HEADER OXIDOREDUCTASE 05-NOV-13 4CDP TITLE IMPROVED COORDINATES FOR ESCHERICHIA COLI O157:H7 HEME DEGRADING TITLE 2 ENZYME CHUS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE HEME/HEMOGLOBIN TRANSPORT PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83334; SOURCE 4 STRAIN: O157\:H7; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET21B KEYWDS HEME DEGRADATION, STRUCTURAL REPEAT, MONTREAL- KINGSTON BACTERIAL KEYWDS 2 STRUCTURAL GENOMICS INITIATIVE, BSGI, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.D.L.SUITS,N.JAFFER,Z.JIA REVDAT 4 20-DEC-23 4CDP 1 REMARK LINK REVDAT 3 06-MAR-19 4CDP 1 REMARK REVDAT 2 30-JAN-19 4CDP 1 REMARK REVDAT 1 13-NOV-13 4CDP 0 SPRSDE 13-NOV-13 4CDP 2HQ2 JRNL AUTH M.D.SUITS,N.JAFFER,Z.JIA JRNL TITL STRUCTURE OF THE ESCHERICHIA COLI O157:H7 HEME OXYGENASE JRNL TITL 2 CHUS IN COMPLEX WITH HEME AND ENZYMATIC INACTIVATION BY JRNL TITL 3 MUTATION OF THE HEME COORDINATING RESIDUE HIS-193. JRNL REF J.BIOL.CHEM. V. 281 36776 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 17023414 JRNL DOI 10.1074/JBC.M607684200 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 63391 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) : 0.135 REMARK 3 R VALUE (WORKING SET) : 0.133 REMARK 3 FREE R VALUE : 0.173 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3371 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4660 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 233 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2619 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 94 REMARK 3 SOLVENT ATOMS : 391 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.49000 REMARK 3 B22 (A**2) : 0.49000 REMARK 3 B33 (A**2) : -1.60000 REMARK 3 B12 (A**2) : 0.49000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.059 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.057 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.035 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.049 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.968 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2807 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3813 ; 1.365 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 347 ; 6.561 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 141 ;37.503 ;24.610 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 449 ;11.160 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;12.400 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 420 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2149 ; 0.014 ; 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): 1346 ; 3.309 ; 1.995 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1683 ; 3.680 ; 2.996 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1461 ; 4.909 ; 2.285 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): 2807 ; 9.233 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 102 ;37.231 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3046 ;18.716 ; 5.000 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 : 1 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 402 REMARK 3 ORIGIN FOR THE GROUP (A): 28.0290 -14.4950 5.9020 REMARK 3 T TENSOR REMARK 3 T11: 0.0004 T22: 0.0006 REMARK 3 T33: 0.0079 T12: 0.0003 REMARK 3 T13: 0.0001 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0079 L22: 0.0056 REMARK 3 L33: 0.0188 L12: 0.0063 REMARK 3 L13: 0.0002 L23: 0.0027 REMARK 3 S TENSOR REMARK 3 S11: -0.0004 S12: 0.0004 S13: 0.0005 REMARK 3 S21: 0.0000 S22: 0.0009 S23: 0.0002 REMARK 3 S31: 0.0000 S32: 0.0023 S33: -0.0006 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. RESIDUES 170-175 DISORDERED, REMARK 3 NOT MODELED. ELECTRON DENSITY AROUND PRO15 AND GLY16 SUGGESTS REMARK 3 FLEXIBILITY. REMARK 4 REMARK 4 4CDP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-NOV-13. REMARK 100 THE DEPOSITION ID IS D_1290058870. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-FEB-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67643 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 30.080 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 38.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 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: PDB ENTRY 1U9T REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20MG/ML PROTEIN, 12-15% PEG 0.15-0.2M REMARK 280 MAGNESIUM FORMATE, AND 10-20MM NAD, PH 8.0, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 53.24350 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.74015 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 30.07633 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 53.24350 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 30.74015 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 30.07633 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 53.24350 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 30.74015 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 30.07633 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 61.48030 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 60.15267 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 61.48030 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 60.15267 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 61.48030 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 60.15267 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 ALA A 170 REMARK 465 PRO A 171 REMARK 465 VAL A 172 REMARK 465 VAL A 173 REMARK 465 GLN A 174 REMARK 465 THR A 175 REMARK 465 GLU A 338 REMARK 465 GLY A 339 REMARK 465 VAL A 340 REMARK 465 ALA A 341 REMARK 465 ALA A 342 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 11 CG CD CE NZ REMARK 470 TYR A 18 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 HIS A 87 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 118 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 169 CG OD1 OD2 REMARK 470 ARG A 176 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 200 CG CD CE NZ REMARK 470 LYS A 259 CG CD CE NZ REMARK 470 ASP A 295 CG OD1 OD2 REMARK 470 GLU A 320 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 O HOH A 2342 O HOH A 2343 1.48 REMARK 500 O HOH A 2380 O HOH A 2381 1.94 REMARK 500 NE2 HIS A 306 O HOH A 2355 1.97 REMARK 500 O1 EDO A 1341 O HOH A 2208 2.00 REMARK 500 O HOH A 2335 O HOH A 2355 2.00 REMARK 500 O HOH A 2011 O HOH A 2045 2.08 REMARK 500 O HOH A 2336 O HOH A 2355 2.10 REMARK 500 O HOH A 2084 O HOH A 2085 2.11 REMARK 500 O HOH A 2084 O HOH A 2089 2.12 REMARK 500 O HOH A 2255 O HOH A 2370 2.13 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 OG1 THR A 319 O HOH A 2336 8544 1.16 REMARK 500 OE2 GLU A 322 O HOH A 2355 8544 2.04 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 THR A 39 -3.48 81.57 REMARK 500 HIS A 40 -82.64 -120.27 REMARK 500 ARG A 95 -1.35 78.70 REMARK 500 ALA A 96 -134.22 -134.02 REMARK 500 ASN A 160 79.89 -107.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2050 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A2129 DISTANCE = 6.07 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 1,2-ETHANEDIOL (EDO): EDO WAS AN ADDITIVE IN REMARK 600 CRYSTALLIZATION. REMARK 600 PROTOPORPHYRIN IX CONTAINING FE (HEM): CO-PURIFIED WITH REMARK 600 PROTEIN REMARK 600 FORMIC ACID (FMT): FMT WAS AN ADDITIVE IN CRYSTALLIZATION. 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 402 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 193 NE2 REMARK 620 2 HEM A 402 NA 90.7 REMARK 620 3 HEM A 402 NB 89.3 89.3 REMARK 620 4 HEM A 402 NC 90.6 178.4 89.7 REMARK 620 5 HEM A 402 ND 91.8 90.6 178.9 90.4 REMARK 620 6 FMT A 401 O2 173.8 87.0 85.0 91.7 93.9 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 FMT A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1338 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1339 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1340 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1341 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1342 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1343 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1344 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1345 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1346 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1347 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1348 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1349 DBREF 4CDP A 1 342 UNP Q8X5N8 Q8X5N8_ECO57 1 342 SEQADV 4CDP MET A -11 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP GLY A -10 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP SER A -9 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP SER A -8 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP HIS A -7 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP HIS A -6 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP HIS A -5 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP HIS A -4 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP HIS A -3 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP HIS A -2 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP GLY A -1 UNP Q8X5N8 EXPRESSION TAG SEQADV 4CDP SER A 0 UNP Q8X5N8 EXPRESSION TAG SEQRES 1 A 354 MET GLY SER SER HIS HIS HIS HIS HIS HIS GLY SER MET SEQRES 2 A 354 ASN HIS TYR THR ARG TRP LEU GLU LEU LYS GLU GLN ASN SEQRES 3 A 354 PRO GLY LYS TYR ALA ARG ASP ILE ALA GLY LEU MET ASN SEQRES 4 A 354 ILE ARG GLU ALA GLU LEU ALA PHE ALA ARG VAL THR HIS SEQRES 5 A 354 ASP ALA TRP ARG MET HIS GLY ASP ILE ARG GLU ILE LEU SEQRES 6 A 354 ALA ALA LEU GLU SER VAL GLY GLU THR LYS CYS ILE CYS SEQRES 7 A 354 ARG ASN GLU TYR ALA VAL HIS GLU GLN VAL GLY THR PHE SEQRES 8 A 354 THR ASN GLN HIS LEU ASN GLY HIS ALA GLY LEU ILE LEU SEQRES 9 A 354 ASN PRO ARG ALA LEU ASP LEU ARG LEU PHE LEU ASN GLN SEQRES 10 A 354 TRP ALA SER VAL PHE HIS ILE LYS GLU ASN THR ALA ARG SEQRES 11 A 354 GLY GLU ARG GLN SER ILE GLN PHE PHE ASP HIS GLN GLY SEQRES 12 A 354 ASP ALA LEU LEU LYS VAL TYR ALA THR ASP ASN THR ASP SEQRES 13 A 354 MET ALA ALA TRP SER GLU LEU LEU ALA ARG PHE ILE THR SEQRES 14 A 354 ASP GLU ASN THR PRO LEU GLU LEU LYS ALA VAL ASP ALA SEQRES 15 A 354 PRO VAL VAL GLN THR ARG ALA ASP ALA THR VAL VAL GLU SEQRES 16 A 354 GLN GLU TRP ARG ALA MET THR ASP VAL HIS GLN PHE PHE SEQRES 17 A 354 THR LEU LEU LYS ARG HIS ASN LEU THR ARG GLN GLN ALA SEQRES 18 A 354 PHE ASN LEU VAL ALA ASP ASP LEU ALA CYS LYS VAL SER SEQRES 19 A 354 ASN SER ALA LEU ALA GLN ILE LEU GLU SER ALA GLN GLN SEQRES 20 A 354 ASP GLY ASN GLU ILE MET VAL PHE VAL GLY ASN ARG GLY SEQRES 21 A 354 CYS VAL GLN ILE PHE THR GLY VAL VAL GLU LYS VAL VAL SEQRES 22 A 354 PRO MET LYS GLY TRP LEU ASN ILE PHE ASN PRO THR PHE SEQRES 23 A 354 THR LEU HIS LEU LEU GLU GLU SER ILE ALA GLU ALA TRP SEQRES 24 A 354 VAL THR ARG LYS PRO THR SER ASP GLY TYR VAL THR SER SEQRES 25 A 354 LEU GLU LEU PHE ALA HIS ASP GLY THR GLN ILE ALA GLN SEQRES 26 A 354 LEU TYR GLY GLN ARG THR GLU GLY GLU GLN GLU GLN ALA SEQRES 27 A 354 GLN TRP ARG LYS GLN ILE ALA SER LEU ILE PRO GLU GLY SEQRES 28 A 354 VAL ALA ALA HET FMT A 401 3 HET HEM A 402 43 HET EDO A1338 4 HET EDO A1339 4 HET EDO A1340 4 HET EDO A1341 4 HET EDO A1342 4 HET EDO A1343 4 HET EDO A1344 4 HET EDO A1345 4 HET EDO A1346 4 HET EDO A1347 4 HET EDO A1348 4 HET EDO A1349 4 HETNAM FMT FORMIC ACID HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM EDO 1,2-ETHANEDIOL HETSYN HEM HEME HETSYN EDO ETHYLENE GLYCOL FORMUL 2 FMT C H2 O2 FORMUL 3 HEM C34 H32 FE N4 O4 FORMUL 4 EDO 12(C2 H6 O2) FORMUL 16 HOH *391(H2 O) HELIX 1 1 GLY A -1 ASN A 14 1 16 HELIX 2 2 TYR A 18 MET A 26 1 9 HELIX 3 3 ARG A 29 VAL A 38 1 10 HELIX 4 4 ASP A 48 GLU A 57 1 10 HELIX 5 5 SER A 58 GLY A 60 5 3 HELIX 6 6 ASP A 144 ILE A 156 1 13 HELIX 7 7 ASP A 178 MET A 189 1 12 HELIX 8 8 ASP A 191 HIS A 193 5 3 HELIX 9 9 GLN A 194 HIS A 202 1 9 HELIX 10 10 THR A 205 VAL A 213 1 9 HELIX 11 11 SER A 224 GLY A 237 1 14 HELIX 12 12 GLU A 280 ILE A 283 5 4 HELIX 13 13 GLN A 325 SER A 334 1 10 SHEET 1 AA 9 ALA A 42 MET A 45 0 SHEET 2 AA 9 TRP A 106 GLU A 114 -1 O VAL A 109 N MET A 45 SHEET 3 AA 9 ARG A 121 ASP A 128 -1 O ARG A 121 N GLU A 114 SHEET 4 AA 9 ALA A 133 ALA A 139 -1 N LEU A 134 O PHE A 126 SHEET 5 AA 9 THR A 62 ARG A 67 -1 O LYS A 63 N TYR A 138 SHEET 6 AA 9 ALA A 71 GLY A 77 -1 O HIS A 73 N CYS A 66 SHEET 7 AA 9 PHE A 274 LEU A 278 -1 O THR A 275 N GLU A 74 SHEET 8 AA 9 TRP A 266 PHE A 270 -1 O LEU A 267 N LEU A 278 SHEET 9 AA 9 VAL A 260 MET A 263 -1 O VAL A 261 N ASN A 268 SHEET 1 AB 9 GLN A 82 HIS A 83 0 SHEET 2 AB 9 GLY A 89 ILE A 91 -1 O LEU A 90 N HIS A 83 SHEET 3 AB 9 LEU A 99 LEU A 101 -1 O LEU A 99 N ILE A 91 SHEET 4 AB 9 CYS A 249 GLY A 255 -1 O VAL A 250 N ARG A 100 SHEET 5 AB 9 ILE A 240 ASN A 246 -1 O ILE A 240 N GLY A 255 SHEET 6 AB 9 GLN A 310 GLY A 316 -1 O GLN A 313 N PHE A 243 SHEET 7 AB 9 TYR A 297 PHE A 304 -1 O LEU A 301 N LEU A 314 SHEET 8 AB 9 GLU A 285 PRO A 292 -1 O GLU A 285 N PHE A 304 SHEET 9 AB 9 ALA A 218 VAL A 221 -1 O CYS A 219 N VAL A 288 LINK NE2 HIS A 193 FE HEM A 402 1555 1555 2.11 LINK O2 FMT A 401 FE HEM A 402 1555 1555 2.09 SITE 1 AC1 5 ARG A 100 MET A 241 ILE A 252 HEM A 402 SITE 2 AC1 5 HOH A2170 SITE 1 AC2 18 ALA A 88 LEU A 90 ARG A 100 PHE A 102 SITE 2 AC2 18 VAL A 192 HIS A 193 ARG A 206 PHE A 243 SITE 3 AC2 18 LYS A 291 VAL A 298 GLN A 313 TYR A 315 SITE 4 AC2 18 ARG A 318 FMT A 401 HOH A2256 HOH A2274 SITE 5 AC2 18 HOH A2364 HOH A2370 SITE 1 AC3 5 GLN A 194 THR A 197 LEU A 198 ARG A 201 SITE 2 AC3 5 HOH A2248 SITE 1 AC4 7 ALA A 23 GLY A 24 ASN A 27 ILE A 28 SITE 2 AC4 7 ARG A 29 HOH A2045 HOH A2051 SITE 1 AC5 8 ARG A 6 LEU A 25 ASN A 27 GLN A 82 SITE 2 AC5 8 HIS A 83 LEU A 84 ASN A 85 HOH A2154 SITE 1 AC6 8 ILE A 65 ARG A 67 LEU A 135 LYS A 136 SITE 2 AC6 8 HOH A2034 HOH A2126 HOH A2127 HOH A2208 SITE 1 AC7 5 HIS A 111 LYS A 113 HOH A2189 HOH A2391 SITE 2 AC7 5 HOH A2392 SITE 1 AC8 5 LEU A 217 ARG A 290 PRO A 292 TYR A 297 SITE 2 AC8 5 HOH A2251 SITE 1 AC9 7 ARG A 95 SER A 222 PHE A 253 THR A 254 SITE 2 AC9 7 GLY A 255 HOH A2320 HOH A2393 SITE 1 BC1 1 HIS A 277 SITE 1 BC2 7 PHE A 210 ASN A 211 VAL A 213 ASP A 215 SITE 2 BC2 7 ALA A 218 TRP A 287 HOH A2286 SITE 1 BC3 4 SER A 232 ASP A 236 GLN A 327 SER A 334 SITE 1 BC4 4 GLU A 74 THR A 273 PHE A 274 THR A 275 SITE 1 BC5 5 LYS A 63 ILE A 65 ARG A 121 HOH A2210 SITE 2 BC5 5 HOH A2394 CRYST1 106.487 106.487 90.229 90.00 90.00 120.00 H 3 9 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 0.009391 0.005422 0.000000 0.00000 SCALE2 0.000000 0.010844 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011083 0.00000