HEADER ISOMERASE,HYDROLASE/INHIBITOR 26-SEP-20 7K89 TITLE CRYSTAL STRUCTURE OF BOVINE RPE65 IN COMPLEX WITH 4-FLUORO-EMIXUSTAT TITLE 2 AND PALMITATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RETINOID ISOMEROHYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ALL-TRANS-RETINYL-PALMITATE HYDROLASE,RETINAL PIGMENT COMPND 5 EPITHELIUM-SPECIFIC 65 KDA PROTEIN,RETINOL ISOMERASE; COMPND 6 EC: 3.1.1.64,5.3.3.22 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE; SOURCE 4 ORGANISM_TAXID: 9913 KEYWDS NON-HEME IRON, ISOMEROHYDROLASE, INHIBITOR, BETA-PROPELLER, KEYWDS 2 ISOMERASE, HYDROLASE-INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.D.KISER REVDAT 4 09-OCT-24 7K89 1 REMARK REVDAT 3 18-OCT-23 7K89 1 REMARK REVDAT 2 07-JUL-21 7K89 1 JRNL REVDAT 1 02-JUN-21 7K89 0 JRNL AUTH E.BLUM,J.ZHANG,J.ZALUSKI,D.E.EINSTEIN,E.E.KORSHIN,A.KUBAS, JRNL AUTH 2 A.GRUZMAN,G.P.TOCHTROP,P.D.KISER,K.PALCZEWSKI JRNL TITL RATIONAL ALTERATION OF PHARMACOKINETICS OF CHIRAL JRNL TITL 2 FLUORINATED AND DEUTERATED DERIVATIVES OF EMIXUSTAT FOR JRNL TITL 3 RETINAL THERAPY. JRNL REF J.MED.CHEM. V. 64 8287 2021 JRNL REFN ISSN 0022-2623 JRNL PMID 34081480 JRNL DOI 10.1021/ACS.JMEDCHEM.1C00279 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0266 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) : 47.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 78245 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 4187 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5724 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.40 REMARK 3 BIN R VALUE (WORKING SET) : 0.3350 REMARK 3 BIN FREE R VALUE SET COUNT : 275 REMARK 3 BIN FREE R VALUE : 0.3380 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8144 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 106 REMARK 3 SOLVENT ATOMS : 800 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.56000 REMARK 3 B22 (A**2) : 0.56000 REMARK 3 B33 (A**2) : -1.83000 REMARK 3 B12 (A**2) : 0.28000 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): 0.195 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.163 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.157 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.725 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 8663 ; 0.002 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 8030 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 11784 ; 1.174 ; 1.648 REMARK 3 BOND ANGLES OTHERS (DEGREES): 18590 ; 1.057 ; 1.582 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1043 ; 7.157 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 444 ;30.251 ;23.153 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1383 ;10.535 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;14.005 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1099 ; 0.041 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 9896 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 2002 ; 0.001 ; 0.020 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): 4130 ; 1.328 ; 4.295 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 4128 ; 1.327 ; 4.294 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5178 ; 2.346 ; 6.430 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 5179 ; 2.346 ; 6.431 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4533 ; 1.232 ; 7.014 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 4534 ; 1.232 ; 7.015 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 6604 ; 2.172 ; 6.629 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 9468 ; 4.680 ;49.875 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 9466 ; 4.681 ;49.849 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 2 533 B 2 533 17006 0.05 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.30 REMARK 3 ION PROBE RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 7K89 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-SEP-20. REMARK 100 THE DEPOSITION ID IS D_1000252076. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-20 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 : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979460 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 : 82432 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.16600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.8000 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) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.77000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 4RSE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SAME AS FOR ENTRY 4RSE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 281.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.47600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.73800 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 43.10700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 14.36900 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 71.84500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 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 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 PRO A 109 REMARK 465 ASP A 110 REMARK 465 PRO A 111 REMARK 465 CYS A 112 REMARK 465 LYS A 113 REMARK 465 ASN A 114 REMARK 465 ILE A 115 REMARK 465 PHE A 116 REMARK 465 SER A 117 REMARK 465 ARG A 118 REMARK 465 PHE A 119 REMARK 465 PHE A 120 REMARK 465 SER A 121 REMARK 465 TYR A 122 REMARK 465 PHE A 123 REMARK 465 ARG A 124 REMARK 465 GLY A 125 REMARK 465 VAL A 126 REMARK 465 GLY A 197 REMARK 465 LYS A 198 REMARK 465 ASN A 199 REMARK 465 PHE A 200 REMARK 465 SER A 201 REMARK 465 SER A 267 REMARK 465 TRP A 268 REMARK 465 SER A 269 REMARK 465 LEU A 270 REMARK 465 TRP A 271 REMARK 465 ASP B 110 REMARK 465 PRO B 111 REMARK 465 CYS B 112 REMARK 465 LYS B 113 REMARK 465 ASN B 114 REMARK 465 ILE B 115 REMARK 465 PHE B 116 REMARK 465 SER B 117 REMARK 465 ARG B 118 REMARK 465 PHE B 119 REMARK 465 PHE B 120 REMARK 465 SER B 121 REMARK 465 TYR B 122 REMARK 465 PHE B 123 REMARK 465 ARG B 124 REMARK 465 GLY B 197 REMARK 465 LYS B 198 REMARK 465 ASN B 199 REMARK 465 PHE B 200 REMARK 465 SER B 201 REMARK 465 LEU B 265 REMARK 465 SER B 266 REMARK 465 SER B 267 REMARK 465 TRP B 268 REMARK 465 SER B 269 REMARK 465 LEU B 270 REMARK 465 TRP B 271 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 ASN A 131 92.30 -64.70 REMARK 500 THR A 147 -133.57 -109.55 REMARK 500 GLU A 399 4.94 80.24 REMARK 500 PHE A 442 -9.14 84.95 REMARK 500 GLU A 469 126.09 -38.31 REMARK 500 PHE A 526 -69.84 -98.40 REMARK 500 ASN B 131 92.25 -64.81 REMARK 500 THR B 147 -133.90 -109.41 REMARK 500 GLU B 399 4.79 80.61 REMARK 500 PHE B 442 -9.08 84.87 REMARK 500 GLU B 469 126.32 -38.79 REMARK 500 PHE B 526 -69.75 -98.21 REMARK 500 REMARK 500 REMARK: NULL 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 FE2 A 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 180 NE2 REMARK 620 2 HIS A 241 NE2 99.0 REMARK 620 3 HIS A 313 NE2 103.2 100.3 REMARK 620 4 HIS A 527 NE2 87.5 163.8 92.5 REMARK 620 5 PLM A 602 O2 120.7 80.8 135.5 83.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 604 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 461 O REMARK 620 2 PG4 A 603 O1 71.0 REMARK 620 3 PG4 A 603 O2 67.4 56.6 REMARK 620 4 PG4 A 603 O3 75.2 109.2 53.3 REMARK 620 5 PG4 A 603 O5 61.9 109.8 128.9 105.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 B 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 180 NE2 REMARK 620 2 HIS B 241 NE2 98.3 REMARK 620 3 HIS B 313 NE2 103.1 101.4 REMARK 620 4 HIS B 527 NE2 86.5 163.7 92.6 REMARK 620 5 PLM B 602 O2 121.0 81.7 135.0 82.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 604 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN B 461 O REMARK 620 2 PG4 B 603 O1 87.7 REMARK 620 3 PG4 B 603 O2 88.5 58.9 REMARK 620 4 PG4 B 603 O3 90.7 115.8 57.0 REMARK 620 5 PG4 B 603 O4 70.7 156.6 109.9 57.3 REMARK 620 6 PG4 B 603 O5 79.3 124.6 166.8 117.9 61.6 REMARK 620 7 HOH B1000 O 156.8 112.0 91.6 70.2 87.5 97.8 REMARK 620 N 1 2 3 4 5 6 DBREF 7K89 A 2 533 UNP Q28175 RPE65_BOVIN 2 533 DBREF 7K89 B 2 533 UNP Q28175 RPE65_BOVIN 2 533 SEQADV 7K89 ACE A 1 UNP Q28175 ACETYLATION SEQADV 7K89 LEU A 341 UNP Q28175 SER 341 CONFLICT SEQADV 7K89 ACE B 1 UNP Q28175 ACETYLATION SEQADV 7K89 LEU B 341 UNP Q28175 SER 341 CONFLICT SEQRES 1 A 533 ACE SER SER GLN VAL GLU HIS PRO ALA GLY GLY TYR LYS SEQRES 2 A 533 LYS LEU PHE GLU THR VAL GLU GLU LEU SER SER PRO LEU SEQRES 3 A 533 THR ALA HIS VAL THR GLY ARG ILE PRO LEU TRP LEU THR SEQRES 4 A 533 GLY SER LEU LEU ARG CYS GLY PRO GLY LEU PHE GLU VAL SEQRES 5 A 533 GLY SER GLU PRO PHE TYR HIS LEU PHE ASP GLY GLN ALA SEQRES 6 A 533 LEU LEU HIS LYS PHE ASP PHE LYS GLU GLY HIS VAL THR SEQRES 7 A 533 TYR HIS ARG ARG PHE ILE ARG THR ASP ALA TYR VAL ARG SEQRES 8 A 533 ALA MET THR GLU LYS ARG ILE VAL ILE THR GLU PHE GLY SEQRES 9 A 533 THR CYS ALA PHE PRO ASP PRO CYS LYS ASN ILE PHE SER SEQRES 10 A 533 ARG PHE PHE SER TYR PHE ARG GLY VAL GLU VAL THR ASP SEQRES 11 A 533 ASN ALA LEU VAL ASN ILE TYR PRO VAL GLY GLU ASP TYR SEQRES 12 A 533 TYR ALA CYS THR GLU THR ASN PHE ILE THR LYS VAL ASN SEQRES 13 A 533 PRO GLU THR LEU GLU THR ILE LYS GLN VAL ASP LEU CYS SEQRES 14 A 533 ASN TYR VAL SER VAL ASN GLY ALA THR ALA HIS PRO HIS SEQRES 15 A 533 ILE GLU ASN ASP GLY THR VAL TYR ASN ILE GLY ASN CYS SEQRES 16 A 533 PHE GLY LYS ASN PHE SER ILE ALA TYR ASN ILE VAL LYS SEQRES 17 A 533 ILE PRO PRO LEU GLN ALA ASP LYS GLU ASP PRO ILE SER SEQRES 18 A 533 LYS SER GLU ILE VAL VAL GLN PHE PRO CYS SER ASP ARG SEQRES 19 A 533 PHE LYS PRO SER TYR VAL HIS SER PHE GLY LEU THR PRO SEQRES 20 A 533 ASN TYR ILE VAL PHE VAL GLU THR PRO VAL LYS ILE ASN SEQRES 21 A 533 LEU PHE LYS PHE LEU SER SER TRP SER LEU TRP GLY ALA SEQRES 22 A 533 ASN TYR MET ASP CYS PHE GLU SER ASN GLU THR MET GLY SEQRES 23 A 533 VAL TRP LEU HIS ILE ALA ASP LYS LYS ARG LYS LYS TYR SEQRES 24 A 533 ILE ASN ASN LYS TYR ARG THR SER PRO PHE ASN LEU PHE SEQRES 25 A 533 HIS HIS ILE ASN THR TYR GLU ASP HIS GLU PHE LEU ILE SEQRES 26 A 533 VAL ASP LEU CYS CYS TRP LYS GLY PHE GLU PHE VAL TYR SEQRES 27 A 533 ASN TYR LEU TYR LEU ALA ASN LEU ARG GLU ASN TRP GLU SEQRES 28 A 533 GLU VAL LYS LYS ASN ALA ARG LYS ALA PRO GLN PRO GLU SEQRES 29 A 533 VAL ARG ARG TYR VAL LEU PRO LEU ASN ILE ASP LYS ALA SEQRES 30 A 533 ASP THR GLY LYS ASN LEU VAL THR LEU PRO ASN THR THR SEQRES 31 A 533 ALA THR ALA ILE LEU CYS SER ASP GLU THR ILE TRP LEU SEQRES 32 A 533 GLU PRO GLU VAL LEU PHE SER GLY PRO ARG GLN ALA PHE SEQRES 33 A 533 GLU PHE PRO GLN ILE ASN TYR GLN LYS TYR GLY GLY LYS SEQRES 34 A 533 PRO TYR THR TYR ALA TYR GLY LEU GLY LEU ASN HIS PHE SEQRES 35 A 533 VAL PRO ASP ARG LEU CYS LYS LEU ASN VAL LYS THR LYS SEQRES 36 A 533 GLU THR TRP VAL TRP GLN GLU PRO ASP SER TYR PRO SER SEQRES 37 A 533 GLU PRO ILE PHE VAL SER HIS PRO ASP ALA LEU GLU GLU SEQRES 38 A 533 ASP ASP GLY VAL VAL LEU SER VAL VAL VAL SER PRO GLY SEQRES 39 A 533 ALA GLY GLN LYS PRO ALA TYR LEU LEU ILE LEU ASN ALA SEQRES 40 A 533 LYS ASP LEU SER GLU VAL ALA ARG ALA GLU VAL GLU ILE SEQRES 41 A 533 ASN ILE PRO VAL THR PHE HIS GLY LEU PHE LYS LYS SER SEQRES 1 B 533 ACE SER SER GLN VAL GLU HIS PRO ALA GLY GLY TYR LYS SEQRES 2 B 533 LYS LEU PHE GLU THR VAL GLU GLU LEU SER SER PRO LEU SEQRES 3 B 533 THR ALA HIS VAL THR GLY ARG ILE PRO LEU TRP LEU THR SEQRES 4 B 533 GLY SER LEU LEU ARG CYS GLY PRO GLY LEU PHE GLU VAL SEQRES 5 B 533 GLY SER GLU PRO PHE TYR HIS LEU PHE ASP GLY GLN ALA SEQRES 6 B 533 LEU LEU HIS LYS PHE ASP PHE LYS GLU GLY HIS VAL THR SEQRES 7 B 533 TYR HIS ARG ARG PHE ILE ARG THR ASP ALA TYR VAL ARG SEQRES 8 B 533 ALA MET THR GLU LYS ARG ILE VAL ILE THR GLU PHE GLY SEQRES 9 B 533 THR CYS ALA PHE PRO ASP PRO CYS LYS ASN ILE PHE SER SEQRES 10 B 533 ARG PHE PHE SER TYR PHE ARG GLY VAL GLU VAL THR ASP SEQRES 11 B 533 ASN ALA LEU VAL ASN ILE TYR PRO VAL GLY GLU ASP TYR SEQRES 12 B 533 TYR ALA CYS THR GLU THR ASN PHE ILE THR LYS VAL ASN SEQRES 13 B 533 PRO GLU THR LEU GLU THR ILE LYS GLN VAL ASP LEU CYS SEQRES 14 B 533 ASN TYR VAL SER VAL ASN GLY ALA THR ALA HIS PRO HIS SEQRES 15 B 533 ILE GLU ASN ASP GLY THR VAL TYR ASN ILE GLY ASN CYS SEQRES 16 B 533 PHE GLY LYS ASN PHE SER ILE ALA TYR ASN ILE VAL LYS SEQRES 17 B 533 ILE PRO PRO LEU GLN ALA ASP LYS GLU ASP PRO ILE SER SEQRES 18 B 533 LYS SER GLU ILE VAL VAL GLN PHE PRO CYS SER ASP ARG SEQRES 19 B 533 PHE LYS PRO SER TYR VAL HIS SER PHE GLY LEU THR PRO SEQRES 20 B 533 ASN TYR ILE VAL PHE VAL GLU THR PRO VAL LYS ILE ASN SEQRES 21 B 533 LEU PHE LYS PHE LEU SER SER TRP SER LEU TRP GLY ALA SEQRES 22 B 533 ASN TYR MET ASP CYS PHE GLU SER ASN GLU THR MET GLY SEQRES 23 B 533 VAL TRP LEU HIS ILE ALA ASP LYS LYS ARG LYS LYS TYR SEQRES 24 B 533 ILE ASN ASN LYS TYR ARG THR SER PRO PHE ASN LEU PHE SEQRES 25 B 533 HIS HIS ILE ASN THR TYR GLU ASP HIS GLU PHE LEU ILE SEQRES 26 B 533 VAL ASP LEU CYS CYS TRP LYS GLY PHE GLU PHE VAL TYR SEQRES 27 B 533 ASN TYR LEU TYR LEU ALA ASN LEU ARG GLU ASN TRP GLU SEQRES 28 B 533 GLU VAL LYS LYS ASN ALA ARG LYS ALA PRO GLN PRO GLU SEQRES 29 B 533 VAL ARG ARG TYR VAL LEU PRO LEU ASN ILE ASP LYS ALA SEQRES 30 B 533 ASP THR GLY LYS ASN LEU VAL THR LEU PRO ASN THR THR SEQRES 31 B 533 ALA THR ALA ILE LEU CYS SER ASP GLU THR ILE TRP LEU SEQRES 32 B 533 GLU PRO GLU VAL LEU PHE SER GLY PRO ARG GLN ALA PHE SEQRES 33 B 533 GLU PHE PRO GLN ILE ASN TYR GLN LYS TYR GLY GLY LYS SEQRES 34 B 533 PRO TYR THR TYR ALA TYR GLY LEU GLY LEU ASN HIS PHE SEQRES 35 B 533 VAL PRO ASP ARG LEU CYS LYS LEU ASN VAL LYS THR LYS SEQRES 36 B 533 GLU THR TRP VAL TRP GLN GLU PRO ASP SER TYR PRO SER SEQRES 37 B 533 GLU PRO ILE PHE VAL SER HIS PRO ASP ALA LEU GLU GLU SEQRES 38 B 533 ASP ASP GLY VAL VAL LEU SER VAL VAL VAL SER PRO GLY SEQRES 39 B 533 ALA GLY GLN LYS PRO ALA TYR LEU LEU ILE LEU ASN ALA SEQRES 40 B 533 LYS ASP LEU SER GLU VAL ALA ARG ALA GLU VAL GLU ILE SEQRES 41 B 533 ASN ILE PRO VAL THR PHE HIS GLY LEU PHE LYS LYS SER HET ACE A 1 3 HET ACE B 1 3 HET FE2 A 601 1 HET PLM A 602 18 HET PG4 A 603 13 HET NA A 604 1 HET W4J A 605 20 HET FE2 B 601 1 HET PLM B 602 18 HET PG4 B 603 13 HET NA B 604 1 HET W4J B 605 20 HETNAM ACE ACETYL GROUP HETNAM FE2 FE (II) ION HETNAM PLM PALMITIC ACID HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM NA SODIUM ION HETNAM W4J (1R)-3-AMINO-1-[3-(CYCLOHEXYLMETHOXY)-4- HETNAM 2 W4J FLUOROPHENYL]PROPAN-1-OL FORMUL 1 ACE 2(C2 H4 O) FORMUL 3 FE2 2(FE 2+) FORMUL 4 PLM 2(C16 H32 O2) FORMUL 5 PG4 2(C8 H18 O5) FORMUL 6 NA 2(NA 1+) FORMUL 7 W4J 2(C16 H24 F N O2) FORMUL 13 HOH *800(H2 O) HELIX 1 AA1 GLY A 10 GLU A 17 5 8 HELIX 2 AA2 THR A 86 LYS A 96 1 11 HELIX 3 AA3 CYS A 169 TYR A 171 5 3 HELIX 4 AA4 ASP A 218 SER A 223 5 6 HELIX 5 AA5 ASN A 260 LEU A 265 1 6 HELIX 6 AA6 TYR A 275 ASP A 277 5 3 HELIX 7 AA7 PHE A 336 LEU A 341 5 6 HELIX 8 AA8 TYR A 342 ARG A 347 1 6 HELIX 9 AA9 ASN A 349 ALA A 357 1 9 HELIX 10 AB1 ASP A 375 THR A 379 5 5 HELIX 11 AB2 ASN A 422 GLY A 427 1 6 HELIX 12 AB3 GLY B 10 GLU B 17 5 8 HELIX 13 AB4 THR B 86 LYS B 96 1 11 HELIX 14 AB5 CYS B 169 TYR B 171 5 3 HELIX 15 AB6 ASP B 218 SER B 223 5 6 HELIX 16 AB7 TYR B 275 ASP B 277 5 3 HELIX 17 AB8 PHE B 336 LEU B 341 5 6 HELIX 18 AB9 TYR B 342 ARG B 347 1 6 HELIX 19 AC1 ASN B 349 ALA B 357 1 9 HELIX 20 AC2 ASP B 375 THR B 379 5 5 HELIX 21 AC3 ASN B 422 GLY B 427 1 6 SHEET 1 AA1 9 ILE A 471 SER A 474 0 SHEET 2 AA1 9 GLY A 484 VAL A 491 -1 O VAL A 485 N VAL A 473 SHEET 3 AA1 9 ALA A 500 ASN A 506 -1 O LEU A 503 N SER A 488 SHEET 4 AA1 9 GLU A 512 VAL A 518 -1 O VAL A 513 N ILE A 504 SHEET 5 AA1 9 LEU A 26 GLY A 32 -1 N HIS A 29 O GLU A 517 SHEET 6 AA1 9 HIS A 76 PHE A 83 -1 O TYR A 79 N LEU A 26 SHEET 7 AA1 9 GLN A 64 LYS A 73 -1 N LEU A 67 O ARG A 82 SHEET 8 AA1 9 GLY A 40 LEU A 49 -1 N ARG A 44 O HIS A 68 SHEET 9 AA1 9 HIS A 527 LYS A 532 -1 O LYS A 531 N SER A 41 SHEET 1 AA2 2 GLU A 51 VAL A 52 0 SHEET 2 AA2 2 GLU A 55 PRO A 56 -1 O GLU A 55 N VAL A 52 SHEET 1 AA3 4 ASN A 135 VAL A 139 0 SHEET 2 AA3 4 ASP A 142 CYS A 146 -1 O CYS A 146 N ASN A 135 SHEET 3 AA3 4 PHE A 151 VAL A 155 -1 O THR A 153 N ALA A 145 SHEET 4 AA3 4 THR A 162 ASP A 167 -1 O VAL A 166 N ILE A 152 SHEET 1 AA4 4 HIS A 182 ILE A 183 0 SHEET 2 AA4 4 VAL A 189 CYS A 195 -1 O TYR A 190 N HIS A 182 SHEET 3 AA4 4 ALA A 203 ILE A 209 -1 O ILE A 209 N VAL A 189 SHEET 4 AA4 4 GLU A 224 PRO A 230 -1 O PHE A 229 N TYR A 204 SHEET 1 AA5 6 GLY A 244 LEU A 245 0 SHEET 2 AA5 6 TYR A 249 GLU A 254 -1 O VAL A 251 N GLY A 244 SHEET 3 AA5 6 VAL A 287 ASP A 293 -1 O TRP A 288 N GLU A 254 SHEET 4 AA5 6 LYS A 298 THR A 306 -1 O LYS A 298 N ASP A 293 SHEET 5 AA5 6 THR A 400 GLU A 404 1 O LEU A 403 N ARG A 305 SHEET 6 AA5 6 THR A 392 LEU A 395 -1 N ILE A 394 O TRP A 402 SHEET 1 AA6 2 VAL A 257 ILE A 259 0 SHEET 2 AA6 2 PHE A 279 SER A 281 -1 O GLU A 280 N LYS A 258 SHEET 1 AA7 4 PHE A 309 GLU A 319 0 SHEET 2 AA7 4 PHE A 323 LYS A 332 -1 O ILE A 325 N TYR A 318 SHEET 3 AA7 4 GLN A 362 PRO A 371 -1 O TYR A 368 N VAL A 326 SHEET 4 AA7 4 GLU A 406 PHE A 409 -1 O GLU A 406 N ARG A 367 SHEET 1 AA8 4 GLN A 414 GLN A 420 0 SHEET 2 AA8 4 TYR A 433 ASN A 440 -1 O TYR A 435 N GLN A 420 SHEET 3 AA8 4 VAL A 443 ASN A 451 -1 O VAL A 443 N ASN A 440 SHEET 4 AA8 4 THR A 457 TRP A 460 -1 O TRP A 460 N LEU A 447 SHEET 1 AA9 9 ILE B 471 SER B 474 0 SHEET 2 AA9 9 GLY B 484 VAL B 491 -1 O VAL B 485 N VAL B 473 SHEET 3 AA9 9 ALA B 500 ASN B 506 -1 O LEU B 503 N SER B 488 SHEET 4 AA9 9 GLU B 512 VAL B 518 -1 O VAL B 513 N ILE B 504 SHEET 5 AA9 9 LEU B 26 GLY B 32 -1 N HIS B 29 O GLU B 517 SHEET 6 AA9 9 HIS B 76 PHE B 83 -1 O TYR B 79 N LEU B 26 SHEET 7 AA9 9 GLN B 64 LYS B 73 -1 N LEU B 67 O ARG B 82 SHEET 8 AA9 9 GLY B 40 LEU B 49 -1 N ARG B 44 O HIS B 68 SHEET 9 AA9 9 HIS B 527 LYS B 532 -1 O LYS B 531 N SER B 41 SHEET 1 AB1 2 GLU B 51 VAL B 52 0 SHEET 2 AB1 2 GLU B 55 PRO B 56 -1 O GLU B 55 N VAL B 52 SHEET 1 AB2 4 ASN B 135 VAL B 139 0 SHEET 2 AB2 4 ASP B 142 CYS B 146 -1 O CYS B 146 N ASN B 135 SHEET 3 AB2 4 PHE B 151 VAL B 155 -1 O THR B 153 N ALA B 145 SHEET 4 AB2 4 THR B 162 ASP B 167 -1 O VAL B 166 N ILE B 152 SHEET 1 AB3 4 HIS B 182 ILE B 183 0 SHEET 2 AB3 4 VAL B 189 CYS B 195 -1 O TYR B 190 N HIS B 182 SHEET 3 AB3 4 ALA B 203 ILE B 209 -1 O ILE B 209 N VAL B 189 SHEET 4 AB3 4 GLU B 224 PRO B 230 -1 O PHE B 229 N TYR B 204 SHEET 1 AB4 6 GLY B 244 LEU B 245 0 SHEET 2 AB4 6 TYR B 249 GLU B 254 -1 O VAL B 251 N GLY B 244 SHEET 3 AB4 6 VAL B 287 ASP B 293 -1 O TRP B 288 N GLU B 254 SHEET 4 AB4 6 LYS B 298 THR B 306 -1 O LYS B 298 N ASP B 293 SHEET 5 AB4 6 THR B 400 GLU B 404 1 O LEU B 403 N ARG B 305 SHEET 6 AB4 6 THR B 392 LEU B 395 -1 N ILE B 394 O TRP B 402 SHEET 1 AB5 2 VAL B 257 ILE B 259 0 SHEET 2 AB5 2 PHE B 279 SER B 281 -1 O GLU B 280 N LYS B 258 SHEET 1 AB6 4 PHE B 309 GLU B 319 0 SHEET 2 AB6 4 PHE B 323 LYS B 332 -1 O ILE B 325 N TYR B 318 SHEET 3 AB6 4 GLN B 362 PRO B 371 -1 O TYR B 368 N VAL B 326 SHEET 4 AB6 4 GLU B 406 PHE B 409 -1 O GLU B 406 N ARG B 367 SHEET 1 AB7 4 GLN B 414 GLN B 420 0 SHEET 2 AB7 4 TYR B 433 ASN B 440 -1 O TYR B 435 N GLN B 420 SHEET 3 AB7 4 VAL B 443 ASN B 451 -1 O VAL B 443 N ASN B 440 SHEET 4 AB7 4 THR B 457 TRP B 460 -1 O TRP B 460 N LEU B 447 LINK C ACE A 1 N SER A 2 1555 1555 1.33 LINK C ACE B 1 N SER B 2 1555 1555 1.33 LINK NE2 HIS A 180 FE FE2 A 601 1555 1555 2.16 LINK NE2 HIS A 241 FE FE2 A 601 1555 1555 2.18 LINK NE2 HIS A 313 FE FE2 A 601 1555 1555 2.18 LINK O GLN A 461 NA NA A 604 1555 1555 3.17 LINK NE2 HIS A 527 FE FE2 A 601 1555 1555 2.17 LINK FE FE2 A 601 O2 PLM A 602 1555 1555 2.01 LINK O1 PG4 A 603 NA NA A 604 1555 1555 2.71 LINK O2 PG4 A 603 NA NA A 604 1555 1555 3.09 LINK O3 PG4 A 603 NA NA A 604 1555 1555 2.99 LINK O5 PG4 A 603 NA NA A 604 1555 1555 2.61 LINK NE2 HIS B 180 FE FE2 B 601 1555 1555 2.17 LINK NE2 HIS B 241 FE FE2 B 601 1555 1555 2.16 LINK NE2 HIS B 313 FE FE2 B 601 1555 1555 2.17 LINK O GLN B 461 NA NA B 604 1555 1555 2.37 LINK NE2 HIS B 527 FE FE2 B 601 1555 1555 2.18 LINK FE FE2 B 601 O2 PLM B 602 1555 1555 2.00 LINK O1 PG4 B 603 NA NA B 604 1555 1555 2.61 LINK O2 PG4 B 603 NA NA B 604 1555 1555 2.87 LINK O3 PG4 B 603 NA NA B 604 1555 1555 2.92 LINK O4 PG4 B 603 NA NA B 604 1555 1555 2.95 LINK O5 PG4 B 603 NA NA B 604 1555 1555 2.54 LINK NA NA B 604 O HOH B1000 1555 1555 2.43 CRYST1 175.695 175.695 86.214 90.00 90.00 120.00 P 65 12 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 0.005692 0.003286 0.000000 0.00000 SCALE2 0.000000 0.006572 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011599 0.00000 HETATM 1 C ACE A 1 -27.114 112.938 -4.929 1.00 58.67 C HETATM 2 O ACE A 1 -27.303 113.637 -3.982 1.00 60.19 O HETATM 3 CH3 ACE A 1 -26.137 113.345 -6.013 1.00 58.63 C