HEADER VIRAL PROTEIN 27-NOV-17 5YVW TITLE CRYSTAL STRUCTURE OF FULL LENGTH NS3 PROTEIN (ED4NS2BNS3) FROM DENV4 TITLE 2 IN CLOSED CONFORMATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GENOME POLYPROTEIN; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: GENOME POLYPROTEIN; COMPND 8 CHAIN: A; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DENGUE VIRUS 4; SOURCE 3 ORGANISM_TAXID: 11070; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: DENGUE VIRUS 4; SOURCE 8 ORGANISM_TAXID: 11070; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SERINE PROTEASE, NON-STRUCTURAL PROTEIN 3, DEAH HELICASE, ATPASE, KEYWDS 2 DENGUE VIRUS, FLAVIVIRUS, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR W.W.PHOO,A.EL SAHILI REVDAT 2 27-MAR-24 5YVW 1 REMARK REVDAT 1 05-DEC-18 5YVW 0 JRNL AUTH W.W.PHOO,A.EL SAHILI,Z.Z.ZHANG,M.W.CHEN,J.LESCAR, JRNL AUTH 2 S.VASUDEVAN,D.LUO JRNL TITL CRYSTAL STRUCTURES OF UNLINKED FULL LENGTH NS3 FROM DENGUE JRNL TITL 2 VIRUS PROVIDE INSIGHTS INTO DYNAMICS OF PROTEASE DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.27 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 14938 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 762 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 45.2746 - 5.1281 0.99 2896 135 0.1926 0.2135 REMARK 3 2 5.1281 - 4.0712 0.99 2825 146 0.1829 0.2288 REMARK 3 3 4.0712 - 3.5568 1.00 2826 156 0.2023 0.2658 REMARK 3 4 3.5568 - 3.2317 1.00 2786 182 0.2404 0.2828 REMARK 3 5 3.2317 - 3.1000 1.00 2843 143 0.2696 0.3198 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) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.450 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.003 4838 REMARK 3 ANGLE : 1.112 6578 REMARK 3 CHIRALITY : 0.026 730 REMARK 3 PLANARITY : 0.004 859 REMARK 3 DIHEDRAL : 12.254 1764 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 20 THROUGH 154 ) REMARK 3 ORIGIN FOR THE GROUP (A): 94.7906 9.6487 129.8744 REMARK 3 T TENSOR REMARK 3 T11: 1.2474 T22: 1.0951 REMARK 3 T33: 1.0175 T12: -0.0437 REMARK 3 T13: -0.2444 T23: -0.0353 REMARK 3 L TENSOR REMARK 3 L11: 0.7996 L22: 0.2684 REMARK 3 L33: 0.9716 L12: -0.2476 REMARK 3 L13: -0.2268 L23: -0.0691 REMARK 3 S TENSOR REMARK 3 S11: -0.3315 S12: 0.2017 S13: 0.1836 REMARK 3 S21: -0.0709 S22: -0.0925 S23: 0.6167 REMARK 3 S31: -0.5267 S32: -0.3260 S33: 0.0584 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 155 THROUGH 434 ) REMARK 3 ORIGIN FOR THE GROUP (A): 77.8668 6.8729 98.0883 REMARK 3 T TENSOR REMARK 3 T11: 0.1815 T22: 0.2158 REMARK 3 T33: 0.2069 T12: -0.0450 REMARK 3 T13: 0.0060 T23: -0.0337 REMARK 3 L TENSOR REMARK 3 L11: 2.4224 L22: 1.3642 REMARK 3 L33: 0.6158 L12: -0.1272 REMARK 3 L13: 0.2200 L23: -0.2002 REMARK 3 S TENSOR REMARK 3 S11: -0.0299 S12: -0.3214 S13: -0.2170 REMARK 3 S21: 0.2038 S22: -0.0069 S23: -0.1343 REMARK 3 S31: 0.0043 S32: -0.1274 S33: 0.0332 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 435 THROUGH 618 ) REMARK 3 ORIGIN FOR THE GROUP (A): 71.4466 4.1884 76.7875 REMARK 3 T TENSOR REMARK 3 T11: 0.1968 T22: 0.1556 REMARK 3 T33: 0.1501 T12: -0.0271 REMARK 3 T13: 0.0488 T23: -0.0419 REMARK 3 L TENSOR REMARK 3 L11: 1.5984 L22: 1.6598 REMARK 3 L33: 1.9574 L12: 0.0027 REMARK 3 L13: 0.8144 L23: 0.8227 REMARK 3 S TENSOR REMARK 3 S11: 0.0856 S12: 0.0754 S13: -0.0494 REMARK 3 S21: -0.2984 S22: -0.0742 S23: 0.1381 REMARK 3 S31: -0.0716 S32: -0.1422 S33: -0.0188 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 57 THROUGH 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): 93.7384 16.2465 144.5614 REMARK 3 T TENSOR REMARK 3 T11: 1.0496 T22: 1.3546 REMARK 3 T33: 1.1043 T12: 0.0563 REMARK 3 T13: -0.1084 T23: -0.2723 REMARK 3 L TENSOR REMARK 3 L11: 0.2658 L22: 0.6803 REMARK 3 L33: 0.0055 L12: -0.4064 REMARK 3 L13: -0.0066 L23: -0.0154 REMARK 3 S TENSOR REMARK 3 S11: -0.2065 S12: 0.0883 S13: 0.2487 REMARK 3 S21: -0.2148 S22: 0.0353 S23: 0.2327 REMARK 3 S31: -0.1814 S32: -0.3034 S33: 0.0991 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 67 THROUGH 71 ) REMARK 3 ORIGIN FOR THE GROUP (A): 109.3970 14.2363 141.2490 REMARK 3 T TENSOR REMARK 3 T11: 1.2858 T22: 1.2571 REMARK 3 T33: 0.8331 T12: -0.1866 REMARK 3 T13: -0.3673 T23: 0.1712 REMARK 3 L TENSOR REMARK 3 L11: 0.0290 L22: 0.7891 REMARK 3 L33: 0.0507 L12: -0.1514 REMARK 3 L13: 0.0404 L23: -0.1966 REMARK 3 S TENSOR REMARK 3 S11: -0.1224 S12: 0.3117 S13: 0.0598 REMARK 3 S21: -0.5547 S22: -0.0835 S23: -0.5452 REMARK 3 S31: 0.0824 S32: 0.4071 S33: 0.0648 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 72 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 114.9399 12.9257 127.9327 REMARK 3 T TENSOR REMARK 3 T11: 1.5531 T22: 1.3203 REMARK 3 T33: 1.2412 T12: -0.0235 REMARK 3 T13: -0.2412 T23: 0.1313 REMARK 3 L TENSOR REMARK 3 L11: 6.2438 L22: 5.7279 REMARK 3 L33: 0.1165 L12: 1.8670 REMARK 3 L13: 0.1090 L23: -0.7397 REMARK 3 S TENSOR REMARK 3 S11: 0.0883 S12: 0.1934 S13: -0.1456 REMARK 3 S21: -0.2711 S22: 0.0875 S23: 0.0450 REMARK 3 S31: -0.0726 S32: 0.1764 S33: -0.0392 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 77 THROUGH 86 ) REMARK 3 ORIGIN FOR THE GROUP (A): 108.7497 5.5207 119.7417 REMARK 3 T TENSOR REMARK 3 T11: 1.9364 T22: 1.1124 REMARK 3 T33: 1.5324 T12: -0.3639 REMARK 3 T13: -0.2283 T23: 0.1124 REMARK 3 L TENSOR REMARK 3 L11: 0.3716 L22: 1.3558 REMARK 3 L33: 0.3476 L12: -0.7081 REMARK 3 L13: -0.3619 L23: 0.6850 REMARK 3 S TENSOR REMARK 3 S11: -0.0396 S12: 0.4372 S13: -0.1131 REMARK 3 S21: -0.4525 S22: -0.0027 S23: 0.3511 REMARK 3 S31: 0.1263 S32: -0.2464 S33: 0.0975 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 5YVW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-NOV-17. REMARK 100 THE DEPOSITION ID IS D_1300005991. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14938 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 81.040 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.15800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.70500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.0, 10% PEG 4000, PH REMARK 280 6.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 44.15000 REMARK 290 SMTRY3 2 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: 2950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 GLN B 27 REMARK 465 ARG B 28 REMARK 465 GLY B 29 REMARK 465 LEU B 30 REMARK 465 PHE B 31 REMARK 465 GLY B 32 REMARK 465 LYS B 33 REMARK 465 THR B 34 REMARK 465 ALA A 49 REMARK 465 ASP A 50 REMARK 465 LEU A 51 REMARK 465 SER A 52 REMARK 465 LEU A 53 REMARK 465 GLU A 54 REMARK 465 LYS A 55 REMARK 465 ALA A 56 REMARK 465 ARG A 87 REMARK 465 ASP A 88 REMARK 465 VAL A 89 REMARK 465 GLU A 90 REMARK 465 GLU A 91 REMARK 465 THR A 92 REMARK 465 ASN A 93 REMARK 465 MET A 94 REMARK 465 ILE A 95 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 B 20 CG CD OE1 OE2 REMARK 470 VAL B 22 CG1 CG2 REMARK 470 ARG B 24 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 41 CG ND1 CD2 CE1 NE2 REMARK 470 MET B 42 CG SD CE REMARK 470 GLU B 43 CG CD OE1 OE2 REMARK 470 VAL B 45 CG1 CG2 REMARK 470 THR B 53 OG1 CG2 REMARK 470 ARG B 54 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 61 CG CD OE1 OE2 REMARK 470 THR B 62 OG1 CG2 REMARK 470 ARG B 64 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 65 CG CD1 CD2 REMARK 470 GLU B 66 CG CD OE1 OE2 REMARK 470 ARG B 73 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 74 CG OD1 ND2 REMARK 470 TRP B 83 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 83 CZ3 CH2 REMARK 470 ARG B 84 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 87 CG OD1 OD2 REMARK 470 LYS B 88 CG CD CE NZ REMARK 470 ASP B 90 CG OD1 OD2 REMARK 470 LYS B 91 CG CD CE NZ REMARK 470 GLU B 93 CG CD OE1 OE2 REMARK 470 LEU B 98 CG CD1 CD2 REMARK 470 GLU B 101 CG CD OE1 OE2 REMARK 470 PHE B 116 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 117 CG CD CE NZ REMARK 470 THR B 118 OG1 CG2 REMARK 470 LEU B 119 CG CD1 CD2 REMARK 470 GLU B 122 CG CD OE1 OE2 REMARK 470 LYS B 131 CG CD CE NZ REMARK 470 LYS B 142 CG CD CE NZ REMARK 470 LYS B 143 CG CD CE NZ REMARK 470 LYS B 145 CG CD CE NZ REMARK 470 LYS B 157 CG CD CE NZ REMARK 470 ARG B 170 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 173 CG CD OE1 OE2 REMARK 470 ARG B 184 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 236 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 254 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 514 CG CD OE1 OE2 REMARK 470 LYS B 531 CG CD CE NZ REMARK 470 ARG B 568 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 58 CG OD1 ND2 REMARK 470 ILE A 73 CG1 CG2 CD1 REMARK 470 GLU A 75 CG CD OE1 OE2 REMARK 470 LYS A 77 CG CD CE NZ REMARK 470 GLN A 78 CG CD OE1 NE2 REMARK 470 GLU A 80 CG CD OE1 OE2 REMARK 470 SER A 83 OG 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 NH1 ARG B 241 OE1 GLU B 250 2.16 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 OD2 ASP B 160 NZ LYS B 594 1656 2.09 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 B 48 -152.19 -156.62 REMARK 500 ARG B 54 -125.98 52.07 REMARK 500 SER B 56 -153.80 -122.97 REMARK 500 ARG B 64 76.23 62.40 REMARK 500 ASP B 75 104.18 -48.56 REMARK 500 MET B 76 142.90 -172.65 REMARK 500 ARG B 84 34.28 -171.13 REMARK 500 ASP B 87 150.39 69.66 REMARK 500 ASP B 90 -124.39 62.31 REMARK 500 LYS B 91 2.47 -155.02 REMARK 500 ILE B 100 91.22 -68.44 REMARK 500 PRO B 132 117.40 -39.91 REMARK 500 LYS B 142 -51.81 56.94 REMARK 500 ASP B 160 -71.72 -140.95 REMARK 500 HIS B 194 161.92 -44.05 REMARK 500 PRO B 195 69.06 -64.88 REMARK 500 PRO B 239 77.65 -62.87 REMARK 500 SER B 249 149.44 -170.07 REMARK 500 ARG B 274 68.37 -67.95 REMARK 500 ILE B 322 25.76 -140.75 REMARK 500 ARG B 342 -157.12 -142.98 REMARK 500 LEU B 443 79.81 -104.54 REMARK 500 PRO B 501 87.77 -54.19 REMARK 500 THR B 565 37.47 -94.79 REMARK 500 THR B 583 -179.31 -65.60 REMARK 500 SER A 83 -86.65 -116.33 REMARK 500 SER A 85 -147.86 -140.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY B 196 ALA B 197 -30.41 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 EPE B 701 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE STRUCTURE IS SPLIT IN TWO CHAINS DUE TO THE FACT THAT ONE CHAIN REMARK 999 COMES FROM THE COFACTOR AND THE OTHER FROM THE NS3 PROTEIN. DBREF 5YVW B 20 618 UNP F8TEL4 F8TEL4_9FLAV 1494 2092 DBREF 5YVW A 49 95 UNP F8TEL4 F8TEL4_9FLAV 1393 1439 SEQADV 5YVW ALA B 135 UNP F8TEL4 SER 1609 ENGINEERED MUTATION SEQRES 1 B 599 GLU GLY VAL TYR ARG ILE MET GLN ARG GLY LEU PHE GLY SEQRES 2 B 599 LYS THR GLN VAL GLY VAL GLY ILE HIS MET GLU GLY VAL SEQRES 3 B 599 PHE HIS THR MET TRP HIS VAL THR ARG GLY SER VAL ILE SEQRES 4 B 599 CYS HIS GLU THR GLY ARG LEU GLU PRO SER TRP ALA ASP SEQRES 5 B 599 VAL ARG ASN ASP MET ILE SER TYR GLY GLY GLY TRP ARG SEQRES 6 B 599 LEU GLY ASP LYS TRP ASP LYS GLU GLU ASP VAL GLN VAL SEQRES 7 B 599 LEU ALA ILE GLU PRO GLY LYS ASN PRO LYS HIS VAL GLN SEQRES 8 B 599 THR LYS PRO GLY LEU PHE LYS THR LEU THR GLY GLU ILE SEQRES 9 B 599 GLY ALA VAL THR LEU ASP PHE LYS PRO GLY THR ALA GLY SEQRES 10 B 599 SER PRO ILE ILE ASN LYS LYS GLY LYS VAL ILE GLY LEU SEQRES 11 B 599 TYR GLY ASN GLY VAL VAL THR LYS SER GLY ASP TYR VAL SEQRES 12 B 599 SER ALA ILE THR GLN ALA GLU ARG ILE GLY GLU PRO ASP SEQRES 13 B 599 TYR GLU VAL ASP GLU ASP ILE PHE ARG LYS LYS ARG LEU SEQRES 14 B 599 THR ILE MET ASP LEU HIS PRO GLY ALA GLY LYS THR LYS SEQRES 15 B 599 ARG ILE LEU PRO SER ILE VAL ARG GLU ALA LEU LYS ARG SEQRES 16 B 599 ARG LEU ARG THR LEU ILE LEU ALA PRO THR ARG VAL VAL SEQRES 17 B 599 ALA ALA GLU MET GLU GLU ALA LEU ARG GLY LEU PRO ILE SEQRES 18 B 599 ARG TYR GLN THR PRO ALA VAL LYS SER GLU HIS THR GLY SEQRES 19 B 599 ARG GLU ILE VAL ASP LEU MET CYS HIS ALA THR PHE THR SEQRES 20 B 599 THR ARG LEU LEU SER SER THR ARG VAL PRO ASN TYR ASN SEQRES 21 B 599 LEU ILE VAL MET ASP GLU ALA HIS PHE THR ASP PRO CYS SEQRES 22 B 599 SER VAL ALA ALA ARG GLY TYR ILE SER THR ARG VAL GLU SEQRES 23 B 599 MET GLY GLU ALA ALA ALA ILE PHE MET THR ALA THR PRO SEQRES 24 B 599 PRO GLY SER ILE ASP PRO PHE PRO GLN SER ASN SER PRO SEQRES 25 B 599 ILE GLU ASP ILE GLU ARG GLU ILE PRO GLU ARG SER TRP SEQRES 26 B 599 ASN THR GLY PHE ASP TRP ILE THR ASP TYR GLN GLY LYS SEQRES 27 B 599 THR VAL TRP PHE VAL PRO SER ILE LYS ALA GLY ASN ASP SEQRES 28 B 599 ILE ALA ASN CYS LEU ARG LYS SER GLY LYS LYS VAL ILE SEQRES 29 B 599 GLN LEU SER ARG LYS THR PHE ASP THR GLU TYR PRO LYS SEQRES 30 B 599 THR LYS LEU THR ASP TRP ASP PHE VAL VAL THR THR ASP SEQRES 31 B 599 ILE SER GLU MET GLY ALA ASN PHE ARG ALA GLY ARG VAL SEQRES 32 B 599 ILE ASP PRO ARG ARG CYS LEU LYS PRO VAL ILE LEU THR SEQRES 33 B 599 ASP GLY PRO GLU ARG VAL ILE LEU ALA GLY PRO ILE PRO SEQRES 34 B 599 VAL THR PRO ALA SER ALA ALA GLN ARG ARG GLY ARG ILE SEQRES 35 B 599 GLY ARG ASN PRO ALA GLN GLU ASP ASP GLN TYR VAL PHE SEQRES 36 B 599 SER GLY ASP PRO LEU LYS ASN ASP GLU ASP HIS ALA HIS SEQRES 37 B 599 TRP THR GLU ALA LYS MET LEU LEU ASP ASN ILE TYR THR SEQRES 38 B 599 PRO GLU GLY ILE ILE PRO THR LEU PHE GLY PRO GLU ARG SEQRES 39 B 599 GLU LYS THR GLN ALA ILE ASP GLY GLU PHE ARG LEU ARG SEQRES 40 B 599 GLY GLU GLN ARG LYS THR PHE VAL GLU LEU MET ARG ARG SEQRES 41 B 599 GLY ASP LEU PRO VAL TRP LEU SER TYR LYS VAL ALA SER SEQRES 42 B 599 ALA GLY ILE SER TYR LYS ASP ARG GLU TRP CYS PHE THR SEQRES 43 B 599 GLY GLU ARG ASN ASN GLN ILE LEU GLU GLU ASN MET GLU SEQRES 44 B 599 VAL GLU ILE TRP THR ARG GLU GLY GLU LYS LYS LYS LEU SEQRES 45 B 599 ARG PRO LYS TRP LEU ASP ALA ARG VAL TYR ALA ASP PRO SEQRES 46 B 599 MET ALA LEU LYS ASP PHE LYS GLU PHE ALA SER GLY ARG SEQRES 47 B 599 LYS SEQRES 1 A 47 ALA ASP LEU SER LEU GLU LYS ALA ALA ASN VAL GLN TRP SEQRES 2 A 47 ASP GLU MET ALA ASP ILE THR GLY SER SER PRO ILE ILE SEQRES 3 A 47 GLU VAL LYS GLN ASP GLU ASP GLY SER PHE SER ILE ARG SEQRES 4 A 47 ASP VAL GLU GLU THR ASN MET ILE HET EPE B 701 15 HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN EPE HEPES FORMUL 3 EPE C8 H18 N2 O4 S FORMUL 4 HOH *13(H2 O) HELIX 1 AA1 MET B 42 VAL B 45 5 4 HELIX 2 AA2 GLU B 180 ARG B 184 5 5 HELIX 3 AA3 ARG B 202 ARG B 214 1 13 HELIX 4 AA4 THR B 224 LEU B 235 1 12 HELIX 5 AA5 HIS B 262 SER B 272 1 11 HELIX 6 AA6 ASP B 290 MET B 306 1 17 HELIX 7 AA7 PHE B 348 TYR B 354 1 7 HELIX 8 AA8 SER B 364 SER B 378 1 15 HELIX 9 AA9 THR B 389 TYR B 394 1 6 HELIX 10 AB1 PRO B 395 THR B 400 1 6 HELIX 11 AB2 ASP B 409 MET B 413 5 5 HELIX 12 AB3 THR B 450 GLY B 459 1 10 HELIX 13 AB4 HIS B 485 ASP B 496 1 12 HELIX 14 AB5 PHE B 509 THR B 516 5 8 HELIX 15 AB6 GLY B 527 ARG B 539 1 13 HELIX 16 AB7 PRO B 543 SER B 552 1 10 HELIX 17 AB8 ARG B 560 PHE B 564 5 5 HELIX 18 AB9 GLU B 567 GLN B 571 5 5 HELIX 19 AC1 ASP B 597 TYR B 601 5 5 HELIX 20 AC2 ASP B 603 SER B 615 1 13 SHEET 1 AA1 2 VAL B 22 TYR B 23 0 SHEET 2 AA1 2 GLY B 39 ILE B 40 -1 O GLY B 39 N TYR B 23 SHEET 1 AA2 5 VAL B 146 LEU B 149 0 SHEET 2 AA2 5 PRO B 138 ILE B 140 -1 N ILE B 139 O ILE B 147 SHEET 3 AA2 5 VAL B 95 VAL B 97 -1 N GLN B 96 O ILE B 140 SHEET 4 AA2 5 VAL B 109 THR B 111 -1 O VAL B 109 N VAL B 97 SHEET 5 AA2 5 ASP A 66 THR A 68 1 O THR A 68 N GLN B 110 SHEET 1 AA3 2 LEU B 115 LYS B 117 0 SHEET 2 AA3 2 ILE A 73 GLU A 75 1 O ILE A 74 N LEU B 115 SHEET 1 AA4 2 ALA B 125 VAL B 126 0 SHEET 2 AA4 2 SER B 163 ALA B 164 -1 O SER B 163 N VAL B 126 SHEET 1 AA5 6 ARG B 187 MET B 191 0 SHEET 2 AA5 6 ALA B 310 MET B 314 1 O PHE B 313 N THR B 189 SHEET 3 AA5 6 LEU B 280 ASP B 284 1 N ILE B 281 O ALA B 310 SHEET 4 AA5 6 THR B 218 ALA B 222 1 N LEU B 219 O VAL B 282 SHEET 5 AA5 6 VAL B 257 CYS B 261 1 O ASP B 258 N ILE B 220 SHEET 6 AA5 6 ILE B 240 TYR B 242 1 N ARG B 241 O VAL B 257 SHEET 1 AA6 6 ILE B 332 GLU B 336 0 SHEET 2 AA6 6 ASP B 470 PHE B 474 1 O ASP B 470 N GLU B 333 SHEET 3 AA6 6 ARG B 421 ASP B 424 1 N ASP B 424 O VAL B 473 SHEET 4 AA6 6 THR B 358 PHE B 361 1 N VAL B 359 O ARG B 421 SHEET 5 AA6 6 PHE B 404 THR B 407 1 O VAL B 405 N TRP B 360 SHEET 6 AA6 6 VAL B 382 LEU B 385 1 N LEU B 385 O VAL B 406 SHEET 1 AA7 2 ARG B 427 LEU B 434 0 SHEET 2 AA7 2 ARG B 440 PRO B 448 -1 O ALA B 444 N LYS B 430 SHEET 1 AA8 2 LEU B 573 GLU B 574 0 SHEET 2 AA8 2 MET B 577 GLU B 578 -1 O MET B 577 N GLU B 574 SHEET 1 AA9 2 GLU B 580 TRP B 582 0 SHEET 2 AA9 2 LYS B 588 LYS B 590 -1 O LYS B 589 N ILE B 581 CISPEP 1 GLU B 169 ARG B 170 0 -0.17 CISPEP 2 GLU B 173 PRO B 174 0 -6.49 CISPEP 3 GLY B 445 PRO B 446 0 0.36 CISPEP 4 GLU B 502 GLY B 503 0 2.86 SITE 1 AC1 14 LEU B 193 HIS B 194 PRO B 195 GLY B 196 SITE 2 AC1 14 ALA B 197 GLY B 198 LYS B 199 GLU B 285 SITE 3 AC1 14 ALA B 316 GLY B 414 ASN B 416 GLN B 456 SITE 4 AC1 14 ARG B 460 ARG B 463 CRYST1 52.770 88.300 81.110 90.00 92.34 90.00 P 1 21 1 2 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 0.018950 0.000000 0.000774 0.00000 SCALE2 0.000000 0.011325 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012339 0.00000