HEADER PROTEIN BINDING 07-JAN-12 3VE6 TITLE CRYSTAL STRUCTURE ANALYSIS OF VENEZUELAN EQUINE ENCEPHALITIS VIRUS TITLE 2 CAPSID PROTEIN NLS AND IMPORTIN ALPHA COMPND MOL_ID: 1; COMPND 2 MOLECULE: IMPORTIN SUBUNIT ALPHA-2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: IMPORTIN ALPHA P1, KARYOPHERIN SUBUNIT ALPHA-2, PENDULIN, COMPND 5 PORE TARGETING COMPLEX 58 KDA SUBUNIT, PTAC58, RAG COHORT PROTEIN 1, COMPND 6 SRP1-ALPHA; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: VENEZUELAN EQUINE ENCEPHALITIS VIRUS CAPSID PROTEIN NLS; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: KPNA2, RCH1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: VENEZUELAN EQUINE ENCEPHALITIS VIRUS; SOURCE 12 ORGANISM_TAXID: 11036; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS IMPORTIN, IMPORTIN ALPHA, VENEZUELAN EQUINE ENCEPHALITIS VIRUS, KEYWDS 2 CAPSID PROTEIN NLS, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR F.FAN REVDAT 4 28-FEB-24 3VE6 1 REMARK REVDAT 3 28-MAR-12 3VE6 1 SOURCE REVDAT 2 08-FEB-12 3VE6 1 JRNL REVDAT 1 25-JAN-12 3VE6 0 JRNL AUTH F.FAN JRNL TITL CRYSTAL STRUCTURE ANALYSIS OF VENEZUELAN EQUINE ENCEPHALITIS JRNL TITL 2 VIRUS CAPSID PROTEIN NLS AND IMPORTIN ALPHA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 2011_12_24_0706 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 17446 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.229 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 882 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 50.9449 - 5.1394 1.00 2922 144 0.2073 0.2363 REMARK 3 2 5.1394 - 4.0798 1.00 2761 158 0.2008 0.2259 REMARK 3 3 4.0798 - 3.5643 1.00 2758 133 0.2231 0.3108 REMARK 3 4 3.5643 - 3.2384 1.00 2709 157 0.2535 0.2850 REMARK 3 5 3.2384 - 3.0064 1.00 2726 137 0.2643 0.3513 REMARK 3 6 3.0064 - 2.8290 1.00 2688 153 0.2817 0.3098 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.86 REMARK 3 K_SOL : 0.37 REMARK 3 B_SOL : 27.90 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.220 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 53.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.001 3395 REMARK 3 ANGLE : 0.462 4622 REMARK 3 CHIRALITY : 0.030 555 REMARK 3 PLANARITY : 0.002 593 REMARK 3 DIHEDRAL : 10.757 1249 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3VE6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000069932. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.953692 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17446 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.829 REMARK 200 RESOLUTION RANGE LOW (A) : 50.937 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 39.47500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.79000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.87500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.79000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.47500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.87500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1613 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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: 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 ASN A 5 62.93 61.63 REMARK 500 GLN A 39 89.41 32.43 REMARK 500 LYS A 60 89.19 -65.73 REMARK 500 ASN A 169 151.50 69.19 REMARK 500 PRO A 212 170.59 -56.70 REMARK 500 GLU A 386 41.24 -98.56 REMARK 500 REMARK 500 REMARK: NULL DBREF 3VE6 A 1 426 UNP P52293 IMA2_MOUSE 71 496 DBREF 3VE6 B 1 12 UNP Q9WCF8 Q9WCF8_9VIRU 59 70 SEQRES 1 A 426 GLN GLY THR VAL ASN TRP SER VAL GLU ASP ILE VAL LYS SEQRES 2 A 426 GLY ILE ASN SER ASN ASN LEU GLU SER GLN LEU GLN ALA SEQRES 3 A 426 THR GLN ALA ALA ARG LYS LEU LEU SER ARG GLU LYS GLN SEQRES 4 A 426 PRO PRO ILE ASP ASN ILE ILE ARG ALA GLY LEU ILE PRO SEQRES 5 A 426 LYS PHE VAL SER PHE LEU GLY LYS THR ASP CYS SER PRO SEQRES 6 A 426 ILE GLN PHE GLU SER ALA TRP ALA LEU THR ASN ILE ALA SEQRES 7 A 426 SER GLY THR SER GLU GLN THR LYS ALA VAL VAL ASP GLY SEQRES 8 A 426 GLY ALA ILE PRO ALA PHE ILE SER LEU LEU ALA SER PRO SEQRES 9 A 426 HIS ALA HIS ILE SER GLU GLN ALA VAL TRP ALA LEU GLY SEQRES 10 A 426 ASN ILE ALA GLY ASP GLY SER ALA PHE ARG ASP LEU VAL SEQRES 11 A 426 ILE LYS HIS GLY ALA ILE ASP PRO LEU LEU ALA LEU LEU SEQRES 12 A 426 ALA VAL PRO ASP LEU SER THR LEU ALA CYS GLY TYR LEU SEQRES 13 A 426 ARG ASN LEU THR TRP THR LEU SER ASN LEU CYS ARG ASN SEQRES 14 A 426 LYS ASN PRO ALA PRO PRO LEU ASP ALA VAL GLU GLN ILE SEQRES 15 A 426 LEU PRO THR LEU VAL ARG LEU LEU HIS HIS ASN ASP PRO SEQRES 16 A 426 GLU VAL LEU ALA ASP SER CYS TRP ALA ILE SER TYR LEU SEQRES 17 A 426 THR ASP GLY PRO ASN GLU ARG ILE GLU MET VAL VAL LYS SEQRES 18 A 426 LYS GLY VAL VAL PRO GLN LEU VAL LYS LEU LEU GLY ALA SEQRES 19 A 426 THR GLU LEU PRO ILE VAL THR PRO ALA LEU ARG ALA ILE SEQRES 20 A 426 GLY ASN ILE VAL THR GLY THR ASP GLU GLN THR GLN LYS SEQRES 21 A 426 VAL ILE ASP ALA GLY ALA LEU ALA VAL PHE PRO SER LEU SEQRES 22 A 426 LEU THR ASN PRO LYS THR ASN ILE GLN LYS GLU ALA THR SEQRES 23 A 426 TRP THR MET SER ASN ILE THR ALA GLY ARG GLN ASP GLN SEQRES 24 A 426 ILE GLN GLN VAL VAL ASN HIS GLY LEU VAL PRO PHE LEU SEQRES 25 A 426 VAL GLY VAL LEU SER LYS ALA ASP PHE LYS THR GLN LYS SEQRES 26 A 426 GLU ALA ALA TRP ALA ILE THR ASN TYR THR SER GLY GLY SEQRES 27 A 426 THR VAL GLU GLN ILE VAL TYR LEU VAL HIS CYS GLY ILE SEQRES 28 A 426 ILE GLU PRO LEU MET ASN LEU LEU SER ALA LYS ASP THR SEQRES 29 A 426 LYS ILE ILE GLN VAL ILE LEU ASP ALA ILE SER ASN ILE SEQRES 30 A 426 PHE GLN ALA ALA GLU LYS LEU GLY GLU THR GLU LYS LEU SEQRES 31 A 426 SER ILE MET ILE GLU GLU CYS GLY GLY LEU ASP LYS ILE SEQRES 32 A 426 GLU ALA LEU GLN ARG HIS GLU ASN GLU SER VAL TYR LYS SEQRES 33 A 426 ALA SER LEU ASN LEU ILE GLU LYS TYR PHE SEQRES 1 B 12 GLU GLY PRO SER ALA LYS LYS PRO LYS LYS GLU ALA HELIX 1 1 SER A 7 ASN A 16 1 10 HELIX 2 2 ASN A 19 SER A 35 1 17 HELIX 3 3 PRO A 41 ALA A 48 1 8 HELIX 4 4 LEU A 50 LEU A 58 1 9 HELIX 5 5 CYS A 63 SER A 79 1 17 HELIX 6 6 THR A 81 GLY A 91 1 11 HELIX 7 7 ALA A 93 LEU A 101 1 9 HELIX 8 8 HIS A 105 ASP A 122 1 18 HELIX 9 9 GLY A 123 HIS A 133 1 11 HELIX 10 10 ALA A 135 LEU A 142 1 8 HELIX 11 11 ASP A 147 LEU A 151 5 5 HELIX 12 12 ALA A 152 LEU A 166 1 15 HELIX 13 13 PRO A 175 LEU A 190 1 16 HELIX 14 14 ASP A 194 ASP A 210 1 17 HELIX 15 15 PRO A 212 LYS A 221 1 10 HELIX 16 16 VAL A 224 GLY A 233 1 10 HELIX 17 17 GLU A 236 VAL A 251 1 16 HELIX 18 18 THR A 254 GLY A 265 1 12 HELIX 19 19 ALA A 266 ALA A 268 5 3 HELIX 20 20 VAL A 269 LEU A 274 1 6 HELIX 21 21 LYS A 278 ASN A 291 1 14 HELIX 22 22 ARG A 296 HIS A 306 1 11 HELIX 23 23 LEU A 308 LYS A 318 1 11 HELIX 24 24 ASP A 320 GLY A 338 1 19 HELIX 25 25 THR A 339 CYS A 349 1 11 HELIX 26 26 ILE A 351 ASN A 357 1 7 HELIX 27 27 LEU A 358 ALA A 361 5 4 HELIX 28 28 ASP A 363 GLU A 382 1 20 HELIX 29 29 GLU A 386 GLU A 396 1 11 HELIX 30 30 GLY A 399 GLN A 407 1 9 HELIX 31 31 ASN A 411 TYR A 425 1 15 CISPEP 1 ASN A 171 PRO A 172 0 -4.22 CRYST1 78.950 89.750 99.580 90.00 90.00 90.00 P 21 21 21 4 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 0.012666 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011142 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010042 0.00000