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(-) Description

Title :  P110ALPHA WITH GDC-0326
 
Authors :  T. P. Heffron, R. A. Heald, C. Ndubaku, B. Q. Wei, M. Augustin, S. Do, K. Ed C. Eigenbrot, L. Friedman, E. Gancia, P. S. Jackson, G. Jones, A. Koles L. B. Lee, J. D. Lesnick, C. Lewis, N. Mclean, M. Mortle, J. Nonomiya, J. S. Price, W. W. Prior, L. Salphati, S. Sideris, S. T. Staben, S. Steinba V. Tsui, J. Wallin, D. Sampath, A. Olivero
Date :  23 Sep 15  (Deposition) - 27 Jan 16  (Release) - 24 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A
Keywords :  Lipid Kinase, Transferase-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. P. Heffron, R. A. Heald, C. Ndubaku, B. Wei, M. Augistin, S. Do, K. Edgar, C. Eigenbrot, L. Friedman, E. Gancia, P. S. Jackson, G. Jones A. Kolesnikov, L. B. Lee, J. D. Lesnick, C. Lewis, N. Mclean, M. Mortl, J. Nonomiya, J. Pang, S. Price, W. W. Prior, L. Salphati, S. Sideris, S. T. Staben, S. Steinbacher, V. Tsui, J. Wallin, D. Sampath, A. G. Olivero
The Rational Design Of Selective Benzoxazepin Inhibitors Of The Alpha-Isoform Of Phosphoinositide 3-Kinase Culminating In The Identification Of (S)-2-((2-(1-Isopropyl-1H-1, 2, 4-Triazol-5-Yl)-5, 6-Dihydrobenzo[F]Imidazo[1, 2-D][1, 4]Oxazepin-9-Yl)Oxy) Propanamide (Gdc-0326).
J. Med. Chem. V. 59 985 2016
PubMed-ID: 26741947  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B01483

(-) Compounds

Molecule 1 - PHOSPHATIDYLINOSITOL 4,5-BISPHOSPHATE 3-KINASE CATALYTIC SUBUNIT ALPHA ISOFORM
    Chains: A
    EC Number: 2.7.1.153, 2.7.11.1
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Fragment: PI3-KINASE P110 ALPHA, UNP RESIDUES 107-1068
    Gene: PIK3CA
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PTDINS-3-KINASE SUBUNIT ALPHA,PHOSPHATIDYLINOSITOL 4,5- BISPHOSPHATE 3-KINASE 110 KDA CATALYTIC SUBUNIT ALPHA,P110ALPHA, PHOSPHOINOSITIDE-3-KINASE CATALYTIC ALPHA POLYPEPTIDE, SERINE/THREONINE PROTEIN KINASE PIK3CA

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
15H51Ligand/Ion(2S)-2-({2-[1-(PROPAN-2-YL)-1H-1,2,4-TRIAZOL-5-YL]-5,6-DIHYDROIMIDAZO[1,2-D][1,4]BENZOXAZEPIN-9-YL}OXY)PROPANAMIDE
2EDO1Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:774 , TRP A:780 , TYR A:836 , ILE A:848 , GLU A:849 , VAL A:851 , SER A:854 , GLN A:859 , MET A:922 , PHE A:930 , ILE A:932 , ASP A:933 , EDO A:1102 , HOH A:1205 , HOH A:1302binding site for residue 5H5 A 1101
2AC2SOFTWARESER A:774 , THR A:856 , GLN A:859 , 5H5 A:1101binding site for residue EDO A 1102

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5DXT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5DXT)

(-) 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:879
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhh.....eeeeeeee....eeeeeeee...hhhhhhhhhhhhhhhh...eeeee...........hhhhhhhhhhhhhhh...eeeeeehhhhhh.........hhhhh..eeee.hhh..eeeeeeeeee......eeeeeeee..ee....ee.........eeeeeeeeeee.hhh...eeeeeeeee....eeeeeeeee...........eeeee.ee....................eeeeee....eeee..hhhhhhhhhhhhhhhhhh.hhhhhhh..........hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh....hhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh..eee..eeeeee........ee.......eeeeee....hhhhh..eeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.........eeeee..eeeee....eeehhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eeee....eee.................hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5dxt A  107 NREEKILNREIGFAIGMPVCEFDMVKDPEVQDFRRNILNVCKEAVDLRDLNSPHSRAMYVYPPNVESSPELPKHIYNKLDKGQIIVVIWVIVDKQKYTLKINHDCVPEQVIAEAIRKKTRSMGKYILKVCGCDEYFLEKYPLSQYKYIRSCIMLGRMPNLMLMAKESLYSQLPMDCFTMPSYSRRTSTKSLWVINSALRIKILCATYVNVNIYVRTGIYHGGEPLCDNVNTQRVPCSNPRWNEWLNYDIYIPDLPRAARLCLSICSVEEHCPLAWGNINLFDYTDTLVSGKMALNLWPVPDLLNPIGVTGSNPNKETPCLELEFDWFSSVVKFPDMSVIEEHANWSVSREAGFSYSHAGLSNRLARDNELRENDKEQLKAISTRDPLSEITEQEKDFLWSHRHYCVTIPEILPKLLLSVKWNSRDEVAQMYCLVKDWPPIKPEQAMELLDCNYPDPMVRGFAVRCLEKYLTDDKLSQYLIQLVQVLKYEQYLDNLLVRFLLKKALTNQRIGHFFFWHLKSEMHNKTVSQRFGLLLESYCRACGMYLKHLNRQVEAMEKLINLTDILKQEKKDETQKVQMKFLVEQMRRPDFMDALQGFLSPLNPAHQLGNLRLEECRIMSSAKRPLWLNWENPDIMSELLFQNNEIIFKNGDDLRQDMLTLQIIRIMENIWQNQGLDLRMLPYGCLSIGDCVGLIEVVRNSHTIMQIQCNSHTLHQWLKDKNKGEIYDAAIDLFTRSCAGYCVATFILGIGDRHNSNIMVKDDGQLFHIDFGHFLDHRERVPFVLTQDFLIVISKGAECTKTREFERFQEMCYKAYLAIRQHANLFINLFSMMLGSGMPELQSFDDIAYIRKTLALDKTEQEALEYFMKQMNDAHHGGW 1051
                                   116       126       136       146       156       166       176       186       196 ||    210       220       230 ||    255       265       275       285       295       305    || 326       336       346||     362       372       382       392       402      |419       429       439       449|      463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       873       883       893       903       913       923       933      |951       961      |972       982       992      1002      1012      1022      1032      1042         
                                                                                                                     198|                          232|                                                           310|                      347|                                                    409|                             449|                                                                                                                                                                                                                                                                                                                                                                                                                     862|                                                                940|                968|                                                                                 
                                                                                                                      203                           248                                                            322                       354                                                     417                              454                                                                                                                                                                                                                                                                                                                                                                                                                      873                                                                 949                 970
   Legend:   → Mismatch (orange background)
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  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 5DXT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (57, 57)

Asymmetric/Biological Unit(hide GO term definitions)

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UniProtKB/Swiss-Prot
        PK3CA_HUMAN | P42336: 2enq 2rd0 3hhm 3hiz 3zim 4jps 4l1b 4l23 4l2y 4ovu 4ovv 4tuu 4tv3 4waf 4ykn 4zop 5dxh 5fi4 5itd 5sw8 5swg 5swo 5swp 5swr 5swt 5sx8 5sx9 5sxa 5sxb 5sxc 5sxd 5sxe 5sxf 5sxi 5sxj 5sxk 5ubr 5uk8 5ukj 5ul1

(-) Related Entries Specified in the PDB File

5dxh 5dxu