HEADER VIRAL PROTEIN 01-AUG-25 9W4U TITLE ASFV E146L COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASFV E146L; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AFRICAN SWINE FEVER VIRUS; SOURCE 3 ORGANISM_TAXID: 10497; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ASFV, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR W.YONG,D.DONGDONG REVDAT 1 17-SEP-25 9W4U 0 JRNL AUTH W.YONG JRNL TITL CRYSTAL STRUCTURE OF ASFV E146L JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.19.1_4122: ???) 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.91 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 3 NUMBER OF REFLECTIONS : 29638 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.910 REMARK 3 FREE R VALUE TEST SET COUNT : 1454 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 25.9100 - 4.3000 0.91 2702 140 0.1675 0.1920 REMARK 3 2 4.3000 - 3.4200 0.92 2746 144 0.1546 0.1844 REMARK 3 3 3.4200 - 2.9900 0.96 2860 130 0.1759 0.2287 REMARK 3 4 2.9900 - 2.7100 0.96 2880 152 0.2014 0.2552 REMARK 3 5 2.7100 - 2.5200 0.97 2844 150 0.2069 0.2633 REMARK 3 6 2.5200 - 2.3700 0.96 2850 143 0.2004 0.2579 REMARK 3 7 2.3700 - 2.2500 0.95 2828 152 0.2003 0.2405 REMARK 3 8 2.2500 - 2.1500 0.95 2845 141 0.2004 0.2408 REMARK 3 9 2.1500 - 2.0700 0.95 2816 150 0.1965 0.2578 REMARK 3 10 2.0700 - 2.0000 0.95 2813 152 0.2071 0.2530 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.170 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL 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 : 0.008 3716 REMARK 3 ANGLE : 0.947 5048 REMARK 3 CHIRALITY : 0.056 552 REMARK 3 PLANARITY : 0.009 664 REMARK 3 DIHEDRAL : 6.191 496 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -4.9579 5.3260 12.4621 REMARK 3 T TENSOR REMARK 3 T11: 0.0440 T22: 0.0401 REMARK 3 T33: 0.0488 T12: -0.0201 REMARK 3 T13: 0.0030 T23: -0.0085 REMARK 3 L TENSOR REMARK 3 L11: 0.7705 L22: 0.5967 REMARK 3 L33: 0.8538 L12: -0.1609 REMARK 3 L13: 0.1756 L23: -0.0671 REMARK 3 S TENSOR REMARK 3 S11: 0.0199 S12: 0.0206 S13: -0.0785 REMARK 3 S21: -0.0405 S22: 0.0158 S23: -0.0044 REMARK 3 S31: -0.0158 S32: 0.0857 S33: 0.0033 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 9W4U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 04-AUG-25. REMARK 100 THE DEPOSITION ID IS D_1300062180. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-DEC-24 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29734 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 25.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 2.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS,PH 6.5, 25% PEG 3350, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 APPLY THE FOLLOWING TO CHAINS: A, D 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 -4 REMARK 465 GLY A -3 REMARK 465 ASN A -2 REMARK 465 PHE A -1 REMARK 465 THR A 0 REMARK 465 GLY B -4 REMARK 465 GLY B -3 REMARK 465 ASN B -2 REMARK 465 PHE B -1 REMARK 465 THR B 0 REMARK 465 GLY C -4 REMARK 465 GLY C -3 REMARK 465 ASN C -2 REMARK 465 PHE C -1 REMARK 465 THR C 0 REMARK 465 ALA C 97 REMARK 465 ASP C 98 REMARK 465 GLU C 99 REMARK 465 GLY D -4 REMARK 465 GLY D -3 REMARK 465 ASN D -2 REMARK 465 PHE D -1 REMARK 465 THR D 0 REMARK 465 GLY D 72 REMARK 465 HIS D 73 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 GLN A 75 45.43 36.14 REMARK 500 VAL B 88 -55.50 -122.28 REMARK 500 GLU C 20 12.54 59.75 REMARK 500 GLU D 20 18.87 57.48 REMARK 500 REMARK 500 REMARK: NULL DBREF 9W4U A -4 117 PDB 9W4U 9W4U -4 117 DBREF 9W4U B -4 117 PDB 9W4U 9W4U -4 117 DBREF 9W4U C -4 117 PDB 9W4U 9W4U -4 117 DBREF 9W4U D -4 117 PDB 9W4U 9W4U -4 117 SEQRES 1 A 122 GLY GLY ASN PHE THR GLY TRP SER PRO PHE LYS TYR SER SEQRES 2 A 122 LYS GLY ASN THR VAL THR PHE LYS THR PRO ASP GLU SER SEQRES 3 A 122 SER ILE ALA TYR MET ARG PHE ARG ASN CYS VAL PHE THR SEQRES 4 A 122 PHE THR ASP PRO LYS GLY SER LEU HIS SER ILE ASP VAL SEQRES 5 A 122 THR GLU VAL LEU ASN ASN MET ALA LYS GLY PHE ARG ASP SEQRES 6 A 122 ALA GLN ASN PRO PRO SER SER PHE THR LEU GLY GLY HIS SEQRES 7 A 122 CYS GLN ALA PRO LEU ASN ALA PHE SER PHE VAL LEU PRO SEQRES 8 A 122 GLY VAL ASN ASP ARG ALA THR VAL ALA THR ALA ASP GLU SEQRES 9 A 122 ALA LYS LYS TRP GLU ASN CYS ASP ALA THR LEU THR GLY SEQRES 10 A 122 LEU GLN ARG ILE ILE SEQRES 1 B 122 GLY GLY ASN PHE THR GLY TRP SER PRO PHE LYS TYR SER SEQRES 2 B 122 LYS GLY ASN THR VAL THR PHE LYS THR PRO ASP GLU SER SEQRES 3 B 122 SER ILE ALA TYR MET ARG PHE ARG ASN CYS VAL PHE THR SEQRES 4 B 122 PHE THR ASP PRO LYS GLY SER LEU HIS SER ILE ASP VAL SEQRES 5 B 122 THR GLU VAL LEU ASN ASN MET ALA LYS GLY PHE ARG ASP SEQRES 6 B 122 ALA GLN ASN PRO PRO SER SER PHE THR LEU GLY GLY HIS SEQRES 7 B 122 CYS GLN ALA PRO LEU ASN ALA PHE SER PHE VAL LEU PRO SEQRES 8 B 122 GLY VAL ASN ASP ARG ALA THR VAL ALA THR ALA ASP GLU SEQRES 9 B 122 ALA LYS LYS TRP GLU ASN CYS ASP ALA THR LEU THR GLY SEQRES 10 B 122 LEU GLN ARG ILE ILE SEQRES 1 C 122 GLY GLY ASN PHE THR GLY TRP SER PRO PHE LYS TYR SER SEQRES 2 C 122 LYS GLY ASN THR VAL THR PHE LYS THR PRO ASP GLU SER SEQRES 3 C 122 SER ILE ALA TYR MET ARG PHE ARG ASN CYS VAL PHE THR SEQRES 4 C 122 PHE THR ASP PRO LYS GLY SER LEU HIS SER ILE ASP VAL SEQRES 5 C 122 THR GLU VAL LEU ASN ASN MET ALA LYS GLY PHE ARG ASP SEQRES 6 C 122 ALA GLN ASN PRO PRO SER SER PHE THR LEU GLY GLY HIS SEQRES 7 C 122 CYS GLN ALA PRO LEU ASN ALA PHE SER PHE VAL LEU PRO SEQRES 8 C 122 GLY VAL ASN ASP ARG ALA THR VAL ALA THR ALA ASP GLU SEQRES 9 C 122 ALA LYS LYS TRP GLU ASN CYS ASP ALA THR LEU THR GLY SEQRES 10 C 122 LEU GLN ARG ILE ILE SEQRES 1 D 122 GLY GLY ASN PHE THR GLY TRP SER PRO PHE LYS TYR SER SEQRES 2 D 122 LYS GLY ASN THR VAL THR PHE LYS THR PRO ASP GLU SER SEQRES 3 D 122 SER ILE ALA TYR MET ARG PHE ARG ASN CYS VAL PHE THR SEQRES 4 D 122 PHE THR ASP PRO LYS GLY SER LEU HIS SER ILE ASP VAL SEQRES 5 D 122 THR GLU VAL LEU ASN ASN MET ALA LYS GLY PHE ARG ASP SEQRES 6 D 122 ALA GLN ASN PRO PRO SER SER PHE THR LEU GLY GLY HIS SEQRES 7 D 122 CYS GLN ALA PRO LEU ASN ALA PHE SER PHE VAL LEU PRO SEQRES 8 D 122 GLY VAL ASN ASP ARG ALA THR VAL ALA THR ALA ASP GLU SEQRES 9 D 122 ALA LYS LYS TRP GLU ASN CYS ASP ALA THR LEU THR GLY SEQRES 10 D 122 LEU GLN ARG ILE ILE FORMUL 5 HOH *378(H2 O) HELIX 1 AA1 SER A 22 ALA A 24 5 3 HELIX 2 AA2 VAL A 47 GLY A 57 1 11 HELIX 3 AA3 THR A 96 LYS A 102 1 7 HELIX 4 AA4 SER B 22 ALA B 24 5 3 HELIX 5 AA5 VAL B 47 GLY B 57 1 11 HELIX 6 AA6 THR B 96 LYS B 102 1 7 HELIX 7 AA7 SER C 22 ALA C 24 5 3 HELIX 8 AA8 VAL C 47 GLY C 57 1 11 HELIX 9 AA9 ASP C 90 ALA C 95 1 6 HELIX 10 AB1 ALA C 100 GLU C 104 5 5 HELIX 11 AB2 SER D 22 ALA D 24 5 3 HELIX 12 AB3 VAL D 47 GLY D 57 1 11 HELIX 13 AB4 THR D 96 LYS D 102 1 7 SHEET 1 AA1 4 SER A 3 SER A 8 0 SHEET 2 AA1 4 ALA A 108 ILE A 116 -1 O GLN A 114 N SER A 3 SHEET 3 AA1 4 MET A 26 THR A 36 -1 N ARG A 27 O ARG A 115 SHEET 4 AA1 4 LEU A 42 ASP A 46 -1 O ILE A 45 N PHE A 33 SHEET 1 AA2 2 THR A 14 LYS A 16 0 SHEET 2 AA2 2 SER A 67 THR A 69 -1 O PHE A 68 N PHE A 15 SHEET 1 AA3 4 SER B 3 SER B 8 0 SHEET 2 AA3 4 ALA B 108 ILE B 116 -1 O GLN B 114 N SER B 3 SHEET 3 AA3 4 MET B 26 THR B 36 -1 N ARG B 27 O ARG B 115 SHEET 4 AA3 4 LEU B 42 ASP B 46 -1 O ILE B 45 N PHE B 33 SHEET 1 AA4 2 THR B 14 LYS B 16 0 SHEET 2 AA4 2 SER B 67 THR B 69 -1 O PHE B 68 N PHE B 15 SHEET 1 AA5 4 SER C 3 SER C 8 0 SHEET 2 AA5 4 ALA C 108 ILE C 116 -1 O GLN C 114 N SER C 3 SHEET 3 AA5 4 MET C 26 THR C 36 -1 N ARG C 29 O LEU C 113 SHEET 4 AA5 4 LEU C 42 ASP C 46 -1 O HIS C 43 N PHE C 35 SHEET 1 AA6 2 THR C 14 LYS C 16 0 SHEET 2 AA6 2 SER C 67 THR C 69 -1 O PHE C 68 N PHE C 15 SHEET 1 AA7 4 SER D 3 SER D 8 0 SHEET 2 AA7 4 ALA D 108 ILE D 116 -1 O GLN D 114 N SER D 3 SHEET 3 AA7 4 MET D 26 THR D 36 -1 N ARG D 27 O ARG D 115 SHEET 4 AA7 4 LEU D 42 ASP D 46 -1 O ILE D 45 N PHE D 33 SHEET 1 AA8 2 THR D 14 LYS D 16 0 SHEET 2 AA8 2 SER D 67 THR D 69 -1 O PHE D 68 N PHE D 15 CRYST1 50.068 50.137 50.399 77.09 80.10 77.78 P 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 0.019973 -0.004324 -0.002698 0.00000 SCALE2 0.000000 0.020407 -0.004042 0.00000 SCALE3 0.000000 0.000000 0.020533 0.00000 MASTER 259 0 0 13 24 0 0 6 3966 4 0 40 END