HEADER HYDROLASE 07-MAY-08 2ZO9 TITLE MALONATE-BOUND STRUCTURE OF THE GLYCEROPHOSPHODIESTERASE FROM TITLE 2 ENTEROBACTER AEROGENES (GPDQ) AND CHARACTERIZATION OF THE NATIVE FE2+ TITLE 3 METAL ION PREFERENCE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOHYDROLASE; COMPND 3 CHAIN: B, C; COMPND 4 SYNONYM: GPDQ, GLYCEROPHOSPHODIESTERASE; COMPND 5 EC: 3.1.4.46; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTER AEROGENES; SOURCE 3 ORGANISM_TAXID: 548; SOURCE 4 GENE: GPDQ; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DH5A; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PCY76 KEYWDS MALONATE, METALLOENZYME, IRON, PHOSPHODIESTERASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.J.JACKSON,P.D.CARR,D.L.OLLIS REVDAT 4 01-NOV-23 2ZO9 1 REMARK REVDAT 3 13-JUL-11 2ZO9 1 VERSN REVDAT 2 24-FEB-09 2ZO9 1 VERSN REVDAT 1 07-OCT-08 2ZO9 0 JRNL AUTH C.J.JACKSON,K.S.HADLER,P.D.CARR,A.J.OAKLEY,S.YIP,G.SCHENK, JRNL AUTH 2 D.L.OLLIS JRNL TITL MALONATE-BOUND STRUCTURE OF THE GLYCEROPHOSPHODIESTERASE JRNL TITL 2 FROM ENTEROBACTER AEROGENES (GPDQ) AND CHARACTERIZATION OF JRNL TITL 3 THE NATIVE FE2+ METAL-ION PREFERENCE. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 64 681 2008 JRNL REFN ESSN 1744-3091 JRNL PMID 18678932 JRNL DOI 10.1107/S1744309108017600 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 69628 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3703 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4770 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.34 REMARK 3 BIN R VALUE (WORKING SET) : 0.2850 REMARK 3 BIN FREE R VALUE SET COUNT : 241 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4266 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 161 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 50.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.108 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.085 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.812 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4398 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6000 ; 1.602 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 540 ; 6.785 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 214 ;35.276 ;23.832 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 670 ;18.510 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;21.713 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 650 ; 0.131 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3454 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1938 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2919 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 220 ; 0.144 ; 0.200 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): 39 ; 0.166 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.114 ; 0.200 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): 2781 ; 0.941 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4370 ; 1.239 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1837 ; 2.288 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1630 ; 3.492 ; 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 : 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 : B 1 B 195 REMARK 3 ORIGIN FOR THE GROUP (A): 48.9340 7.7060 5.1390 REMARK 3 T TENSOR REMARK 3 T11: -0.0294 T22: -0.1051 REMARK 3 T33: -0.0733 T12: 0.0357 REMARK 3 T13: 0.1358 T23: 0.0924 REMARK 3 L TENSOR REMARK 3 L11: 1.8387 L22: 0.9478 REMARK 3 L33: 1.2381 L12: 0.1354 REMARK 3 L13: -0.4620 L23: -0.2944 REMARK 3 S TENSOR REMARK 3 S11: -0.0808 S12: -0.2835 S13: -0.3183 REMARK 3 S21: 0.2983 S22: 0.1287 S23: 0.1438 REMARK 3 S31: -0.0551 S32: 0.0551 S33: -0.0479 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 : B 196 B 255 REMARK 3 ORIGIN FOR THE GROUP (A): 42.5770 13.0540 -5.8570 REMARK 3 T TENSOR REMARK 3 T11: -0.1025 T22: -0.1621 REMARK 3 T33: -0.0069 T12: 0.0067 REMARK 3 T13: 0.1416 T23: 0.0628 REMARK 3 L TENSOR REMARK 3 L11: 2.6784 L22: 0.7009 REMARK 3 L33: 1.5868 L12: -0.1372 REMARK 3 L13: -0.7586 L23: -0.8356 REMARK 3 S TENSOR REMARK 3 S11: -0.0775 S12: 0.0007 S13: -0.3619 REMARK 3 S21: 0.1126 S22: 0.1591 S23: 0.2598 REMARK 3 S31: -0.0444 S32: -0.1578 S33: -0.0816 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 : B 256 B 271 REMARK 3 ORIGIN FOR THE GROUP (A): 46.6350 38.9530 -16.6500 REMARK 3 T TENSOR REMARK 3 T11: -0.0827 T22: -0.1701 REMARK 3 T33: -0.1129 T12: -0.0659 REMARK 3 T13: 0.0871 T23: -0.0333 REMARK 3 L TENSOR REMARK 3 L11: 10.0430 L22: 5.6375 REMARK 3 L33: 6.6469 L12: -5.7243 REMARK 3 L13: 3.8157 L23: -4.1123 REMARK 3 S TENSOR REMARK 3 S11: -0.2449 S12: -0.4193 S13: 0.2799 REMARK 3 S21: 0.3486 S22: 0.3522 S23: 0.2349 REMARK 3 S31: -0.7101 S32: -0.3431 S33: -0.1073 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 : C 1 C 195 REMARK 3 ORIGIN FOR THE GROUP (A): 27.4850 26.7410 -17.0760 REMARK 3 T TENSOR REMARK 3 T11: -0.1541 T22: -0.1168 REMARK 3 T33: 0.0178 T12: 0.0470 REMARK 3 T13: 0.1368 T23: 0.0313 REMARK 3 L TENSOR REMARK 3 L11: 1.7244 L22: 1.0193 REMARK 3 L33: 2.2133 L12: 0.0162 REMARK 3 L13: -0.4050 L23: -0.4145 REMARK 3 S TENSOR REMARK 3 S11: -0.0625 S12: 0.0401 S13: -0.1247 REMARK 3 S21: 0.1503 S22: 0.1994 S23: 0.3606 REMARK 3 S31: -0.2081 S32: -0.3265 S33: -0.1369 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 : C 196 C 255 REMARK 3 ORIGIN FOR THE GROUP (A): 37.9370 22.2610 -9.0950 REMARK 3 T TENSOR REMARK 3 T11: -0.0905 T22: -0.1463 REMARK 3 T33: -0.0659 T12: 0.0411 REMARK 3 T13: 0.1558 T23: 0.0349 REMARK 3 L TENSOR REMARK 3 L11: 1.8051 L22: 1.2702 REMARK 3 L33: 2.0854 L12: -0.2605 REMARK 3 L13: -0.7898 L23: -1.1074 REMARK 3 S TENSOR REMARK 3 S11: 0.0163 S12: -0.1762 S13: -0.0949 REMARK 3 S21: 0.3323 S22: 0.1351 S23: 0.1872 REMARK 3 S31: -0.3008 S32: -0.0529 S33: -0.1513 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 256 C 271 REMARK 3 ORIGIN FOR THE GROUP (A): 56.4020 1.7250 -15.4420 REMARK 3 T TENSOR REMARK 3 T11: -0.1211 T22: -0.1714 REMARK 3 T33: -0.0357 T12: -0.0360 REMARK 3 T13: 0.0754 T23: -0.0496 REMARK 3 L TENSOR REMARK 3 L11: 7.1207 L22: 6.2399 REMARK 3 L33: 5.9286 L12: -3.4683 REMARK 3 L13: 1.6672 L23: -4.2193 REMARK 3 S TENSOR REMARK 3 S11: 0.0228 S12: -0.1717 S13: -1.1076 REMARK 3 S21: -0.2084 S22: 0.2794 S23: 0.6188 REMARK 3 S31: 0.5829 S32: -0.0945 S33: -0.3021 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 2ZO9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-MAY-08. REMARK 100 THE DEPOSITION ID IS D_1000028217. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2947 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73371 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 20.900 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06900 REMARK 200 FOR THE DATA SET : 20.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.47400 REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2DXN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7, VAPOR DIFFUSION, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 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 82.07950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 82.07950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 82.07950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 82.07950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 82.07950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 82.07950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 82.07950 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 82.07950 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 82.07950 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 82.07950 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 82.07950 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 82.07950 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 82.07950 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 82.07950 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 82.07950 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 82.07950 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 82.07950 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 82.07950 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 26700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 50850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -272.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 0.000000 0.000000 1.000000 82.07950 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 82.07950 REMARK 350 BIOMT3 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 82.07950 REMARK 350 BIOMT2 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT3 3 1.000000 0.000000 0.000000 -82.07950 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 GLU B 272 REMARK 465 GLU B 273 REMARK 465 ARG B 274 REMARK 465 GLU C 272 REMARK 465 GLU C 273 REMARK 465 ARG C 274 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 B 278 O HOH B 326 2.05 REMARK 500 OD1 ASP B 8 FE FE2 B 275 2.07 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 B 12 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG B 190 CG - CD - NE ANGL. DEV. = -13.8 DEGREES REMARK 500 ARG B 190 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 190 NE - CZ - NH2 ANGL. DEV. = -5.2 DEGREES REMARK 500 LEU B 208 CA - CB - CG ANGL. DEV. = 17.8 DEGREES REMARK 500 ARG C 12 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG C 190 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 LEU C 208 CA - CB - CG ANGL. DEV. = 17.5 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 PHE B 21 -14.46 -141.94 REMARK 500 ASN B 71 54.66 -92.71 REMARK 500 HIS B 195 -52.74 79.64 REMARK 500 SER B 198 138.92 -172.04 REMARK 500 ARG B 205 -126.95 52.99 REMARK 500 VAL B 216 -90.97 -125.74 REMARK 500 PHE C 21 -16.70 -141.16 REMARK 500 SER C 48 45.43 -87.50 REMARK 500 ASN C 71 50.26 -90.93 REMARK 500 HIS C 195 -51.21 73.93 REMARK 500 SER C 198 140.65 -172.59 REMARK 500 ARG C 205 -122.35 50.29 REMARK 500 VAL C 216 -91.79 -126.33 REMARK 500 LEU C 232 40.36 -109.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 B 275 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 B 276 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 C 275 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 C 276 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI B 277 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI C 277 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2DXN RELATED DB: PDB REMARK 900 GPDQ WITH BOUND ZINC REMARK 900 RELATED ID: 2ZOA RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE DEPOSITORS BELIEVE THAT ALA 224 AND ASP 227 ARE CORRECT AND REMARK 999 THAT GLU 224 AND ARG 227 IN THE DATABASE SEQUENCE ARE ERRORS. DBREF 2ZO9 B 1 274 UNP Q6XBH1 Q6XBH1_ENTAE 1 274 DBREF 2ZO9 C 1 274 UNP Q6XBH1 Q6XBH1_ENTAE 1 274 SEQADV 2ZO9 ALA B 224 UNP Q6XBH1 GLU 224 SEE REMARK 999 SEQADV 2ZO9 ASP B 227 UNP Q6XBH1 ARG 227 SEE REMARK 999 SEQADV 2ZO9 ALA C 224 UNP Q6XBH1 GLU 224 SEE REMARK 999 SEQADV 2ZO9 ASP C 227 UNP Q6XBH1 ARG 227 SEE REMARK 999 SEQRES 1 B 274 MET LEU LEU ALA HIS ILE SER ASP THR HIS PHE ARG SER SEQRES 2 B 274 ARG GLY GLU LYS LEU TYR GLY PHE ILE ASP VAL ASN ALA SEQRES 3 B 274 ALA ASN ALA ASP VAL VAL SER GLN LEU ASN ALA LEU ARG SEQRES 4 B 274 GLU ARG PRO ASP ALA VAL VAL VAL SER GLY ASP ILE VAL SEQRES 5 B 274 ASN CYS GLY ARG PRO GLU GLU TYR GLN VAL ALA ARG GLN SEQRES 6 B 274 ILE LEU GLY SER LEU ASN TYR PRO LEU TYR LEU ILE PRO SEQRES 7 B 274 GLY ASN HIS ASP ASP LYS ALA LEU PHE LEU GLU TYR LEU SEQRES 8 B 274 GLN PRO LEU CYS PRO GLN LEU GLY SER ASP ALA ASN ASN SEQRES 9 B 274 MET ARG CYS ALA VAL ASP ASP PHE ALA THR ARG LEU LEU SEQRES 10 B 274 PHE ILE ASP SER SER ARG ALA GLY THR SER LYS GLY TRP SEQRES 11 B 274 LEU THR ASP GLU THR ILE SER TRP LEU GLU ALA GLN LEU SEQRES 12 B 274 PHE GLU GLY GLY ASP LYS PRO ALA THR ILE PHE MET HIS SEQRES 13 B 274 HIS PRO PRO LEU PRO LEU GLY ASN ALA GLN MET ASP PRO SEQRES 14 B 274 ILE ALA CYS GLU ASN GLY HIS ARG LEU LEU ALA LEU VAL SEQRES 15 B 274 GLU ARG PHE PRO SER LEU THR ARG ILE PHE CYS GLY HIS SEQRES 16 B 274 ASN HIS SER LEU THR MET THR GLN TYR ARG GLN ALA LEU SEQRES 17 B 274 ILE SER THR LEU PRO GLY THR VAL HIS GLN VAL PRO TYR SEQRES 18 B 274 CYS HIS ALA ASP THR ASP PRO TYR TYR ASP LEU SER PRO SEQRES 19 B 274 ALA SER CYS LEU MET HIS ARG GLN VAL GLY GLU GLN TRP SEQRES 20 B 274 VAL SER TYR GLN HIS SER LEU ALA HIS TYR ALA GLY PRO SEQRES 21 B 274 TRP LEU TYR ASP GLU ASN ILE SER CYS PRO THR GLU GLU SEQRES 22 B 274 ARG SEQRES 1 C 274 MET LEU LEU ALA HIS ILE SER ASP THR HIS PHE ARG SER SEQRES 2 C 274 ARG GLY GLU LYS LEU TYR GLY PHE ILE ASP VAL ASN ALA SEQRES 3 C 274 ALA ASN ALA ASP VAL VAL SER GLN LEU ASN ALA LEU ARG SEQRES 4 C 274 GLU ARG PRO ASP ALA VAL VAL VAL SER GLY ASP ILE VAL SEQRES 5 C 274 ASN CYS GLY ARG PRO GLU GLU TYR GLN VAL ALA ARG GLN SEQRES 6 C 274 ILE LEU GLY SER LEU ASN TYR PRO LEU TYR LEU ILE PRO SEQRES 7 C 274 GLY ASN HIS ASP ASP LYS ALA LEU PHE LEU GLU TYR LEU SEQRES 8 C 274 GLN PRO LEU CYS PRO GLN LEU GLY SER ASP ALA ASN ASN SEQRES 9 C 274 MET ARG CYS ALA VAL ASP ASP PHE ALA THR ARG LEU LEU SEQRES 10 C 274 PHE ILE ASP SER SER ARG ALA GLY THR SER LYS GLY TRP SEQRES 11 C 274 LEU THR ASP GLU THR ILE SER TRP LEU GLU ALA GLN LEU SEQRES 12 C 274 PHE GLU GLY GLY ASP LYS PRO ALA THR ILE PHE MET HIS SEQRES 13 C 274 HIS PRO PRO LEU PRO LEU GLY ASN ALA GLN MET ASP PRO SEQRES 14 C 274 ILE ALA CYS GLU ASN GLY HIS ARG LEU LEU ALA LEU VAL SEQRES 15 C 274 GLU ARG PHE PRO SER LEU THR ARG ILE PHE CYS GLY HIS SEQRES 16 C 274 ASN HIS SER LEU THR MET THR GLN TYR ARG GLN ALA LEU SEQRES 17 C 274 ILE SER THR LEU PRO GLY THR VAL HIS GLN VAL PRO TYR SEQRES 18 C 274 CYS HIS ALA ASP THR ASP PRO TYR TYR ASP LEU SER PRO SEQRES 19 C 274 ALA SER CYS LEU MET HIS ARG GLN VAL GLY GLU GLN TRP SEQRES 20 C 274 VAL SER TYR GLN HIS SER LEU ALA HIS TYR ALA GLY PRO SEQRES 21 C 274 TRP LEU TYR ASP GLU ASN ILE SER CYS PRO THR GLU GLU SEQRES 22 C 274 ARG HET FE2 B 275 1 HET FE2 B 276 1 HET MLI B 277 7 HET FE2 C 275 1 HET FE2 C 276 1 HET MLI C 277 7 HETNAM FE2 FE (II) ION HETNAM MLI MALONATE ION FORMUL 3 FE2 4(FE 2+) FORMUL 5 MLI 2(C3 H2 O4 2-) FORMUL 9 HOH *161(H2 O) HELIX 1 1 LYS B 17 PHE B 21 5 5 HELIX 2 2 ASP B 23 LEU B 38 1 16 HELIX 3 3 ARG B 56 GLY B 68 1 13 HELIX 4 4 ASP B 83 GLN B 92 1 10 HELIX 5 5 PRO B 93 GLY B 99 5 7 HELIX 6 6 THR B 132 GLU B 145 1 14 HELIX 7 7 MET B 167 ALA B 171 5 5 HELIX 8 8 GLY B 175 PHE B 185 1 11 HELIX 9 9 ASP B 264 CYS B 269 1 6 HELIX 10 10 LYS C 17 PHE C 21 5 5 HELIX 11 11 ASP C 23 ALA C 37 1 15 HELIX 12 12 ARG C 56 GLY C 68 1 13 HELIX 13 13 ASP C 83 GLN C 92 1 10 HELIX 14 14 CYS C 95 GLY C 99 5 5 HELIX 15 15 THR C 132 GLY C 147 1 16 HELIX 16 16 MET C 167 ALA C 171 5 5 HELIX 17 17 GLY C 175 PHE C 185 1 11 HELIX 18 18 ASP C 264 CYS C 269 1 6 SHEET 1 A11 LEU B 74 ILE B 77 0 SHEET 2 A11 ALA B 44 SER B 48 1 N VAL B 47 O TYR B 75 SHEET 3 A11 LEU B 2 ILE B 6 1 N ILE B 6 O VAL B 46 SHEET 4 A11 SER B 236 VAL B 243 -1 O HIS B 240 N LEU B 3 SHEET 5 A11 GLN B 246 SER B 253 -1 O GLN B 246 N VAL B 243 SHEET 6 A11 THR C 200 TYR C 204 -1 O MET C 201 N SER B 249 SHEET 7 A11 ALA C 207 THR C 211 -1 O ILE C 209 N THR C 202 SHEET 8 A11 LEU C 188 CYS C 193 1 N CYS C 193 O SER C 210 SHEET 9 A11 ALA C 151 MET C 155 1 N ILE C 153 O PHE C 192 SHEET 10 A11 ARG C 115 PHE C 118 1 N LEU C 117 O PHE C 154 SHEET 11 A11 CYS C 107 VAL C 109 -1 N CYS C 107 O PHE C 118 SHEET 1 B11 ARG B 106 VAL B 109 0 SHEET 2 B11 ARG B 115 ILE B 119 -1 O LEU B 116 N VAL B 109 SHEET 3 B11 ALA B 151 MET B 155 1 O PHE B 154 N LEU B 117 SHEET 4 B11 LEU B 188 CYS B 193 1 O PHE B 192 N ILE B 153 SHEET 5 B11 ALA B 207 THR B 211 1 O SER B 210 N CYS B 193 SHEET 6 B11 THR B 200 TYR B 204 -1 N THR B 202 O ILE B 209 SHEET 7 B11 GLN C 246 SER C 253 -1 O SER C 249 N MET B 201 SHEET 8 B11 SER C 236 VAL C 243 -1 N VAL C 243 O GLN C 246 SHEET 9 B11 LEU C 2 ILE C 6 -1 N LEU C 3 O HIS C 240 SHEET 10 B11 ALA C 44 SER C 48 1 O VAL C 46 N ALA C 4 SHEET 11 B11 LEU C 74 ILE C 77 1 O TYR C 75 N VAL C 45 SHEET 1 C 2 TYR B 229 TYR B 230 0 SHEET 2 C 2 TRP C 261 LEU C 262 -1 O TRP C 261 N TYR B 230 SHEET 1 D 2 TRP B 261 LEU B 262 0 SHEET 2 D 2 TYR C 229 TYR C 230 -1 O TYR C 230 N TRP B 261 SSBOND 1 CYS B 54 CYS C 269 1555 1555 2.09 SSBOND 2 CYS B 269 CYS C 54 1555 1555 2.12 LINK OD1 ASN B 80 FE FE2 B 276 1555 1555 2.27 LINK OD1 ASN C 80 FE FE2 C 276 1555 1555 2.29 CISPEP 1 GLY B 259 PRO B 260 0 2.56 CISPEP 2 GLY C 259 PRO C 260 0 5.89 SITE 1 AC1 4 ASP B 8 HIS B 10 ASP B 50 HIS B 197 SITE 1 AC2 4 ASP B 50 ASN B 80 HIS B 156 HIS B 195 SITE 1 AC3 4 ASP C 8 HIS C 10 ASP C 50 HIS C 197 SITE 1 AC4 4 ASP C 50 ASN C 80 HIS C 156 HIS C 195 SITE 1 AC5 7 ASP B 8 HIS B 10 ASP B 50 ASN B 80 SITE 2 AC5 7 HIS B 81 HIS B 195 HIS B 197 SITE 1 AC6 8 ASP C 8 HIS C 10 ASP C 50 ASN C 80 SITE 2 AC6 8 HIS C 81 ILE C 170 HIS C 195 HIS C 197 CRYST1 164.159 164.159 164.159 90.00 90.00 90.00 P 21 3 24 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 0.006092 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006092 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006092 0.00000