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(-) Description

Title :  EPHB3 KINASE DOMAIN COVALENTLY BOUND TO AN IRREVERSIBLE INHIBITOR (COMPOUND 6)
 
Authors :  M. Schimpl, R. Overman, A. Kung, Y. -C. Chen, F. Ni, J. Zhu, M. Turner, H. M C. Zhang
Date :  30 May 16  (Deposition) - 10 Aug 16  (Release) - 07 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.26
Chains :  Asym./Biol. Unit :  A
Keywords :  Kinase, Irreversible Inhibitor, Quinazoline, Signaling, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Kung, Y. C. Chen, M. Schimpl, F. Ni, J. Zhu, M. Turner, H. Molina, R. Overman, C. Zhang
Development Of Specific, Irreversible Inhibitors For A Receptor Tyrosine Kinase Ephb3.
J. Am. Chem. Soc. V. 138 10554 2016
PubMed-ID: 27478969  |  Reference-DOI: 10.1021/JACS.6B05483

(-) Compounds

Molecule 1 - EPHRIN TYPE-B RECEPTOR 3
    Chains: A
    EC Number: 2.7.10.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: EPHB3, ETK2, HEK2, TYRO6
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: EPH-LIKE TYROSINE KINASE 2,EPH-LIKE KINASE 2,EMBRYONIC KINASE 2,HEK2,TYROSINE-PROTEIN KINASE TYRO6

 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
16P81Ligand/Ion~{N}-(4-PHENYLAZANYLQUINAZOLIN-7-YL)ETHANAMIDE
2DIO1Ligand/Ion1,4-DIETHYLENE DIOXIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:663 , LYS A:665 , THR A:711 , GLU A:712 , MET A:714 , CYS A:717 , LEU A:765 , SER A:775 , ASP A:776binding site for residue 6P8 A 1001
2AC2SOFTWAREMET A:686 , PHE A:689 , TYR A:754 , HIS A:756 , VAL A:774 , PHE A:777binding site for residue DIO A 1002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5L6P)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Arg A:705 -Pro A:706

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5L6P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5L6P)

(-) Exons   (0, 0)

(no "Exon" information available for 5L6P)

(-) 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:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee...eeeeeeee.......eeeeeeee....hhhhhhhhhhhhhhhh.........eeeee......eeeee.....hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee..........................hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5l6p A 632 CVKIEEVIGAGEFGEVCRGRLKQPGRREVFVAIKTLKVGYTERQRRDFLSEASIMGQFDHPNIIRLEGVVTKSRPVMILTEFMENCALDSFLRLNDGQFTVIQLVGMLRGIAAGMKYLSEMNYVHRDLAARNILVNSNLVCKVSDFGLSRFLEDDPSDPTYTSSLGGKIPIRWTAPEAIAYRKFTSASDVWSYGIVMWEVMSYGERPYWDMSNQDVINAVEQDYRLPPPMDCPTALHQLMLDCWVRDRNLRPKFSQIVNTLDKLIRNPASLKVI 905
                                   641       651       661       671       681       691       701       711       721       731       741       751       761       771       781       791       801       811       821       831       841       851       861       871       881       891       901
   Legend:   → Mismatch (orange background)
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  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 5L6P)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5L6P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5L6P)

(-) Gene Ontology  (43, 43)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        EPHB3_HUMAN | P54753: 3p1i 3zfy 5l6o

(-) Related Entries Specified in the PDB File

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