HEADER TRANSFERASE 06-JUL-16 5KQS TITLE STRUCTURE OF NS5 METHYLTRANSFERASE FROM ZIKA VIRUS BOUND TO S- TITLE 2 ADENOSYLMETHIONINE AND 7-METHYL-GUANOSINE-5'-DIPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MRNA CAP 0-1 NS5-TYPE MT RESIDUES 2521-2786; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ZIKA VIRUS (STRAIN MR 766); SOURCE 3 ORGANISM_COMMON: ZIKV; SOURCE 4 ORGANISM_TAXID: 64320; SOURCE 5 STRAIN: MR 766; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ZIKA, FLAVIVIRUS, METHYLTRANSFERASE, NS5, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.COLOMA,R.JAIN,K.R.RAJASHANKAR,A.K.AGGARWAL REVDAT 4 04-OCT-23 5KQS 1 REMARK REVDAT 3 03-AUG-22 5KQS 1 COMPND REVDAT 2 04-JAN-17 5KQS 1 JRNL REVDAT 1 14-SEP-16 5KQS 0 JRNL AUTH J.COLOMA,R.JAIN,K.R.RAJASHANKAR,A.GARCIA-SASTRE,A.K.AGGARWAL JRNL TITL STRUCTURES OF NS5 METHYLTRANSFERASE FROM ZIKA VIRUS. JRNL REF CELL REP V. 16 3097 2016 JRNL REFN ESSN 2211-1247 JRNL PMID 27633330 JRNL DOI 10.1016/J.CELREP.2016.08.091 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10_2155 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.74 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 56051 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 2847 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 38.7531 - 4.0701 0.99 2709 165 0.1509 0.1650 REMARK 3 2 4.0701 - 3.2311 1.00 2709 144 0.1360 0.1609 REMARK 3 3 3.2311 - 2.8228 0.99 2686 138 0.1600 0.1724 REMARK 3 4 2.8228 - 2.5648 1.00 2726 122 0.1648 0.1896 REMARK 3 5 2.5648 - 2.3810 1.00 2677 142 0.1572 0.1751 REMARK 3 6 2.3810 - 2.2406 0.99 2693 135 0.1525 0.1657 REMARK 3 7 2.2406 - 2.1284 1.00 2647 155 0.1491 0.1685 REMARK 3 8 2.1284 - 2.0357 0.99 2642 146 0.1573 0.1773 REMARK 3 9 2.0357 - 1.9574 0.99 2662 137 0.1525 0.1827 REMARK 3 10 1.9574 - 1.8898 0.99 2679 146 0.1599 0.1783 REMARK 3 11 1.8898 - 1.8307 0.99 2656 116 0.1596 0.1943 REMARK 3 12 1.8307 - 1.7784 0.99 2655 137 0.1613 0.2147 REMARK 3 13 1.7784 - 1.7316 0.99 2659 161 0.1677 0.1874 REMARK 3 14 1.7316 - 1.6894 0.99 2636 147 0.1716 0.2014 REMARK 3 15 1.6894 - 1.6509 0.99 2629 143 0.1862 0.2312 REMARK 3 16 1.6509 - 1.6158 0.99 2622 161 0.1942 0.2290 REMARK 3 17 1.6158 - 1.5835 0.98 2653 147 0.2053 0.2489 REMARK 3 18 1.5835 - 1.5536 0.99 2625 139 0.2166 0.2112 REMARK 3 19 1.5536 - 1.5259 0.98 2657 134 0.2527 0.2533 REMARK 3 20 1.5259 - 1.5000 0.97 2582 132 0.2849 0.3068 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.410 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.29 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.005 2178 REMARK 3 ANGLE : 0.861 2956 REMARK 3 CHIRALITY : 0.074 314 REMARK 3 PLANARITY : 0.005 363 REMARK 3 DIHEDRAL : 27.824 800 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 5 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): 54.7712 14.9503 3.1016 REMARK 3 T TENSOR REMARK 3 T11: 0.1646 T22: 0.1752 REMARK 3 T33: 0.4154 T12: -0.0349 REMARK 3 T13: -0.0211 T23: 0.0207 REMARK 3 L TENSOR REMARK 3 L11: 4.5746 L22: 0.9180 REMARK 3 L33: 3.0128 L12: -0.4513 REMARK 3 L13: -0.6050 L23: -0.3043 REMARK 3 S TENSOR REMARK 3 S11: 0.1825 S12: 0.0472 S13: 0.6736 REMARK 3 S21: 0.1309 S22: -0.1194 S23: -0.5061 REMARK 3 S31: -0.1245 S32: 0.2282 S33: 0.0076 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 30 THROUGH 74 ) REMARK 3 ORIGIN FOR THE GROUP (A): 48.3248 -8.9883 5.7856 REMARK 3 T TENSOR REMARK 3 T11: 0.2866 T22: 0.2668 REMARK 3 T33: 0.3297 T12: 0.0189 REMARK 3 T13: -0.0187 T23: -0.0294 REMARK 3 L TENSOR REMARK 3 L11: 3.3071 L22: 1.5867 REMARK 3 L33: 1.5118 L12: 1.1454 REMARK 3 L13: 0.1159 L23: -0.0727 REMARK 3 S TENSOR REMARK 3 S11: -0.1148 S12: 0.3856 S13: -0.4963 REMARK 3 S21: 0.0382 S22: 0.1082 S23: -0.5148 REMARK 3 S31: 0.3081 S32: 0.2209 S33: -0.1459 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 75 THROUGH 103 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.2479 -11.9447 4.3409 REMARK 3 T TENSOR REMARK 3 T11: 0.1695 T22: 0.0904 REMARK 3 T33: 0.1167 T12: -0.0229 REMARK 3 T13: 0.0110 T23: -0.0228 REMARK 3 L TENSOR REMARK 3 L11: 4.6674 L22: 1.8374 REMARK 3 L33: 6.0219 L12: -0.1907 REMARK 3 L13: 0.3372 L23: -1.1667 REMARK 3 S TENSOR REMARK 3 S11: 0.0109 S12: 0.0011 S13: -0.1547 REMARK 3 S21: 0.0124 S22: 0.0670 S23: -0.0278 REMARK 3 S31: 0.2347 S32: -0.0922 S33: 0.1244 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 104 THROUGH 127 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.7635 -13.0413 -5.0287 REMARK 3 T TENSOR REMARK 3 T11: 0.2151 T22: 0.1632 REMARK 3 T33: 0.1532 T12: -0.0276 REMARK 3 T13: 0.0255 T23: -0.0320 REMARK 3 L TENSOR REMARK 3 L11: 1.6068 L22: 0.8244 REMARK 3 L33: 2.9827 L12: 0.4688 REMARK 3 L13: -0.1748 L23: -1.1405 REMARK 3 S TENSOR REMARK 3 S11: -0.0454 S12: 0.2671 S13: -0.1691 REMARK 3 S21: -0.1955 S22: 0.0542 S23: -0.1662 REMARK 3 S31: -0.0460 S32: 0.0360 S33: -0.0354 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 128 THROUGH 188 ) REMARK 3 ORIGIN FOR THE GROUP (A): 32.5305 4.0340 3.1710 REMARK 3 T TENSOR REMARK 3 T11: 0.1630 T22: 0.1523 REMARK 3 T33: 0.1444 T12: 0.0105 REMARK 3 T13: 0.0208 T23: 0.0094 REMARK 3 L TENSOR REMARK 3 L11: 1.4063 L22: 2.5385 REMARK 3 L33: 1.4527 L12: -0.0083 REMARK 3 L13: 0.1314 L23: -0.4940 REMARK 3 S TENSOR REMARK 3 S11: 0.0124 S12: 0.0175 S13: 0.1489 REMARK 3 S21: 0.0496 S22: 0.0025 S23: 0.1743 REMARK 3 S31: -0.0067 S32: -0.1094 S33: 0.0132 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 189 THROUGH 202 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.1821 12.2935 13.6992 REMARK 3 T TENSOR REMARK 3 T11: 0.3039 T22: 0.2159 REMARK 3 T33: 0.2607 T12: 0.0576 REMARK 3 T13: 0.0643 T23: -0.0533 REMARK 3 L TENSOR REMARK 3 L11: 5.8268 L22: 1.7399 REMARK 3 L33: 4.7758 L12: 2.4294 REMARK 3 L13: -2.6350 L23: -1.5506 REMARK 3 S TENSOR REMARK 3 S11: 0.2094 S12: -0.1684 S13: 0.6703 REMARK 3 S21: 0.8378 S22: 0.0368 S23: 0.3437 REMARK 3 S31: -0.5980 S32: -0.1526 S33: -0.1430 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 203 THROUGH 244 ) REMARK 3 ORIGIN FOR THE GROUP (A): 45.7804 7.2951 12.7364 REMARK 3 T TENSOR REMARK 3 T11: 0.2211 T22: 0.1834 REMARK 3 T33: 0.1916 T12: -0.0045 REMARK 3 T13: -0.0336 T23: -0.0247 REMARK 3 L TENSOR REMARK 3 L11: 5.0358 L22: 1.3828 REMARK 3 L33: 0.8340 L12: 0.9820 REMARK 3 L13: -0.3187 L23: -0.0607 REMARK 3 S TENSOR REMARK 3 S11: 0.0276 S12: -0.4201 S13: 0.2414 REMARK 3 S21: 0.3176 S22: -0.0605 S23: -0.1826 REMARK 3 S31: 0.0019 S32: 0.1112 S33: 0.0638 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 245 THROUGH 266 ) REMARK 3 ORIGIN FOR THE GROUP (A): 52.7467 -8.6058 7.3995 REMARK 3 T TENSOR REMARK 3 T11: 0.2833 T22: 0.2892 REMARK 3 T33: 0.5759 T12: -0.0120 REMARK 3 T13: -0.1107 T23: -0.0138 REMARK 3 L TENSOR REMARK 3 L11: 1.7782 L22: 2.0418 REMARK 3 L33: 0.2698 L12: 1.7301 REMARK 3 L13: 0.4131 L23: 0.2930 REMARK 3 S TENSOR REMARK 3 S11: 0.1001 S12: -0.1506 S13: -0.4670 REMARK 3 S21: 0.3395 S22: -0.1172 S23: -0.9376 REMARK 3 S31: 0.0655 S32: 0.0783 S33: 0.0128 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 5KQS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1000222633. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03320 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.12 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56456 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 65.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.81300 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: AUTO-RICKSHAW REMARK 200 STARTING MODEL: 2PX2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6-9 % PEG 8K, 0.07 M SODIUM ACETATE, REMARK 280 PH 5.0, 30% GLYCEROL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 64.67000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.74000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 64.67000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 38.74000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 GLY A 1 REMARK 465 GLY A 2 REMARK 465 GLY A 3 REMARK 465 THR A 4 REMARK 465 GLY A 47 REMARK 465 VAL A 48 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 38 CG CD OE1 OE2 REMARK 470 GLU A 39 CD OE1 OE2 REMARK 470 ARG A 42 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 44 CG CD1 CD2 REMARK 470 LYS A 45 CG CD CE NZ REMARK 470 ASP A 46 CG OD1 OD2 REMARK 470 THR A 50 OG1 CG2 REMARK 470 LYS A 105 CE NZ REMARK 470 LYS A 127 CE NZ REMARK 470 LYS A 226 CD CE NZ REMARK 470 LYS A 231 CG CD CE NZ REMARK 470 LYS A 252 CE NZ REMARK 470 GLU A 255 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O HOH A 418 O HOH A 614 2.01 REMARK 500 O HOH A 438 O HOH A 580 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OG SER A 26 OG SER A 26 2655 2.06 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 THR A 50 -169.78 -101.74 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue M7G A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 308 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KQR RELATED DB: PDB DBREF 5KQS A 1 266 UNP H9A910 H9A910_ZIKV 2521 2786 SEQADV 5KQS GLY A -1 UNP H9A910 EXPRESSION TAG SEQADV 5KQS SER A 0 UNP H9A910 EXPRESSION TAG SEQRES 1 A 268 GLY SER GLY GLY GLY THR GLY GLU THR LEU GLY GLU LYS SEQRES 2 A 268 TRP LYS ALA ARG LEU ASN GLN MET SER ALA LEU GLU PHE SEQRES 3 A 268 TYR SER TYR LYS LYS SER GLY ILE THR GLU VAL CYS ARG SEQRES 4 A 268 GLU GLU ALA ARG ARG ALA LEU LYS ASP GLY VAL ALA THR SEQRES 5 A 268 GLY GLY HIS ALA VAL SER ARG GLY SER ALA LYS LEU ARG SEQRES 6 A 268 TRP LEU VAL GLU ARG GLY TYR LEU GLN PRO TYR GLY LYS SEQRES 7 A 268 VAL ILE ASP LEU GLY CYS GLY ARG GLY GLY TRP SER TYR SEQRES 8 A 268 TYR ALA ALA THR ILE ARG LYS VAL GLN GLU VAL LYS GLY SEQRES 9 A 268 TYR THR LYS GLY GLY PRO GLY HIS GLU GLU PRO MET LEU SEQRES 10 A 268 VAL GLN SER TYR GLY TRP ASN ILE VAL ARG LEU LYS SER SEQRES 11 A 268 GLY VAL ASP VAL PHE HIS MET ALA ALA GLU PRO CYS ASP SEQRES 12 A 268 THR LEU LEU CYS ASP ILE GLY GLU SER SER SER SER PRO SEQRES 13 A 268 GLU VAL GLU GLU ALA ARG THR LEU ARG VAL LEU SER MET SEQRES 14 A 268 VAL GLY ASP TRP LEU GLU LYS ARG PRO GLY ALA PHE CYS SEQRES 15 A 268 ILE LYS VAL LEU CYS PRO TYR THR SER THR MET MET GLU SEQRES 16 A 268 THR LEU GLU ARG LEU GLN ARG ARG TYR GLY GLY GLY LEU SEQRES 17 A 268 VAL ARG VAL PRO LEU SER ARG ASN SER THR HIS GLU MET SEQRES 18 A 268 TYR TRP VAL SER GLY ALA LYS SER ASN THR ILE LYS SER SEQRES 19 A 268 VAL SER THR THR SER GLN LEU LEU LEU GLY ARG MET ASP SEQRES 20 A 268 GLY PRO ARG ARG PRO VAL LYS TYR GLU GLU ASP VAL ASN SEQRES 21 A 268 LEU GLY SER GLY THR ARG ALA VAL HET M7G A 301 58 HET GOL A 302 6 HET GOL A 303 6 HET GOL A 304 6 HET GOL A 305 6 HET ACT A 306 4 HET SAM A 307 27 HET PO4 A 308 5 HETNAM M7G 7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETNAM SAM S-ADENOSYLMETHIONINE HETNAM PO4 PHOSPHATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 M7G C11 H19 N5 O11 P2 FORMUL 3 GOL 4(C3 H8 O3) FORMUL 7 ACT C2 H3 O2 1- FORMUL 8 SAM C15 H22 N6 O5 S FORMUL 9 PO4 O4 P 3- FORMUL 10 HOH *244(H2 O) HELIX 1 AA1 THR A 7 MET A 19 1 13 HELIX 2 AA2 SER A 20 SER A 30 1 11 HELIX 3 AA3 ARG A 37 ASP A 46 1 10 HELIX 4 AA4 ARG A 57 ARG A 68 1 12 HELIX 5 AA5 GLY A 85 ALA A 92 1 8 HELIX 6 AA6 GLY A 120 ASN A 122 5 3 HELIX 7 AA7 ASP A 131 MET A 135 5 5 HELIX 8 AA8 SER A 153 GLU A 173 1 21 HELIX 9 AA9 THR A 188 GLY A 203 1 16 HELIX 10 AB1 ASN A 228 ARG A 243 1 16 SHEET 1 AA1 2 THR A 33 VAL A 35 0 SHEET 2 AA1 2 LYS A 252 GLU A 254 1 O LYS A 252 N GLU A 34 SHEET 1 AA2 7 VAL A 124 LYS A 127 0 SHEET 2 AA2 7 VAL A 97 TYR A 103 1 N GLY A 102 O ARG A 125 SHEET 3 AA2 7 GLY A 75 LEU A 80 1 N VAL A 77 O GLU A 99 SHEET 4 AA2 7 THR A 142 CYS A 145 1 O LEU A 144 N ILE A 78 SHEET 5 AA2 7 ALA A 178 VAL A 183 1 O LYS A 182 N CYS A 145 SHEET 6 AA2 7 MET A 219 VAL A 222 -1 O MET A 219 N VAL A 183 SHEET 7 AA2 7 GLY A 205 VAL A 207 -1 N GLY A 205 O VAL A 222 SITE 1 AC1 18 LYS A 13 LEU A 16 ASN A 17 MET A 19 SITE 2 AC1 18 PHE A 24 LYS A 28 SER A 150 SER A 151 SITE 3 AC1 18 SER A 152 ARG A 213 SER A 215 GOL A 303 SITE 4 AC1 18 HOH A 406 HOH A 415 HOH A 416 HOH A 419 SITE 5 AC1 18 HOH A 449 HOH A 558 SITE 1 AC2 5 ARG A 37 ARG A 41 SER A 56 ARG A 57 SITE 2 AC2 5 ARG A 84 SITE 1 AC3 4 ASN A 17 SER A 152 M7G A 301 ACT A 306 SITE 1 AC4 7 ASP A 131 PHE A 133 ARG A 163 ALA A 265 SITE 2 AC4 7 SAM A 307 HOH A 409 HOH A 414 SITE 1 AC5 5 TYR A 119 SER A 261 HOH A 435 HOH A 447 SITE 2 AC5 5 HOH A 577 SITE 1 AC6 4 SER A 151 SER A 152 GOL A 303 HOH A 443 SITE 1 AC7 21 SER A 56 GLY A 58 GLY A 81 CYS A 82 SITE 2 AC7 21 GLY A 83 GLY A 86 TRP A 87 THR A 104 SITE 3 AC7 21 LYS A 105 VAL A 130 ASP A 131 VAL A 132 SITE 4 AC7 21 PHE A 133 ASP A 146 GOL A 304 PO4 A 308 SITE 5 AC7 21 HOH A 409 HOH A 433 HOH A 452 HOH A 511 SITE 6 AC7 21 HOH A 583 SITE 1 AC8 6 GLY A 109 HIS A 110 GLU A 111 SAM A 307 SITE 2 AC8 6 HOH A 403 HOH A 556 CRYST1 129.340 77.480 37.030 90.00 104.40 90.00 C 1 2 1 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 0.007732 0.000000 0.001985 0.00000 SCALE2 0.000000 0.012907 0.000000 0.00000 SCALE3 0.000000 0.000000 0.027881 0.00000