HEADER TRANSCRIPTION 15-JAN-21 7DVU TITLE CRYSTAL STRUCTURE OF HEME SENSOR PROTEIN PEFR IN COMPLEX WITH HEME AND TITLE 2 CYANIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HTH MARR-TYPE DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HEME SENSOR PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS AGALACTIAE SEROTYPE III (STRAIN SOURCE 3 NEM316); SOURCE 4 ORGANISM_TAXID: 211110; SOURCE 5 STRAIN: NEM316; SOURCE 6 GENE: GBS1402; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-22B KEYWDS HEME-BINDING, HELIX-TURN-HELIX, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR M.NISHINAGA,S.NAGAI,Y.NISHITANI,H.SUGIMOTO,Y.SHIRO,H.SAWAI REVDAT 2 29-NOV-23 7DVU 1 REMARK REVDAT 1 29-SEP-21 7DVU 0 JRNL AUTH M.NISHINAGA,H.SUGIMOTO,Y.NISHITANI,S.NAGAI,S.NAGATOISHI, JRNL AUTH 2 N.MURAKI,T.TOSHA,K.TSUMOTO,S.AONO,Y.SHIRO,H.SAWAI JRNL TITL HEME CONTROLS THE STRUCTURAL REARRANGEMENT OF ITS SENSOR JRNL TITL 2 PROTEIN MEDIATING THE HEMOLYTIC BACTERIAL SURVIVAL. JRNL REF COMMUN BIOL V. 4 467 2021 JRNL REFN ESSN 2399-3642 JRNL PMID 33850260 JRNL DOI 10.1038/S42003-021-01987-5 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 9530 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) : 0.229 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 463 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 660 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.3890 REMARK 3 BIN FREE R VALUE SET COUNT : 40 REMARK 3 BIN FREE R VALUE : 0.4130 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1154 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 17 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 62.66 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.89000 REMARK 3 B22 (A**2) : 1.93000 REMARK 3 B33 (A**2) : -2.30000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.89000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.250 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.212 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.195 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.081 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1247 ; 0.008 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1685 ; 1.483 ; 1.711 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 147 ; 5.617 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 57 ;29.232 ;22.281 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 257 ;18.859 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;25.646 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 158 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 899 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 30 REMARK 3 ORIGIN FOR THE GROUP (A): 18.1255 6.8887 71.1337 REMARK 3 T TENSOR REMARK 3 T11: 0.1948 T22: 0.1124 REMARK 3 T33: 0.1600 T12: -0.0408 REMARK 3 T13: -0.0901 T23: -0.0153 REMARK 3 L TENSOR REMARK 3 L11: 2.9927 L22: 0.5471 REMARK 3 L33: 7.0645 L12: 0.5940 REMARK 3 L13: 3.7494 L23: 1.7510 REMARK 3 S TENSOR REMARK 3 S11: -0.0359 S12: -0.1767 S13: -0.0714 REMARK 3 S21: 0.1385 S22: -0.1703 S23: 0.1042 REMARK 3 S31: 0.2732 S32: -0.5481 S33: 0.2063 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 31 A 70 REMARK 3 ORIGIN FOR THE GROUP (A): 34.5238 4.4798 51.4172 REMARK 3 T TENSOR REMARK 3 T11: 0.0725 T22: 0.3154 REMARK 3 T33: 0.1795 T12: -0.0473 REMARK 3 T13: -0.1109 T23: 0.0238 REMARK 3 L TENSOR REMARK 3 L11: 2.6037 L22: 1.6334 REMARK 3 L33: 3.3262 L12: -1.7047 REMARK 3 L13: -0.4365 L23: 0.3012 REMARK 3 S TENSOR REMARK 3 S11: -0.0610 S12: -0.3522 S13: 0.1889 REMARK 3 S21: 0.0846 S22: -0.0913 S23: -0.1353 REMARK 3 S31: -0.1046 S32: 0.2316 S33: 0.1522 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 71 A 100 REMARK 3 ORIGIN FOR THE GROUP (A): 32.3921 -2.4195 43.9133 REMARK 3 T TENSOR REMARK 3 T11: 0.0653 T22: 0.2723 REMARK 3 T33: 0.2546 T12: 0.0050 REMARK 3 T13: -0.1254 T23: 0.0422 REMARK 3 L TENSOR REMARK 3 L11: 2.6835 L22: 2.3913 REMARK 3 L33: 0.5061 L12: -1.2111 REMARK 3 L13: 0.2484 L23: 0.8081 REMARK 3 S TENSOR REMARK 3 S11: 0.1149 S12: -0.0734 S13: -0.2133 REMARK 3 S21: 0.0170 S22: -0.1348 S23: 0.0143 REMARK 3 S31: 0.0074 S32: -0.0786 S33: 0.0199 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 101 A 121 REMARK 3 ORIGIN FOR THE GROUP (A): 17.9854 14.4553 57.5027 REMARK 3 T TENSOR REMARK 3 T11: 0.1021 T22: 0.2118 REMARK 3 T33: 0.1415 T12: 0.0061 REMARK 3 T13: -0.0992 T23: -0.0375 REMARK 3 L TENSOR REMARK 3 L11: 0.5185 L22: 1.1575 REMARK 3 L33: 6.2303 L12: -0.4936 REMARK 3 L13: -1.1310 L23: 2.6652 REMARK 3 S TENSOR REMARK 3 S11: -0.0887 S12: 0.1860 S13: 0.0694 REMARK 3 S21: -0.0491 S22: -0.0858 S23: 0.0739 REMARK 3 S31: -0.1591 S32: -0.1673 S33: 0.1745 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 122 A 142 REMARK 3 ORIGIN FOR THE GROUP (A): 32.0292 21.5521 75.7594 REMARK 3 T TENSOR REMARK 3 T11: 0.2863 T22: 0.0624 REMARK 3 T33: 0.1894 T12: -0.0275 REMARK 3 T13: -0.0963 T23: 0.0432 REMARK 3 L TENSOR REMARK 3 L11: 6.7754 L22: 2.6238 REMARK 3 L33: 4.6045 L12: -2.1844 REMARK 3 L13: 4.5367 L23: -3.1815 REMARK 3 S TENSOR REMARK 3 S11: -0.1799 S12: 0.2247 S13: -0.1252 REMARK 3 S21: -0.1908 S22: -0.1373 S23: -0.3409 REMARK 3 S31: 0.0201 S32: 0.2293 S33: 0.3172 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 0 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 ORIGIN FOR THE GROUP (A): 24.9374 16.6038 62.6096 REMARK 3 T TENSOR REMARK 3 T11: 0.0529 T22: 0.1477 REMARK 3 T33: 0.1838 T12: -0.0129 REMARK 3 T13: -0.0601 T23: -0.0348 REMARK 3 L TENSOR REMARK 3 L11: 11.2298 L22: 9.1409 REMARK 3 L33: 6.0339 L12: -4.5125 REMARK 3 L13: 4.8802 L23: 3.3935 REMARK 3 S TENSOR REMARK 3 S11: -0.0326 S12: 0.2762 S13: 0.2391 REMARK 3 S21: -0.0048 S22: 0.2924 S23: -0.5863 REMARK 3 S31: -0.0251 S32: 0.4226 S33: -0.2597 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 7DVU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1300020264. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-MAY-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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) : 1.00 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE NOV 11, 2017 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19032 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 38.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.438 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.3600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.22 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : 6.54 REMARK 200 R MERGE FOR SHELL (I) : 0.76900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.610 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC 5.8.0258 REMARK 200 STARTING MODEL: 7DVR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12%(W/V) PEG8000, 0.2 M AMMONIUM REMARK 280 SULFATE, 0.1 M TRIS-HCL, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 34.91850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 15.69500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 34.91850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 15.69500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 51.48195 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 153.70190 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 GLU A 143 REMARK 465 ASP A 144 REMARK 465 PHE A 145 REMARK 465 ASP A 146 REMARK 465 SER A 147 REMARK 465 LEU A 148 REMARK 465 GLU A 149 REMARK 465 VAL A 150 REMARK 465 LEU A 151 REMARK 465 PHE A 152 REMARK 465 GLN A 153 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 FE HEM A 201 C CYN A 202 2.05 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 2 147.79 172.88 REMARK 500 HIS A 30 -23.26 83.83 REMARK 500 LYS A 88 45.77 -79.92 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 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 114 NE2 REMARK 620 2 HEM A 201 NA 90.5 REMARK 620 3 HEM A 201 NB 94.0 85.7 REMARK 620 4 HEM A 201 NC 88.9 173.9 88.3 REMARK 620 5 HEM A 201 ND 85.5 94.8 179.4 91.3 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7DVR RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH HEME REMARK 900 RELATED ID: 7DVV RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH DNA REMARK 900 RELATED ID: 7DVT RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH HEME AND CARBON MONOXIDE REMARK 900 RELATED ID: 7DVS RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN LIGAND FREE DBREF 7DVU A 1 146 UNP Q8E4J9 Q8E4J9_STRA3 1 146 SEQADV 7DVU SER A 147 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVU LEU A 148 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVU GLU A 149 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVU VAL A 150 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVU LEU A 151 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVU PHE A 152 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVU GLN A 153 UNP Q8E4J9 EXPRESSION TAG SEQRES 1 A 153 MET GLU ASN PRO LEU GLN LYS ALA ARG ILE LEU VAL ASN SEQRES 2 A 153 GLN LEU GLU LYS TYR LEU ASP ARG TYR ALA LYS GLU TYR SEQRES 3 A 153 ASP VAL GLU HIS LEU ALA GLY PRO GLN GLY HIS LEU VAL SEQRES 4 A 153 MET HIS LEU TYR LYS HIS PRO ASP LYS ASP MET SER ILE SEQRES 5 A 153 LYS ASP ALA GLU GLU ILE LEU HIS ILE SER LYS SER VAL SEQRES 6 A 153 ALA SER ASN LEU VAL LYS ARG MET GLU LYS ASN GLY PHE SEQRES 7 A 153 ILE ALA ILE VAL PRO SER LYS THR ASP LYS ARG VAL LYS SEQRES 8 A 153 TYR LEU TYR LEU THR HIS LEU GLY LYS GLN LYS ALA THR SEQRES 9 A 153 GLN PHE GLU ILE PHE LEU GLU LYS LEU HIS SER THR MET SEQRES 10 A 153 LEU ALA GLY ILE THR LYS GLU GLU ILE ARG THR THR LYS SEQRES 11 A 153 LYS VAL ILE ARG THR LEU ALA LYS ASN MET ALA MET GLU SEQRES 12 A 153 ASP PHE ASP SER LEU GLU VAL LEU PHE GLN HET HEM A 201 43 HET CYN A 202 2 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM CYN CYANIDE ION HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 CYN C N 1- FORMUL 4 HOH *17(H2 O) HELIX 1 AA1 ASN A 3 TYR A 26 1 24 HELIX 2 AA2 GLY A 33 HIS A 45 1 13 HELIX 3 AA3 SER A 51 HIS A 60 1 10 HELIX 4 AA4 SER A 62 ASN A 76 1 15 HELIX 5 AA5 THR A 96 LEU A 118 1 23 HELIX 6 AA6 THR A 122 ALA A 141 1 20 SHEET 1 AA1 2 ILE A 79 PRO A 83 0 SHEET 2 AA1 2 LYS A 91 LEU A 95 -1 O TYR A 94 N ALA A 80 LINK NE2 HIS A 114 FE HEM A 201 1555 1555 2.03 CRYST1 69.837 31.390 77.397 90.00 96.81 90.00 C 1 2 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 0.014319 0.000000 0.001710 0.00000 SCALE2 0.000000 0.031857 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013012 0.00000