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(-) Description

Title :  CRYSTAL STRUCTURE OF IRAK4 IN COMPLEX WITH COMPOUND 14
 
Authors :  S. Han, J. S. Chang
Date :  14 Jan 17  (Deposition) - 24 May 17  (Release) - 24 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.84
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Irak4, Kinase, Transferase (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
    Chains: A, B
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Fragment: UNP RESIDUES 154-460
    Gene: IRAK4
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: IRAK-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, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
18CD2Ligand/Ion1-{[(2S)-5-OXOPYRROLIDIN-2-YL]METHOXY}-7-[(PROPAN-2-YL)OXY]ISOQUINOLINE-6-CARBOXAMIDE
2SEP2Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
18CD1Ligand/Ion1-{[(2S)-5-OXOPYRROLIDIN-2-YL]METHOXY}-7-[(PROPAN-2-YL)OXY]ISOQUINOLINE-6-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO1Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 2 (3, 3)
No.NameCountTypeFull Name
18CD1Ligand/Ion1-{[(2S)-5-OXOPYRROLIDIN-2-YL]METHOXY}-7-[(PROPAN-2-YL)OXY]ISOQUINOLINE-6-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO1Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:192 , GLU A:194 , ALA A:211 , TYR A:262 , VAL A:263 , TYR A:264 , MET A:265 , ALA A:315 , ASN A:316 , LEU A:318 , SER A:328 , HOH A:629 , HOH A:675binding site for residue 8CD A 501
2AC2SOFTWAREMET B:192 , GLU B:194 , ALA B:211 , TYR B:262 , VAL B:263 , TYR B:264 , MET B:265 , ALA B:315 , ASN B:316 , LEU B:318 , SER B:328 , HOH B:612 , HOH B:643binding site for residue 8CD B 501

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Glu A:392 -Pro A:393
2Glu B:392 -Pro B:393

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5UIT)

(-) 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:286
                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.hhhhhhhhh......hhhhh..eeee....eeeeeee..eeeeeee..hhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee..ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhhh.......hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5uit A 162 DTRFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLTTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARASTVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMT 458
                                   171       181       191       201       211   ||  227       237       247       257       267       277       287       297       307       317       327       342  ||   352       362       372       382       392       402       412       422       432       442       452      
                                                                               215|                                                                                                               336|  ||                                                                                                                
                                                                                222                                                                                                                342  ||                                                                                                                
                                                                                                                                                                                                      345-TPO                                                                                                             
                                                                                                                                                                                                       346-SEP                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:285
                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.hhhhhhhhh......hhhhh..eeee...eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhh.......eeeeee....eeeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee..ee......hhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhhh.......hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5uit B 164 RFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLATTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARASTVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMT 458
                                   173       183       193       203       213  ||   228       238       248       258       268       278       288       298       308       318       328       343 ||    353       363       373       383       393       403       413       423       433       443       453     
                                                                              216|                                                                                                               336|  ||                                                                                                                
                                                                               222                                                                                                                342  ||                                                                                                                
                                                                                                                                                                                                     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 5UIT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (30, 30)

Asymmetric Unit(hide GO term definitions)

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  IRAK4_HUMAN | Q9NWZ3
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 Related Entries

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UniProtKB/Swiss-Prot
        IRAK4_HUMAN | Q9NWZ3: 2nru 2nry 2o8y 2oib 2oic 2oid 3mop 4rmz 4u97 4u9a 4xs2 4y73 4yo6 4yp8 4ztl 4ztm 4ztn 5kx7 5kx8 5t1s 5t1t 5uiq 5uir 5uis 5uiu

(-) Related Entries Specified in the PDB File

5uiq 5uir 5uis 5uiu