HEADER OXIDOREDUCTASE 12-SEP-17 6EHA TITLE HEME OXYGENASE 1 IN COMPLEX WITH INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEME OXYGENASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: HO-1; COMPND 5 EC: 1.14.14.18; COMPND 6 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: HMOX1, HO, HO1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HEME OXYGENASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR P.GRUDNIK,M.MIECZKOWSKI REVDAT 3 08-MAY-24 6EHA 1 REMARK REVDAT 2 23-OCT-19 6EHA 1 COMPND JRNL REVDAT 1 10-OCT-18 6EHA 0 JRNL AUTH O.MUCHA,P.PODKALICKA,M.MIKULSKI,S.BARWACZ,K.ANDRYSIAK, JRNL AUTH 2 A.BIELA,M.MIECZKOWSKI,N.KACHAMAKOVA-TROJANOWSKA,D.RYSZAWY, JRNL AUTH 3 A.BIALAS,B.SZELAZEK,P.GRUDNIK,E.MAJEWSKA,K.MICHALIK, JRNL AUTH 4 K.JAKUBIEC,M.BIEN,N.WITKOWSKA,K.GLUZA,D.EKONOMIUK,K.SITARZ, JRNL AUTH 5 M.GALEZOWSKI,K.BRZOZKA,G.DUBIN,A.JOZKOWICZ,J.DULAK,A.LOBODA JRNL TITL DEVELOPMENT AND CHARACTERIZATION OF A NEW INHIBITOR OF HEME JRNL TITL 2 OXYGENASE ACTIVITY FOR CANCER TREATMENT. JRNL REF ARCH.BIOCHEM.BIOPHYS. V. 671 130 2019 JRNL REFN ESSN 1096-0384 JRNL PMID 31276659 JRNL DOI 10.1016/J.ABB.2019.07.002 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 30597 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1583 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2255 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE SET COUNT : 123 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3490 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 132 REMARK 3 SOLVENT ATOMS : 313 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.96000 REMARK 3 B22 (A**2) : -1.66000 REMARK 3 B33 (A**2) : 1.39000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.26000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.198 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.174 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.157 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.048 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3725 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3549 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5063 ; 1.599 ; 2.009 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8140 ; 1.094 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 426 ; 5.632 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 180 ;37.316 ;23.889 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 635 ;15.451 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;17.941 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 528 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4186 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 908 ; 0.004 ; 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): 1710 ; 2.200 ; 2.285 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1709 ; 2.184 ; 2.283 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2134 ; 3.408 ; 3.416 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2135 ; 3.413 ; 3.418 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2015 ; 3.077 ; 2.626 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2016 ; 3.076 ; 2.627 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2930 ; 4.956 ; 3.787 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4846 ; 7.677 ;19.517 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4847 ; 7.676 ;19.521 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6EHA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-SEP-17. REMARK 100 THE DEPOSITION ID IS D_1200006613. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-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 : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.918409 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32213 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 42.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : 0.11450 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.2800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.56260 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.650 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.08 M AMSO4 0.9 % (V/V) 1,6 REMARK 280 -HEXANEDIOL 0.1 M HEPES PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 27.28300 REMARK 290 SMTRY3 2 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 MET A 1 REMARK 465 GLU A 2 REMARK 465 ARG A 3 REMARK 465 PRO A 4 REMARK 465 GLN A 5 REMARK 465 PRO A 6 REMARK 465 ASP A 7 REMARK 465 SER A 8 REMARK 465 MET A 9 REMARK 465 ASP A 224 REMARK 465 THR A 225 REMARK 465 LYS A 226 REMARK 465 ASP A 227 REMARK 465 GLN A 228 REMARK 465 SER A 229 REMARK 465 PRO A 230 REMARK 465 SER A 231 REMARK 465 ARG A 232 REMARK 465 ALA A 233 REMARK 465 PRO A 234 REMARK 465 GLY A 235 REMARK 465 LEU A 236 REMARK 465 ARG A 237 REMARK 465 GLN A 238 REMARK 465 ARG A 239 REMARK 465 ALA A 240 REMARK 465 SER A 241 REMARK 465 ASN A 242 REMARK 465 LYS A 243 REMARK 465 VAL A 244 REMARK 465 GLN A 245 REMARK 465 ASP A 246 REMARK 465 SER A 247 REMARK 465 ALA A 248 REMARK 465 PRO A 249 REMARK 465 VAL A 250 REMARK 465 GLU A 251 REMARK 465 THR A 252 REMARK 465 PRO A 253 REMARK 465 ARG A 254 REMARK 465 GLY A 255 REMARK 465 LYS A 256 REMARK 465 PRO A 257 REMARK 465 PRO A 258 REMARK 465 LEU A 259 REMARK 465 ASN A 260 REMARK 465 THR A 261 REMARK 465 ARG A 262 REMARK 465 SER A 263 REMARK 465 GLN A 264 REMARK 465 ALA A 265 REMARK 465 PRO A 266 REMARK 465 LEU A 267 REMARK 465 LEU A 268 REMARK 465 ARG A 269 REMARK 465 TRP A 270 REMARK 465 VAL A 271 REMARK 465 LEU A 272 REMARK 465 THR A 273 REMARK 465 LEU A 274 REMARK 465 SER A 275 REMARK 465 PHE A 276 REMARK 465 LEU A 277 REMARK 465 VAL A 278 REMARK 465 ALA A 279 REMARK 465 THR A 280 REMARK 465 VAL A 281 REMARK 465 ALA A 282 REMARK 465 VAL A 283 REMARK 465 GLY A 284 REMARK 465 LEU A 285 REMARK 465 TYR A 286 REMARK 465 ALA A 287 REMARK 465 MET A 288 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 ARG B 3 REMARK 465 PRO B 4 REMARK 465 GLN B 5 REMARK 465 PRO B 6 REMARK 465 ASP B 7 REMARK 465 SER B 8 REMARK 465 MET B 9 REMARK 465 ASP B 224 REMARK 465 THR B 225 REMARK 465 LYS B 226 REMARK 465 ASP B 227 REMARK 465 GLN B 228 REMARK 465 SER B 229 REMARK 465 PRO B 230 REMARK 465 SER B 231 REMARK 465 ARG B 232 REMARK 465 ALA B 233 REMARK 465 PRO B 234 REMARK 465 GLY B 235 REMARK 465 LEU B 236 REMARK 465 ARG B 237 REMARK 465 GLN B 238 REMARK 465 ARG B 239 REMARK 465 ALA B 240 REMARK 465 SER B 241 REMARK 465 ASN B 242 REMARK 465 LYS B 243 REMARK 465 VAL B 244 REMARK 465 GLN B 245 REMARK 465 ASP B 246 REMARK 465 SER B 247 REMARK 465 ALA B 248 REMARK 465 PRO B 249 REMARK 465 VAL B 250 REMARK 465 GLU B 251 REMARK 465 THR B 252 REMARK 465 PRO B 253 REMARK 465 ARG B 254 REMARK 465 GLY B 255 REMARK 465 LYS B 256 REMARK 465 PRO B 257 REMARK 465 PRO B 258 REMARK 465 LEU B 259 REMARK 465 ASN B 260 REMARK 465 THR B 261 REMARK 465 ARG B 262 REMARK 465 SER B 263 REMARK 465 GLN B 264 REMARK 465 ALA B 265 REMARK 465 PRO B 266 REMARK 465 LEU B 267 REMARK 465 LEU B 268 REMARK 465 ARG B 269 REMARK 465 TRP B 270 REMARK 465 VAL B 271 REMARK 465 LEU B 272 REMARK 465 THR B 273 REMARK 465 LEU B 274 REMARK 465 SER B 275 REMARK 465 PHE B 276 REMARK 465 LEU B 277 REMARK 465 VAL B 278 REMARK 465 ALA B 279 REMARK 465 THR B 280 REMARK 465 VAL B 281 REMARK 465 ALA B 282 REMARK 465 VAL B 283 REMARK 465 GLY B 284 REMARK 465 LEU B 285 REMARK 465 TYR B 286 REMARK 465 ALA B 287 REMARK 465 MET B 288 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 VAL B 50 CB CG1 CG2 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 CGD HEM A 301 O HOH A 401 0.57 REMARK 500 O2D HEM A 301 O HOH A 401 0.77 REMARK 500 O1D HEM A 301 O HOH A 401 1.28 REMARK 500 FE HEM A 301 C15 B5B A 302 1.96 REMARK 500 NZ LYS A 18 O2D HEM A 301 2.00 REMARK 500 CBD HEM A 301 O HOH A 401 2.05 REMARK 500 O HOH A 481 O HOH A 515 2.15 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 GLU B 82 CD GLU B 82 OE1 0.075 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 B 85 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG B 85 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 ARG B 117 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 136 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 ARG B 136 NE - CZ - NH2 ANGL. DEV. = -4.0 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 PHE A 74 -35.88 -133.73 REMARK 500 PHE B 79 71.61 -119.42 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 HEM A 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 B5B A 302 N16 REMARK 620 2 HEM A 301 NA 111.9 REMARK 620 3 HEM A 301 NB 104.7 88.1 REMARK 620 4 HEM A 301 NC 71.6 173.6 85.7 REMARK 620 5 HEM A 301 ND 74.5 92.4 179.1 93.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 301 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 B5B B 302 N16 REMARK 620 2 HEM B 301 NA 87.0 REMARK 620 3 HEM B 301 NB 88.6 88.6 REMARK 620 4 HEM B 301 NC 95.7 177.1 90.3 REMARK 620 5 HEM B 301 ND 92.1 89.4 177.8 91.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B5B A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B5B B 302 DBREF 6EHA A 1 288 UNP P09601 HMOX1_HUMAN 1 288 DBREF 6EHA B 1 288 UNP P09601 HMOX1_HUMAN 1 288 SEQRES 1 A 288 MET GLU ARG PRO GLN PRO ASP SER MET PRO GLN ASP LEU SEQRES 2 A 288 SER GLU ALA LEU LYS GLU ALA THR LYS GLU VAL HIS THR SEQRES 3 A 288 GLN ALA GLU ASN ALA GLU PHE MET ARG ASN PHE GLN LYS SEQRES 4 A 288 GLY GLN VAL THR ARG ASP GLY PHE LYS LEU VAL MET ALA SEQRES 5 A 288 SER LEU TYR HIS ILE TYR VAL ALA LEU GLU GLU GLU ILE SEQRES 6 A 288 GLU ARG ASN LYS GLU SER PRO VAL PHE ALA PRO VAL TYR SEQRES 7 A 288 PHE PRO GLU GLU LEU HIS ARG LYS ALA ALA LEU GLU GLN SEQRES 8 A 288 ASP LEU ALA PHE TRP TYR GLY PRO ARG TRP GLN GLU VAL SEQRES 9 A 288 ILE PRO TYR THR PRO ALA MET GLN ARG TYR VAL LYS ARG SEQRES 10 A 288 LEU HIS GLU VAL GLY ARG THR GLU PRO GLU LEU LEU VAL SEQRES 11 A 288 ALA HIS ALA TYR THR ARG TYR LEU GLY ASP LEU SER GLY SEQRES 12 A 288 GLY GLN VAL LEU LYS LYS ILE ALA GLN LYS ALA LEU ASP SEQRES 13 A 288 LEU PRO SER SER GLY GLU GLY LEU ALA PHE PHE THR PHE SEQRES 14 A 288 PRO ASN ILE ALA SER ALA THR LYS PHE LYS GLN LEU TYR SEQRES 15 A 288 ARG SER ARG MET ASN SER LEU GLU MET THR PRO ALA VAL SEQRES 16 A 288 ARG GLN ARG VAL ILE GLU GLU ALA LYS THR ALA PHE LEU SEQRES 17 A 288 LEU ASN ILE GLN LEU PHE GLU GLU LEU GLN GLU LEU LEU SEQRES 18 A 288 THR HIS ASP THR LYS ASP GLN SER PRO SER ARG ALA PRO SEQRES 19 A 288 GLY LEU ARG GLN ARG ALA SER ASN LYS VAL GLN ASP SER SEQRES 20 A 288 ALA PRO VAL GLU THR PRO ARG GLY LYS PRO PRO LEU ASN SEQRES 21 A 288 THR ARG SER GLN ALA PRO LEU LEU ARG TRP VAL LEU THR SEQRES 22 A 288 LEU SER PHE LEU VAL ALA THR VAL ALA VAL GLY LEU TYR SEQRES 23 A 288 ALA MET SEQRES 1 B 288 MET GLU ARG PRO GLN PRO ASP SER MET PRO GLN ASP LEU SEQRES 2 B 288 SER GLU ALA LEU LYS GLU ALA THR LYS GLU VAL HIS THR SEQRES 3 B 288 GLN ALA GLU ASN ALA GLU PHE MET ARG ASN PHE GLN LYS SEQRES 4 B 288 GLY GLN VAL THR ARG ASP GLY PHE LYS LEU VAL MET ALA SEQRES 5 B 288 SER LEU TYR HIS ILE TYR VAL ALA LEU GLU GLU GLU ILE SEQRES 6 B 288 GLU ARG ASN LYS GLU SER PRO VAL PHE ALA PRO VAL TYR SEQRES 7 B 288 PHE PRO GLU GLU LEU HIS ARG LYS ALA ALA LEU GLU GLN SEQRES 8 B 288 ASP LEU ALA PHE TRP TYR GLY PRO ARG TRP GLN GLU VAL SEQRES 9 B 288 ILE PRO TYR THR PRO ALA MET GLN ARG TYR VAL LYS ARG SEQRES 10 B 288 LEU HIS GLU VAL GLY ARG THR GLU PRO GLU LEU LEU VAL SEQRES 11 B 288 ALA HIS ALA TYR THR ARG TYR LEU GLY ASP LEU SER GLY SEQRES 12 B 288 GLY GLN VAL LEU LYS LYS ILE ALA GLN LYS ALA LEU ASP SEQRES 13 B 288 LEU PRO SER SER GLY GLU GLY LEU ALA PHE PHE THR PHE SEQRES 14 B 288 PRO ASN ILE ALA SER ALA THR LYS PHE LYS GLN LEU TYR SEQRES 15 B 288 ARG SER ARG MET ASN SER LEU GLU MET THR PRO ALA VAL SEQRES 16 B 288 ARG GLN ARG VAL ILE GLU GLU ALA LYS THR ALA PHE LEU SEQRES 17 B 288 LEU ASN ILE GLN LEU PHE GLU GLU LEU GLN GLU LEU LEU SEQRES 18 B 288 THR HIS ASP THR LYS ASP GLN SER PRO SER ARG ALA PRO SEQRES 19 B 288 GLY LEU ARG GLN ARG ALA SER ASN LYS VAL GLN ASP SER SEQRES 20 B 288 ALA PRO VAL GLU THR PRO ARG GLY LYS PRO PRO LEU ASN SEQRES 21 B 288 THR ARG SER GLN ALA PRO LEU LEU ARG TRP VAL LEU THR SEQRES 22 B 288 LEU SER PHE LEU VAL ALA THR VAL ALA VAL GLY LEU TYR SEQRES 23 B 288 ALA MET HET HEM A 301 43 HET B5B A 302 23 HET HEM B 301 43 HET B5B B 302 23 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM B5B 1-(3-IMIDAZOL-1-YLPROPYL)-5-(2-METHYLPROPYL)-4-PHENYL- HETNAM 2 B5B IMIDAZOLE HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 B5B 2(C19 H24 N4) FORMUL 7 HOH *313(H2 O) HELIX 1 AA1 ASP A 12 ALA A 31 1 20 HELIX 2 AA2 ALA A 31 LYS A 39 1 9 HELIX 3 AA3 THR A 43 ASN A 68 1 26 HELIX 4 AA4 PHE A 74 TYR A 78 5 5 HELIX 5 AA5 PHE A 79 HIS A 84 1 6 HELIX 6 AA6 ARG A 85 GLY A 98 1 14 HELIX 7 AA7 ARG A 100 ILE A 105 1 6 HELIX 8 AA8 THR A 108 GLU A 125 1 18 HELIX 9 AA9 LEU A 128 ASP A 156 1 29 HELIX 10 AB1 LEU A 164 THR A 168 5 5 HELIX 11 AB2 SER A 174 LEU A 189 1 16 HELIX 12 AB3 THR A 192 LEU A 221 1 30 HELIX 13 AB4 ASP B 12 ALA B 31 1 20 HELIX 14 AB5 ALA B 31 LYS B 39 1 9 HELIX 15 AB6 THR B 43 LYS B 69 1 27 HELIX 16 AB7 PHE B 74 TYR B 78 5 5 HELIX 17 AB8 PHE B 79 HIS B 84 1 6 HELIX 18 AB9 ARG B 85 GLY B 98 1 14 HELIX 19 AC1 ARG B 100 ILE B 105 1 6 HELIX 20 AC2 THR B 108 GLU B 125 1 18 HELIX 21 AC3 LEU B 128 ASP B 156 1 29 HELIX 22 AC4 LEU B 164 THR B 168 5 5 HELIX 23 AC5 SER B 174 ASN B 187 1 14 HELIX 24 AC6 THR B 192 HIS B 223 1 32 LINK FE HEM A 301 N16 B5B A 302 1555 1555 2.76 LINK FE HEM B 301 N16 B5B B 302 1555 1555 2.06 SITE 1 AC1 16 LYS A 18 HIS A 25 ALA A 28 MET A 34 SITE 2 AC1 16 GLN A 38 TYR A 134 THR A 135 GLY A 139 SITE 3 AC1 16 ARG A 183 PHE A 207 ASN A 210 PHE A 214 SITE 4 AC1 16 B5B A 302 HOH A 401 HOH A 428 HOH A 453 SITE 1 AC2 9 PHE A 37 VAL A 50 ARG A 136 GLY A 139 SITE 2 AC2 9 GLY A 143 LEU A 147 ASN A 210 PHE A 214 SITE 3 AC2 9 HEM A 301 SITE 1 AC3 15 LYS B 18 HIS B 25 GLU B 29 GLN B 38 SITE 2 AC3 15 TYR B 134 THR B 135 GLY B 139 ARG B 183 SITE 3 AC3 15 PHE B 207 ASN B 210 PHE B 214 B5B B 302 SITE 4 AC3 15 HOH B 447 HOH B 484 HOH B 491 SITE 1 AC4 11 MET B 34 LEU B 54 ARG B 136 GLY B 139 SITE 2 AC4 11 ASP B 140 GLY B 143 LEU B 147 ASN B 210 SITE 3 AC4 11 LEU B 213 PHE B 214 HEM B 301 CRYST1 61.411 54.566 72.540 90.00 99.54 90.00 P 1 21 1 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 0.016284 0.000000 0.002738 0.00000 SCALE2 0.000000 0.018326 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013979 0.00000