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(-) Description

Title :  TRKA JM-KINASE WITH 1-(2-METHYL-4-PHENYL-PYRIMIDIN-5-YL)-3-(2-PYRIDYL)UREA
 
Authors :  H. P. Su
Date :  27 Jun 16  (Deposition) - 28 Dec 16  (Release) - 01 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.67
Chains :  Asym./Biol. Unit :  A
Keywords :  Kinase, Juxtamembrane, Inhibitor, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. P. Su, K. Rickert, C. Burlein, K. Narayan, M. Bukhtiyarova, D. M. Hurzy, C. A. Stump, X. Zhang, J. Reid, A. Krasowska-Zoladek, S. Tummala, J. M. Shipman, M. Kornienko, P. A. Lemaire, D. Krosky, A. Heller, A. Achab, C. Chamberlin, P. Saradjian, B. Sauvagnat, X. Yang, M. R. Ziebell, E. Nickbarg, J. M. Sanders, M. T. Bilodeau, S. S. Carroll, K. J. Lumb, S. M. Soisson, D. A. Henze, A. J. Cooke
Structural Characterization Of Nonactive Site, Trka-Selective Kinase Inhibitors.
Proc. Natl. Acad. Sci. V. 114 E297 2017 U. S. A.
PubMed-ID: 28039433  |  Reference-DOI: 10.1073/PNAS.1611577114

(-) Compounds

Molecule 1 - HIGH AFFINITY NERVE GROWTH FACTOR RECEPTOR
    ChainsA
    EC Number2.7.10.1
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System Taxid7108
    FragmentCATALYTIC DOMAIN WITH JUXTAMEMBRANE REGION, UNP RESDIUES 376-698
    GeneNTRK1, MTC, TRK, TRKA
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymNEUROTROPHIC TYROSINE KINASE RECEPTOR TYPE 1,TRK1- TRANSFORMING TYROSINE KINASE PROTEIN,TROPOMYOSIN-RELATED KINASE A, TYROSINE KINASE RECEPTOR,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
16UM1Ligand/Ion1-(2-METHYL-4-PHENYL-PYRIMIDIN-5-YL)-3-PYRIDIN-2-YL-UREA

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:524 , ALA A:542 , PHE A:589 , GLU A:590 , TYR A:591 , MET A:592 , GLY A:613 , LEU A:657 , PHE A:669binding site for residue 6UM A 901

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Arg A:583 -Pro A:584

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5KMO)

(-) 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    
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Chain A from PDB  Type:PROTEIN  Length:291
                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhh.eeeeeeeee....eeeeeeee.......eeeeeeee....hhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeee...eeee.......hhhhhee.....eehhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhh....hhhhh.hhhhhhhhhhhhhh.hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5kmo A 500 ACVHHIKRRDIVLKWELGEGAFGKVFLAECHNLLPEQDKMLVAVKALKESARQDFQREAELLTMLQHQHIVRFFGVCTEGRPLLMVFEYMRHGDLNRFLRSHGPDAKLGGEDVAPGPLGLGQLLAVASQVAAGMVYLAGLHFVHRDLATRNCLVGQGLVVKIGDFGRDIYSTDYYRVGGRTMLPIRWMPPESILYRKFTTESDVWSFGVVLWEIFTYGKQPWYQLSNTEAIDCITQGRELERPRACPPEVYAIMRGCWQREPQQRHSIKDVHARLQALAQAPPVYLDVLGH 797
                                   509       519       529       539       552       562       572       582       592       602       614       624       634       644       654       664     ||676       686       696       706       716       726       736       746       756       766       776       786       796 
                                                                          548|                                                       610|                                                      670|                                                                                                                            
                                                                           552                                                        613                                                       673                                                                                                                            

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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 5KMO)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (88, 88)

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
        NTRK1_HUMAN | P046291he7 1shc 1wwa 1www 2ifg 2n90 4aoj 4crp 4f0i 4gt5 4pmm 4pmp 4pms 4pmt 4yne 4yps 5h3q 5jfs 5jfv 5jfw 5jfx 5kmi 5kmj 5kmk 5kml 5kmm 5kmn

(-) Related Entries Specified in the PDB File

5kmi 5kmj 5kmk 5kml 5kmm 5kmn