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(-) Description

Title :  CRYSTAL STRUCTURE OF TRKA IN COMPLEX WITH PF-00593174
 
Authors :  J. Jayasankar, D. Brown, S. Skerratt, R. Kurumbail
Date :  19 Apr 16  (Deposition) - 01 Mar 17  (Release) - 01 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.07
Chains :  Asym./Biol. Unit :  A
Keywords :  Trka Inhibitor Complex, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. E. Skerratt, M. Andrews, S. K. Bagal, J. Bilsland, D. Brown, P. J. Bungay, S. Cole, K. R. Gibson, R. Jones, I. Morao, A. Nedderman, K. Omoto, C. Robinson, T. Ryckmans, K. Skinner, P. Stupple, G. Waldron
The Discovery Of A Potent, Selective, And Peripherally Restricted Pan-Trk Inhibitor (Pf-06273340) For The Treatmen Of Pain.
J. Med. Chem. V. 59 10084 2016
PubMed-ID: 27766865  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.6B00850

(-) Compounds

Molecule 1 - HIGH AFFINITY NERVE GROWTH FACTOR RECEPTOR
    Chains: A
    EC Number: 2.7.10.1
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF21S
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Gene: NTRK1, MTC, TRK, TRKA
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: NEUROTROPHIC TYROSINE KINASE RECEPTOR TYPE 1,TRK1- TRANSFORMING TYROSINE KINASE PROTEIN,TROPOMYOSIN-RELATED KINASE A, TYROSINE KINASE RECEPTOR A,TRK-A,GP140TRK,P140-TRKA

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
16K01Ligand/IonN-{4-[4-AMINO-7-(PROPAN-2-YL)-7H-PYRROLO[2,3-D]PYRIMIDINE-5-CARBONYL]PYRIDIN-2-YL}-N'-(2,4-DIFLUOROPHENYL)UREA

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:542 , LYS A:544 , LEU A:564 , LEU A:567 , VAL A:573 , PHE A:589 , GLU A:590 , TYR A:591 , MET A:592 , PHE A:646 , HIS A:648 , LEU A:657 , ILE A:666 , GLY A:667 , ASP A:668 , PHE A:669 , HOH A:4103 , HOH A:4193 , HOH A:4203binding site for residue 6K0 A 4000

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ala A:549 -Ser A:550
2Ser A:550 -Glu A:551
3Arg A:583 -Pro A:584
4Ala A:787 -Pro A:788

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5JFS)

(-) 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:277
                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh...........hhh.eeeeeeee.....eeeeeeee.......eeeeeeee.....hhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeehhheeee.....hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh.........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jfs A 489 MHHHHHHLVPRGSVHHIKRRDIVLKWELGEGAFGKVFLAECHNLLPEQDKMLVAVKALKEASESARQDFQREAELLTMLQHQHIVRFFGVCTEGRPLLMVFEYMRHGDLNRFLRSHGPVAPGPLGLGQLLAVASQVAAGMVYLAGLHFVHRDLATRNCLVGQGLVVKIGDFGLPIRWMPPESILYRKFTTESDVWSFGVVLWEIFTYGKQPWYQLSNTEAIDCITQGRELERPRACPPEVYAIMRGCWQREPQQRHSIKDVHARLQALAQAPPVYLD 793
                                   498       508       518       528       538       548       558       568       578       588       598       618       628       638       648       658       668 ||    696       706       716       726       736       746       756       766       776       786       
                                                                                                                                               606|                                                  670|                                                                                                        
                                                                                                                                                617                                                   689
   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 5JFS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (88, 88)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:549 - Ser A:550   [ RasMol ]  
    Ala A:787 - Pro A:788   [ RasMol ]  
    Arg A:583 - Pro A:584   [ RasMol ]  
    Ser A:550 - Glu A:551   [ RasMol ]  
 

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  NTRK1_HUMAN | P04629
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 Related Entries

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

UniProtKB/Swiss-Prot
        NTRK1_HUMAN | P04629: 1he7 1shc 1wwa 1www 2ifg 2n90 4aoj 4crp 4f0i 4gt5 4pmm 4pmp 4pms 4pmt 4yne 4yps 5h3q 5jfv 5jfw 5jfx 5kmi 5kmj 5kmk 5kml 5kmm 5kmn 5kmo

(-) Related Entries Specified in the PDB File

5jfv 5jfw 5jfx