HEADER MEMBRANE PROTEIN 21-OCT-17 6BD4 TITLE CRYSTAL STRUCTURE OF HUMAN APO-FRIZZLED4 RECEPTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: FRIZZLED-4/RUBREDOXIN CHIMERIC PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS, CLOSTRIDIUM PASTEURIANUM; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606, 1501; SOURCE 5 GENE: FZD4; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS GPCR, FRIZZLED, APO, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.YANG,Y.WU,M.PU,Y.CHEN,S.DONG,Y.GUO,G.Y.HAN,R.C.STEVENS,S.ZHAO,F.XU REVDAT 4 04-OCT-23 6BD4 1 REMARK REVDAT 3 12-SEP-18 6BD4 1 JRNL REVDAT 2 05-SEP-18 6BD4 1 JRNL REVDAT 1 22-AUG-18 6BD4 0 JRNL AUTH S.YANG,Y.WU,T.H.XU,P.W.DE WAAL,Y.HE,M.PU,Y.CHEN, JRNL AUTH 2 Z.J.DEBRUINE,B.ZHANG,S.A.ZAIDI,P.POPOV,Y.GUO,G.W.HAN,Y.LU, JRNL AUTH 3 K.SUINO-POWELL,S.DONG,K.G.HARIKUMAR,L.J.MILLER,V.KATRITCH, JRNL AUTH 4 H.E.XU,W.SHUI,R.C.STEVENS,K.MELCHER,S.ZHAO,F.XU JRNL TITL CRYSTAL STRUCTURE OF THE FRIZZLED 4 RECEPTOR IN A JRNL TITL 2 LIGAND-FREE STATE. JRNL REF NATURE V. 560 666 2018 JRNL REFN ESSN 1476-4687 JRNL PMID 30135577 JRNL DOI 10.1038/S41586-018-0447-X REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 21742 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 + TEST SET) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.180 REMARK 3 FREE R VALUE TEST SET COUNT : 1344 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 11 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.52 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.09 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2825 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2070 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2649 REMARK 3 BIN R VALUE (WORKING SET) : 0.2070 REMARK 3 BIN FREE R VALUE : 0.2090 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 6.23 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 176 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2993 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 182 REMARK 3 SOLVENT ATOMS : 23 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 76.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 94.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.52030 REMARK 3 B22 (A**2) : 3.57070 REMARK 3 B33 (A**2) : 2.94970 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.370 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.294 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.210 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.301 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.214 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3245 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4376 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1476 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 55 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 458 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3245 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 411 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4020 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 0.76 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 4.11 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 2.40 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|181 - A|419 } REMARK 3 ORIGIN FOR THE GROUP (A): -20.7593 5.6268 -17.5562 REMARK 3 T TENSOR REMARK 3 T11: 0.2049 T22: -0.2231 REMARK 3 T33: -0.3030 T12: 0.0035 REMARK 3 T13: 0.0331 T23: -0.0223 REMARK 3 L TENSOR REMARK 3 L11: 0.6822 L22: 1.7603 REMARK 3 L33: 2.6226 L12: 0.2360 REMARK 3 L13: 0.1453 L23: 0.0144 REMARK 3 S TENSOR REMARK 3 S11: -0.0172 S12: 0.1324 S13: 0.0305 REMARK 3 S21: -0.3621 S22: 0.0585 S23: -0.1031 REMARK 3 S31: -0.1062 S32: 0.2366 S33: -0.0414 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { A|1001 - A|1054 } REMARK 3 ORIGIN FOR THE GROUP (A): -44.7638 -39.0217 3.8896 REMARK 3 T TENSOR REMARK 3 T11: 0.3040 T22: -0.3040 REMARK 3 T33: 0.0203 T12: -0.1520 REMARK 3 T13: 0.0061 T23: -0.0579 REMARK 3 L TENSOR REMARK 3 L11: 1.7805 L22: 8.3154 REMARK 3 L33: 4.5049 L12: 1.8654 REMARK 3 L13: -0.5232 L23: -0.5466 REMARK 3 S TENSOR REMARK 3 S11: 0.0795 S12: -0.0792 S13: 0.5348 REMARK 3 S21: 0.1589 S22: -0.0623 S23: 0.2276 REMARK 3 S31: -0.0309 S32: 0.0967 S33: -0.0172 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { A|428 - A|513 } REMARK 3 ORIGIN FOR THE GROUP (A): -15.0816 -3.1096 -11.6129 REMARK 3 T TENSOR REMARK 3 T11: 0.1781 T22: -0.1745 REMARK 3 T33: -0.3040 T12: 0.0325 REMARK 3 T13: 0.0321 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 1.3229 L22: 1.3645 REMARK 3 L33: 2.8892 L12: 0.3265 REMARK 3 L13: -0.0491 L23: 0.1837 REMARK 3 S TENSOR REMARK 3 S11: 0.0007 S12: 0.1556 S13: -0.1604 REMARK 3 S21: -0.1337 S22: 0.0608 S23: -0.2756 REMARK 3 S31: 0.3475 S32: 0.4512 S33: -0.0615 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { A|1102 - A|1117 A|1201 - A|1223 } REMARK 3 ORIGIN FOR THE GROUP (A): -26.0801 2.8030 -16.6652 REMARK 3 T TENSOR REMARK 3 T11: 0.2654 T22: -0.0968 REMARK 3 T33: -0.2513 T12: 0.0566 REMARK 3 T13: 0.0157 T23: -0.0470 REMARK 3 L TENSOR REMARK 3 L11: 0.9539 L22: 1.8380 REMARK 3 L33: 1.8613 L12: 0.4174 REMARK 3 L13: 0.3387 L23: -0.2050 REMARK 3 S TENSOR REMARK 3 S11: 0.0143 S12: -0.0007 S13: 0.0962 REMARK 3 S21: -0.1636 S22: 0.1007 S23: -0.1573 REMARK 3 S31: -0.0020 S32: 0.0897 S33: -0.1150 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THERE ARE SOME UNKNOWN DENSITIES FOR REMARK 3 ATOMS IN THE ORTHOSTERIC BINDING SITE. THEY HAVE BEEN MODELLED REMARK 3 AS UNX. REMARK 4 REMARK 4 6BD4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1000230690. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0-6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21742 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 45.990 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 20.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.1900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.520 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 4JKV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CACODYLATE TRIHYDRATE REMARK 280 (PH 6.0), 80 MM MAGNESIUM SULFATE, 30% PEG400, 1.5-2.5% V/V (+/-) REMARK 280 -2-METHYL-2,4-PENTANEDIOL, LIPIDIC CUBIC PHASE, TEMPERATURE 293K 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 57.20000 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 57.20000 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 30.83500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 77.34500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 30.83500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 77.34500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 57.20000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 30.83500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 77.34500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 57.20000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 30.83500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 77.34500 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: AUTHORS STATE THAT THE BIOLOGICAL UNIT IS UNKNOWN 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1214 LIES ON A SPECIAL POSITION. 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 ASP A 144 REMARK 465 TYR A 145 REMARK 465 LYS A 146 REMARK 465 ASP A 147 REMARK 465 ASP A 148 REMARK 465 ASP A 149 REMARK 465 ASP A 150 REMARK 465 ALA A 151 REMARK 465 LYS A 152 REMARK 465 LEU A 153 REMARK 465 GLN A 154 REMARK 465 THR A 155 REMARK 465 MET A 156 REMARK 465 HIS A 157 REMARK 465 HIS A 158 REMARK 465 HIS A 159 REMARK 465 HIS A 160 REMARK 465 HIS A 161 REMARK 465 HIS A 162 REMARK 465 HIS A 163 REMARK 465 HIS A 164 REMARK 465 HIS A 165 REMARK 465 HIS A 166 REMARK 465 GLU A 167 REMARK 465 ASN A 168 REMARK 465 LEU A 169 REMARK 465 TYR A 170 REMARK 465 PHE A 171 REMARK 465 GLN A 172 REMARK 465 GLY A 173 REMARK 465 GLY A 174 REMARK 465 THR A 175 REMARK 465 LEU A 176 REMARK 465 GLU A 177 REMARK 465 GLY A 178 REMARK 465 GLU A 179 REMARK 465 GLU A 180 REMARK 465 SER A 514 REMARK 465 GLY A 515 REMARK 465 LYS A 516 REMARK 465 VAL A 517 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 SER A 188 OG REMARK 470 ASP A 189 CG OD1 OD2 REMARK 470 TRP A 193 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 193 CZ3 CH2 REMARK 470 ARG A 196 CD NE CZ NH1 NH2 REMARK 470 ARG A 279 CD NE CZ NH1 NH2 REMARK 470 LYS A1002 CD CE NZ REMARK 470 LYS A 506 CD CE NZ 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 HIS A 182 -71.80 -150.87 REMARK 500 SER A 183 -72.04 -36.67 REMARK 500 THR A 186 -51.12 62.45 REMARK 500 ASP A 189 -7.09 65.84 REMARK 500 ILE A 192 30.61 -94.78 REMARK 500 LEU A 198 -63.48 -105.47 REMARK 500 ASP A 244 87.23 -163.83 REMARK 500 TYR A 378 -158.07 -152.18 REMARK 500 LEU A1041 -61.95 -120.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 OLC A 1102 REMARK 610 OLC A 1104 REMARK 610 OLC A 1105 REMARK 610 OLA A 1107 REMARK 610 OLA A 1109 REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1006 SG REMARK 620 2 CYS A1009 SG 113.5 REMARK 620 3 CYS A1039 SG 126.0 102.1 REMARK 620 4 CYS A1042 SG 104.3 109.8 99.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLC A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLC A 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLC A 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLC A 1105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLA A 1106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLA A 1107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLA A 1108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLA A 1109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLA A 1110 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1111 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1112 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1113 DBREF 6BD4 A 178 419 UNP Q9ULV1 FZD4_HUMAN 178 419 DBREF 6BD4 A 1001 1054 UNP P00268 RUBR_CLOPA 1 54 DBREF 6BD4 A 428 517 UNP Q9ULV1 FZD4_HUMAN 428 517 SEQADV 6BD4 ASP A 144 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 TYR A 145 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 LYS A 146 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 ASP A 147 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 ASP A 148 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 ASP A 149 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 ASP A 150 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 ALA A 151 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 LYS A 152 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 LEU A 153 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 GLN A 154 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 THR A 155 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 MET A 156 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 157 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 158 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 159 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 160 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 161 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 162 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 163 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 164 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 165 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 HIS A 166 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 GLU A 167 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 ASN A 168 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 LEU A 169 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 TYR A 170 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 PHE A 171 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 GLN A 172 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 GLY A 173 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 GLY A 174 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 THR A 175 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 LEU A 176 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 GLU A 177 UNP Q9ULV1 EXPRESSION TAG SEQADV 6BD4 LEU A 309 UNP Q9ULV1 MET 309 ENGINEERED MUTATION SEQADV 6BD4 ILE A 450 UNP Q9ULV1 CYS 450 ENGINEERED MUTATION SEQADV 6BD4 PHE A 507 UNP Q9ULV1 CYS 507 ENGINEERED MUTATION SEQADV 6BD4 TYR A 508 UNP Q9ULV1 SER 508 ENGINEERED MUTATION SEQRES 1 A 420 ASP TYR LYS ASP ASP ASP ASP ALA LYS LEU GLN THR MET SEQRES 2 A 420 HIS HIS HIS HIS HIS HIS HIS HIS HIS HIS GLU ASN LEU SEQRES 3 A 420 TYR PHE GLN GLY GLY THR LEU GLU GLY GLU GLU CYS HIS SEQRES 4 A 420 SER VAL GLY THR ASN SER ASP GLN TYR ILE TRP VAL LYS SEQRES 5 A 420 ARG SER LEU ASN CYS VAL LEU LYS CYS GLY TYR ASP ALA SEQRES 6 A 420 GLY LEU TYR SER ARG SER ALA LYS GLU PHE THR ASP ILE SEQRES 7 A 420 TRP MET ALA VAL TRP ALA SER LEU CYS PHE ILE SER THR SEQRES 8 A 420 ALA PHE THR VAL LEU THR PHE LEU ILE ASP SER SER ARG SEQRES 9 A 420 PHE SER TYR PRO GLU ARG PRO ILE ILE PHE LEU SER MET SEQRES 10 A 420 CYS TYR ASN ILE TYR SER ILE ALA TYR ILE VAL ARG LEU SEQRES 11 A 420 THR VAL GLY ARG GLU ARG ILE SER CYS ASP PHE GLU GLU SEQRES 12 A 420 ALA ALA GLU PRO VAL LEU ILE GLN GLU GLY LEU LYS ASN SEQRES 13 A 420 THR GLY CYS ALA ILE ILE PHE LEU LEU LEU TYR PHE PHE SEQRES 14 A 420 GLY MET ALA SER SER ILE TRP TRP VAL ILE LEU THR LEU SEQRES 15 A 420 THR TRP PHE LEU ALA ALA GLY LEU LYS TRP GLY HIS GLU SEQRES 16 A 420 ALA ILE GLU MET HIS SER SER TYR PHE HIS ILE ALA ALA SEQRES 17 A 420 TRP ALA ILE PRO ALA VAL LYS THR ILE VAL ILE LEU ILE SEQRES 18 A 420 MET ARG LEU VAL ASP ALA ASP GLU LEU THR GLY LEU CYS SEQRES 19 A 420 TYR VAL GLY ASN GLN ASN LEU ASP ALA LEU THR GLY PHE SEQRES 20 A 420 VAL VAL ALA PRO LEU PHE THR TYR LEU VAL ILE GLY THR SEQRES 21 A 420 LEU PHE ILE ALA ALA GLY LEU VAL ALA LEU PHE LYS ILE SEQRES 22 A 420 ARG SER ASN MET LYS LYS TYR THR CYS THR VAL CYS GLY SEQRES 23 A 420 TYR ILE TYR ASN PRO GLU ASP GLY ASP PRO ASP ASN GLY SEQRES 24 A 420 VAL ASN PRO GLY THR ASP PHE LYS ASP ILE PRO ASP ASP SEQRES 25 A 420 TRP VAL CYS PRO LEU CYS GLY VAL GLY LYS ASP GLN PHE SEQRES 26 A 420 GLU GLU VAL GLU GLU ASP LYS LEU GLU ARG LEU MET VAL SEQRES 27 A 420 LYS ILE GLY VAL PHE SER VAL LEU TYR THR VAL PRO ALA SEQRES 28 A 420 THR ILE VAL ILE ALA CYS TYR PHE TYR GLU ILE SER ASN SEQRES 29 A 420 TRP ALA LEU PHE ARG TYR SER ALA ASP ASP SER ASN MET SEQRES 30 A 420 ALA VAL GLU MET LEU LYS ILE PHE MET SER LEU LEU VAL SEQRES 31 A 420 GLY ILE THR SER GLY MET TRP ILE TRP SER ALA LYS THR SEQRES 32 A 420 LEU HIS THR TRP GLN LYS PHE TYR ASN ARG LEU VAL ASN SEQRES 33 A 420 SER GLY LYS VAL HET ZN A1101 1 HET OLC A1102 12 HET OLC A1103 25 HET OLC A1104 19 HET OLC A1105 16 HET OLA A1106 20 HET OLA A1107 16 HET OLA A1108 20 HET OLA A1109 14 HET OLA A1110 20 HET SO4 A1111 5 HET SO4 A1112 5 HET SO4 A1113 5 HET UNX A1114 1 HET UNX A1115 1 HET UNX A1116 1 HET UNX A1117 1 HETNAM ZN ZINC ION HETNAM OLC (2R)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE HETNAM OLA OLEIC ACID HETNAM SO4 SULFATE ION HETNAM UNX UNKNOWN ATOM OR ION HETSYN OLC 1-OLEOYL-R-GLYCEROL FORMUL 2 ZN ZN 2+ FORMUL 3 OLC 4(C21 H40 O4) FORMUL 7 OLA 5(C18 H34 O2) FORMUL 12 SO4 3(O4 S 2-) FORMUL 15 UNX 4(X) FORMUL 19 HOH *23(H2 O) HELIX 1 AA1 SER A 212 ASP A 244 1 33 HELIX 2 AA2 SER A 245 PHE A 248 5 4 HELIX 3 AA3 SER A 249 PRO A 251 5 3 HELIX 4 AA4 GLU A 252 GLY A 276 1 25 HELIX 5 AA5 GLY A 276 SER A 281 1 6 HELIX 6 AA6 ASN A 299 ALA A 331 1 33 HELIX 7 AA7 GLY A 336 MET A 342 1 7 HELIX 8 AA8 HIS A 343 ARG A 366 1 24 HELIX 9 AA9 ASN A 383 VAL A 391 1 9 HELIX 10 AB1 VAL A 391 SER A 418 1 28 HELIX 11 AB2 ASP A 1029 ILE A 1033 5 5 HELIX 12 AB3 GLY A 1045 ASP A 1047 5 3 HELIX 13 AB4 GLU A 431 TYR A 444 1 14 HELIX 14 AB5 TYR A 444 ASN A 461 1 18 HELIX 15 AB6 ASN A 461 SER A 468 1 8 HELIX 16 AB7 ASN A 473 THR A 490 1 18 HELIX 17 AB8 SER A 491 TRP A 496 5 6 HELIX 18 AB9 SER A 497 VAL A 512 1 16 SHEET 1 AA1 2 VAL A 194 LYS A 195 0 SHEET 2 AA1 2 CYS A 200 VAL A 201 -1 O VAL A 201 N VAL A 194 SHEET 1 AA2 2 CYS A 282 ASP A 283 0 SHEET 2 AA2 2 VAL A 291 LEU A 292 -1 O VAL A 291 N ASP A 283 SHEET 1 AA3 2 VAL A 368 ALA A 370 0 SHEET 2 AA3 2 CYS A 377 VAL A 379 -1 O TYR A 378 N ASP A 369 SHEET 1 AA4 3 ILE A1012 TYR A1013 0 SHEET 2 AA4 3 TYR A1004 CYS A1006 -1 N TYR A1004 O TYR A1013 SHEET 3 AA4 3 PHE A1049 GLU A1051 -1 O GLU A1050 N THR A1005 SSBOND 1 CYS A 181 CYS A 200 1555 1555 2.03 SSBOND 2 CYS A 204 CYS A 282 1555 1555 2.03 SSBOND 3 CYS A 302 CYS A 377 1555 1555 2.03 LINK SG CYS A1006 ZN ZN A1101 1555 1555 2.61 LINK SG CYS A1009 ZN ZN A1101 1555 1555 2.28 LINK SG CYS A1039 ZN ZN A1101 1555 1555 2.52 LINK SG CYS A1042 ZN ZN A1101 1555 1555 2.45 SITE 1 AC1 4 CYS A1006 CYS A1009 CYS A1039 CYS A1042 SITE 1 AC2 6 PHE A 440 LEU A 443 TYR A 444 LEU A 486 SITE 2 AC2 6 THR A 490 TRP A 494 SITE 1 AC3 6 SER A 214 PHE A 218 TRP A 222 ASP A 471 SITE 2 AC3 6 MET A 474 PHE A 482 SITE 1 AC4 7 TYR A 250 ARG A 253 SER A 344 SER A 345 SITE 2 AC4 7 HIS A 348 TRP A 352 OLA A1110 SITE 1 AC5 4 VAL A 275 ASN A 299 THR A 300 GLY A 301 SITE 1 AC6 5 VAL A 321 HIS A 343 PHE A 347 TYR A 398 SITE 2 AC6 5 ILE A 401 SITE 1 AC7 4 HIS A 343 TYR A 346 ILE A 349 ALA A 350 SITE 1 AC8 7 VAL A 392 PHE A 396 LEU A 399 THR A 403 SITE 2 AC8 7 ALA A 407 THR A 445 THR A 449 SITE 1 AC9 3 PHE A 231 ASN A 263 SO4 A1113 SITE 1 AD1 4 THR A 300 LEU A 307 ILE A 364 OLC A1104 SITE 1 AD2 4 LEU A 384 PHE A 414 HOH A1207 HOH A1208 SITE 1 AD3 6 GLN A 382 ASN A 383 LEU A 384 ARG A 417 SITE 2 AD3 6 TRP A 462 ARG A 466 SITE 1 AD4 4 LEU A 242 SER A 345 TYR A 346 OLA A1109 CRYST1 61.670 154.690 114.400 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 0.016215 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006465 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008741 0.00000