HEADER HYDROLASE 17-FEB-21 7LS3 TITLE CO-COMPLEX CYP46A1 WITH 8114 (3F) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHOLESTEROL 24-HYDROXYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CH24H,CHOLESTEROL 24-MONOOXYGENASE,CHOLESTEROL 24S- COMPND 5 HYDROXYLASE,CYTOCHROME P450 46A1; COMPND 6 EC: 1.14.14.25; COMPND 7 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: CYP46A1, CYP46; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CYP46A1, CH24H, SBDD, DRUG DISCOVERY, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR W.LANE,J.YANO REVDAT 3 18-OCT-23 7LS3 1 REMARK REVDAT 2 08-SEP-21 7LS3 1 JRNL REVDAT 1 25-AUG-21 7LS3 0 JRNL AUTH T.KOIKE,M.YOSHIKAWA,H.K.ANDO,W.FARNABY,T.NISHI,E.WATANABE, JRNL AUTH 2 J.YANO,M.MIYAMOTO,S.KONDO,T.ISHII,T.KUROITA JRNL TITL DISCOVERY OF SOTICLESTAT, A POTENT AND SELECTIVE INHIBITOR JRNL TITL 2 FOR CHOLESTEROL 24-HYDROXYLASE (CH24H). JRNL REF J.MED.CHEM. V. 64 12228 2021 JRNL REFN ISSN 0022-2623 JRNL PMID 34387987 JRNL DOI 10.1021/ACS.JMEDCHEM.1C00864 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.25 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 23171 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1236 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.16 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1627 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE SET COUNT : 90 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3447 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 72 REMARK 3 SOLVENT ATOMS : 185 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.48000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : 1.42000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.288 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.217 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.191 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.566 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3598 ; 0.011 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4871 ; 1.507 ; 1.679 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 425 ; 6.074 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 199 ;34.125 ;21.055 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 638 ;16.571 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;16.353 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 440 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2758 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 31 A 489 REMARK 3 ORIGIN FOR THE GROUP (A): 13.603 -5.005 -18.750 REMARK 3 T TENSOR REMARK 3 T11: 0.0894 T22: 0.0330 REMARK 3 T33: 0.0015 T12: 0.0100 REMARK 3 T13: -0.0057 T23: -0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.6180 L22: 2.3715 REMARK 3 L33: 1.4114 L12: -0.1021 REMARK 3 L13: -0.1134 L23: -0.1167 REMARK 3 S TENSOR REMARK 3 S11: 0.0156 S12: 0.1399 S13: -0.0045 REMARK 3 S21: -0.2073 S22: -0.0105 S23: -0.0287 REMARK 3 S31: -0.0429 S32: -0.0079 S33: -0.0051 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 501 A 501 REMARK 3 ORIGIN FOR THE GROUP (A): 10.675 -1.200 -22.199 REMARK 3 T TENSOR REMARK 3 T11: 0.1268 T22: 0.0238 REMARK 3 T33: 0.0462 T12: -0.0154 REMARK 3 T13: -0.0555 T23: -0.0107 REMARK 3 L TENSOR REMARK 3 L11: 3.0223 L22: 1.9417 REMARK 3 L33: 6.7276 L12: -2.3968 REMARK 3 L13: 1.0207 L23: -1.3149 REMARK 3 S TENSOR REMARK 3 S11: 0.2334 S12: -0.0202 S13: -0.0654 REMARK 3 S21: -0.1791 S22: -0.0169 S23: 0.0726 REMARK 3 S31: -0.1413 S32: 0.3821 S33: -0.2165 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 7LS3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-FEB-21. REMARK 100 THE DEPOSITION ID IS D_1000254906. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAR-11 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 : ALS REMARK 200 BEAMLINE : 5.0.3 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 QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23172 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 35.250 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10500 REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.71400 REMARK 200 FOR SHELL : 1.800 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: 2Q9G REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17.% PEG 3350, 0.35M CALCIUM CL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 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 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 29.17450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.55350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.80150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.55350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.17450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.80150 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 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 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 21 REMARK 465 HIS A 22 REMARK 465 HIS A 23 REMARK 465 HIS A 24 REMARK 465 HIS A 25 REMARK 465 HIS A 26 REMARK 465 HIS A 27 REMARK 465 ARG A 38 REMARK 465 PRO A 39 REMARK 465 SER A 40 REMARK 465 PHE A 41 REMARK 465 LEU A 42 REMARK 465 LEU A 43 REMARK 465 GLY A 44 REMARK 465 HIS A 45 REMARK 465 LEU A 46 REMARK 465 PRO A 47 REMARK 465 CYS A 48 REMARK 465 PHE A 49 REMARK 465 TRP A 50 REMARK 465 LYS A 51 REMARK 465 LYS A 52 REMARK 465 ASP A 53 REMARK 465 GLU A 54 REMARK 465 VAL A 55 REMARK 465 GLY A 56 REMARK 465 GLY A 57 REMARK 465 ARG A 58 REMARK 465 HIS A 81 REMARK 465 SER A 225 REMARK 465 ARG A 226 REMARK 465 ASN A 227 REMARK 465 THR A 228 REMARK 465 LEU A 229 REMARK 465 ALA A 230 REMARK 465 LYS A 231 REMARK 465 PHE A 232 REMARK 465 LEU A 233 REMARK 465 PRO A 234 REMARK 465 GLY A 235 REMARK 465 GLY A 490 REMARK 465 TRP A 491 REMARK 465 GLN A 492 REMARK 465 PRO A 493 REMARK 465 ALA A 494 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 LYS A 236 CG CD CE NZ REMARK 470 ARG A 237 CG CD NE CZ NH1 NH2 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 O PHE A 80 N LYS A 82 2.03 REMARK 500 REMARK 500 REMARK: NULL 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 ARG A 262 CZ ARG A 262 NH1 -0.079 REMARK 500 ARG A 267 C GLY A 268 N 0.154 REMARK 500 GLU A 269 C GLU A 269 O 0.124 REMARK 500 ARG A 384 CD ARG A 384 NE 0.157 REMARK 500 ARG A 384 NE ARG A 384 CZ 0.081 REMARK 500 REMARK 500 REMARK: NULL 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 ARG A 262 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 262 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 384 NE - CZ - NH2 ANGL. DEV. = -3.5 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 LEU A 120 -90.45 -114.10 REMARK 500 GLN A 175 -45.16 -142.27 REMARK 500 ASN A 388 70.03 68.37 REMARK 500 ASP A 407 68.79 35.81 REMARK 500 PHE A 428 63.40 -150.19 REMARK 500 SER A 431 -172.13 61.35 REMARK 500 GLN A 473 -126.48 -95.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 783 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH A 784 DISTANCE = 7.59 ANGSTROMS REMARK 525 HOH A 785 DISTANCE = 8.23 ANGSTROMS 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 HEM A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 437 SG REMARK 620 2 HEM A 501 NA 93.3 REMARK 620 3 HEM A 501 NB 89.7 89.8 REMARK 620 4 HEM A 501 NC 87.5 176.6 86.9 REMARK 620 5 HEM A 501 ND 91.8 91.5 178.0 91.8 REMARK 620 6 YCJ A 502 N26 176.4 89.8 92.3 89.6 86.1 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7LRL RELATED DB: PDB REMARK 900 ANOTHER COMPOUND IN SERIES DBREF 7LS3 A 28 494 UNP Q9Y6A2 CP46A_HUMAN 28 494 SEQADV 7LS3 MET A 21 UNP Q9Y6A2 INITIATING METHIONINE SEQADV 7LS3 HIS A 22 UNP Q9Y6A2 EXPRESSION TAG SEQADV 7LS3 HIS A 23 UNP Q9Y6A2 EXPRESSION TAG SEQADV 7LS3 HIS A 24 UNP Q9Y6A2 EXPRESSION TAG SEQADV 7LS3 HIS A 25 UNP Q9Y6A2 EXPRESSION TAG SEQADV 7LS3 HIS A 26 UNP Q9Y6A2 EXPRESSION TAG SEQADV 7LS3 HIS A 27 UNP Q9Y6A2 EXPRESSION TAG SEQRES 1 A 474 MET HIS HIS HIS HIS HIS HIS SER ARG TYR GLU HIS ILE SEQRES 2 A 474 PRO GLY PRO PRO ARG PRO SER PHE LEU LEU GLY HIS LEU SEQRES 3 A 474 PRO CYS PHE TRP LYS LYS ASP GLU VAL GLY GLY ARG VAL SEQRES 4 A 474 LEU GLN ASP VAL PHE LEU ASP TRP ALA LYS LYS TYR GLY SEQRES 5 A 474 PRO VAL VAL ARG VAL ASN VAL PHE HIS LYS THR SER VAL SEQRES 6 A 474 ILE VAL THR SER PRO GLU SER VAL LYS LYS PHE LEU MET SEQRES 7 A 474 SER THR LYS TYR ASN LYS ASP SER LYS MET TYR ARG ALA SEQRES 8 A 474 LEU GLN THR VAL PHE GLY GLU ARG LEU PHE GLY GLN GLY SEQRES 9 A 474 LEU VAL SER GLU CYS ASN TYR GLU ARG TRP HIS LYS GLN SEQRES 10 A 474 ARG ARG VAL ILE ASP LEU ALA PHE SER ARG SER SER LEU SEQRES 11 A 474 VAL SER LEU MET GLU THR PHE ASN GLU LYS ALA GLU GLN SEQRES 12 A 474 LEU VAL GLU ILE LEU GLU ALA LYS ALA ASP GLY GLN THR SEQRES 13 A 474 PRO VAL SER MET GLN ASP MET LEU THR TYR THR ALA MET SEQRES 14 A 474 ASP ILE LEU ALA LYS ALA ALA PHE GLY MET GLU THR SER SEQRES 15 A 474 MET LEU LEU GLY ALA GLN LYS PRO LEU SER GLN ALA VAL SEQRES 16 A 474 LYS LEU MET LEU GLU GLY ILE THR ALA SER ARG ASN THR SEQRES 17 A 474 LEU ALA LYS PHE LEU PRO GLY LYS ARG LYS GLN LEU ARG SEQRES 18 A 474 GLU VAL ARG GLU SER ILE ARG PHE LEU ARG GLN VAL GLY SEQRES 19 A 474 ARG ASP TRP VAL GLN ARG ARG ARG GLU ALA LEU LYS ARG SEQRES 20 A 474 GLY GLU GLU VAL PRO ALA ASP ILE LEU THR GLN ILE LEU SEQRES 21 A 474 LYS ALA GLU GLU GLY ALA GLN ASP ASP GLU GLY LEU LEU SEQRES 22 A 474 ASP ASN PHE VAL THR PHE PHE ILE ALA GLY HIS GLU THR SEQRES 23 A 474 SER ALA ASN HIS LEU ALA PHE THR VAL MET GLU LEU SER SEQRES 24 A 474 ARG GLN PRO GLU ILE VAL ALA ARG LEU GLN ALA GLU VAL SEQRES 25 A 474 ASP GLU VAL ILE GLY SER LYS ARG TYR LEU ASP PHE GLU SEQRES 26 A 474 ASP LEU GLY ARG LEU GLN TYR LEU SER GLN VAL LEU LYS SEQRES 27 A 474 GLU SER LEU ARG LEU TYR PRO PRO ALA TRP GLY THR PHE SEQRES 28 A 474 ARG LEU LEU GLU GLU GLU THR LEU ILE ASP GLY VAL ARG SEQRES 29 A 474 VAL PRO GLY ASN THR PRO LEU LEU PHE SER THR TYR VAL SEQRES 30 A 474 MET GLY ARG MET ASP THR TYR PHE GLU ASP PRO LEU THR SEQRES 31 A 474 PHE ASN PRO ASP ARG PHE GLY PRO GLY ALA PRO LYS PRO SEQRES 32 A 474 ARG PHE THR TYR PHE PRO PHE SER LEU GLY HIS ARG SER SEQRES 33 A 474 CYS ILE GLY GLN GLN PHE ALA GLN MET GLU VAL LYS VAL SEQRES 34 A 474 VAL MET ALA LYS LEU LEU GLN ARG LEU GLU PHE ARG LEU SEQRES 35 A 474 VAL PRO GLY GLN ARG PHE GLY LEU GLN GLU GLN ALA THR SEQRES 36 A 474 LEU LYS PRO LEU ASP PRO VAL LEU CYS THR LEU ARG PRO SEQRES 37 A 474 ARG GLY TRP GLN PRO ALA HET HEM A 501 43 HET YCJ A 502 29 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM YCJ (5-METHYL-2-PYRIDIN-4-YL-PHENYL)-[4-OXIDANYL-4- HETNAM 2 YCJ (PHENYLMETHYL)PIPERIDIN-1-YL]METHANONE HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 YCJ C25 H26 N2 O2 FORMUL 4 HOH *185(H2 O) HELIX 1 AA1 LEU A 60 GLY A 72 1 13 HELIX 2 AA2 SER A 89 MET A 98 1 10 HELIX 3 AA3 ASP A 105 GLN A 113 1 9 HELIX 4 AA4 ASN A 130 ASP A 142 1 13 HELIX 5 AA5 LEU A 143 PHE A 145 5 3 HELIX 6 AA6 SER A 146 SER A 152 1 7 HELIX 7 AA7 LEU A 153 ALA A 170 1 18 HELIX 8 AA8 MET A 180 GLY A 198 1 19 HELIX 9 AA9 SER A 202 GLY A 206 5 5 HELIX 10 AB1 GLN A 208 THR A 223 1 16 HELIX 11 AB2 ARG A 237 ARG A 267 1 31 HELIX 12 AB3 ASP A 274 ALA A 282 1 9 HELIX 13 AB4 ASP A 289 SER A 319 1 31 HELIX 14 AB5 GLN A 321 GLY A 337 1 17 HELIX 15 AB6 ASP A 343 LEU A 350 1 8 HELIX 16 AB7 LEU A 350 TYR A 364 1 15 HELIX 17 AB8 THR A 395 ARG A 400 1 6 HELIX 18 AB9 ASN A 412 GLY A 417 5 6 HELIX 19 AC1 LEU A 432 SER A 436 5 5 HELIX 20 AC2 GLY A 439 ARG A 457 1 19 SHEET 1 AA1 4 VAL A 74 ASN A 78 0 SHEET 2 AA1 4 THR A 83 VAL A 87 -1 O ILE A 86 N VAL A 75 SHEET 3 AA1 4 THR A 389 SER A 394 1 O LEU A 392 N VAL A 85 SHEET 4 AA1 4 GLY A 369 LEU A 374 -1 N ARG A 372 O LEU A 391 SHEET 1 AA2 2 THR A 114 VAL A 115 0 SHEET 2 AA2 2 GLU A 118 ARG A 119 -1 O GLU A 118 N VAL A 115 SHEET 1 AA3 3 VAL A 178 SER A 179 0 SHEET 2 AA3 3 LEU A 483 PRO A 488 -1 O CYS A 484 N VAL A 178 SHEET 3 AA3 3 LEU A 458 LEU A 462 -1 N GLU A 459 O ARG A 487 SHEET 1 AA4 2 THR A 378 ILE A 380 0 SHEET 2 AA4 2 VAL A 383 VAL A 385 -1 O VAL A 383 N ILE A 380 SHEET 1 AA5 2 LEU A 470 GLU A 472 0 SHEET 2 AA5 2 LEU A 476 PRO A 478 -1 O LYS A 477 N GLN A 471 LINK SG CYS A 437 FE HEM A 501 1555 1555 2.29 LINK FE HEM A 501 N26 YCJ A 502 1555 1555 2.09 CRYST1 58.349 63.603 123.107 90.00 90.00 90.00 P 21 21 21 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 0.017138 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015723 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008123 0.00000