HEADER HYDROLASE 12-DEC-11 3V2Y TITLE CRYSTAL STRUCTURE OF A LIPID G PROTEIN-COUPLED RECEPTOR AT 2.80A COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPHINGOSINE 1-PHOSPHATE RECEPTOR 1, LYSOZYME CHIMERA COMPND 3 (E.C.3.2.1.17); COMPND 4 CHAIN: A; COMPND 5 SYNONYM: S1P1,ENDOTHELIAL DIFFERENTIATION G-PROTEIN COUPLED RECEPTOR COMPND 6 1,SPHINGOSINE 1-PHOSPHATE RECEPTOR EDG-1,S1P RECEPTOR EDG-1,LYSIS COMPND 7 PROTEIN,LYSOZYME,MURAMIDASE; COMPND 8 EC: 3.2.1.17; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS, ENTEROBACTERIA PHAGE T4; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606, 10665; SOURCE 5 GENE: S1PR1, CHEDG1, EDG1; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PFASTBAC KEYWDS SPHINGOSINE, EDG RECEPTOR, LIPID RECEPTOR, MULTIPLE SCLEROSIS, KEYWDS 2 AUTOIMMUNITY, STRUCTURAL GENOMICS, PSI-BIOLOGY, GPCR NETWORK, GPCR, KEYWDS 3 MEMBRANE PROTEIN, G PROTEIN COUPLED RECEPTOR, MEMBRANE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.A.HANSON,C.B.ROTH,E.JO,M.T.GRIFFITH,F.L.SCOTT,G.REINHART,H.DESALE, AUTHOR 2 B.CLEMONS,S.M.CAHALAN,S.C.SCHUERER,M.G.SANNA,G.W.HAN,P.KUHN,H.ROSEN, AUTHOR 3 R.C.STEVENS,GPCR NETWORK (GPCR) REVDAT 5 03-APR-24 3V2Y 1 HETSYN REVDAT 4 29-JUL-20 3V2Y 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 21-JUN-17 3V2Y 1 COMPND SOURCE SEQADV REVDAT 2 14-MAR-12 3V2Y 1 JRNL REVDAT 1 15-FEB-12 3V2Y 0 JRNL AUTH M.A.HANSON,C.B.ROTH,E.JO,M.T.GRIFFITH,F.L.SCOTT,G.REINHART, JRNL AUTH 2 H.DESALE,B.CLEMONS,S.M.CAHALAN,S.C.SCHUERER,M.G.SANNA, JRNL AUTH 3 G.W.HAN,P.KUHN,H.ROSEN,R.C.STEVENS JRNL TITL CRYSTAL STRUCTURE OF A LIPID G PROTEIN-COUPLED RECEPTOR. JRNL REF SCIENCE V. 335 851 2012 JRNL REFN ISSN 0036-8075 JRNL PMID 22344443 JRNL DOI 10.1126/SCIENCE.1215904 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.8.0 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 15275 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) : 0.231 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.860 REMARK 3 FREE R VALUE TEST SET COUNT : 742 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 : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.99 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2647 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2604 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2522 REMARK 3 BIN R VALUE (WORKING SET) : 0.2596 REMARK 3 BIN FREE R VALUE : 0.2762 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.72 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 125 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 : 3475 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 11 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 76.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.54870 REMARK 3 B22 (A**2) : 1.27490 REMARK 3 B33 (A**2) : -8.82360 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) : 0.440 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL 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 : 0.906 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.859 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3585 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4893 ; 3.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1597 ; 20.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 56 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 529 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3585 ; 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 : 511 ; 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 : 4387 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.65 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.24 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 2.20 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 17.1445 18.5316 13.5414 REMARK 3 T TENSOR REMARK 3 T11: 0.2273 T22: -0.0572 REMARK 3 T33: -0.1172 T12: 0.0573 REMARK 3 T13: -0.0048 T23: 0.0225 REMARK 3 L TENSOR REMARK 3 L11: 1.7528 L22: 0.0000 REMARK 3 L33: 0.4655 L12: -0.2526 REMARK 3 L13: 0.7309 L23: -0.5602 REMARK 3 S TENSOR REMARK 3 S11: 0.0421 S12: -0.2737 S13: -0.1428 REMARK 3 S21: -0.1301 S22: -0.0121 S23: -0.0197 REMARK 3 S31: 0.0116 S32: -0.0999 S33: -0.0300 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3V2Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000069528. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-09; NULL REMARK 200 TEMPERATURE (KELVIN) : 100; NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 77 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : APS; APS REMARK 200 BEAMLINE : 23-ID-B; 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL; NULL REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; NULL REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD; NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : MICRODIFFACTION DATA ASSEMBLY REMARK 200 METHODS, SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15297 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.16000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 7TM OF B2AR AND T4L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRICINE, 34-36% PEG400, 80MM REMARK 280 SODIUM CITRATE AND 4% GLYCEROL, LIPID CUBIC PHASE, TEMPERATURE REMARK 280 287K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 53.97000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.85000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 53.97000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.85000 REMARK 290 SMTRY3 4 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 AUTHOR STATES THAT THE BIOLOGICAL UNIT OF THIS PROTEIN REMARK 300 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 A1211 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 MET A -17 REMARK 465 LYS A -16 REMARK 465 THR A -15 REMARK 465 ILE A -14 REMARK 465 ILE A -13 REMARK 465 ALA A -12 REMARK 465 LEU A -11 REMARK 465 SER A -10 REMARK 465 TYR A -9 REMARK 465 ILE A -8 REMARK 465 PHE A -7 REMARK 465 CYS A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 PHE A -3 REMARK 465 ALA A -2 REMARK 465 GLY A -1 REMARK 465 ALA A 0 REMARK 465 PRO A 1 REMARK 465 GLY A 2 REMARK 465 PRO A 3 REMARK 465 THR A 4 REMARK 465 SER A 5 REMARK 465 VAL A 6 REMARK 465 PRO A 7 REMARK 465 LEU A 8 REMARK 465 VAL A 9 REMARK 465 LYS A 10 REMARK 465 ALA A 11 REMARK 465 HIS A 12 REMARK 465 ARG A 13 REMARK 465 SER A 14 REMARK 465 SER A 15 REMARK 465 MET A 149 REMARK 465 LYS A 150 REMARK 465 LEU A 151 REMARK 465 HIS A 152 REMARK 465 ASN A 153 REMARK 465 GLY A 154 REMARK 465 SER A 155 REMARK 465 GLU A 331 REMARK 465 VAL A 332 REMARK 465 LEU A 333 REMARK 465 PHE A 334 REMARK 465 GLN A 335 REMARK 465 GLY A 336 REMARK 465 PRO A 337 REMARK 465 HIS A 338 REMARK 465 HIS A 339 REMARK 465 HIS A 340 REMARK 465 HIS A 341 REMARK 465 HIS A 342 REMARK 465 HIS A 343 REMARK 465 HIS A 344 REMARK 465 HIS A 345 REMARK 465 HIS A 346 REMARK 465 HIS A 347 REMARK 465 ASP A 348 REMARK 465 TYR A 349 REMARK 465 LYS A 350 REMARK 465 ASP A 351 REMARK 465 ASP A 352 REMARK 465 ASP A 353 REMARK 465 ASP A 354 REMARK 465 LYS A 355 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 38 OG REMARK 470 ASP A 40 CG OD1 OD2 REMARK 470 LYS A 41 CG CD CE NZ REMARK 470 GLU A 42 CG CD OE1 OE2 REMARK 470 ASN A 43 CG OD1 ND2 REMARK 470 SER A 44 OG REMARK 470 ILE A 45 CG1 CG2 CD1 REMARK 470 LYS A 72 CG CD CE NZ REMARK 470 LYS A 75 CG CD CE NZ REMARK 470 ARG A 78 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 157 CG OD1 ND2 REMARK 470 ARG A 223 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 229 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 231 CG CD NE CZ NH1 NH2 REMARK 470 ARG A1014 CG CD NE CZ NH1 NH2 REMARK 470 LYS A1016 CG CD CE NZ REMARK 470 LYS A1019 CG CD CE NZ REMARK 470 GLU A1022 CG CD OE1 OE2 REMARK 470 TYR A1024 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A1035 CG CD CE NZ REMARK 470 GLU A1045 CG CD OE1 OE2 REMARK 470 LYS A1083 CG CD CE NZ REMARK 470 ARG A1119 CG CD NE CZ NH1 NH2 REMARK 470 GLN A1122 CG CD OE1 NE2 REMARK 470 LYS A1135 CG CD CE NZ REMARK 470 ARG A1137 CG CD NE CZ NH1 NH2 REMARK 470 TYR A1139 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A1154 CG CD NE CZ NH1 NH2 REMARK 470 SER A 246 OG REMARK 470 LEU A 255 CG CD1 CD2 REMARK 470 LYS A 256 CG CD CE NZ REMARK 470 LYS A 285 CG CD CE NZ REMARK 470 ARG A 319 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 324 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 328 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 PRO A 329 C - N - CD ANGL. DEV. = -17.1 DEGREES 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 TYR A 19 47.76 -75.60 REMARK 500 HIS A 77 33.57 -91.99 REMARK 500 MET A 180 45.94 -91.95 REMARK 500 ASN A1055 -3.86 69.11 REMARK 500 TYR A1161 -63.33 -123.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3V2W RELATED DB: PDB REMARK 900 3.35A RESOLUTION PROCESSED BY CONVENTIONAL RESOLUTION CUT OFF REMARK 900 METHODS REMARK 900 RELATED ID: GPCR-110 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AUTHORS STATE THAT THE SEQUENCE "NV" IS THE ORIGINAL SEQUENCE REMARK 999 FROM ENDOTHELIUM, AS OPPOSED TO KSL WHICH IS THE GENOMIC SEQUENCE. REMARK 999 THE UNIPROT RECORD WAS CHANGED TO THE GENOMIC SEQUENCE "KSL" AFTER REMARK 999 THE CLONE WAS CREATED AND THE CONSTRUCT WAS NOT CHANGED BECAUSE IT REMARK 999 WAS PERFORMING WELL. DBREF 3V2Y A 2 231 UNP P21453 S1PR1_HUMAN 2 231 DBREF 3V2Y A 1002 1161 UNP P00720 ENLYS_BPT4 2 161 DBREF 3V2Y A 245 326 UNP P21453 S1PR1_HUMAN 244 326 SEQADV 3V2Y MET A -17 UNP P21453 EXPRESSION TAG SEQADV 3V2Y LYS A -16 UNP P21453 EXPRESSION TAG SEQADV 3V2Y THR A -15 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ILE A -14 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ILE A -13 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ALA A -12 UNP P21453 EXPRESSION TAG SEQADV 3V2Y LEU A -11 UNP P21453 EXPRESSION TAG SEQADV 3V2Y SER A -10 UNP P21453 EXPRESSION TAG SEQADV 3V2Y TYR A -9 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ILE A -8 UNP P21453 EXPRESSION TAG SEQADV 3V2Y PHE A -7 UNP P21453 EXPRESSION TAG SEQADV 3V2Y CYS A -6 UNP P21453 EXPRESSION TAG SEQADV 3V2Y LEU A -5 UNP P21453 EXPRESSION TAG SEQADV 3V2Y VAL A -4 UNP P21453 EXPRESSION TAG SEQADV 3V2Y PHE A -3 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ALA A -2 UNP P21453 EXPRESSION TAG SEQADV 3V2Y GLY A -1 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ALA A 0 UNP P21453 EXPRESSION TAG SEQADV 3V2Y PRO A 1 UNP P21453 EXPRESSION TAG SEQADV 3V2Y GLY A 1012 UNP P00720 ARG 12 CONFLICT SEQADV 3V2Y THR A 1054 UNP P00720 CYS 54 ENGINEERED MUTATION SEQADV 3V2Y ALA A 1097 UNP P00720 CYS 97 ENGINEERED MUTATION SEQADV 3V2Y ARG A 1137 UNP P00720 ILE 137 CONFLICT SEQADV 3V2Y A UNP P21453 LYS 250 DELETION SEQADV 3V2Y ASN A 251 UNP P21453 SER 251 SEE REMARK 999 SEQADV 3V2Y VAL A 252 UNP P21453 LEU 252 SEE REMARK 999 SEQADV 3V2Y GLY A 327 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ARG A 328 UNP P21453 EXPRESSION TAG SEQADV 3V2Y PRO A 329 UNP P21453 EXPRESSION TAG SEQADV 3V2Y LEU A 330 UNP P21453 EXPRESSION TAG SEQADV 3V2Y GLU A 331 UNP P21453 EXPRESSION TAG SEQADV 3V2Y VAL A 332 UNP P21453 EXPRESSION TAG SEQADV 3V2Y LEU A 333 UNP P21453 EXPRESSION TAG SEQADV 3V2Y PHE A 334 UNP P21453 EXPRESSION TAG SEQADV 3V2Y GLN A 335 UNP P21453 EXPRESSION TAG SEQADV 3V2Y GLY A 336 UNP P21453 EXPRESSION TAG SEQADV 3V2Y PRO A 337 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 338 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 339 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 340 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 341 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 342 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 343 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 344 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 345 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 346 UNP P21453 EXPRESSION TAG SEQADV 3V2Y HIS A 347 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ASP A 348 UNP P21453 EXPRESSION TAG SEQADV 3V2Y TYR A 349 UNP P21453 EXPRESSION TAG SEQADV 3V2Y LYS A 350 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ASP A 351 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ASP A 352 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ASP A 353 UNP P21453 EXPRESSION TAG SEQADV 3V2Y ASP A 354 UNP P21453 EXPRESSION TAG SEQADV 3V2Y LYS A 355 UNP P21453 EXPRESSION TAG SEQRES 1 A 520 MET LYS THR ILE ILE ALA LEU SER TYR ILE PHE CYS LEU SEQRES 2 A 520 VAL PHE ALA GLY ALA PRO GLY PRO THR SER VAL PRO LEU SEQRES 3 A 520 VAL LYS ALA HIS ARG SER SER VAL SER ASP TYR VAL ASN SEQRES 4 A 520 TYR ASP ILE ILE VAL ARG HIS TYR ASN TYR THR GLY LYS SEQRES 5 A 520 LEU ASN ILE SER ALA ASP LYS GLU ASN SER ILE LYS LEU SEQRES 6 A 520 THR SER VAL VAL PHE ILE LEU ILE CYS CYS PHE ILE ILE SEQRES 7 A 520 LEU GLU ASN ILE PHE VAL LEU LEU THR ILE TRP LYS THR SEQRES 8 A 520 LYS LYS PHE HIS ARG PRO MET TYR TYR PHE ILE GLY ASN SEQRES 9 A 520 LEU ALA LEU SER ASP LEU LEU ALA GLY VAL ALA TYR THR SEQRES 10 A 520 ALA ASN LEU LEU LEU SER GLY ALA THR THR TYR LYS LEU SEQRES 11 A 520 THR PRO ALA GLN TRP PHE LEU ARG GLU GLY SER MET PHE SEQRES 12 A 520 VAL ALA LEU SER ALA SER VAL PHE SER LEU LEU ALA ILE SEQRES 13 A 520 ALA ILE GLU ARG TYR ILE THR MET LEU LYS MET LYS LEU SEQRES 14 A 520 HIS ASN GLY SER ASN ASN PHE ARG LEU PHE LEU LEU ILE SEQRES 15 A 520 SER ALA CYS TRP VAL ILE SER LEU ILE LEU GLY GLY LEU SEQRES 16 A 520 PRO ILE MET GLY TRP ASN CYS ILE SER ALA LEU SER SER SEQRES 17 A 520 CYS SER THR VAL LEU PRO LEU TYR HIS LYS HIS TYR ILE SEQRES 18 A 520 LEU PHE CYS THR THR VAL PHE THR LEU LEU LEU LEU SER SEQRES 19 A 520 ILE VAL ILE LEU TYR CYS ARG ILE TYR SER LEU VAL ARG SEQRES 20 A 520 THR ARG ASN ILE PHE GLU MET LEU ARG ILE ASP GLU GLY SEQRES 21 A 520 LEU ARG LEU LYS ILE TYR LYS ASP THR GLU GLY TYR TYR SEQRES 22 A 520 THR ILE GLY ILE GLY HIS LEU LEU THR LYS SER PRO SER SEQRES 23 A 520 LEU ASN ALA ALA LYS SER GLU LEU ASP LYS ALA ILE GLY SEQRES 24 A 520 ARG ASN THR ASN GLY VAL ILE THR LYS ASP GLU ALA GLU SEQRES 25 A 520 LYS LEU PHE ASN GLN ASP VAL ASP ALA ALA VAL ARG GLY SEQRES 26 A 520 ILE LEU ARG ASN ALA LYS LEU LYS PRO VAL TYR ASP SER SEQRES 27 A 520 LEU ASP ALA VAL ARG ARG ALA ALA LEU ILE ASN MET VAL SEQRES 28 A 520 PHE GLN MET GLY GLU THR GLY VAL ALA GLY PHE THR ASN SEQRES 29 A 520 SER LEU ARG MET LEU GLN GLN LYS ARG TRP ASP GLU ALA SEQRES 30 A 520 ALA VAL ASN LEU ALA LYS SER ARG TRP TYR ASN GLN THR SEQRES 31 A 520 PRO ASN ARG ALA LYS ARG VAL ILE THR THR PHE ARG THR SEQRES 32 A 520 GLY THR TRP ASP ALA TYR ALA SER ARG SER SER GLU ASN SEQRES 33 A 520 VAL ALA LEU LEU LYS THR VAL ILE ILE VAL LEU SER VAL SEQRES 34 A 520 PHE ILE ALA CYS TRP ALA PRO LEU PHE ILE LEU LEU LEU SEQRES 35 A 520 LEU ASP VAL GLY CYS LYS VAL LYS THR CYS ASP ILE LEU SEQRES 36 A 520 PHE ARG ALA GLU TYR PHE LEU VAL LEU ALA VAL LEU ASN SEQRES 37 A 520 SER GLY THR ASN PRO ILE ILE TYR THR LEU THR ASN LYS SEQRES 38 A 520 GLU MET ARG ARG ALA PHE ILE ARG ILE MET GLY ARG PRO SEQRES 39 A 520 LEU GLU VAL LEU PHE GLN GLY PRO HIS HIS HIS HIS HIS SEQRES 40 A 520 HIS HIS HIS HIS HIS ASP TYR LYS ASP ASP ASP ASP LYS MODRES 3V2Y ASN A 30 ASN GLYCOSYLATION SITE HET ML5 A1201 23 HET NAG A1202 14 HETNAM ML5 {(3R)-3-AMINO-4-[(3-HEXYLPHENYL)AMINO]-4- HETNAM 2 ML5 OXOBUTYL}PHOSPHONIC ACID HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 2 ML5 C16 H27 N2 O4 P FORMUL 3 NAG C8 H15 N O6 FORMUL 4 HOH *11(H2 O) HELIX 1 1 TYR A 22 THR A 32 1 11 HELIX 2 2 LEU A 35 ASP A 40 5 6 HELIX 3 3 LYS A 41 THR A 73 1 33 HELIX 4 4 ARG A 78 SER A 105 1 28 HELIX 5 5 GLY A 106 TYR A 110 5 5 HELIX 6 6 THR A 113 LEU A 147 1 35 HELIX 7 7 ASN A 157 LEU A 177 1 21 HELIX 8 8 ALA A 187 CYS A 191 5 5 HELIX 9 9 HIS A 199 GLU A 1011 1 43 HELIX 10 10 SER A 1038 GLY A 1051 1 14 HELIX 11 11 THR A 1059 LEU A 1079 1 21 HELIX 12 12 LEU A 1084 LEU A 1091 1 8 HELIX 13 13 ASP A 1092 MET A 1106 1 15 HELIX 14 14 GLY A 1107 GLY A 1113 1 7 HELIX 15 15 PHE A 1114 GLN A 1123 1 10 HELIX 16 16 ARG A 1125 SER A 1136 1 12 HELIX 17 17 SER A 1136 THR A 1142 1 7 HELIX 18 18 THR A 1142 GLY A 1156 1 15 HELIX 19 19 THR A 1157 TYR A 1161 5 5 HELIX 20 20 GLU A 250 GLY A 281 1 32 HELIX 21 21 ALA A 293 ASN A 303 1 11 HELIX 22 22 THR A 306 ASN A 315 1 10 HELIX 23 23 ASN A 315 ARG A 324 1 10 SHEET 1 A 3 TYR A1018 LYS A1019 0 SHEET 2 A 3 TYR A1025 ILE A1027 -1 O THR A1026 N TYR A1018 SHEET 3 A 3 HIS A1031 LEU A1032 -1 O HIS A1031 N ILE A1027 SSBOND 1 CYS A 184 CYS A 191 1555 1555 2.04 SSBOND 2 CYS A 282 CYS A 287 1555 1555 2.04 LINK ND2 ASN A 30 C1 NAG A1202 1555 1555 1.43 CRYST1 107.940 69.700 81.930 90.00 90.00 90.00 P 21 21 2 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 0.009264 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014347 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012206 0.00000