HEADER TRANSFERASE 07-MAR-05 1Z28 TITLE CRYSTAL STRUCTURES OF SULT1A2 AND SULT1A1*3: IMPLICATIONS IN THE TITLE 2 BIOACTIVATION OF N-HYDROXY-2-ACETYLAMINO FLUORINE (OH-AAF) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHENOL-SULFATING PHENOL SULFOTRANSFERASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SULT1A1*3; COMPND 5 EC: 2.8.2.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-2TK KEYWDS SULT1A1*3, PAP, PLASTIC SUBSTRATE BINDING POCKET, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.LU,H.LI,M.C.LIU,J.ZHANG,M.LI,X.AN,W.CHANG REVDAT 5 25-OCT-23 1Z28 1 REMARK REVDAT 4 11-OCT-17 1Z28 1 REMARK REVDAT 3 25-AUG-10 1Z28 1 JRNL REVDAT 2 24-FEB-09 1Z28 1 VERSN REVDAT 1 30-MAY-06 1Z28 0 JRNL AUTH J.LU,H.LI,J.ZHANG,M.LI,M.Y.LIU,X.AN,M.C.LIU,W.CHANG JRNL TITL CRYSTAL STRUCTURES OF SULT1A2 AND SULT1A1 *3: INSIGHTS INTO JRNL TITL 2 THE SUBSTRATE INHIBITION AND THE ROLE OF TYR149 IN SULT1A2. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 396 429 2010 JRNL REFN ISSN 0006-291X JRNL PMID 20417180 JRNL DOI 10.1016/J.BBRC.2010.04.109 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.3 REMARK 3 NUMBER OF REFLECTIONS : 16900 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1306 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.38 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE : 0.2810 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 103 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2359 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 177 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.90 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM SIGMAA (A) : 0.21 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.28 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.260 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1Z28 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-MAR-05. REMARK 100 THE DEPOSITION ID IS D_1000032205. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.888 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17608 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.31200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1LS6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14.75% PEG 4000, 0.1M MES, 20MM REMARK 280 CALCIUM ACETATE, PH 6.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 280K 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 36.12000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 61.26500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.12000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 61.26500 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 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A1133 LIES ON A SPECIAL POSITION. 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 MET A 1 REMARK 465 GLU A 2 REMARK 465 LEU A 3 REMARK 465 ILE A 4 REMARK 465 GLN A 5 REMARK 465 ASP A 6 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 GLU A 166 46.69 -92.93 REMARK 500 TYR A 169 3.85 89.72 REMARK 500 SER A 183 9.37 -63.91 REMARK 500 SER A 253 119.96 -171.34 REMARK 500 ARG A 257 -72.20 -75.71 REMARK 500 LYS A 258 -32.35 -133.75 REMARK 500 ALA A 285 -72.06 -39.43 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 1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1Z29 RELATED DB: PDB REMARK 900 SULT1A2 DBREF 1Z28 A 1 295 UNP P50225 SUP1_HUMAN 1 295 SEQADV 1Z28 VAL A 223 UNP P50225 MET 223 SEE REMARK 999 SEQRES 1 A 295 MET GLU LEU ILE GLN ASP THR SER ARG PRO PRO LEU GLU SEQRES 2 A 295 TYR VAL LYS GLY VAL PRO LEU ILE LYS TYR PHE ALA GLU SEQRES 3 A 295 ALA LEU GLY PRO LEU GLN SER PHE GLN ALA ARG PRO ASP SEQRES 4 A 295 ASP LEU LEU ILE SER THR TYR PRO LYS SER GLY THR THR SEQRES 5 A 295 TRP VAL SER GLN ILE LEU ASP MET ILE TYR GLN GLY GLY SEQRES 6 A 295 ASP LEU GLU LYS CYS HIS ARG ALA PRO ILE PHE MET ARG SEQRES 7 A 295 VAL PRO PHE LEU GLU PHE LYS ALA PRO GLY ILE PRO SER SEQRES 8 A 295 GLY MET GLU THR LEU LYS ASP THR PRO ALA PRO ARG LEU SEQRES 9 A 295 LEU LYS THR HIS LEU PRO LEU ALA LEU LEU PRO GLN THR SEQRES 10 A 295 LEU LEU ASP GLN LYS VAL LYS VAL VAL TYR VAL ALA ARG SEQRES 11 A 295 ASN ALA LYS ASP VAL ALA VAL SER TYR TYR HIS PHE TYR SEQRES 12 A 295 HIS MET ALA LYS VAL HIS PRO GLU PRO GLY THR TRP ASP SEQRES 13 A 295 SER PHE LEU GLU LYS PHE MET VAL GLY GLU VAL SER TYR SEQRES 14 A 295 GLY SER TRP TYR GLN HIS VAL GLN GLU TRP TRP GLU LEU SEQRES 15 A 295 SER ARG THR HIS PRO VAL LEU TYR LEU PHE TYR GLU ASP SEQRES 16 A 295 MET LYS GLU ASN PRO LYS ARG GLU ILE GLN LYS ILE LEU SEQRES 17 A 295 GLU PHE VAL GLY ARG SER LEU PRO GLU GLU THR VAL ASP SEQRES 18 A 295 PHE VAL VAL GLN HIS THR SER PHE LYS GLU MET LYS LYS SEQRES 19 A 295 ASN PRO MET THR ASN TYR THR THR VAL PRO GLN GLU PHE SEQRES 20 A 295 MET ASP HIS SER ILE SER PRO PHE MET ARG LYS GLY MET SEQRES 21 A 295 ALA GLY ASP TRP LYS THR THR PHE THR VAL ALA GLN ASN SEQRES 22 A 295 GLU ARG PHE ASP ALA ASP TYR ALA GLU LYS MET ALA GLY SEQRES 23 A 295 CYS SER LEU SER PHE ARG SER GLU LEU HET A3P A1001 27 HETNAM A3P ADENOSINE-3'-5'-DIPHOSPHATE FORMUL 2 A3P C10 H15 N5 O10 P2 FORMUL 3 HOH *177(H2 O) HELIX 1 1 ILE A 21 GLN A 32 1 12 HELIX 2 2 GLY A 50 GLN A 63 1 14 HELIX 3 3 ASP A 66 HIS A 71 1 6 HELIX 4 4 PRO A 74 VAL A 79 1 6 HELIX 5 5 SER A 91 LEU A 96 1 6 HELIX 6 6 PRO A 115 GLN A 121 1 7 HELIX 7 7 ASN A 131 ALA A 146 1 16 HELIX 8 8 THR A 154 VAL A 164 1 11 HELIX 9 9 SER A 171 SER A 183 1 13 HELIX 10 10 TYR A 193 ASN A 199 1 7 HELIX 11 11 ASN A 199 VAL A 211 1 13 HELIX 12 12 PRO A 216 THR A 227 1 12 HELIX 13 13 SER A 228 ASN A 235 1 8 HELIX 14 14 GLY A 262 THR A 267 5 6 HELIX 15 15 THR A 269 ALA A 285 1 17 SHEET 1 A 2 GLU A 13 VAL A 15 0 SHEET 2 A 2 VAL A 18 LEU A 20 -1 O LEU A 20 N GLU A 13 SHEET 1 B 4 LEU A 104 THR A 107 0 SHEET 2 B 4 LEU A 41 THR A 45 1 N ILE A 43 O LEU A 105 SHEET 3 B 4 LYS A 124 ALA A 129 1 O VAL A 126 N LEU A 42 SHEET 4 B 4 VAL A 188 PHE A 192 1 O LEU A 191 N TYR A 127 CISPEP 1 ALA A 101 PRO A 102 0 0.05 SITE 1 AC1 23 LYS A 48 SER A 49 GLY A 50 THR A 51 SITE 2 AC1 23 THR A 52 TRP A 53 ARG A 130 SER A 138 SITE 3 AC1 23 TYR A 193 THR A 227 SER A 228 PHE A 229 SITE 4 AC1 23 MET A 232 PHE A 255 MET A 256 ARG A 257 SITE 5 AC1 23 LYS A 258 GLY A 259 HOH A1005 HOH A1014 SITE 6 AC1 23 HOH A1015 HOH A1031 HOH A1045 CRYST1 72.240 122.530 43.820 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 0.013843 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008161 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022821 0.00000