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(-) Description

Title :  IRAK4-INHIBITOR CO-STRUCTURE
 
Authors :  T. O. Fischmann
Date :  11 Mar 15  (Deposition) - 20 May 15  (Release) - 08 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.32
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Kinase, Phosphatase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. T. Mcelroy, Z. Tan, G. Ho, S. Paliwal, G. Li, W. M. Seganish, D. Tulshian, J. Tata, T. O. Fischmann, C. Sondey, H. Bian, L. Bober, J. Jackson, C. G. Garlisi, K. Devito, J. Fossetta, D. Lundell, X. Niu
Potent And Selective Amidopyrazole Inhibitors Of Irak4 That Are Efficacious In A Rodent Model Of Inflammation.
Acs Med. Chem. Lett. V. 6 677 2015
PubMed-ID: 26101573  |  Reference-DOI: 10.1021/ACSMEDCHEMLETT.5B00106

(-) Compounds

Molecule 1 - INTERLEUKIN-1 RECEPTOR-ASSOCIATED KINASE 4
    Chains: A, B, C, D
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Common: FALL ARMYWORM
    Expression System Strain: SF21
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Fragment: 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

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 17)

Asymmetric Unit (3, 17)
No.NameCountTypeFull Name
14GD5Ligand/IonN-(3-METHYL-1-PHENYL-1H-PYRAZOL-5-YL)PYRAZOLO[1,5-A]PYRIMIDINE-3-CARBOXAMIDE
2SEP4Mod. Amino AcidPHOSPHOSERINE
3TPO8Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
14GD1Ligand/IonN-(3-METHYL-1-PHENYL-1H-PYRAZOL-5-YL)PYRAZOLO[1,5-A]PYRIMIDINE-3-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 2 (3, 4)
No.NameCountTypeFull Name
14GD1Ligand/IonN-(3-METHYL-1-PHENYL-1H-PYRAZOL-5-YL)PYRAZOLO[1,5-A]PYRIMIDINE-3-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 3 (3, 4)
No.NameCountTypeFull Name
14GD1Ligand/IonN-(3-METHYL-1-PHENYL-1H-PYRAZOL-5-YL)PYRAZOLO[1,5-A]PYRIMIDINE-3-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE
Biological Unit 4 (3, 5)
No.NameCountTypeFull Name
14GD2Ligand/IonN-(3-METHYL-1-PHENYL-1H-PYRAZOL-5-YL)PYRAZOLO[1,5-A]PYRIMIDINE-3-CARBOXAMIDE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3TPO2Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:192 , GLY A:193 , VAL A:200 , ALA A:211 , TYR A:262 , VAL A:263 , TYR A:264 , MET A:265 , GLY A:268binding site for residue 4GD A 501
2AC2SOFTWAREMET B:192 , GLY B:193 , VAL B:200 , ALA B:211 , TYR B:262 , VAL B:263 , TYR B:264 , MET B:265 , GLY B:268 , LEU B:318 , ASP B:329binding site for residue 4GD B 501
3AC3SOFTWAREMET C:192 , ALA C:211 , LYS C:213 , VAL C:246 , TYR C:262 , VAL C:263 , TYR C:264 , MET C:265 , GLY C:268 , LEU C:318binding site for residue 4GD C 501
4AC4SOFTWAREMET D:192 , GLY D:193 , VAL D:200 , ALA D:211 , TYR D:262 , VAL D:263 , TYR D:264 , MET D:265 , GLY D:268 , LEU D:318 , HOH D:654binding site for residue 4GD D 501
5AC5SOFTWARECYS B:289 , ASP B:422 , SER B:425 , MET B:457 , THR B:458 , ALA B:459 , TYR C:171 , HOH C:602 , HOH C:604 , HIS D:166 , PHE D:168 , VAL D:205 , ASN D:206 , THR D:208 , VAL D:210binding site for residue 4GD D 502

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YO6)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Glu A:392 -Pro A:393
2Glu B:392 -Pro B:393
3Glu C:392 -Pro C:393
4Glu D:392 -Pro D:393

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YO6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YO6)

(-) Exons   (0, 0)

(no "Exon" information available for 4YO6)

(-) 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.............eeee...eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee....ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yo6 A 163 TRFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLATTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARASEQtVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTA 459
                                   172       182       192       202       212   ||  227       237       247       257       267       277       287       297       307       317       327       337||  || 350       360       370       380       390       400       410       420       430       440       450         
                                                                               216|                                                                                                                337||  ||                                                                                                                 
                                                                                222                                                                                                                 341|  ||                                                                                                                 
                                                                                                                                                                                                     342-TPO                                                                                                                 
                                                                                                                                                                                                        345-TPO                                                                                                              
                                                                                                                                                                                                         346-SEP                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:280
                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee.hhhhhhhhh.............eeee...eeeeeeee..eeeeeeee..hhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee.........ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yo6 B 161 SDTRFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLAFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARQtVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTA 459
                                   170       180       190       200       210     ||233       243       253       263       273       283       293       303       313       323       333|||  ||349       359       369       379       389       399       409       419       429       439       449       459
                                                                                 216|                                                                                                     334||  ||                                                                                                                 
                                                                                  230                                                                                                      341|  ||                                                                                                                 
                                                                                                                                                                                            342-TPO                                                                                                                 
                                                                                                                                                                                               345-TPO                                                                                                              
                                                                                                                                                                                                346-SEP                                                                                                             


Chain C from PDB  Type:PROTEIN  Length:289
                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.hhhhhhhhh......hhhhh..eeee...eeeeeeee..eeeeeeee...hhhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee..ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh................hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yo6 C 164 RFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLAAITTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARAStVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTAS 460
                                   173       183       193       203       213   ||  226       236       246       256       266       276       286       296       306       316       326       336|  ||  351       361       371       381       391       401       411       421       431       441       451         
                                                                               217|                                                                                                                336|  ||                                                                                                                  
                                                                                221                                                                                                                 342-TPO                                                                                                                  
                                                                                                                                                                                                       345-TPO                                                                                                               
                                                                                                                                                                                                        346-SEP                                                                                                              


Chain D from PDB  Type:PROTEIN  Length:288
                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee.hhhhhhhhh......hhhhh..eeee...eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee...ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4yo6 D 164 RFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLAITTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARASEtVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTA 459
                                   173       183       193       203       213  ||   227       237       247       257       267       277       287       297       307       317       327       337|  ||  351       361       371       381       391       401       411       421       431       441       451        
                                                                              216|                                                                                                                 337|  ||                                                                                                                 
                                                                               221                                                                                                                  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 4YO6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YO6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YO6)

(-) Gene Ontology  (30, 30)

Asymmetric Unit(hide GO term definitions)

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  4yo6
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  IRAK4_HUMAN | Q9NWZ3
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  2.7.11.1
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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 4yp8 4ztl 4ztm 4ztn 5kx7 5kx8 5t1s 5t1t 5uiq 5uir 5uis 5uit 5uiu

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4YO6)