HEADER CHAPERONE 13-JUN-19 6RZY TITLE PLASMODIUM FALCIPARUM PFA0660W HSP40 CO-CHAPERONE J-DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEAT SHOCK PROTEIN 40, TYPE II; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM (ISOLATE 3D7); SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: ISOLATE 3D7; SOURCE 5 GENE: PF3D7_0113700; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS MALARIA EXPORTED CO-CHAPERONE INTRA-ERYTHROCYTIC, CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR I.VAKONAKIS,J.DAY REVDAT 4 24-JAN-24 6RZY 1 REMARK REVDAT 3 11-DEC-19 6RZY 1 JRNL REVDAT 2 13-NOV-19 6RZY 1 JRNL REVDAT 1 02-OCT-19 6RZY 0 JRNL AUTH J.DAY,A.PASSECKER,H.P.BECK,I.VAKONAKIS JRNL TITL THEPLASMODIUM FALCIPARUMHSP70-X CHAPERONE ASSISTS THE HEAT JRNL TITL 2 STRESS RESPONSE OF THE MALARIA PARASITE. JRNL REF FASEB J. V. 33 14611 2019 JRNL REFN ESSN 1530-6860 JRNL PMID 31690116 JRNL DOI 10.1096/FJ.201901741R REMARK 2 REMARK 2 RESOLUTION. 1.38 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.13_2998: ???) 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) : 1.38 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 28661 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 : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.660 REMARK 3 FREE R VALUE TEST SET COUNT : 1335 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 37.3516 - 2.9706 0.97 2764 145 0.1663 0.1831 REMARK 3 2 2.9706 - 2.3580 0.99 2767 145 0.1672 0.2074 REMARK 3 3 2.3580 - 2.0599 0.90 2408 130 0.1399 0.1827 REMARK 3 4 2.0599 - 1.8716 0.99 2692 120 0.1357 0.1836 REMARK 3 5 1.8716 - 1.7374 1.00 2779 131 0.1378 0.1747 REMARK 3 6 1.7374 - 1.6350 1.00 2820 114 0.1377 0.2406 REMARK 3 7 1.6350 - 1.5531 1.00 2771 141 0.1526 0.2002 REMARK 3 8 1.5531 - 1.4855 1.00 2798 133 0.1923 0.2550 REMARK 3 9 1.4855 - 1.4283 1.00 2753 140 0.2412 0.3000 REMARK 3 10 1.4283 - 1.3790 0.99 2774 136 0.2887 0.3235 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.750 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.73 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 1162 REMARK 3 ANGLE : 1.027 1556 REMARK 3 CHIRALITY : 0.060 160 REMARK 3 PLANARITY : 0.006 198 REMARK 3 DIHEDRAL : 11.095 450 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 6RZY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1292102900. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0389 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28692 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.379 REMARK 200 RESOLUTION RANGE LOW (A) : 54.925 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.38 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.63900 REMARK 200 R SYM FOR SHELL (I) : NULL 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: 4RWU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.12 M MIX OF ETHYLENE GLYCOLS 0.1 M REMARK 280 TRIS (BASE)/BICINE 30% W/V PEG MME550 30% W/V PEG 20,000, PH 8.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 27.46250 REMARK 290 SMTRY3 2 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: 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HE ARG A 22 O HOH A 102 1.54 REMARK 500 HH22 ARG A 22 OD2 ASP B 19 1.60 REMARK 500 REMARK 500 REMARK: NULL DBREF 6RZY A 3 70 UNP Q8I2E1 Q8I2E1_PLAF7 81 148 DBREF 6RZY B 3 70 UNP Q8I2E1 Q8I2E1_PLAF7 81 148 SEQADV 6RZY GLY A 1 UNP Q8I2E1 EXPRESSION TAG SEQADV 6RZY PRO A 2 UNP Q8I2E1 EXPRESSION TAG SEQADV 6RZY GLY B 1 UNP Q8I2E1 EXPRESSION TAG SEQADV 6RZY PRO B 2 UNP Q8I2E1 EXPRESSION TAG SEQRES 1 A 70 GLY PRO MET ASP TYR TYR THR LEU LEU GLY VAL ASP LYS SEQRES 2 A 70 GLY CYS SER GLU ASP ASP LEU ARG ARG ALA TYR LEU LYS SEQRES 3 A 70 LEU ALA MET LYS TRP HIS PRO ASP LYS HIS VAL ASN LYS SEQRES 4 A 70 GLY SER LYS VAL GLU ALA GLU GLU LYS PHE LYS ASN ILE SEQRES 5 A 70 CYS GLU ALA TYR SER VAL LEU SER ASP ASN GLU LYS ARG SEQRES 6 A 70 VAL LYS TYR ASP LEU SEQRES 1 B 70 GLY PRO MET ASP TYR TYR THR LEU LEU GLY VAL ASP LYS SEQRES 2 B 70 GLY CYS SER GLU ASP ASP LEU ARG ARG ALA TYR LEU LYS SEQRES 3 B 70 LEU ALA MET LYS TRP HIS PRO ASP LYS HIS VAL ASN LYS SEQRES 4 B 70 GLY SER LYS VAL GLU ALA GLU GLU LYS PHE LYS ASN ILE SEQRES 5 B 70 CYS GLU ALA TYR SER VAL LEU SER ASP ASN GLU LYS ARG SEQRES 6 B 70 VAL LYS TYR ASP LEU FORMUL 3 HOH *124(H2 O) HELIX 1 AA1 ASP A 4 GLY A 10 1 7 HELIX 2 AA2 SER A 16 TRP A 31 1 16 HELIX 3 AA3 HIS A 32 VAL A 37 1 6 HELIX 4 AA4 SER A 41 SER A 60 1 20 HELIX 5 AA5 ASP A 61 LEU A 70 1 10 HELIX 6 AA6 ASP B 4 GLY B 10 1 7 HELIX 7 AA7 SER B 16 TRP B 31 1 16 HELIX 8 AA8 HIS B 32 VAL B 37 1 6 HELIX 9 AA9 SER B 41 SER B 60 1 20 HELIX 10 AB1 ASP B 61 LEU B 70 1 10 CRYST1 25.828 54.925 51.441 90.00 98.23 90.00 P 1 21 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 0.038718 0.000000 0.005602 0.00000 SCALE2 0.000000 0.018207 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019642 0.00000