HEADER OXIDOREDUCTASE 17-SEP-24 9GT8 TITLE DTPAA CHIP EXPERIMENT, CRISTALLINA, X,Y SPACING 100,100 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEFERROCHELATASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PEROXIDASE EFEB; COMPND 5 EC: 1.11.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES LIVIDANS 1326; SOURCE 3 ORGANISM_TAXID: 1200984; SOURCE 4 GENE: SLI_2602; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PEROXIDASE, RADIATION DAMAGE, SERIAL CRYSTALLOGRAPHY, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR A.GOREL,I.SCHLICHTING REVDAT 1 29-OCT-25 9GT8 0 JRNL AUTH A.GOREL,I.SCHLICHTING JRNL TITL RADIATION DAMAGE IN SOS CHIP EXPERIMENTS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 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) : 1.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 97505 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5282 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) : 1.54 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7207 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.85 REMARK 3 BIN R VALUE (WORKING SET) : 0.2480 REMARK 3 BIN FREE R VALUE SET COUNT : 365 REMARK 3 BIN FREE R VALUE : 0.2790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5492 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 696 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.03000 REMARK 3 B22 (A**2) : -0.59000 REMARK 3 B33 (A**2) : 0.08000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.96000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.078 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.077 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.499 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5807 ; 0.011 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 5321 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7936 ; 1.852 ; 1.835 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12178 ; 0.644 ; 1.776 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 742 ; 6.560 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 60 ; 7.756 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 820 ;11.834 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 832 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7263 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1465 ; 0.005 ; 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): 2926 ; 1.605 ; 1.511 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2925 ; 1.603 ; 1.510 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3661 ; 2.368 ; 2.707 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3662 ; 2.369 ; 2.708 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2881 ; 2.629 ; 1.775 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2879 ; 2.630 ; 1.776 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4268 ; 4.062 ; 3.116 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6537 ; 5.823 ;17.910 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6433 ; 5.658 ;16.770 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 : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 9GT8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1292141732. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUN-23 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : FREE ELECTRON LASER REMARK 200 BEAMLINE : ESC REMARK 200 X-RAY GENERATOR MODEL : SWISSFEL ARAMIS BEAMLINE ESC REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.030 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI JUNGFRAU 8M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTFEL REMARK 200 DATA SCALING SOFTWARE : CRYSTFEL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 102828 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.540 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 638.0 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.54 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 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) : 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 6K, HEPES PH 7.0, BATCH MODE, 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 34.10000 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 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 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 ALA A 417 REMARK 465 GLY B 55 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 134 CE NZ REMARK 470 LYS A 167 CG CD CE NZ REMARK 470 ARG A 175 CD NE CZ NH1 NH2 REMARK 470 LYS A 228 CE NZ REMARK 470 LYS A 249 CD CE NZ REMARK 470 ARG A 254 CZ NH1 NH2 REMARK 470 LYS A 261 CD CE NZ REMARK 470 LYS A 319 CD CE NZ REMARK 470 LYS B 134 CE NZ REMARK 470 LYS B 167 CD CE NZ REMARK 470 ARG B 175 CD NE CZ NH1 NH2 REMARK 470 LYS B 220 CG CD CE NZ REMARK 470 LYS B 228 CD CE NZ REMARK 470 LYS B 249 CD CE NZ REMARK 470 LYS B 261 CD CE NZ REMARK 470 LYS B 311 CD CE NZ REMARK 470 LEU B 354 CG CD1 CD2 REMARK 470 ALA B 417 CB 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 OD1 ASP A 171 O HOH A 601 1.62 REMARK 500 O HOH B 607 O HOH B 735 1.66 REMARK 500 OD1 ASP B 250 O HOH B 601 1.96 REMARK 500 NH2 ARG B 104 O GLY B 112 2.00 REMARK 500 OD2 ASP B 250 O HOH B 602 2.06 REMARK 500 NH2 ARG A 151 O HOH A 602 2.11 REMARK 500 OE2 GLU B 86 O HOH B 603 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 879 O HOH B 790 2646 1.92 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 251 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 356 CD - NE - CZ ANGL. DEV. = 13.4 DEGREES REMARK 500 ARG A 356 NE - CZ - NH1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ARG A 356 NE - CZ - NH2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG B 103 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG B 203 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG B 251 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 251 NE - CZ - NH2 ANGL. DEV. = -4.2 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 ILE A 68 -72.84 -117.28 REMARK 500 ARG A 242 79.07 -105.12 REMARK 500 ASN A 243 -155.72 -115.55 REMARK 500 ARG A 343 38.43 -146.75 REMARK 500 ASP A 349 59.64 -114.01 REMARK 500 ARG B 343 43.81 -143.33 REMARK 500 PRO B 402 170.87 -57.00 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 ARG A 242 0.12 SIDE CHAIN REMARK 500 ARG B 242 0.11 SIDE CHAIN REMARK 500 ARG B 313 0.08 SIDE CHAIN 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 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 326 NE2 REMARK 620 2 HEM A 501 NA 91.1 REMARK 620 3 HEM A 501 NB 91.3 85.8 REMARK 620 4 HEM A 501 NC 95.7 173.0 92.5 REMARK 620 5 HEM A 501 ND 95.9 94.5 172.8 86.3 REMARK 620 6 HOH A 700 O 169.5 81.0 81.3 92.0 91.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 326 NE2 REMARK 620 2 HEM B 501 NA 92.9 REMARK 620 3 HEM B 501 NB 91.1 88.5 REMARK 620 4 HEM B 501 NC 95.8 171.3 90.5 REMARK 620 5 HEM B 501 ND 98.8 90.6 170.0 88.9 REMARK 620 6 HOH B 735 O 168.9 82.5 78.7 88.8 91.4 REMARK 620 N 1 2 3 4 5 DBREF1 9GT8 A 55 417 UNP A0A7U9DT46_STRLI DBREF2 9GT8 A A0A7U9DT46 55 417 DBREF1 9GT8 B 55 417 UNP A0A7U9DT46_STRLI DBREF2 9GT8 B A0A7U9DT46 55 417 SEQADV 9GT8 ALA A 417 UNP A0A7U9DT4 GLY 417 CONFLICT SEQADV 9GT8 ALA B 417 UNP A0A7U9DT4 GLY 417 CONFLICT SEQRES 1 A 363 GLY SER ALA VAL PRO PHE HIS GLY ALA HIS GLN ALA GLY SEQRES 2 A 363 ILE ALA THR PRO VAL GLN ASP ARG LEU HIS PHE ALA ALA SEQRES 3 A 363 PHE ASP VAL THR THR GLU ASP ARG ALA ALA PHE VAL ALA SEQRES 4 A 363 LEU LEU LYS GLU TRP THR ALA ALA ALA ARG ARG LEU THR SEQRES 5 A 363 ALA GLY HIS ALA VAL GLY GLU GLY ALA TYR GLY GLY LEU SEQRES 6 A 363 PRO GLU ALA PRO PRO ASP ASP THR GLY GLU ALA LEU GLY SEQRES 7 A 363 LEU LYS PRO SER ARG LEU THR LEU THR ILE GLY PHE GLY SEQRES 8 A 363 PRO SER LEU PHE THR ARG PHE GLY LEU ALA ASP LEU ARG SEQRES 9 A 363 PRO GLU ALA LEU ALA ASP LEU PRO LYS PHE PRO GLY ASP SEQRES 10 A 363 ASN LEU ASP ARG ALA ARG SER GLY GLY ASP LEU CYS VAL SEQRES 11 A 363 GLN ALA CYS ALA ASP ASP PRO GLN VAL ALA VAL HIS ALA SEQRES 12 A 363 ILE ARG ASN LEU ALA ARG ILE GLY PHE GLY LYS VAL VAL SEQRES 13 A 363 VAL ARG TRP SER GLN LEU GLY PHE GLY LYS THR SER SER SEQRES 14 A 363 THR THR PRO ASP LYS GLN THR PRO ARG ASN LEU LEU GLY SEQRES 15 A 363 PHE LYS ASP GLY THR ARG ASN ILE ALA GLY THR GLU LYS SEQRES 16 A 363 ASP ARG LEU ASP ARG PHE VAL TRP ALA ALA GLU LYS ASP SEQRES 17 A 363 GLY THR PRO TRP MET THR GLY GLY SER TYR LEU VAL ALA SEQRES 18 A 363 ARG ARG ILE ARG MET HIS ILE GLU THR TRP ASP ARG ALA SEQRES 19 A 363 SER LEU GLN GLU GLN GLU ASP VAL PHE GLY ARG ASP LYS SEQRES 20 A 363 GLY GLU GLY ALA PRO VAL GLY LYS ALA LYS GLU ARG ASP SEQRES 21 A 363 GLU PRO PHE LEU LYS ALA MET LYS PRO ASP ALA HIS VAL SEQRES 22 A 363 ARG LEU ALA HIS PRO ASP SER ASN GLY GLY ALA THR LEU SEQRES 23 A 363 LEU ARG ARG GLY TYR SER PHE THR ASP GLY THR ASP GLY SEQRES 24 A 363 LEU GLY ARG LEU ASP ALA GLY LEU PHE PHE LEU ALA TYR SEQRES 25 A 363 GLN ARG ASP ILE ARG THR GLY PHE VAL PRO VAL GLN ARG SEQRES 26 A 363 ASN LEU ALA THR ASP ALA LEU ASN GLU TYR ILE GLN HIS SEQRES 27 A 363 VAL GLY SER ALA VAL PHE ALA VAL PRO PRO GLY VAL ARG SEQRES 28 A 363 ASP ALA ASP ASP TRP TRP GLY SER THR LEU PHE ALA SEQRES 1 B 363 GLY SER ALA VAL PRO PHE HIS GLY ALA HIS GLN ALA GLY SEQRES 2 B 363 ILE ALA THR PRO VAL GLN ASP ARG LEU HIS PHE ALA ALA SEQRES 3 B 363 PHE ASP VAL THR THR GLU ASP ARG ALA ALA PHE VAL ALA SEQRES 4 B 363 LEU LEU LYS GLU TRP THR ALA ALA ALA ARG ARG LEU THR SEQRES 5 B 363 ALA GLY HIS ALA VAL GLY GLU GLY ALA TYR GLY GLY LEU SEQRES 6 B 363 PRO GLU ALA PRO PRO ASP ASP THR GLY GLU ALA LEU GLY SEQRES 7 B 363 LEU LYS PRO SER ARG LEU THR LEU THR ILE GLY PHE GLY SEQRES 8 B 363 PRO SER LEU PHE THR ARG PHE GLY LEU ALA ASP LEU ARG SEQRES 9 B 363 PRO GLU ALA LEU ALA ASP LEU PRO LYS PHE PRO GLY ASP SEQRES 10 B 363 ASN LEU ASP ARG ALA ARG SER GLY GLY ASP LEU CYS VAL SEQRES 11 B 363 GLN ALA CYS ALA ASP ASP PRO GLN VAL ALA VAL HIS ALA SEQRES 12 B 363 ILE ARG ASN LEU ALA ARG ILE GLY PHE GLY LYS VAL VAL SEQRES 13 B 363 VAL ARG TRP SER GLN LEU GLY PHE GLY LYS THR SER SER SEQRES 14 B 363 THR THR PRO ASP LYS GLN THR PRO ARG ASN LEU LEU GLY SEQRES 15 B 363 PHE LYS ASP GLY THR ARG ASN ILE ALA GLY THR GLU LYS SEQRES 16 B 363 ASP ARG LEU ASP ARG PHE VAL TRP ALA ALA GLU LYS ASP SEQRES 17 B 363 GLY THR PRO TRP MET THR GLY GLY SER TYR LEU VAL ALA SEQRES 18 B 363 ARG ARG ILE ARG MET HIS ILE GLU THR TRP ASP ARG ALA SEQRES 19 B 363 SER LEU GLN GLU GLN GLU ASP VAL PHE GLY ARG ASP LYS SEQRES 20 B 363 GLY GLU GLY ALA PRO VAL GLY LYS ALA LYS GLU ARG ASP SEQRES 21 B 363 GLU PRO PHE LEU LYS ALA MET LYS PRO ASP ALA HIS VAL SEQRES 22 B 363 ARG LEU ALA HIS PRO ASP SER ASN GLY GLY ALA THR LEU SEQRES 23 B 363 LEU ARG ARG GLY TYR SER PHE THR ASP GLY THR ASP GLY SEQRES 24 B 363 LEU GLY ARG LEU ASP ALA GLY LEU PHE PHE LEU ALA TYR SEQRES 25 B 363 GLN ARG ASP ILE ARG THR GLY PHE VAL PRO VAL GLN ARG SEQRES 26 B 363 ASN LEU ALA THR ASP ALA LEU ASN GLU TYR ILE GLN HIS SEQRES 27 B 363 VAL GLY SER ALA VAL PHE ALA VAL PRO PRO GLY VAL ARG SEQRES 28 B 363 ASP ALA ASP ASP TRP TRP GLY SER THR LEU PHE ALA HET HEM A 501 43 HET HEM B 501 43 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 5 HOH *696(H2 O) HELIX 1 AA1 ASP A 87 ALA A 107 1 21 HELIX 2 AA2 PRO A 146 ARG A 151 5 6 HELIX 3 AA3 LEU A 154 ARG A 158 5 5 HELIX 4 AA4 ASP A 174 SER A 178 5 5 HELIX 5 AA5 ASP A 190 GLY A 205 1 16 HELIX 6 AA6 GLU A 248 VAL A 256 1 9 HELIX 7 AA7 ALA A 259 GLY A 263 5 5 HELIX 8 AA8 THR A 264 THR A 268 5 5 HELIX 9 AA9 HIS A 281 ARG A 287 1 7 HELIX 10 AB1 SER A 289 GLY A 298 1 10 HELIX 11 AB2 PHE A 317 MET A 321 5 5 HELIX 12 AB3 ALA A 325 HIS A 331 1 7 HELIX 13 AB4 PRO A 332 ASN A 335 5 4 HELIX 14 AB5 ASP A 369 THR A 372 5 4 HELIX 15 AB6 GLY A 373 LEU A 381 1 9 HELIX 16 AB7 ALA A 382 GLU A 388 5 7 HELIX 17 AB8 ASP B 87 ALA B 107 1 21 HELIX 18 AB9 PRO B 146 ARG B 151 5 6 HELIX 19 AC1 LEU B 154 ARG B 158 5 5 HELIX 20 AC2 ASP B 174 SER B 178 5 5 HELIX 21 AC3 ASP B 190 GLY B 205 1 16 HELIX 22 AC4 GLU B 248 VAL B 256 1 9 HELIX 23 AC5 ALA B 259 GLY B 263 5 5 HELIX 24 AC6 THR B 264 THR B 268 5 5 HELIX 25 AC7 HIS B 281 ASP B 286 1 6 HELIX 26 AC8 SER B 289 GLY B 298 1 10 HELIX 27 AC9 PHE B 317 MET B 321 5 5 HELIX 28 AD1 ALA B 325 HIS B 331 1 7 HELIX 29 AD2 PRO B 332 ASN B 335 5 4 HELIX 30 AD3 ASP B 369 THR B 372 5 4 HELIX 31 AD4 GLY B 373 LEU B 381 1 9 HELIX 32 AD5 ALA B 382 GLU B 388 5 7 HELIX 33 AD6 GLY B 412 ALA B 417 1 6 SHEET 1 AA1 4 THR A 139 PHE A 144 0 SHEET 2 AA1 4 LEU A 182 ALA A 188 -1 O GLN A 185 N THR A 141 SHEET 3 AA1 4 ARG A 75 VAL A 83 -1 N PHE A 81 O LEU A 182 SHEET 4 AA1 4 VAL A 209 GLY A 217 -1 O ARG A 212 N ALA A 80 SHEET 1 AA2 4 GLY A 219 LYS A 220 0 SHEET 2 AA2 4 TYR A 345 PHE A 347 -1 O SER A 346 N GLY A 219 SHEET 3 AA2 4 GLY A 360 GLN A 367 -1 O PHE A 362 N TYR A 345 SHEET 4 AA2 4 LEU A 341 ARG A 342 -1 N LEU A 341 O TYR A 366 SHEET 1 AA3 5 GLY A 219 LYS A 220 0 SHEET 2 AA3 5 TYR A 345 PHE A 347 -1 O SER A 346 N GLY A 219 SHEET 3 AA3 5 GLY A 360 GLN A 367 -1 O PHE A 362 N TYR A 345 SHEET 4 AA3 5 SER A 271 MET A 280 -1 N ARG A 276 O PHE A 363 SHEET 5 AA3 5 ILE A 390 VAL A 400 -1 O VAL A 400 N SER A 271 SHEET 1 AA4 4 THR B 139 PHE B 144 0 SHEET 2 AA4 4 LEU B 182 ALA B 188 -1 O GLN B 185 N THR B 141 SHEET 3 AA4 4 ARG B 75 VAL B 83 -1 N PHE B 81 O LEU B 182 SHEET 4 AA4 4 VAL B 209 PHE B 218 -1 O GLN B 215 N PHE B 78 SHEET 1 AA5 3 LEU B 341 ARG B 342 0 SHEET 2 AA5 3 LEU B 357 GLN B 367 -1 O TYR B 366 N LEU B 341 SHEET 3 AA5 3 TYR B 345 THR B 351 -1 N TYR B 345 O PHE B 362 SHEET 1 AA6 4 LEU B 341 ARG B 342 0 SHEET 2 AA6 4 LEU B 357 GLN B 367 -1 O TYR B 366 N LEU B 341 SHEET 3 AA6 4 SER B 271 MET B 280 -1 N MET B 280 O ALA B 359 SHEET 4 AA6 4 ILE B 390 VAL B 400 -1 O VAL B 400 N SER B 271 LINK NE2 HIS A 326 FE HEM A 501 1555 1555 2.15 LINK FE HEM A 501 O HOH A 700 1555 1555 2.45 LINK NE2 HIS B 326 FE HEM B 501 1555 1555 2.09 LINK FE HEM B 501 O HOH B 735 1555 1555 2.30 CRYST1 72.600 68.200 73.900 90.00 105.50 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 0.013774 0.000000 0.003820 0.00000 SCALE2 0.000000 0.014663 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014043 0.00000 CONECT 2091 5602 CONECT 4859 5645 CONECT 5560 5564 5591 CONECT 5561 5567 5574 CONECT 5562 5577 5581 CONECT 5563 5584 5588 CONECT 5564 5560 5565 5598 CONECT 5565 5564 5566 5569 CONECT 5566 5565 5567 5568 CONECT 5567 5561 5566 5598 CONECT 5568 5566 CONECT 5569 5565 5570 CONECT 5570 5569 5571 CONECT 5571 5570 5572 5573 CONECT 5572 5571 CONECT 5573 5571 CONECT 5574 5561 5575 5599 CONECT 5575 5574 5576 5578 CONECT 5576 5575 5577 5579 CONECT 5577 5562 5576 5599 CONECT 5578 5575 CONECT 5579 5576 5580 CONECT 5580 5579 CONECT 5581 5562 5582 5600 CONECT 5582 5581 5583 5585 CONECT 5583 5582 5584 5586 CONECT 5584 5563 5583 5600 CONECT 5585 5582 CONECT 5586 5583 5587 CONECT 5587 5586 CONECT 5588 5563 5589 5601 CONECT 5589 5588 5590 5592 CONECT 5590 5589 5591 5593 CONECT 5591 5560 5590 5601 CONECT 5592 5589 CONECT 5593 5590 5594 CONECT 5594 5593 5595 CONECT 5595 5594 5596 5597 CONECT 5596 5595 CONECT 5597 5595 CONECT 5598 5564 5567 5602 CONECT 5599 5574 5577 5602 CONECT 5600 5581 5584 5602 CONECT 5601 5588 5591 5602 CONECT 5602 2091 5598 5599 5600 CONECT 5602 5601 5745 CONECT 5603 5607 5634 CONECT 5604 5610 5617 CONECT 5605 5620 5624 CONECT 5606 5627 5631 CONECT 5607 5603 5608 5641 CONECT 5608 5607 5609 5612 CONECT 5609 5608 5610 5611 CONECT 5610 5604 5609 5641 CONECT 5611 5609 CONECT 5612 5608 5613 CONECT 5613 5612 5614 CONECT 5614 5613 5615 5616 CONECT 5615 5614 CONECT 5616 5614 CONECT 5617 5604 5618 5642 CONECT 5618 5617 5619 5621 CONECT 5619 5618 5620 5622 CONECT 5620 5605 5619 5642 CONECT 5621 5618 CONECT 5622 5619 5623 CONECT 5623 5622 CONECT 5624 5605 5625 5643 CONECT 5625 5624 5626 5628 CONECT 5626 5625 5627 5629 CONECT 5627 5606 5626 5643 CONECT 5628 5625 CONECT 5629 5626 5630 CONECT 5630 5629 CONECT 5631 5606 5632 5644 CONECT 5632 5631 5633 5635 CONECT 5633 5632 5634 5636 CONECT 5634 5603 5633 5644 CONECT 5635 5632 CONECT 5636 5633 5637 CONECT 5637 5636 5638 CONECT 5638 5637 5639 5640 CONECT 5639 5638 CONECT 5640 5638 CONECT 5641 5607 5610 5645 CONECT 5642 5617 5620 5645 CONECT 5643 5624 5627 5645 CONECT 5644 5631 5634 5645 CONECT 5645 4859 5641 5642 5643 CONECT 5645 5644 6101 CONECT 5745 5602 CONECT 6101 5645 MASTER 388 0 2 33 24 0 0 6 6274 2 92 56 END