HEADER SIGNALING PROTEIN 27-JUL-12 2LWD TITLE SOLUTION STRUCTURE OF SECOND CARD OF HUMAN RIG-I COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE ATP-DEPENDENT RNA HELICASE DDX58; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CARD 2 DOMAIN; COMPND 5 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: DDX58; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) CODON PLUS RPL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS RIG-I, CARD, SENSOR, VIRAL RNA, HELICASE, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.DUTTA,F.FERRAGE,A.AGGARWAL REVDAT 3 01-MAY-24 2LWD 1 REMARK SEQADV REVDAT 2 26-DEC-12 2LWD 1 JRNL REVDAT 1 31-OCT-12 2LWD 0 JRNL AUTH F.FERRAGE,K.DUTTA,E.NISTAL-VILLAN,J.R.PATEL, JRNL AUTH 2 M.T.SANCHEZ-APARICIO,P.DE IOANNES,A.BUKU,G.G.ASEGUINOLAZA, JRNL AUTH 3 A.GARCIA-SASTRE,A.K.AGGARWAL JRNL TITL STRUCTURE AND DYNAMICS OF THE SECOND CARD OF HUMAN RIG-I JRNL TITL 2 PROVIDE MECHANISTIC INSIGHTS INTO REGULATION OF RIG-I JRNL TITL 3 ACTIVATION. JRNL REF STRUCTURE V. 20 2048 2012 JRNL REFN ISSN 0969-2126 JRNL PMID 23063562 JRNL DOI 10.1016/J.STR.2012.09.003 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 2.3, CNS 1.2 REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES (ARIA), BRUNGER, REMARK 3 ADAMS, CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LWD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1000102914. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 250 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 300 UM [U-100% 15N] CARD2, 95% REMARK 210 H2O/5% D2O; 300 UM [U-100% 13C; REMARK 210 U-100% 15N] CARD2, 95% H2O/5% REMARK 210 D2O; 300 UM [U-100% 13C; U-100% REMARK 210 15N] CARD2, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HNCACB; 3D HCACO; 3D CBCA(CO)NH; REMARK 210 3D HBHA(CO)NH; 3D C(CO)NH; 3D REMARK 210 H(CCO)NH; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY ALIPHATIC; 3D 1H-13C REMARK 210 NOESY AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 900 MHZ; 800 MHZ; 700 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW 8.3, CNS 1.2 REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 2100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 91 REMARK 465 SER A 92 REMARK 465 HIS A 93 REMARK 465 MET A 94 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 LEU A 110 33.70 -81.98 REMARK 500 1 PRO A 120 24.76 -65.38 REMARK 500 1 SER A 128 4.81 -65.82 REMARK 500 1 LYS A 146 -73.64 -100.23 REMARK 500 1 GLU A 165 -24.60 -39.51 REMARK 500 2 LEU A 110 33.84 -73.23 REMARK 500 2 PHE A 114 -76.05 -62.61 REMARK 500 2 PRO A 120 30.64 -62.01 REMARK 500 2 SER A 128 4.67 -68.01 REMARK 500 3 LEU A 110 33.80 -75.85 REMARK 500 3 PRO A 120 21.88 -65.20 REMARK 500 3 ASP A 122 -60.02 -108.74 REMARK 500 3 SER A 128 2.94 -67.56 REMARK 500 3 LYS A 146 -72.52 -97.03 REMARK 500 3 GLU A 165 -28.92 -39.54 REMARK 500 4 ILE A 97 -40.03 68.60 REMARK 500 4 LEU A 110 33.34 -73.76 REMARK 500 4 PRO A 120 25.74 -62.33 REMARK 500 4 ASP A 122 -60.31 -104.88 REMARK 500 4 LYS A 146 -74.15 -95.55 REMARK 500 5 LYS A 96 156.33 69.33 REMARK 500 5 LEU A 110 33.90 -85.90 REMARK 500 5 PHE A 114 -70.89 -65.02 REMARK 500 5 PRO A 120 26.23 -64.40 REMARK 500 5 SER A 128 4.45 -66.66 REMARK 500 5 LYS A 146 -74.36 -91.19 REMARK 500 5 GLU A 165 -29.05 -39.42 REMARK 500 6 ILE A 97 -32.24 70.47 REMARK 500 6 LEU A 110 34.48 -78.14 REMARK 500 6 PRO A 120 24.26 -64.72 REMARK 500 6 SER A 128 5.87 -68.79 REMARK 500 6 CYS A 130 -52.57 -127.61 REMARK 500 6 LYS A 146 -73.25 -79.34 REMARK 500 7 LEU A 110 34.44 -69.53 REMARK 500 7 PRO A 120 23.83 -64.92 REMARK 500 7 SER A 128 5.01 -69.03 REMARK 500 7 LYS A 146 -75.41 -86.71 REMARK 500 8 LEU A 110 35.03 -87.56 REMARK 500 8 PRO A 120 24.81 -66.06 REMARK 500 8 SER A 128 4.66 -67.86 REMARK 500 8 LYS A 146 -73.09 -88.40 REMARK 500 9 LYS A 96 -179.08 65.95 REMARK 500 9 LEU A 110 33.44 -80.60 REMARK 500 9 PRO A 120 23.69 -63.51 REMARK 500 9 LYS A 146 -72.94 -96.73 REMARK 500 10 LEU A 110 32.66 -70.78 REMARK 500 10 PRO A 120 34.05 -67.89 REMARK 500 10 SER A 128 2.00 -68.70 REMARK 500 10 LYS A 146 -75.83 -88.20 REMARK 500 11 LEU A 110 33.97 -78.10 REMARK 500 REMARK 500 THIS ENTRY HAS 96 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18622 RELATED DB: BMRB REMARK 900 RELATED ID: 2LWE RELATED DB: PDB DBREF 2LWD A 95 190 UNP O95786 DDX58_HUMAN 95 190 SEQADV 2LWD GLY A 91 UNP O95786 EXPRESSION TAG SEQADV 2LWD SER A 92 UNP O95786 EXPRESSION TAG SEQADV 2LWD HIS A 93 UNP O95786 EXPRESSION TAG SEQADV 2LWD MET A 94 UNP O95786 EXPRESSION TAG SEQRES 1 A 100 GLY SER HIS MET LYS LYS ILE GLU LYS LEU GLU GLU TYR SEQRES 2 A 100 ARG LEU LEU LEU LYS ARG LEU GLN PRO GLU PHE LYS THR SEQRES 3 A 100 ARG ILE ILE PRO THR ASP ILE ILE SER ASP LEU SER GLU SEQRES 4 A 100 CYS LEU ILE ASN GLN GLU CYS GLU GLU ILE LEU GLN ILE SEQRES 5 A 100 CYS SER THR LYS GLY MET MET ALA GLY ALA GLU LYS LEU SEQRES 6 A 100 VAL GLU CYS LEU LEU ARG SER ASP LYS GLU ASN TRP PRO SEQRES 7 A 100 LYS THR LEU LYS LEU ALA LEU GLU LYS GLU ARG ASN LYS SEQRES 8 A 100 PHE SER GLU LEU TRP ILE VAL GLU LYS HELIX 1 1 LYS A 96 LEU A 110 1 15 HELIX 2 2 LEU A 110 ILE A 118 1 9 HELIX 3 3 ILE A 123 SER A 128 1 6 HELIX 4 4 ILE A 132 LYS A 146 1 15 HELIX 5 5 GLY A 147 SER A 162 1 16 HELIX 6 6 GLU A 165 ARG A 179 1 15 HELIX 7 7 LYS A 181 TRP A 186 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