10 20 30 40 50 60 70 80 2KKZ - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER ANTIVIRAL PROTEIN 29-JUN-09 2KKZ
TITLE SOLUTION NMR STRUCTURE OF THE MONOMERIC W187R MUTANT OF TITLE 2 A/UDORN NS1 EFFECTOR DOMAIN. NORTHEAST STRUCTURAL GENOMICS TITLE 3 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 KEYWDS 2 MUTANT, CYTOPLASM, HOST-VIRUS INTERACTION, INTERFERON KEYWDS 3 ANTIVIRAL SYSTEM EVASION, STRUCTURAL GENOMICS, PSI-2, KEYWDS 4 PROTEIN STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS KEYWDS 5 CONSORTIUM, NESG, ANTIVIRAL PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR J.M.ARAMINI,L.MA,H.LEE,L.ZHAO,K.CUNNINGHAM,C.CICCOSANTI, AUTHOR 2 H.JANJUA,Y.FANG,R.XIAO,R.M.KRUG,G.T.MONTELIONE,NORTHEAST AUTHOR 3 STRUCTURAL GENOMICS CONSORTIUM (NESG)
REVDAT 1 21-JUL-09 2KKZ 0
JRNL AUTH J.M.ARAMINI,L.MA,H.LEE,L.ZHAO,K.CUNNINGHAM, JRNL AUTH 2 C.CICCOSANTI,H.JANJUA,Y.FANG,R.XIAO,R.M.KRUG, JRNL AUTH 3 G.T.MONTELIONE JRNL TITL SOLUTION NMR STRUCTURE OF THE MONOMERIC W187R JRNL TITL 2 MUTANT OF A/UDORN NS1 EFFECTOR DOMAIN. NORTHEAST JRNL TITL 3 STRUCTURAL GENOMICS TARGET OR8C[W187R]. JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1, TALOS PLUS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNS), CORNILESCU, DELAGLIO 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 REMARK 3 DISTANCE CONSTRAINTS AND 203 DIHEDRAL ANGLE CONSTRAINTS; 0 REMARK 3 HYDROGEN BOND CONSTRAINTS (18.5 CONSTRAINTS PER RESIDUE, 5.5 REMARK 3 LONG RANGE CONSTRAINTS PER RESIDUE, COMPUTED FOR RESIDUES 84 REMARK 3 TO 217 BY PSVS 1.3). IN ADDITION, 75 RESOLVED N-H RESIDUAL REMARK 3 DIPOLAR COUPLINGS FOR ORDERED RESIDUES WERE INCLUDED IN ALL REMARK 3 STRUCTURE CALCULATIONS. STRUCTURE DETERMINATION WAS PERFORMED REMARK 3 ITERATIVELY USING CYANA 3.0. THE 20 STRUCTURES OUT OF 100 WITH REMARK 3 THE LOWEST TARGET FUNCTION WERE FURTHER REFINED BY RESTRAINED REMARK 3 MOLECULAR DYNAMICS/ENERGY MINIMIZATION IN EXPLICIT WATER (CNS) REMARK 3 WITH PARAM19 AND USING A NEUTRAL HISTIDINE TAUTOMER (ND1H REMARK 3 FORM) AT RESIDUE 169.
REMARK 4 REMARK 4 2KKZ COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUL-09. REMARK 100 THE RCSB ID CODE IS RCSB101250.
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% REMARK 210 15N] OR8W187R, 20 MM SODIUM REMARK 210 PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 50 MM ARGININE, 50 REMARK 210 MM GLUTAMIC ACID, 1 % REMARK 210 GLYCEROL, 50 UM DSS, 95% H2O/ REMARK 210 5% D2O; 1.2 MM [U-5% 13C; U- REMARK 210 100% 15N] OR8W187R, 20 MM REMARK 210 SODIUM PHOSPHATE, 100 MM REMARK 210 SODIUM CHLORIDE, 50 MM REMARK 210 ARGININE, 50 MM GLUTAMIC ACID, REMARK 210 1 % GLYCEROL, 50 UM DSS, 95% REMARK 210 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) REMARK 210 CO; 3D CBCA(CO)NH; 3D HNCACB; REMARK 210 3D SIMULTANEOUS CN NOESY; 3D REMARK 210 1H-13C NOESY AROMATIC; 3D HCCH REMARK 210 -COSY; 2D 1H-13C HSQC HIGH REMARK 210 RESOLUTION (L/V METHYL REMARK 210 STEREOASSIGNMENT); 2D 1H-15N REMARK 210 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 REMARK 210 2.2.1, PSVS 1.3, MOLPROBITY REMARK 210 3.15, 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 REMARK 210 CHROMATOGRAPHY, STATIC LIGHT SCATTERING AND 15N T1/T2 REMARK 210 RELAXATION. THE STRUCTURE WAS DETERMINED USING TRIPLE REMARK 210 RESONANCE NMR SPECTROSCOPY. AUTOMATED BACKBONE ASSIGNMENTS REMARK 210 WERE MADE USING AUTOASSIGN, AND THE SIDE CHAIN ASSIGNMENTS REMARK 210 WERE COMPLETED MANUALLY. AUTOMATIC NOESY ASSIGNMENTS WERE REMARK 210 DETERMINED USING CYANA 3.0. BACKBONE (PHI/PSI) DIHEDRAL ANGLE REMARK 210 CONSTRAINTS WERE OBTAINED FROM TALOSPLUS. ROTAMER STATES OF REMARK 210 SPECIFIC ORDERED RESIDUES WERE CONSTRAINED IN THE FINAL STAGE REMARK 210 OF THE STRUCTURE REFINEMENT BASED ON PROCHECK. COMPLETENESS OF REMARK 210 NMR ASSIGNMENTS (EXCLUDING C-TERMINAL HHHHHH): BACKBONE, 98.3% REMARK 210 , SIDE CHAIN, 95.9%, AROMATICS, 97.8%, STEREOSPECIFIC METHYL, REMARK 210 100%, STEREOSPECIFIC SIDE CHAIN NH2: 80%. FINAL STRUCTURE REMARK 210 QUALITY FACTORS (FOR RESIDUES 84 TO 217, PSVS 1.3), WHERE REMARK 210 ORDERED RESIDUES [S(PHI) + S(PSI) > 1.8] COMPRISE: 87-163,169- REMARK 210 202: (A) RMSD (ORDERED RESIDUES): BB, 0.5, HEAVY ATOM, 0.9. REMARK 210 (B) RAMACHANDRAN STATISTICS FOR ORDERED RESIDUES: MOST REMARK 210 FAVORED, 88.4%, ADDITIONALLY ALLOWED, 11.6%, GENEROUSLY REMARK 210 ALLOWED, 0.0%, DISALLOWED, 0.0%. (C) PROCHECK SCORES FOR REMARK 210 ORDERED RESIDUES (RAW/Z-): PHI-PSI, -0.43/-1.38, ALL, -0.30/- REMARK 210 1.77. (D) MOLPROBITY CLASH SCORE (RAW/Z-): 17.12/-1.41 (E) RPF REMARK 210 SCORES FOR GOODNESS OF FIT TO NOESY DATA (RESIDUES 84-217): REMARK 210 RECALL, 0.968, PRECISION, 0.911, F-MEASURE, 0.939, DP-SCORE, REMARK 210 0.740. (F) NUMBER OF CLOSE CONTACTS PER 20 MODELS: 13. (G) REMARK 210 AGREEMENT WITH RESIDUAL DIPOLAR COUPLINGS (20 MODELS): REMARK 210 CORRELATION COEFFICIENT (R): 0.992 (0.001); Q RMS: 0.125 REMARK 210 (0.008). THE C-TERMINAL HIS TAG RESIDUES OF THE PROTEIN REMARK 210 (HHHHHH) WERE NOT INCLUDED IN THE STRUCTURE CALCULATIONS AND REMARK 210 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 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 13 GLU A 208 86.84 -69.79 REMARK 500 13 LEU A 214 96.38 -69.48 REMARK 500 14 ALA A 86 93.61 -63.93 REMARK 500 14 GLU A 96 -71.14 -51.58 REMARK 500 14 ASP A 189 66.30 65.66 REMARK 500 14 ALA A 202 -61.49 -121.82 REMARK 500 14 SER A 206 82.96 -150.90 REMARK 500 14 ASN A 209 85.25 -165.07 REMARK 500 14 ARG A 211 118.28 64.86 REMARK 500 15 LEU A 146 149.13 -170.60 REMARK 500 15 ASP A 189 65.78 63.50 REMARK 500 15 ALA A 202 -61.58 -123.42 REMARK 500 16 THR A 91 67.40 -100.20 REMARK 500 16 PRO A 167 36.00 -83.18 REMARK 500 17 ASP A 189 65.69 65.90 REMARK 500 17 ARG A 211 156.59 72.73 REMARK 500 17 PRO A 213 104.73 -59.32 REMARK 500 18 ASN A 190 -161.31 -124.50 REMARK 500 18 SER A 205 99.48 -161.87 REMARK 500 18 LEU A 214 93.85 -68.53 REMARK 500 19 PRO A 85 -164.80 -70.93 REMARK 500 19 ALA A 86 79.97 -69.88 REMARK 500 19 GLU A 142 -77.80 -88.99 REMARK 500 19 ASN A 207 145.40 175.34 REMARK 500 19 ASN A 209 75.85 -117.97 REMARK 500 19 LEU A 214 103.72 -57.22 REMARK 500 19 LEU A 216 88.31 -66.96 REMARK 500 20 SER A 87 109.94 -56.41 REMARK 500 20 GLU A 142 -70.28 -79.38 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 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