HEADER APOPTOSIS 07-JAN-16 2NAQ TITLE 3D NMR SOLUTION STRUCTURE OF NLRP3 PYD COMPND MOL_ID: 1; COMPND 2 MOLECULE: NACHT, LRR AND PYD DOMAINS-CONTAINING PROTEIN 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PYRIN DOMAIN RESIDUES 3-93; COMPND 5 SYNONYM: ANGIOTENSIN/VASOPRESSIN RECEPTOR AII/AVP-LIKE, CATERPILLER COMPND 6 PROTEIN 1.1, CLR1.1, COLD-INDUCED AUTOINFLAMMATORY SYNDROME 1 COMPND 7 PROTEIN, CRYOPYRIN, PYRIN-CONTAINING APAF1-LIKE PROTEIN 1; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: NLRP3, C1ORF7, CIAS1, NALP3, PYPAF1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET-15B KEYWDS DEATH DOMAIN SUPERFAMILY, APOPTOSIS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR E.DE ALBA,J.OROZ REVDAT 4 14-JUN-23 2NAQ 1 REMARK REVDAT 3 28-SEP-16 2NAQ 1 JRNL REVDAT 2 17-AUG-16 2NAQ 1 JRNL REVDAT 1 27-JUL-16 2NAQ 0 JRNL AUTH J.OROZ,S.BARRERA-VILARMAU,C.ALFONSO,G.RIVAS,E.DE ALBA JRNL TITL ASC PYRIN DOMAIN SELF-ASSOCIATES AND BINDS NLRP3 PROTEIN JRNL TITL 2 USING EQUIVALENT BINDING INTERFACES. JRNL REF J.BIOL.CHEM. V. 291 19487 2016 JRNL REFN ISSN 0021-9258 JRNL PMID 27432880 JRNL DOI 10.1074/JBC.M116.741082 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH, X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH), SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X- REMARK 3 PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2NAQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000104632. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 3.6 REMARK 210 IONIC STRENGTH : 0.0051 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 100-200 UM [U-13C; U-15N] REMARK 210 PROTEIN, 5 MM [U-2H] TCEP, 100 REMARK 210 UM SODIUM AZIDE, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HBHA(CO)NH; 3D REMARK 210 H(CCO)NH; 3D HCCH-TOCSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRDRAW, PIPP, TOPSPIN, REMARK 210 TALOS, MOLMOL, PROCHECKNMR REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 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 ALA A 2 97.46 -165.42 REMARK 500 1 LYS A 34 74.62 -170.58 REMARK 500 1 ASN A 77 74.48 54.95 REMARK 500 2 ALA A 2 97.48 -165.55 REMARK 500 2 ASP A 29 32.21 -80.25 REMARK 500 2 ASN A 77 71.46 62.99 REMARK 500 2 ARG A 78 38.23 -153.56 REMARK 500 3 LYS A 34 57.48 -148.89 REMARK 500 3 ASN A 77 70.69 56.21 REMARK 500 3 ARG A 78 39.99 -149.41 REMARK 500 4 ALA A 2 97.40 -165.41 REMARK 500 4 ASP A 29 29.80 -75.27 REMARK 500 4 ASN A 77 86.45 54.10 REMARK 500 4 ARG A 78 30.18 -156.57 REMARK 500 5 ALA A 2 97.33 -165.39 REMARK 500 5 ASP A 29 3.15 -66.25 REMARK 500 5 ASN A 77 5.37 55.72 REMARK 500 6 LYS A 34 35.00 -164.92 REMARK 500 6 ASN A 77 16.92 58.83 REMARK 500 7 ALA A 2 97.31 -67.61 REMARK 500 7 ASP A 29 52.00 -143.74 REMARK 500 7 LYS A 34 90.35 -169.53 REMARK 500 7 ASN A 77 82.50 59.02 REMARK 500 7 ARG A 78 33.92 -155.53 REMARK 500 8 ASP A 14 0.98 -62.31 REMARK 500 8 ASP A 29 51.44 -100.57 REMARK 500 8 LYS A 34 52.16 -167.12 REMARK 500 8 ASN A 77 91.92 58.67 REMARK 500 8 ARG A 78 29.21 -144.81 REMARK 500 8 GLU A 89 109.57 -55.45 REMARK 500 9 ALA A 2 105.64 -165.40 REMARK 500 9 ASP A 29 36.48 -78.40 REMARK 500 9 LYS A 34 95.59 -170.04 REMARK 500 9 ASN A 77 83.72 56.04 REMARK 500 9 ARG A 78 30.53 -159.30 REMARK 500 9 GLU A 89 109.49 -54.60 REMARK 500 10 ALA A 2 114.82 -165.45 REMARK 500 10 LYS A 34 94.22 -170.48 REMARK 500 10 ASN A 77 75.44 57.38 REMARK 500 10 ARG A 78 45.47 -143.49 REMARK 500 11 ALA A 2 97.01 -69.68 REMARK 500 11 LYS A 34 47.91 36.40 REMARK 500 11 ARG A 78 50.63 -92.53 REMARK 500 12 ALA A 2 107.07 -165.51 REMARK 500 12 ASP A 29 35.98 -74.41 REMARK 500 12 GLU A 89 109.32 -54.87 REMARK 500 13 ASP A 14 1.01 -68.01 REMARK 500 13 LYS A 34 38.92 -168.47 REMARK 500 13 ASN A 77 77.97 58.88 REMARK 500 13 ARG A 78 36.04 -154.01 REMARK 500 REMARK 500 THIS ENTRY HAS 73 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25943 RELATED DB: BMRB DBREF 2NAQ A 1 91 UNP Q96P20 NLRP3_HUMAN 3 93 SEQRES 1 A 91 MET ALA SER THR ARG CYS LYS LEU ALA ARG TYR LEU GLU SEQRES 2 A 91 ASP LEU GLU ASP VAL ASP LEU LYS LYS PHE LYS MET HIS SEQRES 3 A 91 LEU GLU ASP TYR PRO PRO GLN LYS GLY CYS ILE PRO LEU SEQRES 4 A 91 PRO ARG GLY GLN THR GLU LYS ALA ASP HIS VAL ASP LEU SEQRES 5 A 91 ALA THR LEU MET ILE ASP PHE ASN GLY GLU GLU LYS ALA SEQRES 6 A 91 TRP ALA MET ALA VAL TRP ILE PHE ALA ALA ILE ASN ARG SEQRES 7 A 91 ARG ASP LEU TYR GLU LYS ALA LYS ARG ASP GLU PRO LYS HELIX 1 1 SER A 3 LEU A 15 1 13 HELIX 2 2 GLU A 16 ASP A 29 1 14 HELIX 3 3 PRO A 40 ALA A 47 1 8 HELIX 4 4 ASP A 48 ASN A 60 1 13 HELIX 5 5 ASN A 60 ILE A 76 1 17 HELIX 6 6 ARG A 78 GLU A 89 1 12 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