PDB Short entry for 6E7O HEADER LIPID BINDING PROTEIN 27-JUL-18 6E7O TITLE CRYSTAL STRUCTURE OF DEGLYCOSYLATED HUMAN EPDR1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAMMALIAN EPENDYMIN-RELATED PROTEIN 1; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: MERP-1,UPREGULATED IN COLORECTAL CANCER GENE 1 PROTEIN; COMPND 5 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: EPDR1, MERP1, UCC1; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293S GNTI-; SOURCE 9 EXPRESSION_SYSTEM_ATCC_NUMBER: CRL-3022; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PB-T-PAF KEYWDS LOLA FOLD, LYSOSOMAL PROTEIN, SECRETED PROTEIN, LIPID BINDING, LIPID KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.WEI,G.G.PRIVE REVDAT 3 08-JAN-20 6E7O 1 REMARK REVDAT 2 20-FEB-19 6E7O 1 JRNL REVDAT 1 23-JAN-19 6E7O 0 JRNL AUTH Y.WEI,Z.J.XIONG,J.LI,C.ZOU,C.W.CAIRO,J.S.KLASSEN,G.G.PRIVE JRNL TITL CRYSTAL STRUCTURES OF HUMAN LYSOSOMAL EPDR1 REVEAL HOMOLOGY JRNL TITL 2 WITH THE SUPERFAMILY OF BACTERIAL LIPOPROTEIN TRANSPORTERS. JRNL REF COMMUN BIOL V. 2 52 2019 JRNL REFN ESSN 2399-3642 JRNL PMID 30729188 JRNL DOI 10.1038/S42003-018-0262-9 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3211) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.69 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 16628 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.256 REMARK 3 R VALUE (WORKING SET) : 0.255 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.890 REMARK 3 FREE R VALUE TEST SET COUNT : 813 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 61.6996 - 5.4503 1.00 2749 137 0.2754 0.2996 REMARK 3 2 5.4503 - 4.3264 1.00 2650 155 0.2194 0.2594 REMARK 3 3 4.3264 - 3.7796 1.00 2618 142 0.2275 0.2261 REMARK 3 4 3.7796 - 3.4341 1.00 2616 121 0.2555 0.2921 REMARK 3 5 3.4341 - 3.1880 1.00 2616 126 0.2766 0.3117 REMARK 3 6 3.1880 - 3.0000 1.00 2566 132 0.3244 0.3302 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.170 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) : 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 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 : 0.005 5164 REMARK 3 ANGLE : 0.884 7052 REMARK 3 CHIRALITY : 0.054 784 REMARK 3 PLANARITY : 0.007 916 REMARK 3 DIHEDRAL : 18.050 3084 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'C' REMARK 3 ORIGIN FOR THE GROUP (A): 7.6720 202.8833 14.0138 REMARK 3 T TENSOR REMARK 3 T11: 0.9243 T22: 1.2476 REMARK 3 T33: 0.9279 T12: -0.1197 REMARK 3 T13: -0.1039 T23: -0.0609 REMARK 3 L TENSOR REMARK 3 L11: 2.2534 L22: 0.8694 REMARK 3 L33: 3.4044 L12: 0.7789 REMARK 3 L13: -1.0016 L23: 0.7575 REMARK 3 S TENSOR REMARK 3 S11: -0.0401 S12: -0.0791 S13: -0.0803 REMARK 3 S21: -0.0276 S22: -0.2270 S23: -0.1207 REMARK 3 S31: -0.6995 S32: 1.2076 S33: 0.1163 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' REMARK 3 ORIGIN FOR THE GROUP (A): 33.2215 225.1217 35.8028 REMARK 3 T TENSOR REMARK 3 T11: 0.4678 T22: 0.5288 REMARK 3 T33: 0.4894 T12: 0.1371 REMARK 3 T13: 0.0584 T23: 0.0037 REMARK 3 L TENSOR REMARK 3 L11: 3.0828 L22: 5.9459 REMARK 3 L33: 1.4239 L12: -2.6582 REMARK 3 L13: 0.9658 L23: -1.0687 REMARK 3 S TENSOR REMARK 3 S11: -0.4101 S12: -0.3072 S13: -0.2229 REMARK 3 S21: 0.2878 S22: 0.7231 S23: 0.5573 REMARK 3 S31: 0.1665 S32: -0.1306 S33: -0.2046 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'D' REMARK 3 ORIGIN FOR THE GROUP (A): -12.5090 219.8361 18.5024 REMARK 3 T TENSOR REMARK 3 T11: 1.1714 T22: 1.0385 REMARK 3 T33: 1.0082 T12: 0.0297 REMARK 3 T13: -0.0991 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 2.7895 L22: 2.0790 REMARK 3 L33: 1.5822 L12: 0.3897 REMARK 3 L13: 0.3085 L23: 0.0547 REMARK 3 S TENSOR REMARK 3 S11: 0.0061 S12: 0.3701 S13: 0.6811 REMARK 3 S21: -0.1788 S22: -0.0516 S23: 0.0498 REMARK 3 S31: -0.7627 S32: 0.5155 S33: 0.0816 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' REMARK 3 ORIGIN FOR THE GROUP (A): 13.4171 243.6059 36.8953 REMARK 3 T TENSOR REMARK 3 T11: 0.5704 T22: 0.6952 REMARK 3 T33: 0.7438 T12: 0.3323 REMARK 3 T13: 0.1774 T23: 0.1563 REMARK 3 L TENSOR REMARK 3 L11: 3.0132 L22: 3.0968 REMARK 3 L33: 1.7764 L12: -1.3820 REMARK 3 L13: -0.4312 L23: 0.4197 REMARK 3 S TENSOR REMARK 3 S11: -0.7308 S12: -0.2605 S13: -0.6601 REMARK 3 S21: 0.2285 S22: 0.3785 S23: 0.6804 REMARK 3 S31: 0.0298 S32: -0.1203 S33: 0.0218 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 6E7O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1000234301. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17638 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 61.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.14000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.10 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 8.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 1.60400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M LITHIUM SULFATE, 0.1 M SODIUM REMARK 280 ACETATE PH 4.5, 30% PEG8000, 4% PROPANEDIOL, VAPOR DIFFUSION, REMARK 280 SITTING DROP, 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 94.73450 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 94.73450 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 43.90250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.74100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.90250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.74100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 94.73450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.90250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 48.74100 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 94.73450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.90250 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 48.74100 REMARK 290 SMTRY3 8 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: 3090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 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 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: 2580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 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 SER A 37 REMARK 465 ALA A 84 REMARK 465 LEU A 85 REMARK 465 ILE A 86 REMARK 465 PRO A 87 REMARK 465 CYS A 88 REMARK 465 LYS A 89 REMARK 465 SER A 156 REMARK 465 ALA A 157 REMARK 465 ARG A 158 REMARK 465 SER A 159 REMARK 465 LEU A 215 REMARK 465 GLU A 216 REMARK 465 LYS A 217 REMARK 465 MET A 218 REMARK 465 SER A 219 REMARK 465 GLU A 220 REMARK 465 ASP A 221 REMARK 465 CYS A 222 REMARK 465 SER A 223 REMARK 465 TRP A 224 REMARK 465 HIS A 225 REMARK 465 HIS A 226 REMARK 465 HIS A 227 REMARK 465 HIS A 228 REMARK 465 HIS A 229 REMARK 465 HIS A 230 REMARK 465 SER B 37 REMARK 465 ALA B 38 REMARK 465 ARG B 82 REMARK 465 LYS B 83 REMARK 465 ALA B 84 REMARK 465 LEU B 85 REMARK 465 ILE B 86 REMARK 465 PRO B 87 REMARK 465 CYS B 88 REMARK 465 LYS B 89 REMARK 465 ARG B 90 REMARK 465 ALA B 157 REMARK 465 ARG B 158 REMARK 465 SER B 159 REMARK 465 MET B 212 REMARK 465 ALA B 213 REMARK 465 GLN B 214 REMARK 465 LEU B 215 REMARK 465 GLU B 216 REMARK 465 LYS B 217 REMARK 465 MET B 218 REMARK 465 SER B 219 REMARK 465 GLU B 220 REMARK 465 ASP B 221 REMARK 465 CYS B 222 REMARK 465 SER B 223 REMARK 465 TRP B 224 REMARK 465 HIS B 225 REMARK 465 HIS B 226 REMARK 465 HIS B 227 REMARK 465 HIS B 228 REMARK 465 HIS B 229 REMARK 465 HIS B 230 REMARK 465 SER C 37 REMARK 465 ALA C 38 REMARK 465 ARG C 82 REMARK 465 LYS C 83 REMARK 465 ALA C 84 REMARK 465 LEU C 85 REMARK 465 ILE C 86 REMARK 465 PRO C 87 REMARK 465 CYS C 88 REMARK 465 LYS C 89 REMARK 465 GLN C 105 REMARK 465 CYS C 113 REMARK 465 SER C 114 REMARK 465 THR C 117 REMARK 465 LEU C 118 REMARK 465 THR C 119 REMARK 465 GLN C 120 REMARK 465 GLY C 197 REMARK 465 ILE C 198 REMARK 465 LYS C 199 REMARK 465 GLN C 211 REMARK 465 MET C 212 REMARK 465 ALA C 213 REMARK 465 GLN C 214 REMARK 465 LEU C 215 REMARK 465 GLU C 216 REMARK 465 LYS C 217 REMARK 465 MET C 218 REMARK 465 SER C 219 REMARK 465 GLU C 220 REMARK 465 ASP C 221 REMARK 465 CYS C 222 REMARK 465 SER C 223 REMARK 465 TRP C 224 REMARK 465 HIS C 225 REMARK 465 HIS C 226 REMARK 465 HIS C 227 REMARK 465 HIS C 228 REMARK 465 HIS C 229 REMARK 465 HIS C 230 REMARK 465 SER D 37 REMARK 465 ALA D 84 REMARK 465 LEU D 85 REMARK 465 ILE D 86 REMARK 465 PRO D 87 REMARK 465 CYS D 88 REMARK 465 LYS D 89 REMARK 465 GLY D 140 REMARK 465 GLY D 141 REMARK 465 PRO D 142 REMARK 465 SER D 156 REMARK 465 ALA D 157 REMARK 465 ARG D 158 REMARK 465 SER D 159 REMARK 465 TYR D 160 REMARK 465 GLU D 161 REMARK 465 GLU D 216 REMARK 465 LYS D 217 REMARK 465 MET D 218 REMARK 465 SER D 219 REMARK 465 GLU D 220 REMARK 465 ASP D 221 REMARK 465 CYS D 222 REMARK 465 SER D 223 REMARK 465 TRP D 224 REMARK 465 HIS D 225 REMARK 465 HIS D 226 REMARK 465 HIS D 227 REMARK 465 HIS D 228 REMARK 465 HIS D 229 REMARK 465 HIS D 230 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 ARG A 40 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 90 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 115 CG CD CE NZ REMARK 470 ARG A 154 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 155 CG CD CE NZ REMARK 470 TYR A 160 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASN A 182 CG OD1 ND2 REMARK 470 LYS A 199 CG CD CE NZ REMARK 470 GLN A 214 CG CD OE1 NE2 REMARK 470 ARG B 40 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 105 CG CD OE1 NE2 REMARK 470 LYS B 115 CG CD CE NZ REMARK 470 ARG B 154 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 155 CG CD CE NZ REMARK 470 TYR B 160 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 170 CG CD CE NZ REMARK 470 LYS B 199 CG CD CE NZ REMARK 470 GLN C 46 CG CD OE1 NE2 REMARK 470 ARG C 61 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 64 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 75 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 77 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 90 CG CD NE CZ NH1 NH2 REMARK 470 LEU C 91 CG CD1 CD2 REMARK 470 PHE C 92 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS C 99 CG CD CE NZ REMARK 470 GLN C 108 CG CD OE1 NE2 REMARK 470 LYS C 111 CG CD CE NZ REMARK 470 GLN C 112 CG CD OE1 NE2 REMARK 470 LYS C 115 CG CD CE NZ REMARK 470 MET C 116 CG SD CE REMARK 470 GLN C 143 CG CD OE1 NE2 REMARK 470 GLN C 145 CG CD OE1 NE2 REMARK 470 GLU C 150 CG CD OE1 OE2 REMARK 470 ARG C 154 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 155 CG CD CE NZ REMARK 470 ARG C 158 CG CD NE CZ NH1 NH2 REMARK 470 SER C 159 OG REMARK 470 LYS C 170 CG CD CE NZ REMARK 470 TYR C 173 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PHE C 204 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG D 40 CG CD NE CZ NH1 NH2 REMARK 470 GLN D 56 CG CD OE1 NE2 REMARK 470 GLN D 74 CG CD OE1 NE2 REMARK 470 ARG D 82 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 83 CG CD CE NZ REMARK 470 ARG D 90 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 99 CG CD CE NZ REMARK 470 GLN D 129 CG CD OE1 NE2 REMARK 470 GLU D 134 CG CD OE1 OE2 REMARK 470 GLN D 149 CG CD OE1 NE2 REMARK 470 ARG D 154 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 155 CG CD CE NZ REMARK 470 LYS D 170 CG CD CE NZ REMARK 470 LYS D 199 CG CD CE NZ REMARK 470 GLN D 211 CG CD OE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OG SER A 138 OE1 GLN A 145 2.03 REMARK 500 OE2 GLU B 49 OG SER B 68 2.14 REMARK 500 OH TYR A 137 NH2 ARG B 64 2.18 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 LEU A 91 91.84 58.89 REMARK 500 ASP A 107 121.19 66.06 REMARK 500 ASN A 130 42.43 -89.09 REMARK 500 GLN A 143 -17.52 69.33 REMARK 500 ILE A 186 -68.35 36.55 REMARK 500 ASP A 200 106.32 65.55 REMARK 500 THR B 119 -66.23 68.46 REMARK 500 VAL B 185 94.34 25.64 REMARK 500 LEU B 187 133.07 76.80 REMARK 500 ASP C 107 139.29 74.48 REMARK 500 GLN C 143 11.56 56.91 REMARK 500 GLU C 144 74.08 -165.26 REMARK 500 LYS C 155 106.05 -59.25 REMARK 500 TYR C 160 87.97 -68.36 REMARK 500 ILE C 186 -68.57 42.98 REMARK 500 LEU D 91 77.72 48.74 REMARK 500 THR D 119 -30.89 53.66 REMARK 500 ASN D 130 32.15 -90.21 REMARK 500 TYR D 183 19.73 59.64 REMARK 500 LEU D 187 143.79 80.78 REMARK 500 MET D 212 25.83 -140.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6E8N RELATED DB: PDB REMARK 900 GLYCOSYLATED EPDR1, COMPLEX DBREF 6E7O A 38 224 UNP Q9UM22 EPDR1_HUMAN 38 224 DBREF 6E7O B 38 224 UNP Q9UM22 EPDR1_HUMAN 38 224 DBREF 6E7O C 38 224 UNP Q9UM22 EPDR1_HUMAN 38 224 DBREF 6E7O D 38 224 UNP Q9UM22 EPDR1_HUMAN 38 224 SEQADV 6E7O SER A 37 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS A 225 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS A 226 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS A 227 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS A 228 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS A 229 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS A 230 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O SER B 37 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS B 225 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS B 226 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS B 227 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS B 228 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS B 229 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS B 230 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O SER C 37 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS C 225 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS C 226 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS C 227 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS C 228 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS C 229 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS C 230 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O SER D 37 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS D 225 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS D 226 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS D 227 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS D 228 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS D 229 UNP Q9UM22 EXPRESSION TAG SEQADV 6E7O HIS D 230 UNP Q9UM22 EXPRESSION TAG SEQRES 1 A 194 SER ALA PRO ARG PRO CYS GLN ALA PRO GLN GLN TRP GLU SEQRES 2 A 194 GLY ARG GLN VAL MET TYR GLN GLN SER SER GLY ARG ASN SEQRES 3 A 194 SER ARG ALA LEU LEU SER TYR ASP GLY LEU ASN GLN ARG SEQRES 4 A 194 VAL ARG VAL LEU ASP GLU ARG LYS ALA LEU ILE PRO CYS SEQRES 5 A 194 LYS ARG LEU PHE GLU TYR ILE LEU LEU TYR LYS ASP GLY SEQRES 6 A 194 VAL MET PHE GLN ILE ASP GLN ALA THR LYS GLN CYS SER SEQRES 7 A 194 LYS MET THR LEU THR GLN PRO TRP ASP PRO LEU ASP ILE SEQRES 8 A 194 PRO GLN ASN SER THR PHE GLU ASP GLN TYR SER ILE GLY SEQRES 9 A 194 GLY PRO GLN GLU GLN ILE THR VAL GLN GLU TRP SER ASP SEQRES 10 A 194 ARG LYS SER ALA ARG SER TYR GLU THR TRP ILE GLY ILE SEQRES 11 A 194 TYR THR VAL LYS ASP CYS TYR PRO VAL GLN GLU THR PHE SEQRES 12 A 194 THR ILE ASN TYR SER VAL ILE LEU SER THR ARG PHE PHE SEQRES 13 A 194 ASP ILE GLN LEU GLY ILE LYS ASP PRO SER VAL PHE THR SEQRES 14 A 194 PRO PRO SER THR CYS GLN MET ALA GLN LEU GLU LYS MET SEQRES 15 A 194 SER GLU ASP CYS SER TRP HIS HIS HIS HIS HIS HIS SEQRES 1 B 194 SER ALA PRO ARG PRO CYS GLN ALA PRO GLN GLN TRP GLU SEQRES 2 B 194 GLY ARG GLN VAL MET TYR GLN GLN SER SER GLY ARG ASN SEQRES 3 B 194 SER ARG ALA LEU LEU SER TYR ASP GLY LEU ASN GLN ARG SEQRES 4 B 194 VAL ARG VAL LEU ASP GLU ARG LYS ALA LEU ILE PRO CYS SEQRES 5 B 194 LYS ARG LEU PHE GLU TYR ILE LEU LEU TYR LYS ASP GLY SEQRES 6 B 194 VAL MET PHE GLN ILE ASP GLN ALA THR LYS GLN CYS SER SEQRES 7 B 194 LYS MET THR LEU THR GLN PRO TRP ASP PRO LEU ASP ILE SEQRES 8 B 194 PRO GLN ASN SER THR PHE GLU ASP GLN TYR SER ILE GLY SEQRES 9 B 194 GLY PRO GLN GLU GLN ILE THR VAL GLN GLU TRP SER ASP SEQRES 10 B 194 ARG LYS SER ALA ARG SER TYR GLU THR TRP ILE GLY ILE SEQRES 11 B 194 TYR THR VAL LYS ASP CYS TYR PRO VAL GLN GLU THR PHE SEQRES 12 B 194 THR ILE ASN TYR SER VAL ILE LEU SER THR ARG PHE PHE SEQRES 13 B 194 ASP ILE GLN LEU GLY ILE LYS ASP PRO SER VAL PHE THR SEQRES 14 B 194 PRO PRO SER THR CYS GLN MET ALA GLN LEU GLU LYS MET SEQRES 15 B 194 SER GLU ASP CYS SER TRP HIS HIS HIS HIS HIS HIS SEQRES 1 C 194 SER ALA PRO ARG PRO CYS GLN ALA PRO GLN GLN TRP GLU SEQRES 2 C 194 GLY ARG GLN VAL MET TYR GLN GLN SER SER GLY ARG ASN SEQRES 3 C 194 SER ARG ALA LEU LEU SER TYR ASP GLY LEU ASN GLN ARG SEQRES 4 C 194 VAL ARG VAL LEU ASP GLU ARG LYS ALA LEU ILE PRO CYS SEQRES 5 C 194 LYS ARG LEU PHE GLU TYR ILE LEU LEU TYR LYS ASP GLY SEQRES 6 C 194 VAL MET PHE GLN ILE ASP GLN ALA THR LYS GLN CYS SER SEQRES 7 C 194 LYS MET THR LEU THR GLN PRO TRP ASP PRO LEU ASP ILE SEQRES 8 C 194 PRO GLN ASN SER THR PHE GLU ASP GLN TYR SER ILE GLY SEQRES 9 C 194 GLY PRO GLN GLU GLN ILE THR VAL GLN GLU TRP SER ASP SEQRES 10 C 194 ARG LYS SER ALA ARG SER TYR GLU THR TRP ILE GLY ILE SEQRES 11 C 194 TYR THR VAL LYS ASP CYS TYR PRO VAL GLN GLU THR PHE SEQRES 12 C 194 THR ILE ASN TYR SER VAL ILE LEU SER THR ARG PHE PHE SEQRES 13 C 194 ASP ILE GLN LEU GLY ILE LYS ASP PRO SER VAL PHE THR SEQRES 14 C 194 PRO PRO SER THR CYS GLN MET ALA GLN LEU GLU LYS MET SEQRES 15 C 194 SER GLU ASP CYS SER TRP HIS HIS HIS HIS HIS HIS SEQRES 1 D 194 SER ALA PRO ARG PRO CYS GLN ALA PRO GLN GLN TRP GLU SEQRES 2 D 194 GLY ARG GLN VAL MET TYR GLN GLN SER SER GLY ARG ASN SEQRES 3 D 194 SER ARG ALA LEU LEU SER TYR ASP GLY LEU ASN GLN ARG SEQRES 4 D 194 VAL ARG VAL LEU ASP GLU ARG LYS ALA LEU ILE PRO CYS SEQRES 5 D 194 LYS ARG LEU PHE GLU TYR ILE LEU LEU TYR LYS ASP GLY SEQRES 6 D 194 VAL MET PHE GLN ILE ASP GLN ALA THR LYS GLN CYS SER SEQRES 7 D 194 LYS MET THR LEU THR GLN PRO TRP ASP PRO LEU ASP ILE SEQRES 8 D 194 PRO GLN ASN SER THR PHE GLU ASP GLN TYR SER ILE GLY SEQRES 9 D 194 GLY PRO GLN GLU GLN ILE THR VAL GLN GLU TRP SER ASP SEQRES 10 D 194 ARG LYS SER ALA ARG SER TYR GLU THR TRP ILE GLY ILE SEQRES 11 D 194 TYR THR VAL LYS ASP CYS TYR PRO VAL GLN GLU THR PHE SEQRES 12 D 194 THR ILE ASN TYR SER VAL ILE LEU SER THR ARG PHE PHE SEQRES 13 D 194 ASP ILE GLN LEU GLY ILE LYS ASP PRO SER VAL PHE THR SEQRES 14 D 194 PRO PRO SER THR CYS GLN MET ALA GLN LEU GLU LYS MET SEQRES 15 D 194 SER GLU ASP CYS SER TRP HIS HIS HIS HIS HIS HIS HELIX 1 AA1 ASP A 200 THR A 205 5 6 HELIX 2 AA2 PRO A 207 MET A 212 1 6 HELIX 3 AA3 ASP B 200 THR B 205 5 6 HELIX 4 AA4 PRO B 207 GLN B 211 5 5 HELIX 5 AA5 ASP C 200 PHE C 204 5 5 HELIX 6 AA6 ASP D 200 THR D 205 5 6 HELIX 7 AA7 PRO D 207 MET D 212 5 6 SHEET 1 AA111 SER A 114 THR A 117 0 SHEET 2 AA111 VAL A 102 GLN A 105 -1 N GLN A 105 O SER A 114 SHEET 3 AA111 GLU A 93 LEU A 97 -1 N ILE A 95 O PHE A 104 SHEET 4 AA111 ARG A 75 ASP A 80 -1 N VAL A 76 O LEU A 96 SHEET 5 AA111 ARG A 61 ASP A 70 -1 N SER A 68 O ARG A 77 SHEET 6 AA111 GLN A 47 GLN A 56 -1 N GLN A 52 O ALA A 65 SHEET 7 AA111 SER A 184 LEU A 196 -1 O SER A 188 N TYR A 55 SHEET 8 AA111 PRO A 174 ILE A 181 -1 N PHE A 179 O LEU A 187 SHEET 9 AA111 THR A 162 THR A 168 -1 N ILE A 164 O THR A 178 SHEET 10 AA111 GLU A 144 SER A 152 -1 N GLN A 149 O TYR A 167 SHEET 11 AA111 THR A 132 GLY A 141 -1 N ASP A 135 O GLU A 150 SHEET 1 AA211 CYS B 113 THR B 117 0 SHEET 2 AA211 VAL B 102 ASP B 107 -1 N GLN B 105 O SER B 114 SHEET 3 AA211 PHE B 92 LEU B 97 -1 N GLU B 93 O ILE B 106 SHEET 4 AA211 ARG B 75 ASP B 80 -1 N VAL B 76 O LEU B 96 SHEET 5 AA211 ARG B 61 ASP B 70 -1 N SER B 68 O ARG B 77 SHEET 6 AA211 GLN B 47 GLN B 56 -1 N GLN B 52 O ALA B 65 SHEET 7 AA211 SER B 188 LEU B 196 -1 O GLN B 195 N GLU B 49 SHEET 8 AA211 PRO B 174 ILE B 181 -1 N GLU B 177 O THR B 189 SHEET 9 AA211 GLU B 161 THR B 168 -1 N ILE B 166 O GLN B 176 SHEET 10 AA211 GLU B 144 SER B 152 -1 N GLN B 149 O TYR B 167 SHEET 11 AA211 THR B 132 GLY B 141 -1 N ASP B 135 O GLU B 150 SHEET 1 AA310 VAL C 102 PHE C 104 0 SHEET 2 AA310 GLU C 93 LEU C 97 -1 N ILE C 95 O PHE C 104 SHEET 3 AA310 ARG C 75 ASP C 80 -1 N VAL C 78 O TYR C 94 SHEET 4 AA310 ASN C 62 ASP C 70 -1 N LEU C 66 O LEU C 79 SHEET 5 AA310 GLN C 47 GLN C 56 -1 N GLN C 52 O ALA C 65 SHEET 6 AA310 SER C 184 GLN C 195 -1 O GLN C 195 N GLU C 49 SHEET 7 AA310 PRO C 174 ILE C 181 -1 N GLU C 177 O THR C 189 SHEET 8 AA310 GLU C 161 THR C 168 -1 N THR C 162 O THR C 180 SHEET 9 AA310 GLU C 144 SER C 152 -1 N TRP C 151 O GLY C 165 SHEET 10 AA310 THR C 132 GLY C 141 -1 N ASP C 135 O GLU C 150 SHEET 1 AA411 CYS D 113 THR D 117 0 SHEET 2 AA411 VAL D 102 ASP D 107 -1 N MET D 103 O MET D 116 SHEET 3 AA411 PHE D 92 LEU D 97 -1 N GLU D 93 O ILE D 106 SHEET 4 AA411 ARG D 75 ASP D 80 -1 N VAL D 76 O LEU D 96 SHEET 5 AA411 ARG D 61 ASP D 70 -1 N SER D 68 O ARG D 77 SHEET 6 AA411 GLN D 47 GLN D 56 -1 N TRP D 48 O TYR D 69 SHEET 7 AA411 SER D 184 LEU D 196 -1 O GLN D 195 N GLU D 49 SHEET 8 AA411 PRO D 174 ILE D 181 -1 N ILE D 181 O SER D 184 SHEET 9 AA411 TRP D 163 THR D 168 -1 N ILE D 166 O GLN D 176 SHEET 10 AA411 ILE D 146 SER D 152 -1 N GLN D 149 O TYR D 167 SHEET 11 AA411 THR D 132 ILE D 139 -1 N TYR D 137 O VAL D 148 SSBOND 1 CYS A 42 CYS A 172 1555 1555 2.02 SSBOND 2 CYS A 113 CYS A 210 1555 1555 2.02 SSBOND 3 CYS B 42 CYS B 172 1555 1555 1.98 SSBOND 4 CYS B 113 CYS B 210 1555 1555 2.02 SSBOND 5 CYS C 42 CYS C 172 1555 1555 2.01 SSBOND 6 CYS D 42 CYS D 172 1555 1555 2.03 SSBOND 7 CYS D 113 CYS D 210 1555 1555 2.02 CRYST1 87.805 97.482 189.469 90.00 90.00 90.00 C 2 2 21 32 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 0.011389 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010258 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005278 0.00000