HEADER HYDROLASE 06-OCT-08 3ESQ TITLE CRYSTAL STRUCTURE OF CALCIUM-BOUND D,D-HEPTOSE 1.7-BISPHOSPHATE TITLE 2 PHOSPHATASE FROM E. COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: D,D-HEPTOSE 1,7-BISPHOSPHATE PHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: D-GLYCERO-D-MANNO-HEPTOSE 1,7-BISPHOSPHATE PHOSPHATASE; COMPND 5 EC: 3.1.3.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: B0200, GMHB, JW0196, YAED; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PDEST17 KEYWDS CARBOHYDRATE METABOLISM, HYDROLASE, LIPOPOLYSACCHARIDE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR S.N.SUGIMAN-MARANGOS,M.S.JUNOP REVDAT 4 06-SEP-23 3ESQ 1 REMARK SEQADV REVDAT 3 11-APR-12 3ESQ 1 REMARK VERSN REVDAT 2 24-FEB-09 3ESQ 1 VERSN REVDAT 1 14-OCT-08 3ESQ 0 JRNL AUTH P.TAYLOR,S.N.SUGIMAN-MARANGOS,K.ZHANG,G.DELEON,G.D.WRIGHT, JRNL AUTH 2 M.S.JUNOP JRNL TITL CRYSTAL STRUCTURE OF D,D-HEPTOSE 1.7-BISPHOSPHATE JRNL TITL 2 PHOSPHATASE FROM E. COLI. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.2 REMARK 3 NUMBER OF REFLECTIONS : 17299 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 944 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) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1051 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 79.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.3280 REMARK 3 BIN FREE R VALUE SET COUNT : 58 REMARK 3 BIN FREE R VALUE : 0.4080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1423 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 192 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.08 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.22000 REMARK 3 B22 (A**2) : -0.58000 REMARK 3 B33 (A**2) : 1.80000 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): 0.137 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.140 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.111 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.884 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1454 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1973 ; 1.504 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 181 ; 6.729 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 70 ;36.501 ;24.714 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 242 ;12.846 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;20.815 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 218 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1115 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 696 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 999 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 152 ; 0.197 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.133 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 48 ; 0.248 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.225 ; 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): 905 ; 0.885 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1457 ; 1.376 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 549 ; 2.502 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 516 ; 3.622 ; 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 : 13 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 24 A 62 REMARK 3 ORIGIN FOR THE GROUP (A): 20.2430 9.7770 15.4720 REMARK 3 T TENSOR REMARK 3 T11: 0.0601 T22: 0.0351 REMARK 3 T33: 0.0744 T12: -0.0173 REMARK 3 T13: 0.0205 T23: -0.0223 REMARK 3 L TENSOR REMARK 3 L11: 2.7228 L22: 1.8849 REMARK 3 L33: 3.2314 L12: 0.0647 REMARK 3 L13: 0.5689 L23: -1.0368 REMARK 3 S TENSOR REMARK 3 S11: 0.0509 S12: 0.0219 S13: -0.3055 REMARK 3 S21: 0.1449 S22: 0.0191 S23: 0.0287 REMARK 3 S31: -0.1588 S32: 0.1512 S33: -0.0700 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 63 A 95 REMARK 3 ORIGIN FOR THE GROUP (A): 15.5040 13.2290 22.0490 REMARK 3 T TENSOR REMARK 3 T11: 0.1483 T22: 0.0017 REMARK 3 T33: -0.0095 T12: -0.0139 REMARK 3 T13: 0.0522 T23: 0.0085 REMARK 3 L TENSOR REMARK 3 L11: 1.8429 L22: 1.2136 REMARK 3 L33: 3.5687 L12: 0.2012 REMARK 3 L13: -0.7507 L23: -1.8795 REMARK 3 S TENSOR REMARK 3 S11: 0.1222 S12: -0.0672 S13: -0.0877 REMARK 3 S21: 0.2809 S22: 0.0196 S23: 0.1501 REMARK 3 S31: -0.4696 S32: 0.0445 S33: -0.1418 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 96 A 105 REMARK 3 ORIGIN FOR THE GROUP (A): 23.9090 21.1560 14.3960 REMARK 3 T TENSOR REMARK 3 T11: 0.0724 T22: 0.0219 REMARK 3 T33: -0.0373 T12: -0.0729 REMARK 3 T13: 0.0003 T23: 0.0047 REMARK 3 L TENSOR REMARK 3 L11: 9.5947 L22: 13.5716 REMARK 3 L33: 8.0553 L12: 1.2618 REMARK 3 L13: -0.5762 L23: 1.2042 REMARK 3 S TENSOR REMARK 3 S11: 0.0101 S12: 0.1202 S13: 0.1416 REMARK 3 S21: 0.0011 S22: 0.0502 S23: -0.2241 REMARK 3 S31: -0.1830 S32: 0.3853 S33: -0.0603 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 106 A 118 REMARK 3 ORIGIN FOR THE GROUP (A): 8.0540 11.2930 24.0390 REMARK 3 T TENSOR REMARK 3 T11: 0.0858 T22: 0.0576 REMARK 3 T33: 0.0054 T12: 0.0051 REMARK 3 T13: 0.0384 T23: 0.0757 REMARK 3 L TENSOR REMARK 3 L11: 0.0634 L22: 0.3099 REMARK 3 L33: 2.5583 L12: -0.0750 REMARK 3 L13: 0.2108 L23: 0.3911 REMARK 3 S TENSOR REMARK 3 S11: 0.1793 S12: 0.0757 S13: 0.0441 REMARK 3 S21: 0.2185 S22: 0.2629 S23: 0.4396 REMARK 3 S31: -0.4285 S32: -0.3250 S33: -0.4422 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 119 A 130 REMARK 3 ORIGIN FOR THE GROUP (A): 2.9020 8.0790 31.3890 REMARK 3 T TENSOR REMARK 3 T11: 0.0145 T22: 0.1117 REMARK 3 T33: 0.0362 T12: 0.0682 REMARK 3 T13: 0.0924 T23: 0.1013 REMARK 3 L TENSOR REMARK 3 L11: 1.9479 L22: 3.4535 REMARK 3 L33: 15.8790 L12: -2.5446 REMARK 3 L13: 0.7834 L23: 0.3966 REMARK 3 S TENSOR REMARK 3 S11: -0.0772 S12: -0.2586 S13: -0.0630 REMARK 3 S21: 0.1022 S22: 0.2443 S23: 0.0406 REMARK 3 S31: -0.4684 S32: -0.5062 S33: -0.1671 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 : A 131 A 143 REMARK 3 ORIGIN FOR THE GROUP (A): 2.1190 13.2900 15.6440 REMARK 3 T TENSOR REMARK 3 T11: 0.0063 T22: 0.0123 REMARK 3 T33: 0.1344 T12: 0.0291 REMARK 3 T13: 0.0712 T23: 0.0484 REMARK 3 L TENSOR REMARK 3 L11: 3.5839 L22: 23.3503 REMARK 3 L33: 5.5456 L12: -5.6564 REMARK 3 L13: 2.4320 L23: -8.3175 REMARK 3 S TENSOR REMARK 3 S11: -0.0867 S12: -0.1420 S13: -0.2198 REMARK 3 S21: 0.3327 S22: 0.2740 S23: 0.9366 REMARK 3 S31: -0.3093 S32: -0.1314 S33: -0.1873 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 144 A 151 REMARK 3 ORIGIN FOR THE GROUP (A): 3.5190 17.3390 5.5160 REMARK 3 T TENSOR REMARK 3 T11: 0.0003 T22: 0.0863 REMARK 3 T33: 0.1014 T12: 0.0488 REMARK 3 T13: -0.0077 T23: 0.1021 REMARK 3 L TENSOR REMARK 3 L11: 4.2307 L22: 8.3164 REMARK 3 L33: 13.3506 L12: 0.0877 REMARK 3 L13: -1.9483 L23: 6.2027 REMARK 3 S TENSOR REMARK 3 S11: 0.0698 S12: 0.7130 S13: 0.3604 REMARK 3 S21: -0.4022 S22: 0.1328 S23: 0.2888 REMARK 3 S31: -0.5617 S32: -0.4536 S33: -0.2026 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 152 A 178 REMARK 3 ORIGIN FOR THE GROUP (A): 8.6440 3.3520 9.7490 REMARK 3 T TENSOR REMARK 3 T11: -0.0021 T22: 0.0317 REMARK 3 T33: 0.1986 T12: -0.0098 REMARK 3 T13: 0.0177 T23: -0.0373 REMARK 3 L TENSOR REMARK 3 L11: 4.1522 L22: 2.8692 REMARK 3 L33: 1.2565 L12: 0.9796 REMARK 3 L13: 0.1095 L23: 0.0508 REMARK 3 S TENSOR REMARK 3 S11: -0.0317 S12: 0.3196 S13: -0.7554 REMARK 3 S21: 0.0787 S22: 0.0793 S23: 0.3037 REMARK 3 S31: -0.0169 S32: -0.0330 S33: -0.0476 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 179 A 187 REMARK 3 ORIGIN FOR THE GROUP (A): 10.9690 -7.0290 11.3710 REMARK 3 T TENSOR REMARK 3 T11: 0.0498 T22: -0.0218 REMARK 3 T33: 0.2115 T12: -0.0378 REMARK 3 T13: 0.0218 T23: -0.0232 REMARK 3 L TENSOR REMARK 3 L11: 31.0410 L22: 22.5570 REMARK 3 L33: 2.8609 L12: -6.4942 REMARK 3 L13: -2.9132 L23: -6.7967 REMARK 3 S TENSOR REMARK 3 S11: 0.2728 S12: -1.0087 S13: -0.9631 REMARK 3 S21: -0.0553 S22: 0.0317 S23: -0.5939 REMARK 3 S31: 0.0045 S32: 0.3487 S33: -0.3045 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 188 A 205 REMARK 3 ORIGIN FOR THE GROUP (A): 16.2420 4.6760 1.3170 REMARK 3 T TENSOR REMARK 3 T11: 0.0005 T22: 0.1332 REMARK 3 T33: 0.0927 T12: -0.0035 REMARK 3 T13: 0.0273 T23: -0.1542 REMARK 3 L TENSOR REMARK 3 L11: 3.5958 L22: 7.3295 REMARK 3 L33: 1.5024 L12: 4.7594 REMARK 3 L13: 0.3680 L23: -0.7411 REMARK 3 S TENSOR REMARK 3 S11: -0.2644 S12: 0.7171 S13: -0.4972 REMARK 3 S21: -0.5285 S22: 0.3113 S23: -0.0304 REMARK 3 S31: -0.0221 S32: 0.0417 S33: -0.0469 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 212 A 212 REMARK 3 ORIGIN FOR THE GROUP (A): 3.3189 9.5951 25.4224 REMARK 3 T TENSOR REMARK 3 T11: -0.0099 T22: 0.0270 REMARK 3 T33: -0.0122 T12: 0.0729 REMARK 3 T13: 0.0432 T23: 0.0794 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 213 A 213 REMARK 3 ORIGIN FOR THE GROUP (A): 14.2566 2.8320 17.4673 REMARK 3 T TENSOR REMARK 3 T11: -0.0159 T22: -0.0304 REMARK 3 T33: 0.0946 T12: -0.0315 REMARK 3 T13: 0.0043 T23: 0.0173 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 214 A 405 REMARK 3 ORIGIN FOR THE GROUP (A): 14.8523 9.0612 15.3024 REMARK 3 T TENSOR REMARK 3 T11: -0.0074 T22: -0.0255 REMARK 3 T33: -0.0291 T12: 0.0152 REMARK 3 T13: 0.0075 T23: 0.0098 REMARK 3 L TENSOR REMARK 3 L11: 0.8704 L22: 0.7112 REMARK 3 L33: 0.8087 L12: 0.4645 REMARK 3 L13: -0.1134 L23: -0.1967 REMARK 3 S TENSOR REMARK 3 S11: 0.0013 S12: 0.0562 S13: -0.0634 REMARK 3 S21: 0.0382 S22: 0.0489 S23: -0.0223 REMARK 3 S31: -0.0943 S32: 0.0411 S33: -0.0501 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 3ESQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-OCT-08. REMARK 100 THE DEPOSITION ID IS D_1000049720. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : BLUE CONFOCAL OPTICS MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18244 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 40.620 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.2 REMARK 200 DATA REDUNDANCY : 3.640 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.9000 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) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.36 REMARK 200 R MERGE FOR SHELL (I) : 0.31300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 2GMW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 0.1M TRIS, 0.005M DTT, REMARK 280 0.025M SODIUM CHLORIDE, 0.005M CALCIUM CHLORIDE, 11% GLYCEROL , REMARK 280 PH 7.8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 31.95200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.29250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.95200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 25.29250 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: MONOMERIC 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 383 LIES ON A SPECIAL POSITION. 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 1 REMARK 465 GLY A 2 REMARK 465 SER A 3 REMARK 465 SER A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 GLY A 13 REMARK 465 LEU A 14 REMARK 465 VAL A 15 REMARK 465 PRO A 16 REMARK 465 ARG A 17 REMARK 465 GLY A 18 REMARK 465 SER A 19 REMARK 465 HIS A 20 REMARK 465 MET A 21 REMARK 465 ALA A 22 REMARK 465 LYS A 23 REMARK 465 GLN A 206 REMARK 465 GLN A 207 REMARK 465 LYS A 208 REMARK 465 PRO A 209 REMARK 465 ALA A 210 REMARK 465 GLN A 211 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 32 -81.56 -103.73 REMARK 500 THR A 35 -50.42 -129.34 REMARK 500 GLN A 125 146.52 178.90 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 GLN A 125 VAL A 126 148.17 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 CA A 213 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 31 OD2 REMARK 620 2 ASP A 33 O 75.5 REMARK 620 3 ASP A 156 OD1 86.7 98.8 REMARK 620 4 HOH A 384 O 93.1 167.0 86.6 REMARK 620 5 HOH A 385 O 146.5 77.9 77.5 114.9 REMARK 620 6 HOH A 386 O 125.7 95.3 147.2 86.2 76.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 212 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 112 SG REMARK 620 2 HIS A 114 ND1 113.3 REMARK 620 3 CYS A 127 SG 103.5 106.0 REMARK 620 4 CYS A 129 SG 120.9 99.9 112.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 213 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ESR RELATED DB: PDB DBREF 3ESQ A 21 211 UNP P63228 GMHB_ECOLI 1 191 SEQADV 3ESQ MET A 1 UNP P63228 EXPRESSION TAG SEQADV 3ESQ GLY A 2 UNP P63228 EXPRESSION TAG SEQADV 3ESQ SER A 3 UNP P63228 EXPRESSION TAG SEQADV 3ESQ SER A 4 UNP P63228 EXPRESSION TAG SEQADV 3ESQ HIS A 5 UNP P63228 EXPRESSION TAG SEQADV 3ESQ HIS A 6 UNP P63228 EXPRESSION TAG SEQADV 3ESQ HIS A 7 UNP P63228 EXPRESSION TAG SEQADV 3ESQ HIS A 8 UNP P63228 EXPRESSION TAG SEQADV 3ESQ HIS A 9 UNP P63228 EXPRESSION TAG SEQADV 3ESQ HIS A 10 UNP P63228 EXPRESSION TAG SEQADV 3ESQ SER A 11 UNP P63228 EXPRESSION TAG SEQADV 3ESQ SER A 12 UNP P63228 EXPRESSION TAG SEQADV 3ESQ GLY A 13 UNP P63228 EXPRESSION TAG SEQADV 3ESQ LEU A 14 UNP P63228 EXPRESSION TAG SEQADV 3ESQ VAL A 15 UNP P63228 EXPRESSION TAG SEQADV 3ESQ PRO A 16 UNP P63228 EXPRESSION TAG SEQADV 3ESQ ARG A 17 UNP P63228 EXPRESSION TAG SEQADV 3ESQ GLY A 18 UNP P63228 EXPRESSION TAG SEQADV 3ESQ SER A 19 UNP P63228 EXPRESSION TAG SEQADV 3ESQ HIS A 20 UNP P63228 EXPRESSION TAG SEQRES 1 A 211 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 211 LEU VAL PRO ARG GLY SER HIS MET ALA LYS SER VAL PRO SEQRES 3 A 211 ALA ILE PHE LEU ASP ARG ASP GLY THR ILE ASN VAL ASP SEQRES 4 A 211 HIS GLY TYR VAL HIS GLU ILE ASP ASN PHE GLU PHE ILE SEQRES 5 A 211 ASP GLY VAL ILE ASP ALA MET ARG GLU LEU LYS LYS MET SEQRES 6 A 211 GLY PHE ALA LEU VAL VAL VAL THR ASN GLN SER GLY ILE SEQRES 7 A 211 ALA ARG GLY LYS PHE THR GLU ALA GLN PHE GLU THR LEU SEQRES 8 A 211 THR GLU TRP MET ASP TRP SER LEU ALA ASP ARG ASP VAL SEQRES 9 A 211 ASP LEU ASP GLY ILE TYR TYR CYS PRO HIS HIS PRO GLN SEQRES 10 A 211 GLY SER VAL GLU GLU PHE ARG GLN VAL CYS ASP CYS ARG SEQRES 11 A 211 LYS PRO HIS PRO GLY MET LEU LEU SER ALA ARG ASP TYR SEQRES 12 A 211 LEU HIS ILE ASP MET ALA ALA SER TYR MET VAL GLY ASP SEQRES 13 A 211 LYS LEU GLU ASP MET GLN ALA ALA VAL ALA ALA ASN VAL SEQRES 14 A 211 GLY THR LYS VAL LEU VAL ARG THR GLY LYS PRO ILE THR SEQRES 15 A 211 PRO GLU ALA GLU ASN ALA ALA ASP TRP VAL LEU ASN SER SEQRES 16 A 211 LEU ALA ASP LEU PRO GLN ALA ILE LYS LYS GLN GLN LYS SEQRES 17 A 211 PRO ALA GLN HET ZN A 212 1 HET CA A 213 1 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION FORMUL 2 ZN ZN 2+ FORMUL 3 CA CA 2+ FORMUL 4 HOH *192(H2 O) HELIX 1 1 GLU A 45 PHE A 49 5 5 HELIX 2 2 GLY A 54 MET A 65 1 12 HELIX 3 3 GLN A 75 GLY A 81 1 7 HELIX 4 4 THR A 84 ASP A 101 1 18 HELIX 5 5 VAL A 120 ARG A 124 5 5 HELIX 6 6 PRO A 134 HIS A 145 1 12 HELIX 7 7 LYS A 157 ASN A 168 1 12 HELIX 8 8 THR A 182 ALA A 189 1 8 HELIX 9 9 SER A 195 ALA A 197 5 3 HELIX 10 10 ASP A 198 LYS A 205 1 8 SHEET 1 A 6 GLY A 108 CYS A 112 0 SHEET 2 A 6 ALA A 68 ASN A 74 1 N VAL A 71 O TYR A 110 SHEET 3 A 6 ALA A 27 LEU A 30 1 N LEU A 30 O VAL A 70 SHEET 4 A 6 TYR A 152 GLY A 155 1 O TYR A 152 N PHE A 29 SHEET 5 A 6 THR A 171 VAL A 175 1 O VAL A 173 N MET A 153 SHEET 6 A 6 TRP A 191 LEU A 193 1 O LEU A 193 N LEU A 174 LINK OD2 ASP A 31 CA CA A 213 1555 1555 2.24 LINK O ASP A 33 CA CA A 213 1555 1555 2.32 LINK SG CYS A 112 ZN ZN A 212 1555 1555 2.28 LINK ND1 HIS A 114 ZN ZN A 212 1555 1555 2.18 LINK SG CYS A 127 ZN ZN A 212 1555 1555 2.32 LINK SG CYS A 129 ZN ZN A 212 1555 1555 2.43 LINK OD1 ASP A 156 CA CA A 213 1555 1555 2.31 LINK CA CA A 213 O HOH A 384 1555 1555 2.45 LINK CA CA A 213 O HOH A 385 1555 1555 2.51 LINK CA CA A 213 O HOH A 386 1555 1555 2.43 CISPEP 1 LYS A 131 PRO A 132 0 14.55 SITE 1 AC1 5 CYS A 112 HIS A 114 CYS A 127 CYS A 129 SITE 2 AC1 5 ARG A 130 SITE 1 AC2 6 ASP A 31 ASP A 33 ASP A 156 HOH A 384 SITE 2 AC2 6 HOH A 385 HOH A 386 CRYST1 63.904 50.585 52.638 90.00 90.00 90.00 P 21 21 2 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 0.015648 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019769 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018998 0.00000