HEADER TRANSFERASE 10-SEP-18 6MFE TITLE SCHISTOSOMA MANSONI (BLOOD FLUKE) SULFOTRANSFERASE/CIDD-0000773 TITLE 2 (COMPOUND 11G) COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: SULFOTRANSFERASE OXAMNIQUINE RESISTANCE PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SCHISTOSOMA MANSONI; SOURCE 3 ORGANISM_COMMON: BLOOD FLUKE; SOURCE 4 ORGANISM_TAXID: 6183; SOURCE 5 GENE: SULT-OR, SMP_089320; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PAG8H KEYWDS SULFOTRANSFERASE, PARASITE, DRUG RESISTANCE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.B.TAYLOR REVDAT 3 11-OCT-23 6MFE 1 REMARK REVDAT 2 07-NOV-18 6MFE 1 JRNL REVDAT 1 03-OCT-18 6MFE 0 JRNL AUTH A.RUGEL,R.S.TARPLEY,A.LOPEZ,T.MENARD,M.A.GUZMAN,A.B.TAYLOR, JRNL AUTH 2 X.CAO,D.KOVALSKYY,F.D.CHEVALIER,T.J.C.ANDERSON,P.J.HART, JRNL AUTH 3 P.T.LOVERDE,S.F.MCHARDY JRNL TITL DESIGN, SYNTHESIS, AND CHARACTERIZATION OF NOVEL SMALL JRNL TITL 2 MOLECULES AS BROAD RANGE ANTISCHISTOSOMAL AGENTS. JRNL REF ACS MED CHEM LETT V. 9 967 2018 JRNL REFN ISSN 1948-5875 JRNL PMID 30344901 JRNL DOI 10.1021/ACSMEDCHEMLETT.8B00257 REMARK 2 REMARK 2 RESOLUTION. 1.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.12_2829: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.66 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 52225 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.830 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 42.6745 - 3.4804 0.99 4008 160 0.1512 0.1793 REMARK 3 2 3.4804 - 2.7626 0.99 3812 151 0.1593 0.1924 REMARK 3 3 2.7626 - 2.4134 0.99 3766 150 0.1619 0.1824 REMARK 3 4 2.4134 - 2.1928 0.99 3707 148 0.1547 0.2123 REMARK 3 5 2.1928 - 2.0356 0.97 3648 146 0.1522 0.2160 REMARK 3 6 2.0356 - 1.9156 0.98 3646 145 0.1688 0.2239 REMARK 3 7 1.9156 - 1.8197 0.97 3638 144 0.1687 0.2340 REMARK 3 8 1.8197 - 1.7405 0.96 3576 142 0.1754 0.2535 REMARK 3 9 1.7405 - 1.6735 0.96 3558 143 0.1801 0.2568 REMARK 3 10 1.6735 - 1.6157 0.95 3531 140 0.1827 0.2662 REMARK 3 11 1.6157 - 1.5652 0.94 3502 139 0.1958 0.2410 REMARK 3 12 1.5652 - 1.5204 0.95 3467 138 0.2044 0.2897 REMARK 3 13 1.5204 - 1.4804 0.93 3443 138 0.2240 0.3116 REMARK 3 14 1.4804 - 1.4443 0.79 2923 116 0.2404 0.2872 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 20.280 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.10 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 : 0.010 2221 REMARK 3 ANGLE : 1.353 3024 REMARK 3 CHIRALITY : 0.072 341 REMARK 3 PLANARITY : 0.006 373 REMARK 3 DIHEDRAL : 15.723 835 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 6MFE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-SEP-18. REMARK 100 THE DEPOSITION ID IS D_1000236817. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JAN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS HTC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52276 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.440 REMARK 200 RESOLUTION RANGE LOW (A) : 42.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06700 REMARK 200 FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.44 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.52 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.2 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.81800 REMARK 200 FOR SHELL : 2.100 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: PDB ENTRY 4MUA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0 M SODIUM CITRATE, 0.1 M SODIUM REMARK 280 CACODYLATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 70.27650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.78250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 70.27650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 19.78250 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 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 704 LIES ON A SPECIAL POSITION. 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 64 109.21 -54.77 REMARK 500 ASP A 91 168.64 77.07 REMARK 500 TYR A 105 79.25 -117.63 REMARK 500 VAL A 127 -53.24 -123.51 REMARK 500 ASN A 150 -167.04 -129.79 REMARK 500 ASN A 228 34.00 73.07 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 A3P A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue S73 A 302 DBREF 6MFE A 1 257 UNP G4VLE5 G4VLE5_SCHMA 1 257 SEQADV 6MFE GLY A -1 UNP G4VLE5 EXPRESSION TAG SEQADV 6MFE ALA A 0 UNP G4VLE5 EXPRESSION TAG SEQRES 1 A 259 GLY ALA MET ILE GLU SER SER THR THR ILE GLN VAL ILE SEQRES 2 A 259 SER ALA GLY LEU PRO ARG THR GLY THR LYS SER LEU LYS SEQRES 3 A 259 ASN ALA LEU GLU ILE ILE TYR HIS LYS PRO CYS TYR HIS SEQRES 4 A 259 MET PHE GLU ILE ILE PHE ASN LYS GLN SER ASP ILE ILE SEQRES 5 A 259 LYS TRP GLN ASN LEU ILE HIS ASP SER HIS MET ILE THR SEQRES 6 A 259 THR PRO PRO PRO LEU THR THR LYS THR ILE ALA ILE TYR SEQRES 7 A 259 ASP LYS LEU LYS GLU LEU LEU ASP GLY TYR ILE ALA THR SEQRES 8 A 259 THR ASP LEU PRO THR CYS GLY PHE TYR LYS ASP LEU MET SEQRES 9 A 259 ASN ILE TYR PRO ASN ALA LYS VAL LEU LEU THR ILE ARG SEQRES 10 A 259 ASP LYS TYR ASP TRP LEU HIS SER LEU ARG LYS VAL VAL SEQRES 11 A 259 LEU PRO LYS SER ASN ASP PRO TRP LYS LEU LYS ILE GLU SEQRES 12 A 259 GLU GLY ASP LYS VAL LEU GLY LEU ASN SER ASP PHE TYR SEQRES 13 A 259 LYS LEU THR GLU ASP SER LEU LYS PHE ALA PHE GLN LYS SEQRES 14 A 259 ASP ASP LEU ASN PHE ASP ASP ASP GLN VAL LEU LEU GLU SEQRES 15 A 259 CYS TYR ASP GLU TYR ASN ARG LEU VAL GLN GLU THR VAL SEQRES 16 A 259 PRO SER ASP ARG LEU LEU VAL LEU ARG LEU GLY ASP GLY SEQRES 17 A 259 TRP GLU PRO LEU CYS LYS PHE LEU ASN VAL GLU ILE PRO SEQRES 18 A 259 ASN GLY ILE ASP TYR PRO CAS VAL ASN SER HIS HIS GLN SEQRES 19 A 259 MET THR GLN LEU THR GLU GLN LEU ILE LYS TYR LYS SER SEQRES 20 A 259 LEU ASP ALA ILE ILE HIS MET PHE PRO ASP LEU ILE MODRES 6MFE CAS A 226 CYS MODIFIED RESIDUE HET CAS A 226 9 HET A3P A 301 27 HET S73 A 302 29 HETNAM CAS S-(DIMETHYLARSENIC)CYSTEINE HETNAM A3P ADENOSINE-3'-5'-DIPHOSPHATE HETNAM S73 (2-NITRO-4-{[(3S)-1-{[4-(TRIFLUOROMETHOXY) HETNAM 2 S73 PHENYL]METHYL}PYRROLIDIN-3-YL]AMINO}PHENYL)METHANOL FORMUL 1 CAS C5 H12 AS N O2 S FORMUL 2 A3P C10 H15 N5 O10 P2 FORMUL 3 S73 C19 H20 F3 N3 O4 FORMUL 4 HOH *337(H2 O) HELIX 1 AA1 GLY A 19 HIS A 32 1 14 HELIX 2 AA2 HIS A 37 ASN A 44 1 8 HELIX 3 AA3 LYS A 45 SER A 47 5 3 HELIX 4 AA4 ASP A 48 SER A 59 1 12 HELIX 5 AA5 HIS A 60 ILE A 62 5 3 HELIX 6 AA6 THR A 69 LEU A 83 1 15 HELIX 7 AA7 THR A 94 GLY A 96 5 3 HELIX 8 AA8 PHE A 97 TYR A 105 1 9 HELIX 9 AA9 ASP A 116 VAL A 128 1 13 HELIX 10 AB1 PRO A 135 LEU A 147 1 13 HELIX 11 AB2 ASN A 150 PHE A 165 1 16 HELIX 12 AB3 ASP A 174 VAL A 193 1 20 HELIX 13 AB4 PRO A 194 ASP A 196 5 3 HELIX 14 AB5 GLY A 206 ASN A 215 1 10 HELIX 15 AB6 SER A 229 LYS A 244 1 16 HELIX 16 AB7 ILE A 249 PHE A 253 5 5 SHEET 1 AA1 5 CYS A 35 TYR A 36 0 SHEET 2 AA1 5 ALA A 88 THR A 89 1 O ALA A 88 N TYR A 36 SHEET 3 AA1 5 VAL A 10 SER A 12 1 N SER A 12 O THR A 89 SHEET 4 AA1 5 LYS A 109 ILE A 114 1 O LYS A 109 N ILE A 11 SHEET 5 AA1 5 LEU A 198 ARG A 202 1 O LEU A 201 N LEU A 112 LINK C PRO A 225 N CAS A 226 1555 1555 1.34 LINK C CAS A 226 N VAL A 227 1555 1555 1.30 CISPEP 1 PRO A 65 PRO A 66 0 -2.73 CISPEP 2 PRO A 66 PRO A 67 0 1.65 CISPEP 3 LEU A 92 PRO A 93 0 -0.69 SITE 1 AC1 22 ARG A 17 THR A 18 GLY A 19 THR A 20 SITE 2 AC1 22 LYS A 21 SER A 22 ARG A 115 SER A 123 SITE 3 AC1 22 LEU A 203 PRO A 225 CAS A 226 VAL A 227 SITE 4 AC1 22 ASN A 228 SER A 229 HIS A 230 HOH A 438 SITE 5 AC1 22 HOH A 439 HOH A 444 HOH A 458 HOH A 518 SITE 6 AC1 22 HOH A 571 HOH A 608 SITE 1 AC2 19 PRO A 16 HIS A 37 MET A 38 PHE A 39 SITE 2 AC2 19 ILE A 42 PHE A 43 ASP A 91 LEU A 92 SITE 3 AC2 19 VAL A 127 ILE A 140 ASP A 144 LEU A 147 SITE 4 AC2 19 PHE A 153 THR A 157 MET A 233 LEU A 236 SITE 5 AC2 19 HOH A 438 HOH A 606 HOH A 660 CRYST1 140.553 39.565 53.674 90.00 90.00 90.00 P 21 21 2 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 0.007115 0.000000 0.000000 0.00000 SCALE2 0.000000 0.025275 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018631 0.00000