HEADER ANTIVIRAL PROTEIN 29-JUN-09 2KKZ TITLE SOLUTION NMR STRUCTURE OF THE MONOMERIC W187R MUTANT OF A/UDORN NS1 TITLE 2 EFFECTOR DOMAIN. NORTHEAST STRUCTURAL GENOMICS TARGET OR8C[W187R]. COMPND MOL_ID: 1; COMPND 2 MOLECULE: NON-STRUCTURAL PROTEIN NS1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 85-215; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: INFLUENZA A VIRUS; SOURCE 3 ORGANISM_TAXID: 221021; SOURCE 4 STRAIN: UDORN/1972; SOURCE 5 GENE: NS, NS1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)MGK; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: OR8C-W187R-21.1 KEYWDS INFLUENZA A, EFFECTOR DOMAIN, SOLUTION NMR STRUCTURE, W187R MUTANT, KEYWDS 2 CYTOPLASM, HOST-VIRUS INTERACTION, INTERFERON ANTIVIRAL SYSTEM KEYWDS 3 EVASION, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, KEYWDS 4 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, NESG, ANTIVIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.M.ARAMINI,L.MA,H.LEE,L.ZHAO,K.CUNNINGHAM,C.CICCOSANTI,H.JANJUA, AUTHOR 2 Y.FANG,R.XIAO,R.M.KRUG,G.T.MONTELIONE,NORTHEAST STRUCTURAL GENOMICS AUTHOR 3 CONSORTIUM (NESG) REVDAT 2 20-OCT-21 2KKZ 1 REMARK SEQADV REVDAT 1 21-JUL-09 2KKZ 0 JRNL AUTH J.M.ARAMINI,L.MA,H.LEE,L.ZHAO,K.CUNNINGHAM,C.CICCOSANTI, JRNL AUTH 2 H.JANJUA,Y.FANG,R.XIAO,R.M.KRUG,G.T.MONTELIONE JRNL TITL SOLUTION NMR STRUCTURE OF THE MONOMERIC W187R MUTANT OF JRNL TITL 2 A/UDORN NS1 EFFECTOR DOMAIN. NORTHEAST STRUCTURAL GENOMICS JRNL TITL 3 TARGET OR8C[W187R]. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 2.1, CNS 1.1, TALOS PLUS REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), BRUNGER, ADAMS, CLORE, REMARK 3 GROS, NILGES AND READ (CNS), CORNILESCU, DELAGLIO REMARK 3 AND BAX (TALOS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE FINAL STRUCTURES ARE BASED ON A REMARK 3 TOTAL OF 2251 CONFORMATIONALLY-RESTRICTING NOE-DERIVED DISTANCE REMARK 3 CONSTRAINTS AND 203 DIHEDRAL ANGLE CONSTRAINTS; 0 HYDROGEN BOND REMARK 3 CONSTRAINTS (18.5 CONSTRAINTS PER RESIDUE, 5.5 LONG RANGE REMARK 3 CONSTRAINTS PER RESIDUE, COMPUTED FOR RESIDUES 84 TO 217 BY PSVS REMARK 3 1.3). IN ADDITION, 75 RESOLVED N-H RESIDUAL DIPOLAR COUPLINGS REMARK 3 FOR ORDERED RESIDUES WERE INCLUDED IN ALL STRUCTURE REMARK 3 CALCULATIONS. STRUCTURE DETERMINATION WAS PERFORMED ITERATIVELY REMARK 3 USING CYANA 3.0. THE 20 STRUCTURES OUT OF 100 WITH THE LOWEST REMARK 3 TARGET FUNCTION WERE FURTHER REFINED BY RESTRAINED MOLECULAR REMARK 3 DYNAMICS/ENERGY MINIMIZATION IN EXPLICIT WATER (CNS) WITH REMARK 3 PARAM19 AND USING A NEUTRAL HISTIDINE TAUTOMER (ND1H FORM) AT REMARK 3 RESIDUE 169. REMARK 4 REMARK 4 2KKZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000101250. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.9 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.71 MM [U-100% 13C; U-100% 15N] REMARK 210 OR8W187R, 20 MM SODIUM PHOSPHATE, REMARK 210 100 MM SODIUM CHLORIDE, 50 MM REMARK 210 ARGININE, 50 MM GLUTAMIC ACID, 1 REMARK 210 % GLYCEROL, 50 UM DSS, 95% H2O/5% REMARK 210 D2O; 1.2 MM [U-5% 13C; U-100% REMARK 210 15N] OR8W187R, 20 MM SODIUM REMARK 210 PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 50 MM ARGININE, 50 MM REMARK 210 GLUTAMIC ACID, 1 % GLYCEROL, 50 REMARK 210 UM DSS, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HNCA; 3D HN(CO)CA; 3D HN(CA)CO; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D REMARK 210 SIMULTANEOUS CN NOESY; 3D 1H-13C REMARK 210 NOESY AROMATIC; 3D HCCH-COSY; 2D REMARK 210 1H-13C HSQC HIGH RESOLUTION (L/V REMARK 210 METHYL STEREOASSIGNMENT); 2D 1H- REMARK 210 15N HETNOE; 1D 1H-15N T1 AND T2; REMARK 210 3D HCCH-TOCSY; 3D CCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 2.1, SPARKY 3.112, REMARK 210 NMRPIPE 2.3, AUTOASSIGN 2.4.0, REMARK 210 CYANA 3.0, AUTOSTRUCTURE 2.2.1, REMARK 210 PSVS 1.3, MOLPROBITY 3.15, REMARK 210 PDBSTAT 5.1 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: THE PROTEIN IS MONOMERIC BY GEL FILTRATION CHROMATOGRAPHY, REMARK 210 STATIC LIGHT SCATTERING AND 15N T1/T2 RELAXATION. THE STRUCTURE REMARK 210 WAS DETERMINED USING TRIPLE RESONANCE NMR SPECTROSCOPY. REMARK 210 AUTOMATED BACKBONE ASSIGNMENTS WERE MADE USING AUTOASSIGN, AND REMARK 210 THE SIDE CHAIN ASSIGNMENTS WERE COMPLETED MANUALLY. AUTOMATIC REMARK 210 NOESY ASSIGNMENTS WERE DETERMINED USING CYANA 3.0. BACKBONE (PHI/ REMARK 210 PSI) DIHEDRAL ANGLE CONSTRAINTS WERE OBTAINED FROM TALOSPLUS. REMARK 210 ROTAMER STATES OF SPECIFIC ORDERED RESIDUES WERE CONSTRAINED IN REMARK 210 THE FINAL STAGE OF THE STRUCTURE REFINEMENT BASED ON PROCHECK. REMARK 210 COMPLETENESS OF NMR ASSIGNMENTS (EXCLUDING C-TERMINAL HHHHHH): REMARK 210 BACKBONE, 98.3%, SIDE CHAIN, 95.9%, AROMATICS, 97.8%, REMARK 210 STEREOSPECIFIC METHYL, 100%, STEREOSPECIFIC SIDE CHAIN NH2: 80%. REMARK 210 FINAL STRUCTURE QUALITY FACTORS (FOR RESIDUES 84 TO 217, PSVS REMARK 210 1.3), WHERE ORDERED RESIDUES [S(PHI) + S(PSI) > 1.8] COMPRISE: REMARK 210 87-163,169-202: (A) RMSD (ORDERED RESIDUES): BB, 0.5, HEAVY ATOM, REMARK 210 0.9. (B) RAMACHANDRAN STATISTICS FOR ORDERED RESIDUES: MOST REMARK 210 FAVORED, 88.4%, ADDITIONALLY ALLOWED, 11.6%, GENEROUSLY ALLOWED, REMARK 210 0.0%, DISALLOWED, 0.0%. (C) PROCHECK SCORES FOR ORDERED RESIDUES REMARK 210 (RAW/Z-): PHI-PSI, -0.43/-1.38, ALL, -0.30/-1.77. (D) MOLPROBITY REMARK 210 CLASH SCORE (RAW/Z-): 17.12/-1.41 (E) RPF SCORES FOR GOODNESS OF REMARK 210 FIT TO NOESY DATA (RESIDUES 84-217): RECALL, 0.968, PRECISION, REMARK 210 0.911, F-MEASURE, 0.939, DP-SCORE, 0.740. (F) NUMBER OF CLOSE REMARK 210 CONTACTS PER 20 MODELS: 13. (G) AGREEMENT WITH RESIDUAL DIPOLAR REMARK 210 COUPLINGS (20 MODELS): CORRELATION COEFFICIENT (R): 0.992 (0.001) REMARK 210 ; Q RMS: 0.125 (0.008). THE C-TERMINAL HIS TAG RESIDUES OF THE REMARK 210 PROTEIN (HHHHHH) WERE NOT INCLUDED IN THE STRUCTURE CALCULATIONS REMARK 210 AND HAVE BEEN OMITTED FROM THIS DEPOSITION. COORDINATES FOR THE REMARK 210 FOLLOWING RESIDUES ARE NOT WELL DETERMINED [S(PHI) + S(PSI) < REMARK 210 1.8]: 84-86,164-168,203-END. 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 HIS A 218 REMARK 465 HIS A 219 REMARK 465 HIS A 220 REMARK 465 HIS A 221 REMARK 465 HIS A 222 REMARK 465 HIS A 223 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 189 67.22 64.12 REMARK 500 1 ASN A 190 -162.82 -104.63 REMARK 500 1 TRP A 203 -79.62 -61.38 REMARK 500 2 ALA A 202 -61.55 -121.67 REMARK 500 2 LEU A 214 51.22 -92.36 REMARK 500 3 SER A 165 -18.59 173.28 REMARK 500 3 ASP A 189 64.20 65.49 REMARK 500 3 ARG A 211 137.54 -176.42 REMARK 500 3 PRO A 213 103.00 -58.26 REMARK 500 4 GLU A 142 -70.19 -82.99 REMARK 500 4 ALA A 202 -58.18 -121.13 REMARK 500 4 SER A 206 -55.23 -146.94 REMARK 500 4 ARG A 211 107.55 64.93 REMARK 500 4 PRO A 213 98.37 -57.25 REMARK 500 5 SER A 87 109.02 -56.85 REMARK 500 5 ASP A 139 -0.07 76.41 REMARK 500 5 GLU A 142 -66.72 -91.48 REMARK 500 5 ASP A 189 67.18 63.33 REMARK 500 5 ASN A 207 93.52 -66.60 REMARK 500 5 LEU A 214 90.15 -68.59 REMARK 500 6 ALA A 86 86.19 -164.83 REMARK 500 6 PRO A 114 31.88 -98.26 REMARK 500 6 PRO A 167 43.70 -97.68 REMARK 500 6 ASP A 189 65.99 64.49 REMARK 500 6 ALA A 202 -57.70 -120.64 REMARK 500 6 PRO A 213 85.19 -64.85 REMARK 500 6 THR A 215 -78.97 -133.94 REMARK 500 7 THR A 91 66.19 -108.38 REMARK 500 7 ASN A 209 30.42 -149.66 REMARK 500 7 ARG A 211 156.39 66.15 REMARK 500 8 ASP A 189 64.31 66.72 REMARK 500 8 GLU A 208 -145.55 -97.70 REMARK 500 8 ASN A 209 -58.75 -155.69 REMARK 500 8 ARG A 211 85.16 50.46 REMARK 500 9 THR A 91 68.02 -102.47 REMARK 500 9 GLU A 142 -74.05 -81.70 REMARK 500 9 ASP A 189 64.49 63.52 REMARK 500 9 LEU A 214 95.52 -66.10 REMARK 500 10 ASP A 189 67.47 63.40 REMARK 500 10 ALA A 202 -60.37 -95.08 REMARK 500 10 SER A 206 98.00 -62.74 REMARK 500 10 LEU A 214 93.39 -69.57 REMARK 500 11 PHE A 138 -84.59 62.40 REMARK 500 11 ASP A 139 23.42 -158.98 REMARK 500 11 PRO A 167 31.62 -90.48 REMARK 500 11 ASN A 209 -157.13 -151.60 REMARK 500 12 GLU A 208 83.13 -67.66 REMARK 500 12 LEU A 216 95.44 -67.25 REMARK 500 13 ALA A 86 98.00 -61.72 REMARK 500 13 THR A 91 66.54 -100.85 REMARK 500 REMARK 500 THIS ENTRY HAS 79 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 10 ARG A 148 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: OR8C RELATED DB: TARGETDB DBREF 2KKZ A 85 215 UNP Q6XSU2 Q6XSU2_9INFA 85 215 SEQADV 2KKZ MET A 84 UNP Q6XSU2 INITIATING METHIONINE SEQADV 2KKZ ARG A 187 UNP Q6XSU2 TRP 187 ENGINEERED MUTATION SEQADV 2KKZ LEU A 216 UNP Q6XSU2 EXPRESSION TAG SEQADV 2KKZ GLU A 217 UNP Q6XSU2 EXPRESSION TAG SEQADV 2KKZ HIS A 218 UNP Q6XSU2 EXPRESSION TAG SEQADV 2KKZ HIS A 219 UNP Q6XSU2 EXPRESSION TAG SEQADV 2KKZ HIS A 220 UNP Q6XSU2 EXPRESSION TAG SEQADV 2KKZ HIS A 221 UNP Q6XSU2 EXPRESSION TAG SEQADV 2KKZ HIS A 222 UNP Q6XSU2 EXPRESSION TAG SEQADV 2KKZ HIS A 223 UNP Q6XSU2 EXPRESSION TAG SEQRES 1 A 140 MET PRO ALA SER ARG TYR ILE THR ASP MET THR ILE GLU SEQRES 2 A 140 GLU LEU SER ARG ASP TRP PHE MET LEU MET PRO LYS GLN SEQRES 3 A 140 LYS VAL GLU GLY PRO LEU CYS ILE ARG ILE ASP GLN ALA SEQRES 4 A 140 ILE MET ASP LYS ASN ILE MET LEU LYS ALA ASN PHE SER SEQRES 5 A 140 VAL ILE PHE ASP ARG LEU GLU THR LEU ILE LEU LEU ARG SEQRES 6 A 140 ALA PHE THR GLU GLU GLY ALA ILE VAL GLY GLU ILE SER SEQRES 7 A 140 PRO LEU PRO SER PHE PRO GLY HIS THR ILE GLU ASP VAL SEQRES 8 A 140 LYS ASN ALA ILE GLY VAL LEU ILE GLY GLY LEU GLU ARG SEQRES 9 A 140 ASN ASP ASN THR VAL ARG VAL SER LYS THR LEU GLN ARG SEQRES 10 A 140 PHE ALA TRP GLY SER SER ASN GLU ASN GLY ARG PRO PRO SEQRES 11 A 140 LEU THR LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 THR A 94 SER A 99 1 6 HELIX 2 2 THR A 170 ASN A 188 1 19 HELIX 3 3 SER A 195 ALA A 202 1 8 SHEET 1 A 6 ARG A 88 THR A 91 0 SHEET 2 A 6 ASN A 127 ILE A 137 -1 O PHE A 134 N ILE A 90 SHEET 3 A 6 ARG A 140 THR A 151 -1 O ARG A 148 N LYS A 131 SHEET 4 A 6 ILE A 156 PRO A 162 -1 O ILE A 160 N LEU A 147 SHEET 5 A 6 LEU A 115 ASP A 120 -1 N ARG A 118 O GLU A 159 SHEET 6 A 6 PRO A 107 GLU A 112 -1 N LYS A 108 O ILE A 119 SHEET 1 B 3 ARG A 88 THR A 91 0 SHEET 2 B 3 ASN A 127 ILE A 137 -1 O PHE A 134 N ILE A 90 SHEET 3 B 3 THR A 191 VAL A 194 1 O ARG A 193 N LEU A 130 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