HEADER CHAPERONE 12-JUL-07 2QLD TITLE HUMAN HSP40 HDJ1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNAJ HOMOLOG SUBFAMILY B MEMBER 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HEAT SHOCK 40 KDA PROTEIN 1, HEAT SHOCK PROTEIN 40, HSP40, COMPND 5 DNAJ PROTEIN HOMOLOG 1, HDJ-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 GENE: DNAJB1, DNAJ1, HDJ1, HSPF1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS PRIMARILY BETA SHEETS, CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR J.HU,Y.WU,J.LI,Z.FU,B.SHA REVDAT 5 03-APR-24 2QLD 1 REMARK REVDAT 4 21-FEB-24 2QLD 1 REMARK REVDAT 3 23-MAR-10 2QLD 1 JRNL REVDAT 2 24-FEB-09 2QLD 1 VERSN REVDAT 1 15-JUL-08 2QLD 0 JRNL AUTH J.HU,Y.WU,J.LI,X.QIAN,Z.FU,B.SHA JRNL TITL THE CRYSTAL STRUCTURE OF THE PUTATIVE PEPTIDE-BINDING JRNL TITL 2 FRAGMENT FROM THE HUMAN HSP40 PROTEIN HDJ1. JRNL REF BMC STRUCT.BIOL. V. 8 3 2008 JRNL REFN ESSN 1472-6807 JRNL PMID 18211704 JRNL DOI 10.1186/1472-6807-8-3 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 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) (%) : 89.8 REMARK 3 NUMBER OF REFLECTIONS : 9943 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.283 REMARK 3 FREE R VALUE : 0.336 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 681 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 : 5 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3880 REMARK 3 BIN FREE R VALUE : 0.4230 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 46 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 : 1359 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 55.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.00 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) : 0.52 REMARK 3 ESD FROM SIGMAA (A) : 0.52 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) : 0.56 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.41 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.090 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC 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 2QLD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000043743. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9943 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.8 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : 0.06500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 65.9 REMARK 200 DATA REDUNDANCY IN SHELL : 1.50 REMARK 200 R MERGE FOR SHELL (I) : 0.38200 REMARK 200 R SYM FOR SHELL (I) : 0.38200 REMARK 200 <I/SIGMA(I)> 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: EPMR REMARK 200 STARTING MODEL: YEAST HSP40 SIS1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM CITRIC BUFFER, PEG400 25%, PH REMARK 280 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K 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 20.48000 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 20.48000 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 48.50500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 95.56500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 48.50500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 95.56500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 20.48000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 48.50500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 95.56500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 20.48000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 48.50500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 95.56500 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 300 REMARK: THE SECOND PART OF THE BIOLOGICAL ASSEMLY IS GENERATED BY REMARK 300 THE TWO FOLD AXIS: 1-X,Y,1/2-Z 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: 1690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 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 97.01000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 20.48000 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 LYS A 158 REMARK 465 LYS A 159 REMARK 465 GLN A 160 REMARK 465 ASP A 161 REMARK 465 SER A 228 REMARK 465 ASN A 229 REMARK 465 ASN A 230 REMARK 465 GLN A 336 REMARK 465 VAL A 337 REMARK 465 LEU A 338 REMARK 465 PRO A 339 REMARK 465 ILE A 340 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 LEU A 190 -19.63 -47.19 REMARK 500 ASN A 191 164.54 49.90 REMARK 500 PRO A 192 54.73 -56.45 REMARK 500 ASP A 193 -52.89 -147.06 REMARK 500 LYS A 195 -67.13 -128.97 REMARK 500 GLU A 200 136.00 -5.74 REMARK 500 LYS A 202 129.00 -172.24 REMARK 500 LYS A 222 34.39 25.23 REMARK 500 ASP A 225 -107.83 -103.09 REMARK 500 GLN A 226 78.13 -166.65 REMARK 500 PRO A 232 137.67 -39.01 REMARK 500 ASN A 245 36.05 -90.66 REMARK 500 ILE A 246 -35.40 -157.51 REMARK 500 ASP A 250 70.53 -150.14 REMARK 500 MET A 293 153.59 -45.94 REMARK 500 PRO A 308 -18.52 -46.60 REMARK 500 PRO A 327 150.51 -46.72 REMARK 500 LEU A 334 18.85 -47.93 REMARK 500 REMARK 500 REMARK: NULL DBREF 2QLD A 158 340 UNP P25685 DNJB1_HUMAN 158 340 SEQRES 1 A 183 LYS LYS GLN ASP PRO PRO VAL THR HIS ASP LEU ARG VAL SEQRES 2 A 183 SER LEU GLU GLU ILE TYR SER GLY CYS THR LYS LYS MET SEQRES 3 A 183 LYS ILE SER HIS LYS ARG LEU ASN PRO ASP GLY LYS SER SEQRES 4 A 183 ILE ARG ASN GLU ASP LYS ILE LEU THR ILE GLU VAL LYS SEQRES 5 A 183 LYS GLY TRP LYS GLU GLY THR LYS ILE THR PHE PRO LYS SEQRES 6 A 183 GLU GLY ASP GLN THR SER ASN ASN ILE PRO ALA ASP ILE SEQRES 7 A 183 VAL PHE VAL LEU LYS ASP LYS PRO HIS ASN ILE PHE LYS SEQRES 8 A 183 ARG ASP GLY SER ASP VAL ILE TYR PRO ALA ARG ILE SER SEQRES 9 A 183 LEU ARG GLU ALA LEU CYS GLY CYS THR VAL ASN VAL PRO SEQRES 10 A 183 THR LEU ASP GLY ARG THR ILE PRO VAL VAL PHE LYS ASP SEQRES 11 A 183 VAL ILE ARG PRO GLY MET ARG ARG LYS VAL PRO GLY GLU SEQRES 12 A 183 GLY LEU PRO LEU PRO LYS THR PRO GLU LYS ARG GLY ASP SEQRES 13 A 183 LEU ILE ILE GLU PHE GLU VAL ILE PHE PRO GLU ARG ILE SEQRES 14 A 183 PRO GLN THR SER ARG THR VAL LEU GLU GLN VAL LEU PRO SEQRES 15 A 183 ILE HELIX 1 1 SER A 171 GLY A 178 1 8 HELIX 2 2 LEU A 262 GLY A 268 1 7 HELIX 3 3 PRO A 327 LEU A 334 1 8 SHEET 1 A 3 VAL A 164 VAL A 170 0 SHEET 2 A 3 ILE A 235 ASP A 241 1 O VAL A 236 N VAL A 164 SHEET 3 A 3 LYS A 217 PHE A 220 -1 N ILE A 218 O PHE A 237 SHEET 1 B 2 CYS A 179 SER A 186 0 SHEET 2 B 2 ASP A 201 VAL A 208 -1 O LEU A 204 N MET A 183 SHEET 1 C 4 LYS A 248 ASP A 250 0 SHEET 2 C 4 ASP A 253 SER A 261 -1 O ILE A 255 N LYS A 248 SHEET 3 C 4 LEU A 314 ILE A 321 1 O ILE A 315 N TYR A 256 SHEET 4 C 4 ARG A 294 VAL A 297 -1 N VAL A 297 O LEU A 314 SHEET 1 D 2 CYS A 269 PRO A 274 0 SHEET 2 D 2 THR A 280 PHE A 285 -1 O ILE A 281 N VAL A 273 CRYST1 97.010 191.130 40.960 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 0.010308 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005232 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024414 0.00000