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(-) Description

Title :  DISCOVERY OF A POTENT BTK INHIBITOR WITH A NOVEL BINDING MODE USING PARALLEL SELECTIONS WITH A DNA-ENCODED CHEMICAL LIBRARY
 
Authors :  J. W. Cuozzo, P. A. Centrella, D. Gikunju, S. Habeshian, C. D. Hupp, A. D. E. Sigel, H. H. Soutter, H. A. Thomson, Y. Zhang, M. A. Clark
Date :  16 Dec 16  (Deposition) - 18 Jan 17  (Release) - 10 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.33
Chains :  Asym./Biol. Unit :  A
Keywords :  Brutons Tyrosine Kinase, Btk, Protein Kinase, Dna Encoded Library, Proteros Biostructures Gmbh, Antitumor Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. W. Cuozzo, P. A. Centrella, D. Gikunju, S. Habeshian, C. D. Hupp, A. D. Keefe, E. A. Sigel, H. H. Soutter, H. A. Thomson, Y. Zhang, M. A. Clark
Discovery Of A Potent Btk Inhibitor With A Novel Binding Mode By Using Parallel Selections With A Dna-Encoded Chemical Library.
Chembiochem V. 18 864 2017
PubMed-ID: 28056160  |  Reference-DOI: 10.1002/CBIC.201600573

(-) Compounds

Molecule 1 - TYROSINE-PROTEIN KINASE BTK
    Chains: A
    EC Number: 2.7.10.2
    Engineered: YES
    Expression System: UNIDENTIFIED BACULOVIRUS
    Expression System Taxid: 10469
    Fragment: KINASE DOMAIN, UNP RESIDUES 423-693
    Gene: BTK, AGMX1, ATK, BPK
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: AGAMMAGLOBULINEMIA TYROSINE KINASE,ATK,B-CELL PROGENITOR KINASE,BPK,BRUTON TYROSINE KINASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
183P1Ligand/Ion(R)-N-METHYL-2-(3-((QUINOXALIN-6-YLAMINO)METHYL)FURAN-2-CARBONYL)-2,3,4,9-TETRAHYDRO-1H-PYRIDO[3,4-B]INDOLE-3-CARBOXAMIDE
2EDO3Ligand/Ion1,2-ETHANEDIOL
3PEG2Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:408 , GLY A:409 , THR A:410 , GLY A:411 , GLN A:412 , PHE A:413 , GLY A:414 , VAL A:416 , ALA A:428 , LYS A:430 , MET A:431 , ILE A:472 , GLU A:475 , MET A:477 , LEU A:528 , ASP A:539 , HOH A:899 , HOH A:908 , HOH A:958 , HOH A:1033binding site for residue 83P A 701
2AC2SOFTWARELYS A:400 , TYR A:571 , LYS A:573 , ARG A:618 , HIS A:620 , LEU A:621 , ALA A:622 , SER A:623 , HOH A:803 , HOH A:876binding site for residue EDO A 702
3AC3SOFTWARETYR A:598 , GLU A:599 , ARG A:600 , HOH A:830 , HOH A:859 , HOH A:870binding site for residue EDO A 703
4AC4SOFTWAREPHE A:404 , GLU A:407 , LYS A:417binding site for residue EDO A 704
5AC5SOFTWARETRP A:421 , TYR A:461binding site for residue PEG A 705
6AC6SOFTWARELYS A:420 , GLN A:424 , TYR A:425 , ASP A:426 , HOH A:894binding site for residue PEG A 706

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5U9D)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Arg A:468 -Pro A:469

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5U9D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5U9D)

(-) Exons   (0, 0)

(no "Exon" information available for 5U9D)

(-) 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:271
                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhh.eeeeeeeeee..eeeeeeee...eeeeeeee.....hhhhhhhhhhhhh.........eeeee......eeee.....eehhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee...hhhhhh.hhhhhh......hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhh...hhhhh.hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5u9d A 389 GLGYGSWEIDPKDLTFLKELGTGQFGVVKYGKWRGQYDVAIKMIKEGSMSEDEFIEEAKVMMNLSHEKLVQLYGVCTKQRPIFIITEYMANGCLLNYLREMRHRFQTQQLLEMCKDVCEAMEYLESKQFLHRDLAARNCLVNDQGVVKVSDFGLSRYVLDDEYTSSVGSKFPVRWSPPEVLMYSKFSSKSDIWAFGVLMWEIYSLGKMPYERFTNSETAEHIAQGLRLYRPHLASEKVYTIMYSCWHEKADERPTFKILLSNILDVMDEES 659
                                   398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658
   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 5U9D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5U9D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5U9D)

(-) Gene Ontology  (49, 49)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg A:468 - Pro A:469   [ RasMol ]  
 

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  5u9d
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  BTK_HUMAN | Q06187
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  2.7.10.2
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 Related Entries

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

UniProtKB/Swiss-Prot
        BTK_HUMAN | Q06187: 1aww 1awx 1b55 1btk 1bwn 1k2p 1qly 2ge9 2z0p 3gen 3k54 3ocs 3oct 3p08 3pix 3piy 3piz 3pj1 3pj2 3pj3 4nwm 4ot5 4ot6 4otf 4otq 4otr 4rfy 4rfz 4rg0 4rx5 4yhf 4z3v 4zly 4zlz 5bpy 5bq0 5fbn 5fbo 5j87 5jrs 5kup 5p9f 5p9g 5p9h 5p9i 5p9j 5p9k 5p9l 5p9m 5t18 5vgo

(-) Related Entries Specified in the PDB File

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