HEADER OXIDOREDUCTASE 26-AUG-04 1WOV TITLE CRYSTAL STRUCTURE OF HEME OXYGENASE-2 FROM SYNECHOCYSTIS SP. PCC 6803 TITLE 2 IN COMPLEX WITH HEME COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEME OXYGENASE 2; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.14.99.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNECHOCYSTIS SP. PCC 6803; SOURCE 3 ORGANISM_TAXID: 1148; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PMW-A KEYWDS HOMO DIMER, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SUGISHIMA,Y.HAGIWARA,X.ZHANG,T.YOSHIDA,C.T.MIGITA,K.FUKUYAMA REVDAT 4 25-OCT-23 1WOV 1 REMARK LINK REVDAT 3 21-DEC-16 1WOV 1 TITLE VERSN REVDAT 2 24-FEB-09 1WOV 1 VERSN REVDAT 1 22-MAR-05 1WOV 0 JRNL AUTH M.SUGISHIMA,Y.HAGIWARA,X.ZHANG,T.YOSHIDA,C.T.MIGITA, JRNL AUTH 2 K.FUKUYAMA JRNL TITL CRYSTAL STRUCTURE OF DIMERIC HEME OXYGENASE-2 FROM JRNL TITL 2 SYNECHOCYSTIS SP. PCC 6803 IN COMPLEX WITH HEME. JRNL REF BIOCHEMISTRY V. 44 4257 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 15766254 JRNL DOI 10.1021/BI0480483 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.19 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.3 REMARK 3 NUMBER OF REFLECTIONS : 50464 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2674 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3868 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2200 REMARK 3 BIN FREE R VALUE SET COUNT : 201 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3917 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 634 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.09 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.137 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.143 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.090 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.760 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4115 ; 0.024 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 3687 ; 0.021 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5608 ; 1.871 ; 2.033 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8565 ; 1.209 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 482 ; 7.515 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 605 ; 0.118 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4545 ; 0.034 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 809 ; 0.047 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 989 ; 0.284 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4379 ; 0.263 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2135 ; 0.092 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 442 ; 0.287 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.041 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 10 ; 0.213 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 48 ; 0.301 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 32 ; 0.338 ; 0.200 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): 2431 ; 2.142 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3923 ; 3.023 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1684 ; 4.746 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1685 ; 6.647 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 1WOV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1000023828. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.063 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53138 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1DVE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POTTASIUM SODIUM TARTRATE, POTTASIUM REMARK 280 PHOSPHATE, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 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 37.29250 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A DIMER IN THE ASYMMETRIC UNIT. 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: 5500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.0 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 MET A 1 REMARK 465 ALA A 236 REMARK 465 ARG A 237 REMARK 465 SER A 238 REMARK 465 THR A 239 REMARK 465 ALA A 240 REMARK 465 MET B 1 REMARK 465 ALA B 236 REMARK 465 ARG B 237 REMARK 465 SER B 238 REMARK 465 THR B 239 REMARK 465 ALA B 240 REMARK 465 GLY B 241 REMARK 465 HIS B 242 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 GLU B 235 CG CD OE1 OE2 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 CG PHE B 28 O HOH B 608 1.69 REMARK 500 CD2 PHE A 28 O HOH A 596 1.89 REMARK 500 CD2 PHE B 28 O HOH B 608 1.90 REMARK 500 CG PHE A 28 O HOH A 596 1.91 REMARK 500 O HOH A 500 O HOH A 623 1.95 REMARK 500 O HOH A 499 O HOH A 573 1.95 REMARK 500 OH TYR B 46 O HOH B 589 1.96 REMARK 500 O HOH B 497 O HOH B 557 1.96 REMARK 500 O HOH B 609 O HOH B 610 1.97 REMARK 500 O HOH A 440 O HOH A 569 1.99 REMARK 500 O HOH A 519 O HOH A 603 2.00 REMARK 500 O HOH A 502 O HOH A 601 2.00 REMARK 500 O HOH B 526 O HOH B 595 2.01 REMARK 500 O HOH B 397 O HOH B 582 2.01 REMARK 500 O HOH B 409 O HOH B 593 2.04 REMARK 500 O HOH B 439 O HOH B 586 2.04 REMARK 500 CD1 PHE B 28 O HOH B 608 2.04 REMARK 500 O HOH A 459 O HOH A 616 2.06 REMARK 500 O HOH B 470 O HOH B 581 2.06 REMARK 500 O HOH A 567 O HOH A 607 2.07 REMARK 500 O HOH A 497 O HOH A 602 2.08 REMARK 500 O HOH B 467 O HOH B 515 2.10 REMARK 500 O HOH B 430 O HOH B 602 2.10 REMARK 500 O HOH B 430 O HOH B 584 2.10 REMARK 500 NZ LYS B 102 O HOH B 563 2.11 REMARK 500 CD ARG A 75 O HOH A 545 2.11 REMARK 500 O HOH A 619 O HOH A 620 2.12 REMARK 500 OE1 GLU A 151 O HOH A 471 2.12 REMARK 500 OD1 ASP A 61 O HOH A 408 2.12 REMARK 500 O HOH A 436 O HOH A 587 2.12 REMARK 500 O HOH A 476 O HOH A 556 2.13 REMARK 500 OE2 GLU B 115 O HOH B 587 2.13 REMARK 500 O HOH A 387 O HOH A 616 2.13 REMARK 500 O HOH B 532 O HOH B 593 2.13 REMARK 500 O HOH B 570 O HOH B 605 2.14 REMARK 500 O HOH A 551 O HOH A 607 2.14 REMARK 500 OD2 ASP A 77 O HOH A 572 2.14 REMARK 500 O HOH B 447 O HOH B 522 2.15 REMARK 500 OD1 ASP B 77 O HOH B 579 2.15 REMARK 500 O HOH A 451 O HOH A 590 2.15 REMARK 500 SD MET B 206 O HOH B 360 2.16 REMARK 500 O HOH A 571 O HOH A 604 2.16 REMARK 500 OE2 GLU A 235 O HOH A 456 2.17 REMARK 500 O HOH B 496 O HOH B 596 2.18 REMARK 500 CE2 PHE A 28 O HOH A 596 2.18 REMARK 500 O HOH A 489 O HOH A 534 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 393 O HOH A 598 2656 1.72 REMARK 500 O HOH A 513 O HOH B 593 2656 1.99 REMARK 500 O HOH A 407 O HOH A 435 2656 2.07 REMARK 500 O HOH B 415 O HOH B 588 2645 2.08 REMARK 500 O HOH B 533 O HOH B 599 2645 2.09 REMARK 500 O HOH A 504 O HOH A 518 2656 2.16 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 HIS B 220 CE1 HIS B 220 NE2 0.132 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 GLU A 149 CB - CA - C ANGL. DEV. = 15.1 DEGREES REMARK 500 ASP A 176 CB - CG - OD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP A 229 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP B 77 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 106 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 HIS B 220 ND1 - CE1 - NE2 ANGL. DEV. = -15.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 GLU A 115 66.86 -162.00 REMARK 500 SER A 132 -98.78 -121.68 REMARK 500 HIS A 242 -62.28 -105.25 REMARK 500 GLU B 115 63.40 -156.29 REMARK 500 SER B 132 -101.67 -121.21 REMARK 500 GLU B 149 121.66 -37.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 241 HIS A 242 -131.17 REMARK 500 VAL A 248 GLY A 249 111.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 24 0.06 SIDE CHAIN REMARK 500 HIS A 122 0.08 SIDE CHAIN REMARK 500 TYR B 10 0.06 SIDE CHAIN REMARK 500 HIS B 16 0.16 SIDE CHAIN REMARK 500 HIS B 220 0.21 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 PRO A 71 -10.32 REMARK 500 GLU A 149 12.37 REMARK 500 GLY A 241 10.03 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 300 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 16 NE2 REMARK 620 2 HEM A 300 NA 92.4 REMARK 620 3 HEM A 300 NB 93.8 92.2 REMARK 620 4 HEM A 300 NC 88.1 177.6 90.1 REMARK 620 5 HEM A 300 ND 91.6 87.1 174.6 90.5 REMARK 620 6 HOH A 594 O 178.0 88.9 87.6 90.5 87.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 300 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 16 NE2 REMARK 620 2 HEM B 300 NA 92.4 REMARK 620 3 HEM B 300 NB 87.4 88.4 REMARK 620 4 HEM B 300 NC 88.0 177.6 89.2 REMARK 620 5 HEM B 300 ND 92.6 89.1 177.5 93.3 REMARK 620 6 HOH B 585 O 178.4 86.4 91.4 93.1 88.5 REMARK 620 N 1 2 3 4 5 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 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WOW RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH HEME IN FERROUS FORM REMARK 900 RELATED ID: 1WOX RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH HEME AND NO DBREF 1WOV A 1 250 UNP P74133 HO2_SYNY3 1 250 DBREF 1WOV B 1 250 UNP P74133 HO2_SYNY3 1 250 SEQRES 1 A 250 MET THR ASN LEU ALA GLN LYS LEU ARG TYR GLY THR GLN SEQRES 2 A 250 GLN SER HIS THR LEU ALA GLU ASN THR ALA TYR MET LYS SEQRES 3 A 250 CYS PHE LEU LYS GLY ILE VAL GLU ARG GLU PRO PHE ARG SEQRES 4 A 250 GLN LEU LEU ALA ASN LEU TYR TYR LEU TYR SER ALA LEU SEQRES 5 A 250 GLU ALA ALA LEU ARG GLN HIS ARG ASP ASN GLU ILE ILE SEQRES 6 A 250 SER ALA ILE TYR PHE PRO GLU LEU ASN ARG THR ASP LYS SEQRES 7 A 250 LEU ALA GLU ASP LEU THR TYR TYR TYR GLY PRO ASN TRP SEQRES 8 A 250 GLN GLN ILE ILE GLN PRO THR PRO CYS ALA LYS ILE TYR SEQRES 9 A 250 VAL ASP ARG LEU LYS THR ILE ALA ALA SER GLU PRO GLU SEQRES 10 A 250 LEU LEU ILE ALA HIS CYS TYR THR ARG TYR LEU GLY ASP SEQRES 11 A 250 LEU SER GLY GLY GLN SER LEU LYS ASN ILE ILE ARG SER SEQRES 12 A 250 ALA LEU GLN LEU PRO GLU GLY GLU GLY THR ALA MET TYR SEQRES 13 A 250 GLU PHE ASP SER LEU PRO THR PRO GLY ASP ARG ARG GLN SEQRES 14 A 250 PHE LYS GLU ILE TYR ARG ASP VAL LEU ASN SER LEU PRO SEQRES 15 A 250 LEU ASP GLU ALA THR ILE ASN ARG ILE VAL GLU GLU ALA SEQRES 16 A 250 ASN TYR ALA PHE SER LEU ASN ARG GLU VAL MET HIS ASP SEQRES 17 A 250 LEU GLU ASP LEU ILE LYS ALA ALA ILE GLY GLU HIS THR SEQRES 18 A 250 PHE ASP LEU LEU THR ARG GLN ASP ARG PRO GLY SER THR SEQRES 19 A 250 GLU ALA ARG SER THR ALA GLY HIS PRO ILE THR LEU MET SEQRES 20 A 250 VAL GLY GLU SEQRES 1 B 250 MET THR ASN LEU ALA GLN LYS LEU ARG TYR GLY THR GLN SEQRES 2 B 250 GLN SER HIS THR LEU ALA GLU ASN THR ALA TYR MET LYS SEQRES 3 B 250 CYS PHE LEU LYS GLY ILE VAL GLU ARG GLU PRO PHE ARG SEQRES 4 B 250 GLN LEU LEU ALA ASN LEU TYR TYR LEU TYR SER ALA LEU SEQRES 5 B 250 GLU ALA ALA LEU ARG GLN HIS ARG ASP ASN GLU ILE ILE SEQRES 6 B 250 SER ALA ILE TYR PHE PRO GLU LEU ASN ARG THR ASP LYS SEQRES 7 B 250 LEU ALA GLU ASP LEU THR TYR TYR TYR GLY PRO ASN TRP SEQRES 8 B 250 GLN GLN ILE ILE GLN PRO THR PRO CYS ALA LYS ILE TYR SEQRES 9 B 250 VAL ASP ARG LEU LYS THR ILE ALA ALA SER GLU PRO GLU SEQRES 10 B 250 LEU LEU ILE ALA HIS CYS TYR THR ARG TYR LEU GLY ASP SEQRES 11 B 250 LEU SER GLY GLY GLN SER LEU LYS ASN ILE ILE ARG SER SEQRES 12 B 250 ALA LEU GLN LEU PRO GLU GLY GLU GLY THR ALA MET TYR SEQRES 13 B 250 GLU PHE ASP SER LEU PRO THR PRO GLY ASP ARG ARG GLN SEQRES 14 B 250 PHE LYS GLU ILE TYR ARG ASP VAL LEU ASN SER LEU PRO SEQRES 15 B 250 LEU ASP GLU ALA THR ILE ASN ARG ILE VAL GLU GLU ALA SEQRES 16 B 250 ASN TYR ALA PHE SER LEU ASN ARG GLU VAL MET HIS ASP SEQRES 17 B 250 LEU GLU ASP LEU ILE LYS ALA ALA ILE GLY GLU HIS THR SEQRES 18 B 250 PHE ASP LEU LEU THR ARG GLN ASP ARG PRO GLY SER THR SEQRES 19 B 250 GLU ALA ARG SER THR ALA GLY HIS PRO ILE THR LEU MET SEQRES 20 B 250 VAL GLY GLU HET HEM A 300 43 HET HEM B 300 43 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 5 HOH *634(H2 O) HELIX 1 1 ASN A 3 THR A 12 1 10 HELIX 2 2 THR A 12 ASN A 21 1 10 HELIX 3 3 THR A 22 GLY A 31 1 10 HELIX 4 4 GLU A 34 HIS A 59 1 26 HELIX 5 5 ASN A 62 TYR A 69 1 8 HELIX 6 6 PHE A 70 ASN A 74 5 5 HELIX 7 7 ARG A 75 GLY A 88 1 14 HELIX 8 8 ASN A 90 ILE A 95 1 6 HELIX 9 9 THR A 98 GLU A 115 1 18 HELIX 10 10 LEU A 118 LEU A 131 1 14 HELIX 11 11 SER A 132 LEU A 145 1 14 HELIX 12 12 THR A 153 GLU A 157 5 5 HELIX 13 13 THR A 163 LEU A 181 1 19 HELIX 14 14 ASP A 184 ASP A 208 1 25 HELIX 15 15 LEU A 209 GLY A 218 1 10 HELIX 16 16 GLY A 218 ARG A 227 1 10 HELIX 17 17 ASN B 3 THR B 12 1 10 HELIX 18 18 THR B 12 ASN B 21 1 10 HELIX 19 19 THR B 22 LYS B 30 1 9 HELIX 20 20 GLU B 34 HIS B 59 1 26 HELIX 21 21 ASN B 62 TYR B 69 1 8 HELIX 22 22 PHE B 70 ASN B 74 5 5 HELIX 23 23 ARG B 75 GLY B 88 1 14 HELIX 24 24 ASN B 90 ILE B 94 5 5 HELIX 25 25 THR B 98 GLU B 115 1 18 HELIX 26 26 LEU B 118 LEU B 131 1 14 HELIX 27 27 SER B 132 GLN B 146 1 15 HELIX 28 28 THR B 153 GLU B 157 5 5 HELIX 29 29 THR B 163 LEU B 181 1 19 HELIX 30 30 ASP B 184 ASP B 208 1 25 HELIX 31 31 LEU B 209 GLY B 218 1 10 HELIX 32 32 GLY B 218 ARG B 227 1 10 SHEET 1 A 2 PRO A 243 MET A 247 0 SHEET 2 A 2 ILE B 244 VAL B 248 -1 O ILE B 244 N LEU A 246 LINK NE2 HIS A 16 FE HEM A 300 1555 1555 1.95 LINK FE HEM A 300 O HOH A 594 1555 1555 2.10 LINK NE2 HIS B 16 FE HEM B 300 1555 1555 2.04 LINK FE HEM B 300 O HOH B 585 1555 1555 1.93 SITE 1 AC1 19 ARG A 9 HIS A 16 GLU A 20 LEU A 29 SITE 2 AC1 19 TYR A 124 THR A 125 GLY A 129 SER A 132 SITE 3 AC1 19 GLY A 133 ARG A 175 PHE A 199 ASN A 202 SITE 4 AC1 19 ARG A 230 GLY A 241 ILE A 244 HOH A 359 SITE 5 AC1 19 HOH A 527 HOH A 594 HOH A 608 SITE 1 AC2 16 ARG B 9 HIS B 16 GLU B 20 LEU B 29 SITE 2 AC2 16 TYR B 124 THR B 125 GLY B 129 SER B 132 SITE 3 AC2 16 GLY B 133 LYS B 171 ARG B 175 PHE B 199 SITE 4 AC2 16 ASN B 202 ARG B 230 HOH B 384 HOH B 585 CRYST1 58.163 74.585 72.661 90.00 108.15 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 0.017193 0.000000 0.005636 0.00000 SCALE2 0.000000 0.013408 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014483 0.00000