HEADER TRANSFERASE 20-JAN-17 5UKE TITLE NMR STRUCTURE OF MONOMERIC HUMAN IRAK-M DEATH DOMAIN R56D, Y61E MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERLEUKIN-1 RECEPTOR-ASSOCIATED KINASE 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DEATH DOMAIN (UNP RESIDUES 1-119); COMPND 5 SYNONYM: IRAK-3,IL-1 RECEPTOR-ASSOCIATED KINASE M,IRAK-M; COMPND 6 EC: 2.7.11.1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: IRAK3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_CELL: BL21(DE3) GOLD; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMAL-C2X KEYWDS IRAK-M, DEATH DOMAIN, INNATE IMMUNITY, ASTHMA, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.KWON,L.K.NICHOLSON REVDAT 4 01-MAY-24 5UKE 1 REMARK REVDAT 3 04-DEC-19 5UKE 1 REMARK REVDAT 2 06-FEB-19 5UKE 1 JRNL REVDAT 1 24-JAN-18 5UKE 0 JRNL AUTH M.NECHAMA,J.KWON,S.WEI,A.T.KYI,R.S.WELNER,I.Z.BEN-DOV, JRNL AUTH 2 M.S.ARREDOUANI,J.M.ASARA,C.H.CHEN,C.Y.TSAI,K.F.NELSON, JRNL AUTH 3 K.S.KOBAYASHI,E.ISRAEL,X.Z.ZHOU,L.K.NICHOLSON,K.P.LU JRNL TITL THE IL-33-PIN1-IRAK-M AXIS IS CRITICAL FOR TYPE 2 IMMUNITY JRNL TITL 2 IN IL-33-INDUCED ALLERGIC AIRWAY INFLAMMATION. JRNL REF NAT COMMUN V. 9 1603 2018 JRNL REFN ESSN 2041-1723 JRNL PMID 29686383 JRNL DOI 10.1038/S41467-018-03886-6 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PONDEROSA REMARK 3 AUTHORS : NMRFAM (UNIVERSITY OF WISCONSIN-MADISON), WOONGHEE REMARK 3 LEE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NIH-XPLOR IMBEDDED TO PONDEROSA REMARK 4 REMARK 4 5UKE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1000226004. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.67 REMARK 210 IONIC STRENGTH : 0.0229 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 800 UM [U-99% 13C; U-99% 15N] REMARK 210 IRAK-M DEATH DOMAIN_R56D_Y61E, REMARK 210 20 MM SODIUM CHLORIDE, 5 MM TCEP, REMARK 210 10 MM TRIS, 5 MM SODIUM AZIDE, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D CBCA(CO)NH; 3D C(CO)NH; 3D REMARK 210 HNCO; 3D HNCA; 3D HNCACB; 3D REMARK 210 HN(CO)CA; 3D H(CCO)NH; 3D HCCH- REMARK 210 TOCSY; 3D 1H-15N NOESY; 3D 1H- REMARK 210 15N TOCSY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : PINE 2.0, SPARKY 3.115, NMRPIPE, REMARK 210 PONDEROSA REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 ASP A 24 71.01 -112.56 REMARK 500 1 LEU A 25 156.92 -44.68 REMARK 500 1 PRO A 26 165.73 -39.03 REMARK 500 1 PRO A 27 -8.95 -50.06 REMARK 500 1 LEU A 29 -78.65 -107.82 REMARK 500 1 LYS A 71 142.64 96.50 REMARK 500 1 TRP A 81 -89.57 -86.26 REMARK 500 1 ALA A 82 -86.25 -107.59 REMARK 500 1 LYS A 84 -44.20 -132.66 REMARK 500 2 ASP A 24 70.67 -110.11 REMARK 500 2 LEU A 25 156.18 -46.35 REMARK 500 2 PRO A 26 165.68 -38.83 REMARK 500 2 PRO A 27 -8.94 -48.91 REMARK 500 2 LEU A 29 -78.33 -106.65 REMARK 500 2 LYS A 71 141.56 94.91 REMARK 500 2 TRP A 81 -89.48 -85.40 REMARK 500 2 ALA A 82 -87.17 -107.53 REMARK 500 2 LYS A 84 -43.51 -132.30 REMARK 500 2 SER A 120 -148.92 60.64 REMARK 500 3 ASP A 24 70.28 -109.91 REMARK 500 3 LEU A 25 156.38 -48.34 REMARK 500 3 PRO A 26 163.67 -34.93 REMARK 500 3 PRO A 27 -8.72 -49.24 REMARK 500 3 LEU A 29 -79.19 -108.64 REMARK 500 3 LEU A 58 -40.83 73.25 REMARK 500 3 LYS A 71 139.10 158.58 REMARK 500 3 TRP A 81 -89.97 -86.27 REMARK 500 3 ALA A 82 -87.07 -107.82 REMARK 500 3 LYS A 84 -43.57 -131.95 REMARK 500 3 ASN A 85 28.93 49.73 REMARK 500 4 ALA A 7 -163.77 65.14 REMARK 500 4 ASP A 24 71.85 -112.42 REMARK 500 4 LEU A 25 155.45 -44.53 REMARK 500 4 PRO A 26 165.80 -38.69 REMARK 500 4 PRO A 27 -8.69 -49.05 REMARK 500 4 LEU A 29 -78.64 -108.38 REMARK 500 4 LYS A 71 141.77 94.18 REMARK 500 4 TRP A 81 -90.57 -87.58 REMARK 500 4 ALA A 82 -86.81 -108.44 REMARK 500 4 LYS A 84 -43.49 -132.62 REMARK 500 4 ALA A 112 164.39 65.89 REMARK 500 5 MET A 6 -131.08 61.34 REMARK 500 5 ARG A 13 -161.57 -160.80 REMARK 500 5 ALA A 15 -165.98 -119.66 REMARK 500 5 LEU A 25 154.21 -47.37 REMARK 500 5 PRO A 26 166.41 -38.61 REMARK 500 5 PRO A 27 -9.59 -46.78 REMARK 500 5 LEU A 29 -77.88 -107.79 REMARK 500 5 LYS A 71 143.44 95.30 REMARK 500 5 SER A 72 -32.13 -132.64 REMARK 500 REMARK 500 THIS ENTRY HAS 229 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30237 RELATED DB: BMRB REMARK 900 NMR STRUCTURE OF MONOMERIC HUMAN IRAK-M DEATH DOMAIN R56D, Y61E REMARK 900 MUTANT DBREF 5UKE A 6 124 UNP Q9Y616 IRAK3_HUMAN 1 119 SEQADV 5UKE SER A 1 UNP Q9Y616 EXPRESSION TAG SEQADV 5UKE GLU A 2 UNP Q9Y616 EXPRESSION TAG SEQADV 5UKE PHE A 3 UNP Q9Y616 EXPRESSION TAG SEQADV 5UKE GLY A 4 UNP Q9Y616 EXPRESSION TAG SEQADV 5UKE SER A 5 UNP Q9Y616 EXPRESSION TAG SEQADV 5UKE ASP A 61 UNP Q9Y616 ARG 56 ENGINEERED MUTATION SEQADV 5UKE GLU A 66 UNP Q9Y616 TYR 61 ENGINEERED MUTATION SEQRES 1 A 124 SER GLU PHE GLY SER MET ALA GLY ASN CYS GLY ALA ARG SEQRES 2 A 124 GLY ALA LEU SER ALA HIS THR LEU LEU PHE ASP LEU PRO SEQRES 3 A 124 PRO ALA LEU LEU GLY GLU LEU CYS ALA VAL LEU ASP SER SEQRES 4 A 124 CYS ASP GLY ALA LEU GLY TRP ARG GLY LEU ALA GLU ARG SEQRES 5 A 124 LEU SER SER SER TRP LEU ASP VAL ASP HIS ILE GLU LYS SEQRES 6 A 124 GLU VAL ASP GLN GLY LYS SER GLY THR ARG GLU LEU LEU SEQRES 7 A 124 TRP SER TRP ALA GLN LYS ASN LYS THR ILE GLY ASP LEU SEQRES 8 A 124 LEU GLN VAL LEU GLN GLU MET GLY HIS ARG ARG ALA ILE SEQRES 9 A 124 HIS LEU ILE THR ASN TYR GLY ALA VAL LEU SER PRO SER SEQRES 10 A 124 GLU LYS SER TYR GLN GLU GLY HELIX 1 AA1 LEU A 29 LEU A 37 1 9 HELIX 2 AA2 ASP A 38 CYS A 40 5 3 HELIX 3 AA3 GLY A 45 SER A 54 1 10 HELIX 4 AA4 LEU A 58 VAL A 67 1 10 HELIX 5 AA5 ASP A 68 GLY A 70 5 3 HELIX 6 AA6 SER A 72 SER A 80 1 9 HELIX 7 AA7 THR A 87 GLY A 99 1 13 HELIX 8 AA8 HIS A 100 THR A 108 1 9 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1