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(-) Description

Title :  IRAK4-INHIBITOR CO-STRUCTURE
 
Authors :  T. O. Fischmann
Date :  20 Jul 16  (Deposition) - 17 Aug 16  (Release) - 24 Aug 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Kinase, Phosphatase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Hanisak, W. M. Seganish, W. T. Mcelroy, H. Tang, R. Zhang, H. C. Tsui, T. Fischmann, D. Tulshian, J. Tata, C. Sondey, K. Devito, J. Fossetta, C. G. Garlisi, D. Lundell, X. Niu
Efforts Towards The Optimization Of A Bi-Aryl Class Of Potent Irak4 Inhibitors.
Bioorg. Med. Chem. Lett. V. 26 4250 2016
PubMed-ID: 27476420  |  Reference-DOI: 10.1016/J.BMCL.2016.07.048

(-) 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 Cell Line: SF21
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Fragment: KINASE DOMAIN (UNP RESIDUES 160-460)
    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, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
16YD1Ligand/Ion~{N}-(3-AMINOCARBONYL-1-METHYL-PYRAZOL-4-YL)-6-(1-METHYLPYRAZOL-4-YL)PYRIDINE-2-CARBOXAMIDE
2SEP2Mod. Amino AcidPHOSPHOSERINE
3TPO4Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
16YD-1Ligand/Ion~{N}-(3-AMINOCARBONYL-1-METHYL-PYRAZOL-4-YL)-6-(1-METHYLPYRAZOL-4-YL)PYRIDINE-2-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 2 (3, 4)
No.NameCountTypeFull Name
16YD1Ligand/Ion~{N}-(3-AMINOCARBONYL-1-METHYL-PYRAZOL-4-YL)-6-(1-METHYLPYRAZOL-4-YL)PYRIDINE-2-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET B:192 , ALA B:211 , LYS B:213 , VAL B:246 , TYR B:262 , VAL B:263 , MET B:265 , GLY B:268 , LEU B:318binding site for residue 6YD B 9901

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5KX7)

(-) 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 5KX7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KX7)

(-) Exons   (0, 0)

(no "Exon" information available for 5KX7)

(-) 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:240
                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............ee..hhhhhh.........eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee........eee.....eee......ee...ee......hhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhhh.......hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5kx7 A 192 MGEGGFGVVYKTTVAVQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARASEtVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTA 459
                                   201||   ||235       245       255       265       275       285       295       305       315       325       335 ||  ||349       359       369       379       389       399       409       419       429       439       449       459
                                    202| 212|                                                                                                      337|  ||                                                                                                                 
                                     208  232                                                                                                       342-TPO                                                                                                                 
                                                                                                                                                       345-TPO                                                                                                              
                                                                                                                                                        346-SEP                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:289
                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee..hhhhhhhh.............eeee....eeeeeee..eeeeeee....hhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....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
                 5kx7 B 163 TRFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLAATTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARASEtVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTA 459
                                   172       182       192       202       212    || 226       236       246       256       266       276       286       296       306       316       326       336||  || 350       360       370       380       390       400       410       420       430       440       450         
                                                                                217|                                                                                                                337|  ||                                                                                                                 
                                                                                 222                                                                                                                 342-TPO                                                                                                                 
                                                                                                                                                                                                        345-TPO                                                                                                              
                                                                                                                                                                                                         346-SEP
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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 5KX7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KX7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KX7)

(-) Gene Ontology  (30, 30)

Asymmetric Unit(hide GO term definitions)

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  5kx7
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  IRAK4_HUMAN | Q9NWZ3
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  2.7.11.1
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  IRAK4_HUMAN | Q9NWZ3
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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

5kx8