HEADER PEPTIDE BINDING PROTEIN 18-MAR-13 4JOP TITLE CFTR ASSOCIATED LIGAND (CAL) PDZ BOUND TO HPV16 E6 ONCOPROTEIN C- TITLE 2 TERMINAL PEPTIDE (TRRETQL) COMPND MOL_ID: 1; COMPND 2 MOLECULE: GOLGI-ASSOCIATED PDZ AND COILED-COIL MOTIF-CONTAINING COMPND 3 PROTEIN; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: CAL PDZ DOMAIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PROTEIN E6; COMPND 9 CHAIN: C, D; COMPND 10 FRAGMENT: HPV16 E6 PEPTIDE; COMPND 11 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: GOPC, CAL, FIG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET16B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HUMAN PAPILLOMAVIRUS TYPE 16; SOURCE 14 ORGANISM_TAXID: 333760 KEYWDS PDZ, CFTR ASSOCIATED LIGAND, CAL, FIG, PIST, HUMAN PAPILLOMAVIRUS KEYWDS 2 TYPE 16, HPV16, E6 ONCOPROTEIN, PEPTIDE BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.F.AMACHER,D.R.MADDEN REVDAT 2 20-SEP-23 4JOP 1 REMARK REVDAT 1 22-JAN-14 4JOP 0 JRNL AUTH J.F.AMACHER,P.R.CUSHING,L.BROOKS,P.BOISGUERIN,D.R.MADDEN JRNL TITL STEREOCHEMICAL PREFERENCES MODULATE AFFINITY AND SELECTIVITY JRNL TITL 2 AMONG FIVE PDZ DOMAINS THAT BIND CFTR: COMPARATIVE JRNL TITL 3 STRUCTURAL AND SEQUENCE ANALYSES. JRNL REF STRUCTURE V. 22 82 2014 JRNL REFN ISSN 0969-2126 JRNL PMID 24210758 JRNL DOI 10.1016/J.STR.2013.09.019 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7_650) 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 : MLHL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.39 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 14953 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 758 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 19.3916 - 3.0782 1.00 2888 152 0.1738 0.1927 REMARK 3 2 3.0782 - 2.4448 1.00 2842 152 0.1785 0.2306 REMARK 3 3 2.4448 - 2.1362 1.00 2846 152 0.1783 0.2302 REMARK 3 4 2.1362 - 1.9411 1.00 2812 152 0.1760 0.2468 REMARK 3 5 1.9411 - 1.8000 1.00 2807 150 0.2151 0.2464 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.61 REMARK 3 K_SOL : 0.41 REMARK 3 B_SOL : 40.44 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.700 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.74380 REMARK 3 B22 (A**2) : -3.94580 REMARK 3 B33 (A**2) : -0.79800 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.02510 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 : 0.007 1470 REMARK 3 ANGLE : 1.053 1985 REMARK 3 CHIRALITY : 0.067 231 REMARK 3 PLANARITY : 0.005 262 REMARK 3 DIHEDRAL : 14.882 558 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESID 284:370 REMARK 3 ORIGIN FOR THE GROUP (A): 30.3496 25.1910 15.7510 REMARK 3 T TENSOR REMARK 3 T11: 0.0857 T22: 0.1094 REMARK 3 T33: 0.0995 T12: 0.0199 REMARK 3 T13: 0.0044 T23: -0.0159 REMARK 3 L TENSOR REMARK 3 L11: 0.6745 L22: 1.3451 REMARK 3 L33: 1.0891 L12: -0.5955 REMARK 3 L13: -0.3219 L23: -0.0064 REMARK 3 S TENSOR REMARK 3 S11: -0.0735 S12: -0.1424 S13: 0.0638 REMARK 3 S21: 0.2211 S22: 0.0995 S23: 0.0268 REMARK 3 S31: -0.0180 S32: -0.1126 S33: 0.0079 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B AND RESID 284:370 REMARK 3 ORIGIN FOR THE GROUP (A): 26.4213 27.3361 -8.2130 REMARK 3 T TENSOR REMARK 3 T11: 0.1382 T22: 0.0502 REMARK 3 T33: 0.1097 T12: -0.0697 REMARK 3 T13: -0.0946 T23: -0.0093 REMARK 3 L TENSOR REMARK 3 L11: 0.4794 L22: 0.4159 REMARK 3 L33: 0.7299 L12: -0.0714 REMARK 3 L13: 0.2787 L23: -0.0539 REMARK 3 S TENSOR REMARK 3 S11: 0.2382 S12: -0.0550 S13: -0.2510 REMARK 3 S21: 0.0490 S22: -0.0789 S23: 0.0822 REMARK 3 S31: 0.3305 S32: -0.1303 S33: 0.1275 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 4JOP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000078311. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-SEP-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : S1 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14956 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 19.390 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.160 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05900 REMARK 200 FOR THE DATA SET : 20.3700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 53.9000 REMARK 200 FOR SHELL : 3.160 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: PDB ENTRY 4E34 (CAL PDZ DOMAIN BOUND TO ICAL36 REMARK 200 PEPTIDE) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 32% (W/V) POLYETHYLENE GLYCOL (PEG), REMARK 280 0.125 M SODIUM CHLORIDE, 0.1 M TRIS(HYDROXYMETHYL)AMINOMETHANE REMARK 280 (TRIS), PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 24.19800 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JOE RELATED DB: PDB REMARK 900 RELATED ID: 4JOF RELATED DB: PDB REMARK 900 RELATED ID: 4JOG RELATED DB: PDB REMARK 900 RELATED ID: 4JOH RELATED DB: PDB REMARK 900 RELATED ID: 4JOJ RELATED DB: PDB REMARK 900 RELATED ID: 4JOK RELATED DB: PDB REMARK 900 RELATED ID: 4JOR RELATED DB: PDB DBREF 4JOP A 284 370 UNP Q9HD26 GOPC_HUMAN 284 370 DBREF 4JOP B 284 370 UNP Q9HD26 GOPC_HUMAN 284 370 DBREF 4JOP C 4 10 UNP P03126 VE6_HPV16 152 158 DBREF 4JOP D 4 10 UNP P03126 VE6_HPV16 152 158 SEQRES 1 A 87 GLY PRO ILE ARG LYS VAL LEU LEU LEU LYS GLU ASP HIS SEQRES 2 A 87 GLU GLY LEU GLY ILE SER ILE THR GLY GLY LYS GLU HIS SEQRES 3 A 87 GLY VAL PRO ILE LEU ILE SER GLU ILE HIS PRO GLY GLN SEQRES 4 A 87 PRO ALA ASP ARG CYS GLY GLY LEU HIS VAL GLY ASP ALA SEQRES 5 A 87 ILE LEU ALA VAL ASN GLY VAL ASN LEU ARG ASP THR LYS SEQRES 6 A 87 HIS LYS GLU ALA VAL THR ILE LEU SER GLN GLN ARG GLY SEQRES 7 A 87 GLU ILE GLU PHE GLU VAL VAL TYR VAL SEQRES 1 B 87 GLY PRO ILE ARG LYS VAL LEU LEU LEU LYS GLU ASP HIS SEQRES 2 B 87 GLU GLY LEU GLY ILE SER ILE THR GLY GLY LYS GLU HIS SEQRES 3 B 87 GLY VAL PRO ILE LEU ILE SER GLU ILE HIS PRO GLY GLN SEQRES 4 B 87 PRO ALA ASP ARG CYS GLY GLY LEU HIS VAL GLY ASP ALA SEQRES 5 B 87 ILE LEU ALA VAL ASN GLY VAL ASN LEU ARG ASP THR LYS SEQRES 6 B 87 HIS LYS GLU ALA VAL THR ILE LEU SER GLN GLN ARG GLY SEQRES 7 B 87 GLU ILE GLU PHE GLU VAL VAL TYR VAL SEQRES 1 C 7 THR ARG ARG GLU THR GLN LEU SEQRES 1 D 7 THR ARG ARG GLU THR GLN LEU FORMUL 5 HOH *149(H2 O) HELIX 1 1 LYS A 307 GLY A 310 5 4 HELIX 2 2 GLN A 322 GLY A 328 1 7 HELIX 3 3 LYS A 348 GLN A 358 1 11 HELIX 4 4 LYS B 307 GLY B 310 5 4 HELIX 5 5 GLN B 322 GLY B 328 1 7 HELIX 6 6 LYS B 348 GLN B 359 1 12 SHEET 1 A 4 ARG A 287 LYS A 293 0 SHEET 2 A 4 GLY A 361 TYR A 369 -1 O ILE A 363 N LEU A 291 SHEET 3 A 4 ASP A 334 VAL A 339 -1 N ALA A 335 O VAL A 368 SHEET 4 A 4 VAL A 342 ASN A 343 -1 O VAL A 342 N VAL A 339 SHEET 1 B 3 VAL A 311 ILE A 318 0 SHEET 2 B 3 ILE A 301 GLY A 306 -1 N SER A 302 O SER A 316 SHEET 3 B 3 GLU C 7 LEU C 10 -1 O LEU C 10 N ILE A 301 SHEET 1 C 4 ARG B 287 LEU B 292 0 SHEET 2 C 4 GLU B 362 TYR B 369 -1 O PHE B 365 N VAL B 289 SHEET 3 C 4 ASP B 334 VAL B 339 -1 N ALA B 335 O VAL B 368 SHEET 4 C 4 VAL B 342 ASN B 343 -1 O VAL B 342 N VAL B 339 SHEET 1 D 3 VAL B 311 ILE B 318 0 SHEET 2 D 3 ILE B 301 GLY B 306 -1 N THR B 304 O LEU B 314 SHEET 3 D 3 GLU D 7 GLN D 9 -1 O THR D 8 N ILE B 303 CRYST1 33.083 48.396 51.966 90.00 101.55 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 0.030227 0.000000 0.006174 0.00000 SCALE2 0.000000 0.020663 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019641 0.00000