn B:547 -Gly B:548

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5HFU)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5HFU)

(-) Exons   (0, 0)

(no "Exon" information available for 5HFU)

(-) 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:895
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh..hhhhh....ee............eeeeeeee....eeeeeeee........eeeeeee..hhhhhh.hhhhhhhhhhhhhhhhhhhh......eeeeeee...eeeee..eeee...............hhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhh..eeeeeee...eeeeeeee.hhh........eeeee.hhhhh..........hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh...........hhhhhhhhhhh.hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeehhhhhhh.hhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh...........ee............eeeeeeee...eeeeeeeeee.....eeeeeeeeee.hhhhhh.hhhhhhhhhhhhhhhhhhhh.......eeeeee...ee.......ee...............hhhhhhhhhhhh......eeeeeehhhhhhhhhhhhhh..eeeeeee...eeeeeeee.hhh........eeeee.hhhhh..........hhhhhhhhhhh.....hhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhh.hhhhhh....hhhhhhhhhhh...hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeehhhhhhh.hhhhhhhhhhhhhh..eeeeeee.....hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hfu A  17 DQVQKVDQYLYHMRLSDETLLEISKRFRKEMEKGLGATTHPTAAVKMLPTFVRSTPDGTEHGEFLALDLGGTNFRVLWVKVTDNGLQKVEMENQIYAIPEDIMRGSGTQLFDHIAECLANFMDKLQIKDKKLPLGFTFSFPCHQTKLDESFLVSWTKGFKSSGVEGRDVVALIRKAIQRRGDFDIDIVAVVNDTVGTMMTCGYDDHNCEIGLIVGTGSNACYMEEMRHIDMVEGDEGRMCINMEWGAFGDDGSLNDIRTEFDQEIDMGSLNPGKQLFEKMISGMYMGELVRLILVKMAKEELLFGGKLSPELLNTGRFETKDISDIEGEKDGIRKAREVLMRLGLDPTQEDCVATHRICQIVSTRSASLCAATLAAVLQRIKENKGEERLRSTIGVDGSVYKKHPHFAKRLHKTVRRLVPGCDVRFLRSEDGSGKGAAMVTAVAYRLADQHRARQKTLEHLQLSHDQLLEVKRRMKVEMERGLSKETHASAPVKMLPTYVCATPDGTEKGDFLALDLGGTNFRVLLVRVRNGKWGGVEMHNKIYAIPQEVMHGTGDELFDHIVQCIADFLEYMGMKGVSLPLGFTFSFPCQQNSLDESILLKWTKGFKASGCEGEDVVTLLKEAIHRREEFDLDVVAVVNDTVGTMMTCGFEDPHCEVGLIVGTGSNACYMEEMRNVELVEGEEGRMCVNMEWGAFGDNGCLDDFRTEFDVAVDELSLNPGKQRFEKMISGMYLGEIVRNILIDFTKRGLLFRGRISERLKTRGIFETKFLSQIESDCLALLQVRAILQHLGLESTCDDSIIVKEVCTVVARRAAQLCGAGMAAVVDRIRENRGLDALKVTVGVDGTLYKLHPHFAKVMHETVKDLAPKCDVSFLQSEDGSGKGAALITAVACRI 911
                                    26        36        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       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706       716       726       736       746       756       766       776       786       796       806       816       826       836       846       856       866       876       886       896       906     

Chain B from PDB  Type:PROTEIN  Length:897
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh...........ee............eeeeeeee...eeeeeeeee.......eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeee...eeeee..eeee...............hhhhhhhhhhhhhh...eeeeeeeehhhhhhhhhhhhh..eeeeeee...eeeeeeee.hhh........eeeee.hhhhh..........hhhhhhhhhh........hhhhh...hhhhhhhhhhhhhhhh..hhhhh...........hhhhhhhhhh...hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeehhhhhhh.hhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh...........ee............eeeeeeee...eeeeeeeee.......eeeeeeeee.hhhhhh.hhhhhhhhhhhhhhhhhhh........eeeeee...eeeee..eeee...............hhhhhhhhhhhh......eeeeeehhhhhhhhhhhh....eeeeeee...eeeeeeee............eeeee.hhhhh.....hhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh..hhhhh..hhhhh....hhhhhhhhhhh...hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeeehhhhhhh.hhhhhhhhhhhhhh..eeeeeee.....hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hfu B  17 DQVQKVDQYLYHMRLSDETLLEISKRFRKEMEKGLGATTHPTAAVKMLPTFVRSTPDGTEHGEFLALDLGGTNFRVLWVKVTDNGLQKVEMENQIYAIPEDIMRGSGTQLFDHIAECLANFMDKLQIKDKKLPLGFTFSFPCHQTKLDESFLVSWTKGFKSSGVEGRDVVALIRKAIQRRGDFDIDIVAVVNDTVGTMMTCGYDDHNCEIGLIVGTGSNACYMEEMRHIDMVEGDEGRMCINMEWGAFGDDGSLNDIRTEFDQEIDMGSLNPGKQLFEKMISGMYMGELVRLILVKMAKEELLFGGKLSPELLNTGRFETKDISDIEGEKDGIRKAREVLMRLGLDPTQEDCVATHRICQIVSTRSASLCAATLAAVLQRIKENKGEERLRSTIGVDGSVYKKHPHFAKRLHKTVRRLVPGCDVRFLRSEDGSGKGAAMVTAVAYRLADQHRARQKTLEHLQLSHDQLLEVKRRMKVEMERGLSKETHASAPVKMLPTYVCATPDGTEKGDFLALDLGGTNFRVLLVRVRNGKWGGVEMHNKIYAIPQEVMHGTGDELFDHIVQCIADFLEYMGMKGVSLPLGFTFSFPCQQNSLDESILLKWTKGFKASGCEGEDVVTLLKEAIHRREEFDLDVVAVVNDTVGTMMTCGFEDPHCEVGLIVGTGSNACYMEEMRNVELVEGEEGRMCVNMEWGAFGDNGCLDDFRTEFDVAVDELSLNPGKQRFEKMISGMYLGEIVRNILIDFTKRGLLFRGRISERLKTRGIFETKFLSQIESDCLALLQVRAILQHLGLESTCDDSIIVKEVCTVVARRAAQLCGAGMAAVVDRIRENRGLDALKVTVGVDGTLYKLHPHFAKVMHETVKDLAPKCDVSFLQSEDGSGKGAALITAVACRIRE 913
                                    26        36        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       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706       716       726       736       746       756       766       776       786       796       806       816       826       836       846       856       866       876       886       896       906       

   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 5HFU)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5HFU)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5HFU)

(-) Gene Ontology  (36, 36)

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 Related Entries

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

UniProtKB/Swiss-Prot
        HXK2_HUMAN | P527892nzt 5hex 5hg1

(-) Related Entries Specified in the PDB File

5hex