HEADER TRANSCRIPTION 15-JAN-21 7DVR TITLE CRYSTAL STRUCTURE OF HEME SENSOR PROTEIN PEFR FROM STREPTOCOCCUS TITLE 2 AGALACTIAE IN COMPLEX WITH HEME 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-MAY-24 7DVR 1 REMARK REVDAT 1 29-SEP-21 7DVR 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. 1.70 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 17175 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) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.285 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 882 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1213 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.5310 REMARK 3 BIN FREE R VALUE SET COUNT : 63 REMARK 3 BIN FREE R VALUE : 0.4690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1196 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 37 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 51.16 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.38000 REMARK 3 B22 (A**2) : 1.22000 REMARK 3 B33 (A**2) : -1.35000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.32000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.136 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.137 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.145 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.635 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1287 ; 0.017 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 1255 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1742 ; 1.948 ; 1.712 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2917 ; 1.466 ; 1.617 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 152 ; 4.973 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 61 ;31.703 ;22.623 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 263 ;16.781 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;21.646 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 163 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1391 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 258 ; 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): 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 : 5 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): 20.1919 7.3798 71.0601 REMARK 3 T TENSOR REMARK 3 T11: 0.2251 T22: 0.1733 REMARK 3 T33: 0.3333 T12: 0.0144 REMARK 3 T13: -0.0010 T23: -0.0208 REMARK 3 L TENSOR REMARK 3 L11: 2.4396 L22: 0.0843 REMARK 3 L33: 8.5747 L12: -0.0273 REMARK 3 L13: 2.6047 L23: -0.7071 REMARK 3 S TENSOR REMARK 3 S11: -0.1008 S12: -0.1271 S13: 0.0998 REMARK 3 S21: 0.0244 S22: 0.0021 S23: 0.0136 REMARK 3 S31: -0.1190 S32: -0.3143 S33: 0.0986 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): 36.0939 4.1529 51.0913 REMARK 3 T TENSOR REMARK 3 T11: 0.0163 T22: 0.5124 REMARK 3 T33: 0.2929 T12: 0.0088 REMARK 3 T13: 0.0134 T23: 0.0312 REMARK 3 L TENSOR REMARK 3 L11: 0.5381 L22: 0.1552 REMARK 3 L33: 2.7172 L12: -0.0355 REMARK 3 L13: -0.7468 L23: -0.4452 REMARK 3 S TENSOR REMARK 3 S11: -0.0147 S12: -0.2155 S13: 0.0045 REMARK 3 S21: 0.0461 S22: -0.0591 S23: -0.0167 REMARK 3 S31: -0.1478 S32: 0.3364 S33: 0.0738 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): 33.6187 -2.7668 43.7417 REMARK 3 T TENSOR REMARK 3 T11: 0.0124 T22: 0.3923 REMARK 3 T33: 0.3453 T12: 0.0041 REMARK 3 T13: 0.0524 T23: 0.0746 REMARK 3 L TENSOR REMARK 3 L11: 3.5995 L22: 1.3242 REMARK 3 L33: 1.8629 L12: -2.0190 REMARK 3 L13: 0.0397 L23: 0.5334 REMARK 3 S TENSOR REMARK 3 S11: -0.0748 S12: -0.0947 S13: -0.1388 REMARK 3 S21: 0.0132 S22: -0.0194 S23: 0.0462 REMARK 3 S31: -0.0670 S32: 0.0530 S33: 0.0941 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): 20.0037 14.9235 56.8895 REMARK 3 T TENSOR REMARK 3 T11: 0.2022 T22: 0.3592 REMARK 3 T33: 0.2818 T12: -0.0297 REMARK 3 T13: -0.0385 T23: 0.0243 REMARK 3 L TENSOR REMARK 3 L11: 0.3738 L22: 3.3569 REMARK 3 L33: 7.2892 L12: -1.0650 REMARK 3 L13: -1.3220 L23: 4.4087 REMARK 3 S TENSOR REMARK 3 S11: -0.0647 S12: 0.1771 S13: 0.0333 REMARK 3 S21: 0.1776 S22: -0.2133 S23: -0.0220 REMARK 3 S31: -0.2676 S32: -0.1038 S33: 0.2780 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 147 REMARK 3 ORIGIN FOR THE GROUP (A): 35.9074 20.7113 75.1811 REMARK 3 T TENSOR REMARK 3 T11: 0.4537 T22: 0.2098 REMARK 3 T33: 0.3719 T12: -0.0945 REMARK 3 T13: -0.0244 T23: 0.0069 REMARK 3 L TENSOR REMARK 3 L11: 4.7113 L22: 3.6071 REMARK 3 L33: 5.7936 L12: -1.0902 REMARK 3 L13: 3.9443 L23: -3.4051 REMARK 3 S TENSOR REMARK 3 S11: -0.1068 S12: 0.6272 S13: -0.2980 REMARK 3 S21: -0.1352 S22: -0.1818 S23: -0.2741 REMARK 3 S31: -0.0688 S32: 0.8032 S33: 0.2886 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 7DVR 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_1300020260. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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 JUN 1, 2017 REMARK 200 DATA SCALING SOFTWARE : XSCALE JUN 1, 2017 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18070 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 29.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 6.591 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.2700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.99 REMARK 200 R MERGE FOR SHELL (I) : 0.95400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.470 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE 2.13, RESOLVE 2.13 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35%(V/V) MPD, 0.2 M KCL, 50 MM REMARK 280 HEXAMINE COBALT(III) CHLORIDE, 50 MM MES, PH 6.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, 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 34.44950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 16.07450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 34.44950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 16.07450 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: 5920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -70.0 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 55.35075 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 152.70818 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 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: 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 MET A 50 CG MET A 50 SD 0.180 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 ARG A 89 -27.96 -143.42 REMARK 500 MET A 142 -119.57 61.35 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 MET A 1 N REMARK 620 2 HEM A 201 NA 98.0 REMARK 620 3 HEM A 201 NB 90.7 85.3 REMARK 620 4 HEM A 201 NC 83.6 173.9 88.8 REMARK 620 5 HEM A 201 ND 89.0 93.9 179.1 92.0 REMARK 620 6 HIS A 114 NE2 45.8 137.7 111.4 46.5 69.0 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 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO A 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7DVV RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH DNA DBREF 7DVR A 1 146 UNP Q8E4J9 Q8E4J9_STRA3 1 146 SEQADV 7DVR SER A 147 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVR LEU A 148 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVR GLU A 149 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVR VAL A 150 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVR LEU A 151 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVR PHE A 152 UNP Q8E4J9 EXPRESSION TAG SEQADV 7DVR 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 CO A 202 1 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM CO COBALT (II) ION HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 CO CO 2+ FORMUL 4 HOH *37(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 ILE A 52 HIS A 60 1 9 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 MET A 140 1 19 HELIX 7 AA7 ALA A 141 PHE A 145 5 5 SHEET 1 AA1 3 MET A 50 SER A 51 0 SHEET 2 AA1 3 LYS A 91 LEU A 95 -1 O LEU A 93 N MET A 50 SHEET 3 AA1 3 ILE A 79 PRO A 83 -1 N VAL A 82 O TYR A 92 LINK N MET A 1 FE HEM A 201 1555 2657 2.06 LINK NE2 HIS A 114 FE HEM A 201 1555 1555 2.07 SITE 1 AC1 8 MET A 1 GLU A 2 PRO A 4 ALA A 32 SITE 2 AC1 8 HIS A 114 MET A 117 LEU A 118 LYS A 123 SITE 1 AC2 4 LYS A 85 HIS A 97 LEU A 98 HOH A 304 CRYST1 68.899 32.149 76.654 90.00 95.07 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 0.014514 0.000000 0.001288 0.00000 SCALE2 0.000000 0.031105 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013097 0.00000