HEADER OXIDOREDUCTASE 05-JAN-11 2Y4E TITLE X-RAY CRYSTALLOGRAPHIC STRUCTURE OF E. COLI PPIX-EFEB COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEROXIDASE YCDB; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: EFEB; COMPND 5 EC: 1.11.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-46 EK/LIC KEYWDS IRON UPTAKE, OXIDOREDUCTASE, DYP-PEROXIDASE-LIKE, DEFERROCHELATASE EXPDTA X-RAY DIFFRACTION AUTHOR V.A.BAMFORD,S.C.ANDREWS,K.A.WATSON REVDAT 3 20-DEC-23 2Y4E 1 REMARK SHEET REVDAT 2 22-MAY-19 2Y4E 1 REMARK REVDAT 1 26-JAN-11 2Y4E 0 SPRSDE 26-JAN-11 2Y4E 2WX7 JRNL AUTH V.A.BAMFORD,S.C.ANDREWS,K.A.WATSON JRNL TITL EFEB, THE PEROXIDASE COMPONENT OF THE EFEUOB BACTERIAL JRNL TITL 2 FE(II) TRANSPORT SYSTEM, ALSO SHOWS NOVEL REMOVAL OF IRON JRNL TITL 3 FROM HEME JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.6 REMARK 3 NUMBER OF REFLECTIONS : 34964 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) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1840 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2550 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE SET COUNT : 149 REMARK 3 BIN FREE R VALUE : 0.3990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5996 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 120 REMARK 3 SOLVENT ATOMS : 258 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.36000 REMARK 3 B22 (A**2) : 0.70000 REMARK 3 B33 (A**2) : 0.66000 REMARK 3 B12 (A**2) : 0.00000 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): 0.413 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.290 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.189 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.886 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6294 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8538 ; 1.416 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 772 ; 6.407 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 289 ;38.134 ;24.187 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1033 ;16.572 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;16.153 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 912 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4850 ; 0.006 ; 0.021 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): 3850 ; 0.730 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6185 ; 1.353 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2444 ; 1.759 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2353 ; 2.844 ; 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 : 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 2Y4E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1290046116. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-06 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 : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.968 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36837 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 60.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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 2Y4D REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0M AMMONIUM SULFATE, 5% (V/V) PEG REMARK 280 400, 0.1M HEPES PH 7.0, 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 41.47600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.33700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.31100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.33700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 41.47600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.31100 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: 8200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -68.1 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 -14 REMARK 465 ALA A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 VAL A -6 REMARK 465 ASP A -5 REMARK 465 ASP A -4 REMARK 465 ASP A -3 REMARK 465 ASP A -2 REMARK 465 LYS A -1 REMARK 465 ILE A 0 REMARK 465 GLN A 1 REMARK 465 LYS A 2 REMARK 465 THR A 3 REMARK 465 GLN A 4 REMARK 465 MET B -14 REMARK 465 ALA B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 VAL B -6 REMARK 465 ASP B -5 REMARK 465 ASP B -4 REMARK 465 ASP B -3 REMARK 465 ASP B -2 REMARK 465 LYS B -1 REMARK 465 ILE B 0 REMARK 465 GLN B 1 REMARK 465 LYS B 2 REMARK 465 THR B 3 REMARK 465 GLN B 4 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 ASP A 109 -158.83 -89.19 REMARK 500 HIS A 139 -161.60 66.04 REMARK 500 ARG A 172 -69.34 -99.14 REMARK 500 THR A 302 -130.66 -108.08 REMARK 500 ALA A 303 -64.66 -92.25 REMARK 500 GLU A 304 10.26 -69.62 REMARK 500 GLU A 304 14.51 -69.62 REMARK 500 SER A 305 -132.29 141.32 REMARK 500 GLU A 306 142.73 158.75 REMARK 500 SER A 307 -10.99 -48.88 REMARK 500 SER A 308 52.47 -69.96 REMARK 500 LEU A 319 -107.70 -109.82 REMARK 500 ARG A 387 -97.96 -63.24 REMARK 500 PRO B 12 -5.10 -58.91 REMARK 500 ILE B 29 -59.28 -124.93 REMARK 500 ASP B 109 -156.23 -76.98 REMARK 500 HIS B 139 -151.67 61.76 REMARK 500 ARG B 172 -60.77 -98.62 REMARK 500 LYS B 187 63.65 63.79 REMARK 500 ASP B 206 109.60 -38.74 REMARK 500 GLN B 224 53.78 -67.54 REMARK 500 VAL B 288 -61.71 -96.28 REMARK 500 ASN B 299 110.32 -166.26 REMARK 500 ALA B 303 -46.82 82.90 REMARK 500 SER B 307 1.20 -65.21 REMARK 500 LEU B 319 -108.52 -118.21 REMARK 500 ARG B 387 -109.62 -83.57 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 GLU A 304 SER A 305 147.91 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 A2007 DISTANCE = 6.55 ANGSTROMS REMARK 525 HOH A2022 DISTANCE = 6.70 ANGSTROMS REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PP9 A 1389 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1390 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 1391 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 1392 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PP9 B 1389 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1390 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Y4F RELATED DB: PDB REMARK 900 X-RAY CRYSTALLOGRAPHIC STRUCTURE OF E. COLI HEME-EFEB REMARK 900 RELATED ID: 2Y4D RELATED DB: PDB REMARK 900 X-RAY CRYSTALLOGRAPHIC STRUCTURE OF E. COLI APO-EFEB DBREF 2Y4E A 1 388 UNP P31545 YCDB_ECOLI 36 423 DBREF 2Y4E B 1 388 UNP P31545 YCDB_ECOLI 36 423 SEQADV 2Y4E MET A -14 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ALA A -13 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS A -12 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS A -11 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS A -10 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS A -9 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS A -8 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS A -7 UNP P31545 EXPRESSION TAG SEQADV 2Y4E VAL A -6 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ASP A -5 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ASP A -4 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ASP A -3 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ASP A -2 UNP P31545 EXPRESSION TAG SEQADV 2Y4E LYS A -1 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ILE A 0 UNP P31545 EXPRESSION TAG SEQADV 2Y4E MET B -14 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ALA B -13 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS B -12 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS B -11 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS B -10 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS B -9 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS B -8 UNP P31545 EXPRESSION TAG SEQADV 2Y4E HIS B -7 UNP P31545 EXPRESSION TAG SEQADV 2Y4E VAL B -6 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ASP B -5 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ASP B -4 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ASP B -3 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ASP B -2 UNP P31545 EXPRESSION TAG SEQADV 2Y4E LYS B -1 UNP P31545 EXPRESSION TAG SEQADV 2Y4E ILE B 0 UNP P31545 EXPRESSION TAG SEQRES 1 A 403 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 A 403 LYS ILE GLN LYS THR GLN SER ALA PRO GLY THR LEU SER SEQRES 3 A 403 PRO ASP ALA ARG ASN GLU LYS GLN PRO PHE TYR GLY GLU SEQRES 4 A 403 HIS GLN ALA GLY ILE LEU THR PRO GLN GLN ALA ALA MET SEQRES 5 A 403 MET LEU VAL ALA PHE ASP VAL LEU ALA SER ASP LYS ALA SEQRES 6 A 403 ASP LEU GLU ARG LEU PHE ARG LEU LEU THR GLN ARG PHE SEQRES 7 A 403 ALA PHE LEU THR GLN GLY GLY ALA ALA PRO GLU THR PRO SEQRES 8 A 403 ASN PRO ARG LEU PRO PRO LEU ASP SER GLY ILE LEU GLY SEQRES 9 A 403 GLY TYR ILE ALA PRO ASP ASN LEU THR ILE THR LEU SER SEQRES 10 A 403 VAL GLY HIS SER LEU PHE ASP GLU ARG PHE GLY LEU ALA SEQRES 11 A 403 PRO GLN MET PRO LYS LYS LEU GLN LYS MET THR ARG PHE SEQRES 12 A 403 PRO ASN ASP SER LEU ASP ALA ALA LEU CYS HIS GLY ASP SEQRES 13 A 403 VAL LEU LEU GLN ILE CYS ALA ASN THR GLN ASP THR VAL SEQRES 14 A 403 ILE HIS ALA LEU ARG ASP ILE ILE LYS HIS THR PRO ASP SEQRES 15 A 403 LEU LEU SER VAL ARG TRP LYS ARG GLU GLY PHE ILE SER SEQRES 16 A 403 ASP HIS ALA ALA ARG SER LYS GLY LYS GLU THR PRO ILE SEQRES 17 A 403 ASN LEU LEU GLY PHE LYS ASP GLY THR ALA ASN PRO ASP SEQRES 18 A 403 SER GLN ASN ASP LYS LEU MET GLN LYS VAL VAL TRP VAL SEQRES 19 A 403 THR ALA ASP GLN GLN GLU PRO ALA TRP THR ILE GLY GLY SEQRES 20 A 403 SER TYR GLN ALA VAL ARG LEU ILE GLN PHE ARG VAL GLU SEQRES 21 A 403 PHE TRP ASP ARG THR PRO LEU LYS GLU GLN GLN THR ILE SEQRES 22 A 403 PHE GLY ARG ASP LYS GLN THR GLY ALA PRO LEU GLY MET SEQRES 23 A 403 GLN HIS GLU HIS ASP VAL PRO ASP TYR ALA SER ASP PRO SEQRES 24 A 403 GLU GLY LYS VAL ILE ALA LEU ASP SER HIS ILE ARG LEU SEQRES 25 A 403 ALA ASN PRO ARG THR ALA GLU SER GLU SER SER LEU MET SEQRES 26 A 403 LEU ARG ARG GLY TYR SER TYR SER LEU GLY VAL THR ASN SEQRES 27 A 403 SER GLY GLN LEU ASP MET GLY LEU LEU PHE VAL CYS TYR SEQRES 28 A 403 GLN HIS ASP LEU GLU LYS GLY PHE LEU THR VAL GLN LYS SEQRES 29 A 403 ARG LEU ASN GLY GLU ALA LEU GLU GLU TYR VAL LYS PRO SEQRES 30 A 403 ILE GLY GLY GLY TYR PHE PHE ALA LEU PRO GLY VAL LYS SEQRES 31 A 403 ASP ALA ASN ASP TYR PHE GLY SER ALA LEU LEU ARG VAL SEQRES 1 B 403 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 B 403 LYS ILE GLN LYS THR GLN SER ALA PRO GLY THR LEU SER SEQRES 3 B 403 PRO ASP ALA ARG ASN GLU LYS GLN PRO PHE TYR GLY GLU SEQRES 4 B 403 HIS GLN ALA GLY ILE LEU THR PRO GLN GLN ALA ALA MET SEQRES 5 B 403 MET LEU VAL ALA PHE ASP VAL LEU ALA SER ASP LYS ALA SEQRES 6 B 403 ASP LEU GLU ARG LEU PHE ARG LEU LEU THR GLN ARG PHE SEQRES 7 B 403 ALA PHE LEU THR GLN GLY GLY ALA ALA PRO GLU THR PRO SEQRES 8 B 403 ASN PRO ARG LEU PRO PRO LEU ASP SER GLY ILE LEU GLY SEQRES 9 B 403 GLY TYR ILE ALA PRO ASP ASN LEU THR ILE THR LEU SER SEQRES 10 B 403 VAL GLY HIS SER LEU PHE ASP GLU ARG PHE GLY LEU ALA SEQRES 11 B 403 PRO GLN MET PRO LYS LYS LEU GLN LYS MET THR ARG PHE SEQRES 12 B 403 PRO ASN ASP SER LEU ASP ALA ALA LEU CYS HIS GLY ASP SEQRES 13 B 403 VAL LEU LEU GLN ILE CYS ALA ASN THR GLN ASP THR VAL SEQRES 14 B 403 ILE HIS ALA LEU ARG ASP ILE ILE LYS HIS THR PRO ASP SEQRES 15 B 403 LEU LEU SER VAL ARG TRP LYS ARG GLU GLY PHE ILE SER SEQRES 16 B 403 ASP HIS ALA ALA ARG SER LYS GLY LYS GLU THR PRO ILE SEQRES 17 B 403 ASN LEU LEU GLY PHE LYS ASP GLY THR ALA ASN PRO ASP SEQRES 18 B 403 SER GLN ASN ASP LYS LEU MET GLN LYS VAL VAL TRP VAL SEQRES 19 B 403 THR ALA ASP GLN GLN GLU PRO ALA TRP THR ILE GLY GLY SEQRES 20 B 403 SER TYR GLN ALA VAL ARG LEU ILE GLN PHE ARG VAL GLU SEQRES 21 B 403 PHE TRP ASP ARG THR PRO LEU LYS GLU GLN GLN THR ILE SEQRES 22 B 403 PHE GLY ARG ASP LYS GLN THR GLY ALA PRO LEU GLY MET SEQRES 23 B 403 GLN HIS GLU HIS ASP VAL PRO ASP TYR ALA SER ASP PRO SEQRES 24 B 403 GLU GLY LYS VAL ILE ALA LEU ASP SER HIS ILE ARG LEU SEQRES 25 B 403 ALA ASN PRO ARG THR ALA GLU SER GLU SER SER LEU MET SEQRES 26 B 403 LEU ARG ARG GLY TYR SER TYR SER LEU GLY VAL THR ASN SEQRES 27 B 403 SER GLY GLN LEU ASP MET GLY LEU LEU PHE VAL CYS TYR SEQRES 28 B 403 GLN HIS ASP LEU GLU LYS GLY PHE LEU THR VAL GLN LYS SEQRES 29 B 403 ARG LEU ASN GLY GLU ALA LEU GLU GLU TYR VAL LYS PRO SEQRES 30 B 403 ILE GLY GLY GLY TYR PHE PHE ALA LEU PRO GLY VAL LYS SEQRES 31 B 403 ASP ALA ASN ASP TYR PHE GLY SER ALA LEU LEU ARG VAL HET PP9 A1389 42 HET SO4 A1390 5 HET PG4 A1391 13 HET PG4 A1392 13 HET PP9 B1389 42 HET SO4 B1390 5 HETNAM PP9 PROTOPORPHYRIN IX HETNAM SO4 SULFATE ION HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 3 PP9 2(C34 H34 N4 O4) FORMUL 4 SO4 2(O4 S 2-) FORMUL 5 PG4 2(C8 H18 O5) FORMUL 9 HOH *258(H2 O) HELIX 1 1 ASP A 48 GLY A 69 1 22 HELIX 2 2 SER A 106 ASP A 109 5 4 HELIX 3 3 LEU A 114 MET A 118 5 5 HELIX 4 4 ASP A 134 LEU A 137 5 4 HELIX 5 5 THR A 150 HIS A 164 1 15 HELIX 6 6 SER A 180 LYS A 187 1 8 HELIX 7 7 ASN A 209 VAL A 217 1 9 HELIX 8 8 PRO A 226 ILE A 230 5 5 HELIX 9 9 ARG A 243 ARG A 249 1 7 HELIX 10 10 PRO A 251 GLY A 260 1 10 HELIX 11 11 ASP A 279 ASP A 283 5 5 HELIX 12 12 SER A 293 ASN A 299 1 7 HELIX 13 13 GLY A 343 ASN A 352 1 10 HELIX 14 14 GLU A 354 GLU A 358 5 5 HELIX 15 15 GLY A 382 ARG A 387 1 6 HELIX 16 16 ASP B 48 GLY B 69 1 22 HELIX 17 17 SER B 106 ASP B 109 5 4 HELIX 18 18 LEU B 114 MET B 118 5 5 HELIX 19 19 ASP B 134 LEU B 137 5 4 HELIX 20 20 THR B 150 THR B 165 1 16 HELIX 21 21 SER B 180 SER B 186 1 7 HELIX 22 22 ASN B 209 VAL B 217 1 9 HELIX 23 23 PRO B 226 ILE B 230 5 5 HELIX 24 24 ARG B 243 ARG B 249 1 7 HELIX 25 25 PRO B 251 GLY B 260 1 10 HELIX 26 26 ASP B 279 ASP B 283 5 5 HELIX 27 27 SER B 293 ALA B 298 1 6 HELIX 28 28 GLY B 343 ASN B 352 1 10 HELIX 29 29 GLU B 354 GLU B 358 5 5 HELIX 30 30 GLY B 382 ARG B 387 1 6 SHEET 1 AA 9 ALA A 36 VAL A 44 0 SHEET 2 AA 9 VAL A 142 ALA A 148 -1 O VAL A 142 N PHE A 42 SHEET 3 AA 9 THR A 98 GLY A 104 -1 O THR A 98 N CYS A 147 SHEET 4 AA 9 VAL A 360 ALA A 370 -1 O PHE A 369 N VAL A 103 SHEET 5 AA 9 SER A 233 PHE A 242 -1 O SER A 233 N ALA A 370 SHEET 6 AA 9 LEU A 327 GLN A 337 -1 O MET A 329 N PHE A 242 SHEET 7 AA 9 TYR A 315 VAL A 321 -1 O TYR A 315 N LEU A 332 SHEET 8 AA 9 LEU A 169 PHE A 178 -1 O PHE A 178 N SER A 316 SHEET 9 AA 9 ALA A 36 VAL A 44 0 SHEET 1 AB 2 GLY A 70 ALA A 71 0 SHEET 2 AB 2 TYR A 91 ILE A 92 -1 O ILE A 92 N GLY A 70 SHEET 1 BA 9 ALA B 36 VAL B 44 0 SHEET 2 BA 9 VAL B 142 ALA B 148 -1 O VAL B 142 N PHE B 42 SHEET 3 BA 9 THR B 98 GLY B 104 -1 O THR B 98 N CYS B 147 SHEET 4 BA 9 VAL B 360 ALA B 370 -1 O PHE B 369 N VAL B 103 SHEET 5 BA 9 SER B 233 PHE B 242 -1 O SER B 233 N ALA B 370 SHEET 6 BA 9 LEU B 327 GLN B 337 -1 O MET B 329 N PHE B 242 SHEET 7 BA 9 TYR B 315 VAL B 321 -1 O TYR B 315 N LEU B 332 SHEET 8 BA 9 LEU B 169 PHE B 178 -1 O PHE B 178 N SER B 316 SHEET 9 BA 9 ALA B 36 VAL B 44 0 SHEET 1 BB 2 GLY B 70 ALA B 71 0 SHEET 2 BB 2 TYR B 91 ILE B 92 -1 O ILE B 92 N GLY B 70 CISPEP 1 ALA A 6 PRO A 7 0 7.11 CISPEP 2 ALA B 6 PRO B 7 0 -0.03 SITE 1 AC1 23 ASN A 194 LYS A 199 ASP A 200 GLY A 201 SITE 2 AC1 23 THR A 202 ALA A 203 PHE A 259 ARG A 261 SITE 3 AC1 23 HIS A 294 ILE A 295 ASN A 299 ARG A 301 SITE 4 AC1 23 SER A 307 MET A 310 ARG A 312 PHE A 333 SITE 5 AC1 23 PHE A 344 VAL A 347 GLN A 348 LEU A 351 SITE 6 AC1 23 LEU A 356 VAL A 360 HOH A2116 SITE 1 AC2 5 ARG A 15 ASN A 16 THR A 126 ARG A 127 SITE 2 AC2 5 HOH A2009 SITE 1 AC3 5 ALA A 135 ALA A 136 ARG A 172 ASN B 323 SITE 2 AC3 5 SER B 324 SITE 1 AC4 8 ASP A 43 VAL A 44 HIS A 105 SER A 106 SITE 2 AC4 8 ASP A 109 ARG A 111 ASP A 141 HOH A2166 SITE 1 AC5 21 ASN B 194 LYS B 199 ASP B 200 GLY B 201 SITE 2 AC5 21 THR B 202 ALA B 203 PHE B 259 ARG B 261 SITE 3 AC5 21 HIS B 294 ILE B 295 ASN B 299 ARG B 312 SITE 4 AC5 21 PHE B 333 PHE B 344 VAL B 347 GLN B 348 SITE 5 AC5 21 LEU B 351 LEU B 356 VAL B 360 HOH B2028 SITE 6 AC5 21 HOH B2084 SITE 1 AC6 6 GLY A 320 VAL A 321 LEU B 137 ARG B 175 SITE 2 AC6 6 HOH B2090 HOH B2092 CRYST1 82.952 86.622 120.674 90.00 90.00 90.00 P 21 21 21 8 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 0.012055 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011544 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008287 0.00000