HEADER SIGNALING PROTEIN, PROTEIN BINDING 21-JUL-09 2KM6 TITLE NMR STRUCTURE OF THE NLRP7 PYRIN DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: NACHT, LRR AND PYD DOMAINS-CONTAINING PROTEIN 7; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PYRIN-CONTAINING APAF1-LIKE PROTEIN 3, NUCLEOTIDE-BINDING COMPND 5 OLIGOMERIZATION DOMAIN PROTEIN 12; COMPND 6 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: NLRP7, NALP7, NOD12, PYPAF3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 DE3 STAR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PHIS PARALLEL KEYWDS NLRP7, PYRIN DOMAIN, INNATE IMMUNE SYSTEM, NALP, ATP-BINDING, DISEASE KEYWDS 2 MUTATION, LEUCINE-RICH REPEAT, NUCLEOTIDE-BINDING, IMMUNE SYSTEM, KEYWDS 3 SIGNALING PROTEIN, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.PINHEIRO,M.PROELL,R.SCHWARZENBACHER,W.PETI REVDAT 4 14-JUN-23 2KM6 1 REMARK REVDAT 3 26-FEB-20 2KM6 1 REMARK SEQADV REVDAT 2 15-SEP-10 2KM6 1 JRNL REMARK REVDAT 1 09-JUN-10 2KM6 0 JRNL AUTH A.S.PINHEIRO,M.PROELL,C.EIBL,R.PAGE,R.SCHWARZENBACHER,W.PETI JRNL TITL THREE-DIMENSIONAL STRUCTURE OF THE NLRP7 PYRIN DOMAIN: JRNL TITL 2 INSIGHT INTO PYRIN-PYRIN-MEDIATED EFFECTOR DOMAIN SIGNALING JRNL TITL 3 IN INNATE IMMUNITY. JRNL REF J.BIOL.CHEM. V. 285 27402 2010 JRNL REFN ISSN 0021-9258 JRNL PMID 20547486 JRNL DOI 10.1074/JBC.M110.113191 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1, CNS REMARK 3 AUTHORS : GUNTERT, P. ET AL. (CYANA), BRUNGER, A. ET AL. REMARK 3 (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KM6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000101293. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0.05 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0 MM [U-99% 15N] NLRP7 PYD, 20 REMARK 210 MM SODIUM PHOSPHATE, 50 MM REMARK 210 SODIUM CHLORIDE, 0.25 MM TCEP, REMARK 210 90% H2O/10% D2O; 1.0 MM [U-99% REMARK 210 13C; U-99% 15N] NLRP7 PYD, 20 MM REMARK 210 SODIUM PHOSPHATE, 50 MM SODIUM REMARK 210 CHLORIDE, 0.25 MM TCEP, 90% H2O/ REMARK 210 10% D2O; 1.0 MM NLRP7 PYD, 20 MM REMARK 210 SODIUM PHOSPHATE, 50 MM SODIUM REMARK 210 CHLORIDE, 0.25 MM TCEP, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCA; 3D REMARK 210 HNCACB; 3D CBCA(CO)NH; 3D HNCO; REMARK 210 3D HNCACO; 3D HBHA(CO)NH; 3D REMARK 210 C(CO)NH; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY; 2D 1H-1H NOESY; 2D 1H- REMARK 210 1H TOCSY; 2D 1H-1H COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE II REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 1 REMARK 465 HIS A 2 REMARK 465 LEU A 99 REMARK 465 GLU A 100 REMARK 465 HIS A 101 REMARK 465 HIS A 102 REMARK 465 HIS A 103 REMARK 465 HIS A 104 REMARK 465 HIS A 105 REMARK 465 HIS A 106 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 HZ1 LYS A 55 OE2 GLU A 58 1.56 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 ASN A 20 -55.17 -169.18 REMARK 500 1 GLU A 21 -74.83 -29.53 REMARK 500 1 ASP A 38 -83.70 46.70 REMARK 500 1 PRO A 44 94.79 -63.80 REMARK 500 1 THR A 63 -68.82 -97.98 REMARK 500 1 GLU A 84 -70.06 -45.89 REMARK 500 1 GLU A 92 -66.97 -100.00 REMARK 500 2 ASN A 20 -48.37 -165.59 REMARK 500 2 GLU A 21 -71.15 -32.30 REMARK 500 2 LYS A 42 -20.77 172.40 REMARK 500 2 PRO A 44 103.69 -55.50 REMARK 500 3 ASN A 20 -63.68 -162.66 REMARK 500 3 PRO A 35 103.70 -59.79 REMARK 500 3 PRO A 44 99.03 -55.36 REMARK 500 3 THR A 83 -68.91 -107.14 REMARK 500 3 GLU A 92 -63.74 -129.76 REMARK 500 4 ASN A 20 7.05 -163.69 REMARK 500 4 GLU A 21 -84.38 -79.99 REMARK 500 4 ASP A 38 -101.57 56.10 REMARK 500 4 PRO A 44 99.56 -67.16 REMARK 500 4 THR A 63 -67.69 -120.49 REMARK 500 5 ASN A 20 -57.35 -161.36 REMARK 500 5 GLU A 21 -74.04 -27.15 REMARK 500 5 PRO A 44 99.62 -69.88 REMARK 500 6 ASN A 20 -53.66 -165.04 REMARK 500 6 GLU A 37 -79.29 65.86 REMARK 500 6 ASP A 38 -58.20 -158.57 REMARK 500 6 THR A 83 -69.74 -100.26 REMARK 500 6 ASP A 96 -168.62 57.98 REMARK 500 7 THR A 4 179.58 65.20 REMARK 500 7 SER A 5 -53.68 -120.73 REMARK 500 7 ASN A 20 -63.21 -168.14 REMARK 500 7 GLU A 21 -70.89 -35.28 REMARK 500 7 PRO A 35 108.91 -59.84 REMARK 500 8 ASN A 20 -68.03 -165.34 REMARK 500 8 VAL A 39 -20.06 70.22 REMARK 500 8 LYS A 42 -20.48 173.85 REMARK 500 8 THR A 63 -71.34 -112.99 REMARK 500 8 ALA A 72 -71.01 -47.24 REMARK 500 8 GLU A 92 -50.90 -137.74 REMARK 500 9 ASN A 20 -40.68 -165.15 REMARK 500 9 VAL A 39 -16.56 72.20 REMARK 500 9 LYS A 42 -20.47 171.69 REMARK 500 9 THR A 43 98.89 -28.82 REMARK 500 9 PRO A 44 87.20 -65.94 REMARK 500 9 MET A 94 -175.46 63.89 REMARK 500 10 ASN A 20 -23.40 -169.14 REMARK 500 10 GLU A 37 -83.69 -79.44 REMARK 500 10 VAL A 39 -41.40 69.34 REMARK 500 10 LEU A 40 -154.17 -78.01 REMARK 500 REMARK 500 THIS ENTRY HAS 108 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 4 ARG A 70 0.08 SIDE CHAIN REMARK 500 8 ARG A 70 0.08 SIDE CHAIN REMARK 500 12 ARG A 70 0.07 SIDE CHAIN REMARK 500 16 ARG A 70 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16263 RELATED DB: BMRB REMARK 900 BACKBONE AND SIDECHAIN 1H, 15N AND 13C ASSIGNMENTS OF THE NLRP7 REMARK 900 PYRIN DOMAIN DBREF 2KM6 A 3 98 UNP Q8WX94 NALP7_HUMAN 1 96 SEQADV 2KM6 GLY A 1 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 HIS A 2 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 LEU A 99 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 GLU A 100 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 HIS A 101 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 HIS A 102 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 HIS A 103 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 HIS A 104 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 HIS A 105 UNP Q8WX94 EXPRESSION TAG SEQADV 2KM6 HIS A 106 UNP Q8WX94 EXPRESSION TAG SEQRES 1 A 106 GLY HIS MET THR SER PRO GLN LEU GLU TRP THR LEU GLN SEQRES 2 A 106 THR LEU LEU GLU GLN LEU ASN GLU ASP GLU LEU LYS SER SEQRES 3 A 106 PHE LYS SER LEU LEU TRP ALA PHE PRO LEU GLU ASP VAL SEQRES 4 A 106 LEU GLN LYS THR PRO TRP SER GLU VAL GLU GLU ALA ASP SEQRES 5 A 106 GLY LYS LYS LEU ALA GLU ILE LEU VAL ASN THR SER SER SEQRES 6 A 106 GLU ASN TRP ILE ARG ASN ALA THR VAL ASN ILE LEU GLU SEQRES 7 A 106 GLU MET ASN LEU THR GLU LEU CYS LYS MET ALA LYS ALA SEQRES 8 A 106 GLU MET MET GLU ASP GLY GLN LEU GLU HIS HIS HIS HIS SEQRES 9 A 106 HIS HIS HELIX 1 1 SER A 5 LEU A 19 1 15 HELIX 2 2 ASP A 22 TRP A 32 1 11 HELIX 3 3 VAL A 39 THR A 43 5 5 HELIX 4 4 PRO A 44 ALA A 51 1 8 HELIX 5 5 GLY A 53 SER A 64 1 12 HELIX 6 6 SER A 65 MET A 80 1 16 HELIX 7 7 LEU A 85 LYS A 90 1 6 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