HEADER SIGNALING PROTEIN 19-APR-11 2YGQ TITLE WIF DOMAIN-EPIDERMAL GROWTH FACTOR (EGF)-LIKE DOMAINS 1-3 OF HUMAN WNT TITLE 2 INHIBITORY FACTOR 1 IN COMPLEX WITH 1,2- TITLE 3 DIPALMITOYLPHOSPHATIDYLCHOLINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: WNT INHIBITORY FACTOR 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: WIF DOMAIN-EGF-LIKE DOMAINS 1-5, RESIDUES 35-346; COMPND 5 SYNONYM: WIF-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 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: N-ACETYLGLUCOSAMINYLTRANSFERASE I- SOURCE 9 NEGATIVE HEK 293S GNTI(-)CELLS; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PHLSEC KEYWDS SIGNALING PROTEIN, WNT SIGNALING PATHWAY, WNT ANTAGONIST, MORPHOGEN, KEYWDS 2 CANCER, GLYCOSAMINOGLYCAN EXPDTA X-RAY DIFFRACTION AUTHOR T.MALINAUSKAS,A.R.ARICESCU,W.LU,C.SIEBOLD,E.Y.JONES REVDAT 3 29-JUL-20 2YGQ 1 COMPND REMARK HET HETNAM REVDAT 3 2 1 FORMUL LINK SITE ATOM REVDAT 2 17-AUG-11 2YGQ 1 JRNL REVDAT 1 13-JUL-11 2YGQ 0 JRNL AUTH T.MALINAUSKAS,A.R.ARICESCU,W.LU,C.SIEBOLD,E.Y.JONES JRNL TITL MODULAR MECHANISM OF WNT SIGNALING INHIBITION BY WNT JRNL TITL 2 INHIBITORY FACTOR 1 JRNL REF NAT.STRUCT.MOL.BIOL. V. 18 886 2011 JRNL REFN ISSN 1545-9993 JRNL PMID 21743455 JRNL DOI 10.1038/NSMB.2081 REMARK 2 REMARK 2 RESOLUTION. 3.95 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 8048 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.299 REMARK 3 R VALUE (WORKING SET) : 0.297 REMARK 3 FREE R VALUE : 0.331 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 382 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 39.8056 - 5.6944 0.99 2685 141 0.2975 0.3578 REMARK 3 2 5.6944 - 4.5218 0.97 2566 131 0.2834 0.2810 REMARK 3 3 4.5218 - 3.9508 0.91 2415 110 0.3165 0.3202 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.31 REMARK 3 B_SOL : 184.3 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.630 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.840 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) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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 : 0.014 2027 REMARK 3 ANGLE : 2.087 2742 REMARK 3 CHIRALITY : 0.122 291 REMARK 3 PLANARITY : 0.011 343 REMARK 3 DIHEDRAL : 28.521 833 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 30.9997 4.4045 14.9562 REMARK 3 T TENSOR REMARK 3 T11: 1.1011 T22: 1.0649 REMARK 3 T33: 1.1069 T12: 0.0253 REMARK 3 T13: 0.2386 T23: 0.0784 REMARK 3 L TENSOR REMARK 3 L11: 1.7200 L22: 1.9007 REMARK 3 L33: 1.8936 L12: -0.7670 REMARK 3 L13: -0.6516 L23: -1.1107 REMARK 3 S TENSOR REMARK 3 S11: -0.0460 S12: -0.3552 S13: -0.2610 REMARK 3 S21: 0.6898 S22: 0.1429 S23: 0.1029 REMARK 3 S31: -0.2222 S32: 0.3645 S33: -0.0867 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 2YGQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-APR-11. REMARK 100 THE DEPOSITION ID IS D_1290048079. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8403 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.950 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 11.10 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 4.09 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 10.90 REMARK 200 R MERGE FOR SHELL (I) : 0.87000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 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: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 82.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 8.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.75 M SODIUM SUCCINATE PH 5.7, 35 REMARK 280 MG/ML SUCROSE OCTASULFATE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y,-Z REMARK 290 16555 X,-Y,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z,-X,-Y+1/2 REMARK 290 19555 -Z,-X+1/2,Y REMARK 290 20555 -Z+1/2,X,-Y REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z,-X REMARK 290 23555 Y,-Z,-X+1/2 REMARK 290 24555 -Y,-Z+1/2,X 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 89.00350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 89.00350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 89.00350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 89.00350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 89.00350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 89.00350 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 89.00350 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 89.00350 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 89.00350 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 89.00350 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 89.00350 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 89.00350 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 89.00350 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 89.00350 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 89.00350 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 89.00350 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 89.00350 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 89.00350 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 89.00350 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 89.00350 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 89.00350 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 89.00350 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 89.00350 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 89.00350 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 89.00350 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 89.00350 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -81.4 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 1.000000 0.000000 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 GLU A 32 REMARK 465 THR A 33 REMARK 465 ILE A 275 REMARK 465 SER A 276 REMARK 465 LYS A 277 REMARK 465 CYS A 278 REMARK 465 PRO A 279 REMARK 465 GLN A 280 REMARK 465 PRO A 281 REMARK 465 CYS A 282 REMARK 465 ARG A 283 REMARK 465 ASN A 284 REMARK 465 GLY A 285 REMARK 465 GLY A 286 REMARK 465 LYS A 287 REMARK 465 CYS A 288 REMARK 465 ILE A 289 REMARK 465 GLY A 290 REMARK 465 LYS A 291 REMARK 465 SER A 292 REMARK 465 LYS A 293 REMARK 465 CYS A 294 REMARK 465 LYS A 295 REMARK 465 CYS A 296 REMARK 465 SER A 297 REMARK 465 LYS A 298 REMARK 465 GLY A 299 REMARK 465 TYR A 300 REMARK 465 GLN A 301 REMARK 465 GLY A 302 REMARK 465 ASP A 303 REMARK 465 LEU A 304 REMARK 465 CYS A 305 REMARK 465 SER A 306 REMARK 465 LYS A 307 REMARK 465 PRO A 308 REMARK 465 VAL A 309 REMARK 465 CYS A 310 REMARK 465 GLU A 311 REMARK 465 PRO A 312 REMARK 465 GLY A 313 REMARK 465 CYS A 314 REMARK 465 GLY A 315 REMARK 465 ALA A 316 REMARK 465 HIS A 317 REMARK 465 GLY A 318 REMARK 465 THR A 319 REMARK 465 CYS A 320 REMARK 465 HIS A 321 REMARK 465 GLU A 322 REMARK 465 PRO A 323 REMARK 465 ASN A 324 REMARK 465 LYS A 325 REMARK 465 CYS A 326 REMARK 465 GLN A 327 REMARK 465 CYS A 328 REMARK 465 GLN A 329 REMARK 465 GLU A 330 REMARK 465 GLY A 331 REMARK 465 TRP A 332 REMARK 465 HIS A 333 REMARK 465 GLY A 334 REMARK 465 ARG A 335 REMARK 465 HIS A 336 REMARK 465 CYS A 337 REMARK 465 ASN A 338 REMARK 465 LYS A 339 REMARK 465 ARG A 340 REMARK 465 TYR A 341 REMARK 465 GLU A 342 REMARK 465 ALA A 343 REMARK 465 SER A 344 REMARK 465 LEU A 345 REMARK 465 ILE A 346 REMARK 465 GLY A 347 REMARK 465 THR A 348 REMARK 465 LYS A 349 REMARK 465 HIS A 350 REMARK 465 HIS A 351 REMARK 465 HIS A 352 REMARK 465 HIS A 353 REMARK 465 HIS A 354 REMARK 465 HIS A 355 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 PRO A 78 CD PRO A 78 N 0.174 REMARK 500 REMARK 500 REMARK: NULL 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 ARG A 76 2.13 -64.09 REMARK 500 GLN A 92 138.86 -172.88 REMARK 500 ILE A 113 -61.81 -94.93 REMARK 500 GLN A 169 123.88 -30.66 REMARK 500 PHE A 229 -179.01 62.26 REMARK 500 PHE A 257 -32.66 -131.84 REMARK 500 CYS A 273 82.11 63.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YGO RELATED DB: PDB REMARK 900 WIF DOMAIN-EGF-LIKE DOMAIN 1 OF HUMAN WNT INHIBITORY FACTOR 1 IN REMARK 900 COMPLEX WITH 1,2- DIPALMITOYLPHOSPHATIDYLCHOLINE REMARK 900 RELATED ID: 2YGP RELATED DB: PDB REMARK 900 WIF DOMAIN-EGF-LIKE DOMAIN 1 MET77TRP OF HUMAN WNT INHIBITORY REMARK 900 FACTOR 1 IN COMPLEX WITH 1,2- DIPALMITOYLPHOSPHATIDYLCHOLINE REMARK 900 RELATED ID: 2YGN RELATED DB: PDB REMARK 900 WIF DOMAIN OF HUMAN WNT INHIBITORY FACTOR 1 IN COMPLEX WITH 1,2- REMARK 900 DIPALMITOYLPHOSPHATIDYLCHOLINE REMARK 999 REMARK 999 SEQUENCE REMARK 999 ISOFORM Q166K. THE N-TERMINAL THREE AMINO ACID RESIDUES REMARK 999 (ETG) AND C-TERMINAL NINE AMINO ACID RESIDUES (GTKHHHHHH) REMARK 999 OF THE CRYSTALLISATION CONSTRUCT ARE DERIVED FROM THE REMARK 999 PHLSEC VECTOR. DBREF 2YGQ A 35 346 UNP Q9Y5W5 WIF1_HUMAN 35 346 SEQADV 2YGQ GLU A 32 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ THR A 33 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ GLY A 34 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ LYS A 166 UNP Q9Y5W5 GLN 166 VARIANT SEQADV 2YGQ GLY A 347 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ THR A 348 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ LYS A 349 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ HIS A 350 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ HIS A 351 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ HIS A 352 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ HIS A 353 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ HIS A 354 UNP Q9Y5W5 EXPRESSION TAG SEQADV 2YGQ HIS A 355 UNP Q9Y5W5 EXPRESSION TAG SEQRES 1 A 324 GLU THR GLY SER LEU TYR LEU TRP ILE ASP ALA HIS GLN SEQRES 2 A 324 ALA ARG VAL LEU ILE GLY PHE GLU GLU ASP ILE LEU ILE SEQRES 3 A 324 VAL SER GLU GLY LYS MET ALA PRO PHE THR HIS ASP PHE SEQRES 4 A 324 ARG LYS ALA GLN GLN ARG MET PRO ALA ILE PRO VAL ASN SEQRES 5 A 324 ILE HIS SER MET ASN PHE THR TRP GLN ALA ALA GLY GLN SEQRES 6 A 324 ALA GLU TYR PHE TYR GLU PHE LEU SER LEU ARG SER LEU SEQRES 7 A 324 ASP LYS GLY ILE MET ALA ASP PRO THR VAL ASN VAL PRO SEQRES 8 A 324 LEU LEU GLY THR VAL PRO HIS LYS ALA SER VAL VAL GLN SEQRES 9 A 324 VAL GLY PHE PRO CYS LEU GLY LYS GLN ASP GLY VAL ALA SEQRES 10 A 324 ALA PHE GLU VAL ASP VAL ILE VAL MET ASN SER GLU GLY SEQRES 11 A 324 ASN THR ILE LEU LYS THR PRO GLN ASN ALA ILE PHE PHE SEQRES 12 A 324 LYS THR CYS GLN GLN ALA GLU CYS PRO GLY GLY CYS ARG SEQRES 13 A 324 ASN GLY GLY PHE CYS ASN GLU ARG ARG ILE CYS GLU CYS SEQRES 14 A 324 PRO ASP GLY PHE HIS GLY PRO HIS CYS GLU LYS ALA LEU SEQRES 15 A 324 CYS THR PRO ARG CYS MET ASN GLY GLY LEU CYS VAL THR SEQRES 16 A 324 PRO GLY PHE CYS ILE CYS PRO PRO GLY PHE TYR GLY VAL SEQRES 17 A 324 ASN CYS ASP LYS ALA ASN CYS SER THR THR CYS PHE ASN SEQRES 18 A 324 GLY GLY THR CYS PHE TYR PRO GLY LYS CYS ILE CYS PRO SEQRES 19 A 324 PRO GLY LEU GLU GLY GLU GLN CYS GLU ILE SER LYS CYS SEQRES 20 A 324 PRO GLN PRO CYS ARG ASN GLY GLY LYS CYS ILE GLY LYS SEQRES 21 A 324 SER LYS CYS LYS CYS SER LYS GLY TYR GLN GLY ASP LEU SEQRES 22 A 324 CYS SER LYS PRO VAL CYS GLU PRO GLY CYS GLY ALA HIS SEQRES 23 A 324 GLY THR CYS HIS GLU PRO ASN LYS CYS GLN CYS GLN GLU SEQRES 24 A 324 GLY TRP HIS GLY ARG HIS CYS ASN LYS ARG TYR GLU ALA SEQRES 25 A 324 SER LEU ILE GLY THR LYS HIS HIS HIS HIS HIS HIS MODRES 2YGQ ASN A 88 ASN GLYCOSYLATION SITE MODRES 2YGQ ASN A 245 ASN GLYCOSYLATION SITE MODRES 2YGQ THR A 255 THR GLYCOSYLATION SITE HET GU4 B 1 27 HET YYJ B 2 28 HET PCF A1275 50 HET NAG A1276 14 HET NAG A1277 14 HET FUC A1278 10 HETNAM GU4 2,3,4,6-TETRA-O-SULFONATO-ALPHA-D-GLUCOPYRANOSE HETNAM YYJ 1,3,4,6-TETRA-O-SULFO-BETA-D-FRUCTOFURANOSE HETNAM PCF 1,2-DIACYL-SN-GLYCERO-3-PHOSHOCHOLINE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE FORMUL 2 GU4 C6 H12 O18 S4 FORMUL 2 YYJ C6 H12 O18 S4 FORMUL 3 PCF C40 H80 N O8 P FORMUL 4 NAG 2(C8 H15 N O6) FORMUL 6 FUC C6 H12 O5 HELIX 1 1 ASP A 41 ILE A 49 1 9 HELIX 2 2 PRO A 65 HIS A 68 5 4 HELIX 3 3 ASP A 69 ARG A 76 1 8 SHEET 1 AA 6 LYS A 62 MET A 63 0 SHEET 2 AA 6 ILE A 55 SER A 59 -1 O SER A 59 N LYS A 62 SHEET 3 AA 6 LEU A 36 ILE A 40 -1 O LEU A 38 N VAL A 58 SHEET 4 AA 6 SER A 86 ALA A 93 -1 O THR A 90 N TRP A 39 SHEET 5 AA 6 SER A 132 GLY A 137 -1 O SER A 132 N TRP A 91 SHEET 6 AA 6 THR A 118 VAL A 119 -1 O THR A 118 N GLY A 137 SHEET 1 AB 4 LEU A 124 THR A 126 0 SHEET 2 AB 4 PHE A 100 SER A 105 -1 O TYR A 101 N GLY A 125 SHEET 3 AB 4 ASP A 153 MET A 157 -1 O ASP A 153 N LEU A 104 SHEET 4 AB 4 THR A 163 LYS A 166 -1 N ILE A 164 O VAL A 156 SHEET 1 AC 2 GLY A 146 GLU A 151 0 SHEET 2 AC 2 ILE A 172 CYS A 177 -1 O PHE A 173 N PHE A 150 SHEET 1 AD 2 PHE A 191 CYS A 192 0 SHEET 2 AD 2 CYS A 198 GLU A 199 -1 O GLU A 199 N PHE A 191 SHEET 1 AE 2 PHE A 204 HIS A 205 0 SHEET 2 AE 2 LYS A 211 ALA A 212 -1 O LYS A 211 N HIS A 205 SHEET 1 AF 2 LEU A 223 CYS A 224 0 SHEET 2 AF 2 CYS A 230 ILE A 231 -1 O ILE A 231 N LEU A 223 SSBOND 1 CYS A 140 CYS A 177 1555 1555 2.04 SSBOND 2 CYS A 182 CYS A 192 1555 1555 2.03 SSBOND 3 CYS A 186 CYS A 198 1555 1555 2.03 SSBOND 4 CYS A 200 CYS A 209 1555 1555 2.03 SSBOND 5 CYS A 214 CYS A 224 1555 1555 2.02 SSBOND 6 CYS A 218 CYS A 230 1555 1555 2.04 SSBOND 7 CYS A 232 CYS A 241 1555 1555 2.04 SSBOND 8 CYS A 246 CYS A 256 1555 1555 2.03 SSBOND 9 CYS A 250 CYS A 262 1555 1555 2.03 SSBOND 10 CYS A 264 CYS A 273 1555 1555 2.03 LINK ND2 ASN A 88 C1 NAG A1276 1555 1555 1.45 LINK ND2 ASN A 245 C1 NAG A1277 1555 1555 1.47 LINK OG1 THR A 255 C1 FUC A1278 1555 1555 1.44 LINK C1 GU4 B 1 O2 YYJ B 2 1555 1555 1.44 CRYST1 178.007 178.007 178.007 90.00 90.00 90.00 I 21 3 24 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 0.005618 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005618 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005618 0.00000