HEADER TRANSFERASE 05-JUL-23 8JZK TITLE CRYSTAL STRUCTURE OF GLUTATHIONE S-TRANSFERASE TAU7 FROM SALIX TITLE 2 LINDLEYANA IN COMPLEX WITH GSH COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTATHIONE TRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: SEQUENCE REFERENCE FOR SALIX LINDLEYANA IS NOT COMPND 6 AVAILABLE IN UNIPROT AT THE TIME OF BIOCURATION. CURRENT SEQUENCE COMPND 7 REFERENCE IS FROM UNIPROT ID A0A5N5L538. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALIX LINDLEYANA; SOURCE 3 ORGANISM_TAXID: 1510605; SOURCE 4 GENE: DKX38_015263; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS GLUTATHIONE $-TRANSFERASE, TAU CLASS, GSH, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR N.XU REVDAT 1 12-JUN-24 8JZK 0 JRNL AUTH N.XU JRNL TITL CRYSTAL STRUCTURE OF GLUTATHIONE S-TRANSFERASE TAU7 FROM JRNL TITL 2 SALIX LINDLEYANA IN COMPLEX WITH GSH JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692+SVN 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) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.385 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 10178 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.824 REMARK 3 FREE R VALUE TEST SET COUNT : 491 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 29.3421 - 4.0453 1.00 2515 132 0.1735 0.2135 REMARK 3 2 4.0453 - 3.2122 0.99 2440 110 0.1807 0.2784 REMARK 3 3 3.2122 - 2.8065 0.99 2358 129 0.2161 0.2929 REMARK 3 4 2.8065 - 2.5600 0.99 2374 120 0.2069 0.2900 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) : 0.302 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.842 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.97 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.53 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 : 0.009 1839 REMARK 3 ANGLE : 1.146 2488 REMARK 3 CHIRALITY : 0.047 260 REMARK 3 PLANARITY : 0.006 317 REMARK 3 DIHEDRAL : 16.532 688 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 8JZK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 11-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1300039124. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAR-23 REMARK 200 TEMPERATURE (KELVIN) : 80 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 : BL10U2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979183 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10186 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 29.340 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.55 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS PROPANE PH 9.0, 8% W/V REMARK 280 POLYETHYLENE GLYCOL 20000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 289.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 56.98650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.98650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 30.36350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.96550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 30.36350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.96550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 56.98650 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 30.36350 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 43.96550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 56.98650 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 30.36350 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 43.96550 REMARK 290 SMTRY3 8 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: 3860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 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 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 ALA A 2 REMARK 465 GLU A 3 REMARK 465 LEU A 218 REMARK 465 VAL A 219 REMARK 465 GLY A 220 REMARK 465 SER A 221 REMARK 465 ALA A 222 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 CYS A 65 -65.02 -106.44 REMARK 500 LYS A 115 -66.39 -126.15 REMARK 500 ALA A 174 37.46 -88.12 REMARK 500 VAL A 175 -76.27 -87.14 REMARK 500 REMARK 500 REMARK: NULL DBREF1 8JZK A 1 222 UNP A0A5N5L538_9ROSI DBREF2 8JZK A A0A5N5L538 1 222 SEQADV 8JZK GLU A 172 UNP A0A5N5L53 LYS 172 CONFLICT SEQADV 8JZK HIS A 185 UNP A0A5N5L53 ASP 185 CONFLICT SEQADV 8JZK ASP A 190 UNP A0A5N5L53 ASN 190 CONFLICT SEQRES 1 A 222 MET ALA GLU GLN PRO LYS LEU LEU GLY ALA LEU PRO SER SEQRES 2 A 222 PRO PHE VAL TYR ARG VAL ILE TRP ALA LEU LYS LEU LYS SEQRES 3 A 222 ALA ILE PRO TYR GLU PHE ILE GLU GLU ASP LEU THR ASN SEQRES 4 A 222 LYS SER PRO LEU LEU LEU LYS TYR ASN PRO VAL HIS LYS SEQRES 5 A 222 LYS ILE PRO VAL PHE LEU HIS GLY ASP LYS PRO VAL CYS SEQRES 6 A 222 GLU SER MET ILE ILE VAL GLU TYR ILE ASP GLU VAL TRP SEQRES 7 A 222 PRO GLN ASN PRO LEU LEU PRO LYS ASP PRO TYR GLU ARG SEQRES 8 A 222 ALA LEU ALA ARG PHE TRP VAL LYS PHE ALA GLU ASP LYS SEQRES 9 A 222 GLY THR ALA VAL TRP ARG MET PHE ARG SER LYS GLY GLU SEQRES 10 A 222 GLU LEU GLU LYS THR MET LYS GLU THR GLN GLU MET LEU SEQRES 11 A 222 GLN THR VAL GLU GLU HIS GLY ILE GLY GLU LYS LYS PHE SEQRES 12 A 222 PHE GLY GLY GLU SER ILE GLY ILE ALA ASP ILE ALA PHE SEQRES 13 A 222 GLY SER VAL VAL TYR TRP LEU GLU VAL ILE GLU GLU ALA SEQRES 14 A 222 VAL GLY GLU GLY ALA VAL PHE GLU ALA HIS ARG PHE PRO SEQRES 15 A 222 ARG LEU HIS ALA TRP ILE LYS ASP PHE LYS GLN VAL PRO SEQRES 16 A 222 VAL ILE LYS GLU ASN LEU PRO GLU ARG ASP TRP MET VAL SEQRES 17 A 222 THR PHE PHE LYS ASN ARG ARG GLU ALA LEU VAL GLY SER SEQRES 18 A 222 ALA HET GSH A 301 35 HETNAM GSH GLUTATHIONE FORMUL 2 GSH C10 H17 N3 O6 S FORMUL 3 HOH *38(H2 O) HELIX 1 AA1 SER A 13 LYS A 26 1 14 HELIX 2 AA2 ASP A 36 LYS A 40 5 5 HELIX 3 AA3 SER A 41 ASN A 48 1 8 HELIX 4 AA4 GLU A 66 TRP A 78 1 13 HELIX 5 AA5 ASP A 87 GLY A 105 1 19 HELIX 6 AA6 GLY A 105 SER A 114 1 10 HELIX 7 AA7 GLY A 116 GLY A 137 1 22 HELIX 8 AA8 GLY A 150 GLY A 171 1 22 HELIX 9 AA9 PHE A 181 VAL A 194 1 14 HELIX 10 AB1 VAL A 194 ASN A 200 1 7 HELIX 11 AB2 GLU A 203 GLU A 216 1 14 SHEET 1 AA1 4 GLU A 31 GLU A 34 0 SHEET 2 AA1 4 LYS A 6 GLY A 9 1 N LEU A 7 O ILE A 33 SHEET 3 AA1 4 VAL A 56 HIS A 59 -1 O LEU A 58 N LYS A 6 SHEET 4 AA1 4 LYS A 62 VAL A 64 -1 O VAL A 64 N PHE A 57 CISPEP 1 ILE A 54 PRO A 55 0 5.79 CRYST1 60.727 87.931 113.973 90.00 90.00 90.00 C 2 2 21 8 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 0.016467 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011373 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008774 0.00000