5T1T - JenaLib

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Biological Unit 4 (Jmol Viewer)

Title :   IRAK4 KINASE - COMPOUND 1 CO-STRUCTURE

Authors :   T. O. Fischmann

Date :   22 Aug 16 (Deposition) - 03 May 17 (Release) - 28 Jun 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.34

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 :   Inase, Phosphatase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. F. Smith, M. D. Altman, B. Andresen, J. Baker, J. D. Brubaker, H. Chen Y. Chen, M. Childers, A. Donofrio, H. Ferguson, C. Fischer, T. O. Fischmann, C. Gibeau, A. Hicks, S. Jin, S. Kattar, M. A. Kleinschek, E. Leccese, C. Lesburg, C. Li, J. Lim, D. Liu, J. K. F. Maclean, F. Mansoor, L. Y. Moy, E. F. Mulrooney, A. S. Necheva, J. Presland, L. Rakhilina, R. Yang, L. Torres, J. Zhang-Hoover, A. Northrup
Identification Of Quinazoline Based Inhibitors Of Irak4 For The Treatment Of Inflammation.
Bioorg. Med. Chem. Lett. V. 27 2721 2017
PubMed-ID: 28501511 | Reference-DOI: 10.1016/J.BMCL.2017.04.050

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 Strain	:	SF21
	Expression System Taxid	:	7108
	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

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
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)

Asymmetric Unit (3, 16)

No.	Name	Count	Type	Full Name
1	76P	4	Ligand/Ion	~{N},~{N}-DIMETHYL-4-(6-NITROQUINAZOLIN-4-YL)OXY-CYCLOHEXAN-1-AMINE
2	SEP	4	Mod. Amino Acid	PHOSPHOSERINE
3	TPO	8	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	76P	1	Ligand/Ion	~{N},~{N}-DIMETHYL-4-(6-NITROQUINAZOLIN-4-YL)OXY-CYCLOHEXAN-1-AMINE
2	SEP	1	Mod. Amino Acid	PHOSPHOSERINE
3	TPO	2	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 2 (3, 4)

No.	Name	Count	Type	Full Name
1	76P	1	Ligand/Ion	~{N},~{N}-DIMETHYL-4-(6-NITROQUINAZOLIN-4-YL)OXY-CYCLOHEXAN-1-AMINE
2	SEP	1	Mod. Amino Acid	PHOSPHOSERINE
3	TPO	2	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 3 (3, 4)

No.	Name	Count	Type	Full Name
1	76P	1	Ligand/Ion	~{N},~{N}-DIMETHYL-4-(6-NITROQUINAZOLIN-4-YL)OXY-CYCLOHEXAN-1-AMINE
2	SEP	1	Mod. Amino Acid	PHOSPHOSERINE
3	TPO	2	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 4 (3, 4)

No.	Name	Count	Type	Full Name
1	76P	1	Ligand/Ion	~{N},~{N}-DIMETHYL-4-(6-NITROQUINAZOLIN-4-YL)OXY-CYCLOHEXAN-1-AMINE
2	SEP	1	Mod. Amino Acid	PHOSPHOSERINE
3	TPO	2	Mod. Amino Acid	PHOSPHOTHREONINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MET A:192 , ALA A:211 , LYS A:213 , TYR A:262 , VAL A:263 , MET A:265 , ASP A:272 , LEU A:318 , SER A:328 , HOH A:0002	binding site for residue 76P A 9901
2	AC2	SOFTWARE	MET B:192 , ALA B:211 , LYS B:213 , VAL B:246 , TYR B:262 , VAL B:263 , MET B:265 , ASP B:272 , LEU B:318 , SER B:328 , HOH B:0004	binding site for residue 76P B 9901
3	AC3	SOFTWARE	MET C:192 , ALA C:211 , LYS C:213 , VAL C:246 , TYR C:262 , VAL C:263 , MET C:265 , ASP C:272 , LEU C:318	binding site for residue 76P C 9901
4	AC4	SOFTWARE	MET D:192 , GLY D:193 , ALA D:211 , LYS D:213 , VAL D:246 , TYR D:262 , VAL D:263 , MET D:265 , ASP D:272 , LEU D:318 , HOH D:0002	binding site for residue 76P D 9901

(no "SS Bond" information available for 5T1T)

Asymmetric Unit

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

(no "SAP(SNP)/Variant" information available for 5T1T)

(no "PROSITE Motif" information available for 5T1T)

(no "Exon" information available for 5T1T)

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.............eeee...eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee.........ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t1t A 163 TRFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLATTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARAtVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTA 459
                                   172       182       192       202       212   ||  227       237       247       257       267       277       287       297       307       317       327       343 ||    353       363       373       383       393       403       413       423       433       443       453      
                                                                               216|                                                                                                              335|  ||                                                                                                                 
                                                                                222                                                                                                               342-TPO                                                                                                                 
                                                                                                                                                                                                     345-TPO                                                                                                              
                                                                                                                                                                                                      346-SEP

Chain B from PDB  Type:PROTEIN  Length:283
                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee.hhhhhhhhh.............eeee...eeeeeeee..eeeeeeee..hhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee..........ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t1t B 161 SDTRFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLAQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARAQtVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTA 459
                                   170       180       190       200       210     ||231       241       251       261       271       281       291       301       311       321       331   ||| 346       356       366       376       386       396       406       416       426       436       446       456   
                                                                                 216|                                                                                                        335||  ||                                                                                                                 
                                                                                  228                                                                                                         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........eee.....eee......ee...ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t1t C 164 RFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLAITTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARASEtVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTAS 460
                                   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

Chain D 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...eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee..ee......hhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhh........hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t1t D 164 RFHSFSFYELKNVTNNFDERPISVGGNKMGEGGFGVVYKGYVNNTTVAVKKLATTEELKQQFDQEIKVMAKCQHENLVELLGFSSDGDDLCLVYVYMPNGSLLDRLSCLDGTPPLSWHMRCKIAQGAANGINFLHENHHIHRDIKSANILLDEAFTAKISDFGLARAStVMtsRIVGTTAYMAPEALRGEITPKSDIYSFGVVLLEIITGLPAVDEHREPQLLLDIKEEIEDEEKTIEDYIDKKMNDADSTSVEAMYSVASQCLHEKKNKRPDIKKVQQLLQEMTA 459
                                   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-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 '\|'

(no "SCOP Domain" information available for 5T1T)

(no "CATH Domain" information available for 5T1T)

(no "Pfam Domain" information available for 5T1T)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
	Complete Structure
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	Ligands, Modified Residues, Ions
		76P	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SEP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		TPO	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
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		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Glu A:392 - Pro A:393	[ RasMol ]
		Glu B:392 - Pro B:393	[ RasMol ]
		Glu C:392 - Pro C:393	[ RasMol ]
		Glu D:392 - Pro D:393	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]

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Access by PDB/NDB ID
	5t1t
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	IRAK4_HUMAN \| Q9NWZ3
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	2.7.11.1
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 16)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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Gene Ontology (30, 30)

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