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(-) Description

Title :  CRYSTAL STRUCTURE OF IRAK4 IN COMPLEX WITH COMPOUND 30
 
Authors :  S. Han, J. S. Chang
Date :  14 Jan 17  (Deposition) - 24 May 17  (Release) - 24 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.02
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Transferase, Irak4, Kinase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  K. L. Lee, C. M. Ambler, D. R. Anderson, B. P. Boscoe, A. G. Bree, J. I. Brodfuehrer, J. S. Chang, C. Choi, S. W. Chung, K. J. Curran, J. E. Day, C. M. Dehnhardt, K. Dower, S. E. Drozda, R. K. Frisbie, L. K. Gavrin, J. A. Goldberg, S. Han, M. Hegen, D. Hepworth, H. R. Hope, S. Kamtekar, I. C. Kilty, A. Lee, L. L. Lin, F. E. Lovering, M. D. Lowe, J. P. Mathias, H. M. Morgan, E. A. Murphy, N. Papaioannou, A. Patny, B. S. Pierce, V. R. Rao, E. Saiah, I. J. Samardjiev, B. M. Samas, M. W. H. Shen, J. H. Shin, H. H. Soutter, J. W. Strohbach, P. T. Symanowicz, J. R. Thomason, J. D. Trzupek, R. Vargas, F. Vincent, J. Yan, C. W. Zapf, S. W. Wright
Discovery Of Clinical Candidate 1-{[(2S, 3S, 4S) -3-Ethyl-4-Fluoro-5-Oxopyrrolidin-2-Yl]Methoxy}-7-Methoxyis Quinoline-6-Carboxamide (Pf-06650833), A Potent, Selective Inhibitor Of Interleukin-1 Receptor Associated Kinase 4 (Irak4), By Fragment-Based Drug Design.
J. Med. Chem. 2017
PubMed-ID: 28498658  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.7B00231

(-) Compounds

Molecule 1 - INTERLEUKIN-1 RECEPTOR-ASSOCIATED KINASE 4
    ChainsA, B
    EC Number2.7.11.1
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System Taxid7108
    FragmentUNP RESIDUES 154-460
    GeneIRAK4
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymIRAK-4,RENAL CARCINOMA ANTIGEN NY-REN-64

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric Unit (3, 8)
No.NameCountTypeFull Name
18CG2Ligand/Ion1-{[(2S,3S,4S)-3-ETHYL-4-FLUORO-5-OXOPYRROLIDIN-2-YL]METHOXY}-7-METHOXYISOQUINOLINE-6-CARBOXAMIDE
2SEP2Mod. Amino AcidPHOSPHOSERINE
3TPO4Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
18CG1Ligand/Ion1-{[(2S,3S,4S)-3-ETHYL-4-FLUORO-5-OXOPYRROLIDIN-2-YL]METHOXY}-7-METHOXYISOQUINOLINE-6-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 2 (3, 4)
No.NameCountTypeFull Name
18CG1Ligand/Ion1-{[(2S,3S,4S)-3-ETHYL-4-FLUORO-5-OXOPYRROLIDIN-2-YL]METHOXY}-7-METHOXYISOQUINOLINE-6-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:192 , GLU A:194 , GLY A:195 , GLY A:198 , VAL A:200 , ALA A:211 , LYS A:213 , TYR A:262 , VAL A:263 , TYR A:264 , MET A:265 , GLY A:268 , ALA A:315 , ASN A:316 , LEU A:318 , SER A:328 , ASP A:329 , HOH A:4129 , HOH A:4149binding site for residue 8CG A 4000
2AC2SOFTWAREMET B:192 , GLU B:194 , GLY B:195 , GLY B:198 , VAL B:200 , ALA B:211 , LYS B:213 , TYR B:262 , VAL B:263 , TYR B:264 , MET B:265 , GLY B:268 , ALA B:315 , ASN B:316 , LEU B:318 , SER B:328 , ASP B:329 , HOH B:4113 , HOH B:4175binding site for residue 8CG B 4000

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Glu A:392 -Pro A:393
2Ile B:221 -Thr B:222
3Glu B:392 -Pro B:393

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5UIU)

(-) 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:289
                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee.hhhhhhhhh......hhhhh..eeeee..eeeeeeee..eeeeeeee......hhhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee..ee...........hhhhhh.ee.hhhhhhhhhhhhhhhhhh.............hhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5uiu A 165 FHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLAAMVDITTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARAStVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMT 458
                                   174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334 ||  ||349       359       369       379       389       399       409       419       429       439       449         
                                                                                                                                                                                                     336|  ||                                                                                                                
                                                                                                                                                                                                      342-TPO                                                                                                                
                                                                                                                                                                                                         345-TPO                                                                                                             
                                                                                                                                                                                                          346-SEP                                                                                                            

Chain B from PDB  Type:PROTEIN  Length:290
                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.hhhhhhhhh......hhhhh..eeeee..eeeeeeee..eeeeeeee......hhhhhhhhhhhhhhhhhhh.......eeeeeee..eeeeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee..ee......hhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5uiu B 164 RFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLAAMVDITTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARAStVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMT 458
                                   173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333  ||  |348       358       368       378       388       398       408       418       428       438       448       458
                                                                                                                                                                                                      336|  ||                                                                                                                
                                                                                                                                                                                                       342-TPO                                                                                                                
                                                                                                                                                                                                          345-TPO                                                                                                             
                                                                                                                                                                                                           346-SEP                                                                                                            

   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 5UIU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (30, 30)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        IRAK4_HUMAN | Q9NWZ32nru 2nry 2o8y 2oib 2oic 2oid 3mop 4rmz 4u97 4u9a 4xs2 4y73 4yo6 4yp8 4ztl 4ztm 4ztn 5kx7 5kx8 5t1s 5t1t 5uiq 5uir 5uis 5uit

(-) Related Entries Specified in the PDB File

5uiq 5uir 5uis 5uit