HEADER METAL BINDING PROTEIN 05-OCT-10 3P3K TITLE THE CRYSTAL STRUCTURE OF TRANSLATIONALLY CONTROLLED TUMOR PROTEIN TITLE 2 (TCTP) OF PLASMODIUM FALCIPARUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSLATIONALLY-CONTROLLED TUMOR PROTEIN HOMOLOG; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TCTP; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: 3D7; SOURCE 5 GENE: TCTP, PFE0545C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MAINLY BETA, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.EICHHORN,D.WINTER,N.DIRDJAJA,M.FRANK,L.KRAUTH-SIEGEL,J.GRANZIN, AUTHOR 2 T.EFFERTH REVDAT 4 06-SEP-23 3P3K 1 SEQADV REVDAT 3 09-JAN-13 3P3K 1 JRNL REVDAT 2 07-NOV-12 3P3K 1 JRNL REVDAT 1 09-NOV-11 3P3K 0 JRNL AUTH T.EICHHORN,D.WINTER,B.BUCHELE,N.DIRDJAJA,M.FRANK, JRNL AUTH 2 W.D.LEHMANN,R.MERTENS,R.L.KRAUTH-SIEGEL,T.SIMMET,J.GRANZIN, JRNL AUTH 3 T.EFFERTH JRNL TITL MOLECULAR INTERACTION OF ARTEMISININ WITH TRANSLATIONALLY JRNL TITL 2 CONTROLLED TUMOR PROTEIN (TCTP) OF PLASMODIUM FALCIPARUM. JRNL REF BIOCHEM PHARMACOL V. 85 38 2013 JRNL REFN JRNL PMID 23085438 JRNL DOI 10.1016/J.BCP.2012.10.006 REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 7436 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 342 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 29.8090 - 3.2129 0.99 3644 183 0.0000 0.0000 REMARK 3 2 3.2129 - 2.5506 0.98 3450 159 0.0000 0.0000 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 23.14 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.27330 REMARK 3 B22 (A**2) : -3.27330 REMARK 3 B33 (A**2) : 6.54650 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.002 1388 REMARK 3 ANGLE : 0.589 1863 REMARK 3 CHIRALITY : 0.046 190 REMARK 3 PLANARITY : 0.001 238 REMARK 3 DIHEDRAL : 12.603 520 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 3P3K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1000061911. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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 : ENRAF-NONIUS FR591 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE MONOCHROMATOR REMARK 200 OPTICS : GRAPHITE MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7436 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 29.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.2 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.18200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1TXJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 21.5 % PEG 4000, 1,6-HEXANEDIOL, 50 MM REMARK 280 BIS-TRIS METHANE, 50MM MAGNESIUM ACETATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 55.84200 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 30.92900 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 30.92900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 83.76300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 30.92900 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 30.92900 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 27.92100 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 30.92900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 30.92900 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 83.76300 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 30.92900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 30.92900 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 27.92100 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 55.84200 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 48 REMARK 465 ASN A 49 REMARK 465 GLU A 50 REMARK 465 ASP A 51 REMARK 465 TYR A 52 REMARK 465 GLY A 53 REMARK 465 ILE A 54 REMARK 465 ALA A 55 REMARK 465 ASP A 56 REMARK 465 ASN A 57 REMARK 465 SER A 58 REMARK 465 GLU A 59 REMARK 465 ASP A 60 REMARK 465 ALA A 61 REMARK 465 VAL A 62 REMARK 465 GLU A 63 REMARK 465 GLY A 64 REMARK 465 MET A 65 REMARK 465 GLY A 66 REMARK 465 ALA A 67 REMARK 465 ASP A 68 REMARK 465 VAL A 69 REMARK 465 GLU A 70 REMARK 465 HIS A 183 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1TXJ RELATED DB: PDB DBREF 3P3K A 5 175 UNP Q8I3Z5 TCTP_PLAF7 1 171 SEQADV 3P3K MET A 1 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K GLU A 2 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K PHE A 3 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K ARG A 4 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K LEU A 176 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K GLU A 177 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K HIS A 178 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K HIS A 179 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K HIS A 180 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K HIS A 181 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K HIS A 182 UNP Q8I3Z5 EXPRESSION TAG SEQADV 3P3K HIS A 183 UNP Q8I3Z5 EXPRESSION TAG SEQRES 1 A 183 MET GLU PHE ARG MET LYS VAL PHE LYS ASP VAL PHE THR SEQRES 2 A 183 ASN ASP GLU VAL CYS SER ASP SER TYR VAL GLN GLN ASP SEQRES 3 A 183 PRO PHE GLU VAL PRO GLU PHE ARG GLU ILE ALA PHE GLU SEQRES 4 A 183 VAL LYS SER ASN LYS ARG ILE LYS GLY ASN GLU ASP TYR SEQRES 5 A 183 GLY ILE ALA ASP ASN SER GLU ASP ALA VAL GLU GLY MET SEQRES 6 A 183 GLY ALA ASP VAL GLU HIS VAL ILE ASP ILE VAL ASP SER SEQRES 7 A 183 PHE GLN LEU THR SER THR ALA PHE SER LYS LYS GLU TYR SEQRES 8 A 183 SER ALA TYR ILE LYS ASN TYR MET GLN LYS VAL ALA LYS SEQRES 9 A 183 TYR LEU GLU GLU LYS LYS PRO ASP ARG VAL GLU ILE PHE SEQRES 10 A 183 LYS THR LYS ALA GLN PRO PHE ILE LYS HIS ILE LEU THR SEQRES 11 A 183 ASN PHE ASP ASP PHE GLU PHE TYR MET GLY GLU SER LEU SEQRES 12 A 183 ASP MET GLU ALA GLY ILE ILE TYR SER TYR TYR LYS GLY SEQRES 13 A 183 GLU GLU ILE THR PRO ARG PHE VAL TYR ILE SER ASP GLY SEQRES 14 A 183 LEU PHE GLU GLU LYS TYR LEU GLU HIS HIS HIS HIS HIS SEQRES 15 A 183 HIS FORMUL 2 HOH *66(H2 O) HELIX 1 1 ASP A 26 GLU A 35 5 10 HELIX 2 2 ASP A 74 PHE A 79 1 6 HELIX 3 3 SER A 87 LYS A 110 1 24 HELIX 4 4 ARG A 113 ASN A 131 1 19 HELIX 5 5 PHE A 132 PHE A 135 5 4 SHEET 1 A 3 GLU A 16 SER A 19 0 SHEET 2 A 3 PHE A 3 ASP A 10 -1 N PHE A 8 O VAL A 17 SHEET 3 A 3 LEU A 170 GLU A 177 -1 O GLU A 177 N PHE A 3 SHEET 1 B 5 ALA A 37 LYS A 41 0 SHEET 2 B 5 ARG A 162 ILE A 166 -1 O TYR A 165 N PHE A 38 SHEET 3 B 5 ILE A 150 TYR A 153 -1 N TYR A 151 O VAL A 164 SHEET 4 B 5 GLU A 136 MET A 139 -1 N GLU A 136 O SER A 152 SHEET 5 B 5 THR A 82 THR A 84 -1 N THR A 84 O PHE A 137 SHEET 1 C 2 LYS A 44 ARG A 45 0 SHEET 2 C 2 VAL A 72 ILE A 73 -1 O VAL A 72 N ARG A 45 CRYST1 61.858 61.858 111.684 90.00 90.00 90.00 P 43 21 2 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 0.016166 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016166 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008954 0.00000