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(-) Description

Title :  CRYSTAL STRUCTURE OF EGFR KINASE T790M IN COMPLEX WITH BIBW2992
 
Authors :  F. Solca, G. Dahl, A. Zoephel, G. Bader, M. Sanderson, C. Klein, O. Kraem F. Himmelsbach, E. Haaksma, G. R. Adolf
Date :  18 Jul 12  (Deposition) - 29 Aug 12  (Release) - 31 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.17
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Egf Receptor Kinase Mutant T790M, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Solca, G. Dahl, A. Zoephel, G. Bader, M. Sanderson, C. Klein, O. Kraemer, F. Himmelsbach, E. Haaksma, G. R. Adolf
Target Binding Properties And Cellular Activity Of Afatinib (Bibw 2992), An Irreversible Erbb Family Blocker.
J. Pharmacol. Exp. Ther. V. 343 342 2012
PubMed-ID: 22888144  |  Reference-DOI: 10.1124/JPET.112.197756

(-) Compounds

Molecule 1 - EPIDERMAL GROWTH FACTOR RECEPTOR
    Chains: A, B
    EC Number: 2.7.10.1
    Engineered: YES
    Fragment: KINASE DOMAIN, UNP RESIDUES 696-1022
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PROTO-ONCOGENE C-ERBB-1, RECEPTOR TYROSINE-PROTEIN KINASE ERBB-1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
10WN1Ligand/IonN-{4-[(3-CHLORO-4-FLUOROPHENYL)AMINO]-7-[(3S)-TETRAHYDROFURAN-3-YLOXY]QUINAZOLIN-6-YL}-4-(DIMETHYLAMINO)BUTANAMIDE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
10WN1Ligand/IonN-{4-[(3-CHLORO-4-FLUOROPHENYL)AMINO]-7-[(3S)-TETRAHYDROFURAN-3-YLOXY]QUINAZOLIN-6-YL}-4-(DIMETHYLAMINO)BUTANAMIDE
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
10WN-1Ligand/IonN-{4-[(3-CHLORO-4-FLUOROPHENYL)AMINO]-7-[(3S)-TETRAHYDROFURAN-3-YLOXY]QUINAZOLIN-6-YL}-4-(DIMETHYLAMINO)BUTANAMIDE
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
10WN1Ligand/IonN-{4-[(3-CHLORO-4-FLUOROPHENYL)AMINO]-7-[(3S)-TETRAHYDROFURAN-3-YLOXY]QUINAZOLIN-6-YL}-4-(DIMETHYLAMINO)BUTANAMIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:718 , ALA A:743 , LYS A:745 , GLU A:762 , MET A:790 , GLN A:791 , LEU A:792 , MET A:793 , PRO A:794 , GLY A:796 , CYS A:797 , ASP A:800 , LEU A:844 , ASP A:855BINDING SITE FOR RESIDUE 0WN A 1101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4G5P)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4G5P)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4G5P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4G5P)

(-) Exons   (0, 0)

(no "Exon" information available for 4G5P)

(-) 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:299
                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4g5pa_ A: automated matches                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................ee...eeee...eeee..ee........eeeeeeee....hhhhhhhhhhhhhhhhhh.......eeeee.....eeeee....eehhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeeee..eeee......ee.......ee...........hhhhhhh.eehhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhh.........hhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4g5p A  696 GEAPNQALLRILKETEFKKIKVLGSGAFGTVYKGLWIPEGEKVKIPVAIKELREATSPKANKEILDEAYVMASVDNPHVCRLLGICLTSTVQLIMQLMPFGCLLDYVREHKDNIGSQYLLNWCVQIAKGMNYLEDRRLVHRDLAARNVLVKTPQHVKITDFGLAKLLGAEEKEYHAEGGKVPIKWMALESILHRIYTHQSDVWSYGVTVWELMTFGSKPYDGIPASEISSILEKGERLPQPPICTIDVYMIMVKCWMIDADSRPKFRELIIEFSKMARDPQRYLVIQGDERDVVDADEY 1016
                                   705       715       725       735       745       755       765       775       785       795       805       815       825       835       845       855       865       875       885       895       905       915       925       935       945       955       965       975       985||       
                                                                                                                                                                                                                                                                                                                            986|       
                                                                                                                                                                                                                                                                                                                            1009       


Chain B from PDB  Type:PROTEIN  Length:303
                                                                                                                                                                                                                                                                                                                                                
               SCOP domains d4g5pb_ B: automated matches                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhh.eeeeeeeee....eeeeeee........eeeeeee.....hhhhhhhhhhhhhhhhhh.......eeeee.....eeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeee..eeee..........ee...hhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh.........hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh..........hhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4g5p B  697 EAPNQALLRILKETEFKKIKVLGSGAFGTVYKGLWIPEGEKVKIPVAIKELREATSPKANKEILDEAYVMASVDNPHVCRLLGICLTSTVQLIMQLMPFGCLLDYVREHKDNIGSQYLLNWCVQIAKGMNYLEDRRLVHRDLAARNVLVKTPQHVKITDFGLAKLKEYHAKVPIKWMALESILHRIYTHQSDVWSYGVTVWELMTFGSKPYDGIPASEISSILEKGERLPQPPICTIDVYMIMVKCWMIDADSRPKFRELIIEFSKMARDPQRYLVIQGDELPTDSNFYRALMDVVDADEYLI 1018
                                   706       716       726       736       746       756       766       776       786       796       806       816       826       836       846       856    || 871|      884       894       904       914       924       934       944       954       964       974       984||||   999   || 1015   
                                                                                                                                                                                              861| 871|                                                                                                           985|||      1003|        
                                                                                                                                                                                               867  875                                                                                                            989||       1010        
                                                                                                                                                                                                                                                                                                                    990|                   
                                                                                                                                                                                                                                                                                                                     993
   Legend:   → Mismatch (orange background)
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    → 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 Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4G5P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4G5P)

(-) Gene Ontology  (111, 111)

Asymmetric Unit(hide GO term definitions)

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  2.7.10.1
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 Related Entries

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

UniProtKB/Swiss-Prot
        EGFR_HUMAN | P00533: 1dnq 1dnr 1ivo 1m14 1m17 1mox 1nql 1xkk 1yy9 1z9i 2eb2 2eb3 2exp 2exq 2gs2 2gs6 2gs7 2itn 2ito 2itp 2itq 2itt 2itu 2itv 2itw 2itx 2ity 2itz 2j5e 2j5f 2j6m 2jit 2jiu 2jiv 2ks1 2m0b 2m20 2n5s 2rf9 2rfd 2rfe 2rgp 3b2u 3b2v 3bel 3buo 3c09 3g5v 3g5y 3gop 3gt8 3ika 3lzb 3njp 3ob2 3op0 3p0y 3pfv 3poz 3qwq 3ug1 3ug2 3vjn 3vjo 3vrp 3vrr 3w2o 3w2p 3w2q 3w2r 3w2s 3w32 3w33 4g5j 4hjo 4i1z 4i20 4i21 4i22 4i23 4i24 4jq7 4jq8 4jr3 4jrv 4krl 4krm 4kro 4krp 4li5 4ll0 4lqm 4lrm 4r3p 4r3r 4r5s 4riw 4rix 4riy 4rj4 4rj5 4rj6 4rj7 4rj8 4tks 4uip 4uv7 4wd5 4wkq 4wrg 4zau 4zjv 4zse 5c8k 5c8m 5c8n 5cal 5can 5cao 5cap 5caq 5cas 5cau 5cav 5cnn 5cno 5czh 5czi 5d41 5edp 5edq 5edr 5em5 5em6 5em7 5em8 5fed 5fee 5feq 5gmp 5gnk 5hcx 5hcy 5hcz 5hg5 5hg7 5hg8 5hg9 5hib 5hic 5j9y 5j9z 5jeb 5lv6 5sx4 5sx5 5u8l 5ug8 5ug9 5uga 5ugb 5ugc

(-) Related Entries Specified in the PDB File

4g5j