HEADER HYDROLASE 03-FEB-16 5I0C TITLE CRYSTAL STRUCTURE OF PREDICTED ACYLTRANSFERASE YJDJ WITH ACYL-COA N- TITLE 2 ACYLTRANSFERASE DOMAIN FROM ESCHERICHIA COLI STR. K-12 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN YJDJ; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: YJDJ, B4127, JW4088; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 MAGIC; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG28 KEYWDS COENZYME A, GNAT, STRUCTURAL GENOMICS, CSGID, CENTER FOR STRUCTURAL KEYWDS 2 GENOMICS OF INFECTIOUS DISEASES, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.V.FILIPPOVA,G.MINASOV,Z.WAWRZAK,L.SHUVALOVA,I.DUBROVSKA,J.WINSOR, AUTHOR 2 S.GRIMSHAW,A.J.WOLFE,W.F.ANDERSON,CENTER FOR STRUCTURAL GENOMICS OF AUTHOR 3 INFECTIOUS DISEASES (CSGID) REVDAT 1 24-FEB-16 5I0C 0 JRNL AUTH E.V.FILIPPOVA,G.MINASOV,Z.WAWRZAK,L.SHUVALOVA,I.DUBROVSKA, JRNL AUTH 2 J.WINSOR,S.GRIMSHAW,A.J.WOLFE,W.F.ANDERSON, JRNL AUTH 3 CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS DISEASES JRNL AUTH 4 (CSGID) JRNL TITL CRYSTAL STRUCTURE OF PREDICTED ACYLTRANSFERASE YJDJ WITH JRNL TITL 2 ACYL-COA N-ACYLTRANSFERASE DOMAIN FROM ESCHERICHIA COLI STR. JRNL TITL 3 K-12 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 7344 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) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 354 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) : 1.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 506 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.4640 REMARK 3 BIN FREE R VALUE SET COUNT : 31 REMARK 3 BIN FREE R VALUE : 0.6330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 723 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 61 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.70000 REMARK 3 B22 (A**2) : 3.13000 REMARK 3 B33 (A**2) : -1.43000 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): 0.185 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.172 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.175 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.886 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 737 ; 0.022 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 731 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 985 ; 2.223 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1686 ; 1.180 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 87 ; 8.739 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 38 ;44.668 ;24.474 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 144 ;19.694 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;21.283 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 106 ; 0.147 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 810 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 162 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 354 ; 2.386 ; 2.998 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 353 ; 2.361 ; 2.994 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 439 ; 3.514 ; 4.481 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 440 ; 3.515 ; 4.484 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 383 ; 2.401 ; 3.267 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 380 ; 2.327 ; 3.250 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 541 ; 3.552 ; 4.761 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 842 ; 6.662 ;27.639 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 819 ; 6.539 ;23.802 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): 2 ;41.565 ; 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 : 8 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 2 A 9 REMARK 3 ORIGIN FOR THE GROUP (A): 41.6919 20.1545 30.9989 REMARK 3 T TENSOR REMARK 3 T11: 0.1149 T22: 0.0417 REMARK 3 T33: 0.0776 T12: -0.0312 REMARK 3 T13: -0.0051 T23: 0.0359 REMARK 3 L TENSOR REMARK 3 L11: 3.3538 L22: 7.7941 REMARK 3 L33: 12.6044 L12: -0.6654 REMARK 3 L13: 1.8845 L23: 9.0216 REMARK 3 S TENSOR REMARK 3 S11: -0.0480 S12: 0.0805 S13: 0.0106 REMARK 3 S21: 0.4698 S22: 0.1530 S23: -0.0546 REMARK 3 S31: 0.5547 S32: 0.2326 S33: -0.1049 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 10 A 28 REMARK 3 ORIGIN FOR THE GROUP (A): 47.0098 19.9636 29.2168 REMARK 3 T TENSOR REMARK 3 T11: 0.1585 T22: 0.0343 REMARK 3 T33: 0.1008 T12: -0.0053 REMARK 3 T13: -0.0383 T23: 0.0384 REMARK 3 L TENSOR REMARK 3 L11: 3.6040 L22: 7.1415 REMARK 3 L33: 2.5916 L12: -1.4865 REMARK 3 L13: 1.6810 L23: -0.2301 REMARK 3 S TENSOR REMARK 3 S11: 0.2143 S12: -0.1340 S13: -0.4843 REMARK 3 S21: 0.1390 S22: -0.0600 S23: 0.3833 REMARK 3 S31: 0.3025 S32: 0.0963 S33: -0.1543 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 29 A 38 REMARK 3 ORIGIN FOR THE GROUP (A): 45.2832 34.5563 31.5338 REMARK 3 T TENSOR REMARK 3 T11: 0.1853 T22: 0.0214 REMARK 3 T33: 0.1476 T12: -0.0001 REMARK 3 T13: -0.0109 T23: 0.0270 REMARK 3 L TENSOR REMARK 3 L11: 12.6082 L22: 8.4584 REMARK 3 L33: 6.0300 L12: -10.0132 REMARK 3 L13: -2.6156 L23: 3.6064 REMARK 3 S TENSOR REMARK 3 S11: -0.3376 S12: 0.1226 S13: 0.5290 REMARK 3 S21: 0.2175 S22: -0.0191 S23: -0.2570 REMARK 3 S31: -0.4342 S32: 0.1408 S33: 0.3567 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 39 A 45 REMARK 3 ORIGIN FOR THE GROUP (A): 54.2685 17.9038 19.2691 REMARK 3 T TENSOR REMARK 3 T11: 0.0473 T22: 0.0359 REMARK 3 T33: 0.0944 T12: 0.0345 REMARK 3 T13: -0.0460 T23: -0.0513 REMARK 3 L TENSOR REMARK 3 L11: 4.9462 L22: 7.1218 REMARK 3 L33: 13.0480 L12: -2.1574 REMARK 3 L13: -5.3208 L23: -4.4073 REMARK 3 S TENSOR REMARK 3 S11: 0.0684 S12: 0.1180 S13: 0.1185 REMARK 3 S21: -0.3291 S22: -0.0608 S23: -0.1696 REMARK 3 S31: 0.2572 S32: -0.1117 S33: -0.0076 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 46 A 60 REMARK 3 ORIGIN FOR THE GROUP (A): 42.7152 24.9862 21.2076 REMARK 3 T TENSOR REMARK 3 T11: 0.1582 T22: 0.0953 REMARK 3 T33: 0.1319 T12: -0.0108 REMARK 3 T13: -0.0204 T23: 0.0493 REMARK 3 L TENSOR REMARK 3 L11: 5.5692 L22: 6.7070 REMARK 3 L33: 4.9522 L12: -4.8901 REMARK 3 L13: -1.4804 L23: 4.6128 REMARK 3 S TENSOR REMARK 3 S11: 0.0108 S12: 0.4525 S13: -0.3455 REMARK 3 S21: -0.0795 S22: -0.2237 S23: 0.4153 REMARK 3 S31: -0.0716 S32: 0.1041 S33: 0.2129 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 61 A 67 REMARK 3 ORIGIN FOR THE GROUP (A): 35.0008 35.1700 28.8292 REMARK 3 T TENSOR REMARK 3 T11: 0.1637 T22: 0.0292 REMARK 3 T33: 0.1151 T12: 0.0558 REMARK 3 T13: 0.0113 T23: 0.0306 REMARK 3 L TENSOR REMARK 3 L11: 12.1980 L22: 0.5591 REMARK 3 L33: 2.8502 L12: 1.5871 REMARK 3 L13: -2.5039 L23: -1.2313 REMARK 3 S TENSOR REMARK 3 S11: -0.0410 S12: 0.2467 S13: 0.4191 REMARK 3 S21: 0.0444 S22: 0.0822 S23: 0.0492 REMARK 3 S31: -0.0851 S32: -0.1327 S33: -0.0412 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 68 A 78 REMARK 3 ORIGIN FOR THE GROUP (A): 49.9476 34.5374 23.0669 REMARK 3 T TENSOR REMARK 3 T11: 0.1626 T22: 0.1096 REMARK 3 T33: 0.0947 T12: -0.1072 REMARK 3 T13: 0.0139 T23: 0.0220 REMARK 3 L TENSOR REMARK 3 L11: 12.6439 L22: 3.2043 REMARK 3 L33: 1.9783 L12: 2.0992 REMARK 3 L13: 2.3166 L23: -1.7196 REMARK 3 S TENSOR REMARK 3 S11: -0.0797 S12: 0.0261 S13: 0.6512 REMARK 3 S21: -0.1926 S22: -0.1618 S23: -0.0444 REMARK 3 S31: 0.0913 S32: 0.1533 S33: 0.2416 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 79 A 91 REMARK 3 ORIGIN FOR THE GROUP (A): 43.1060 37.8415 18.5170 REMARK 3 T TENSOR REMARK 3 T11: 0.2146 T22: 0.0516 REMARK 3 T33: 0.0862 T12: 0.0078 REMARK 3 T13: -0.0131 T23: 0.0453 REMARK 3 L TENSOR REMARK 3 L11: 8.9566 L22: 8.5707 REMARK 3 L33: 7.1834 L12: -2.5263 REMARK 3 L13: -4.8939 L23: 3.6634 REMARK 3 S TENSOR REMARK 3 S11: 0.2465 S12: 0.4833 S13: 0.1287 REMARK 3 S21: -0.3840 S22: -0.0628 S23: -0.0708 REMARK 3 S31: -0.1854 S32: -0.1293 S33: -0.1837 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 5I0C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218033. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7731 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 30.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.03800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : 0.59000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES, 5 MM COBALT CHLORIDE, 5 REMARK 280 MM MAGNESIUM CHLORIDE, 0.5 MM CADMIUM CHLORIDE, 0.5 MM NICKEL REMARK 280 CHLORIDE, 12 % (W/V) PEG3350, 25 SUCROSE, 1 MM ACCOA, PH 7.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 20.79000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 20.79000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 26.84500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.92000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 26.84500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.92000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 20.79000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 26.84500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 43.92000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 20.79000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 26.84500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 43.92000 REMARK 290 SMTRY3 8 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 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 MSE A 1 REMARK 465 LYS A 15 REMARK 465 SER A 92 REMARK 465 ASN A 93 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 O HOH A 234 O HOH A 234 4566 1.38 REMARK 500 O HOH A 223 O HOH A 223 3755 1.83 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 ASP A 80 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES 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 GLY A 46 GLN A 47 -149.64 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 A 261 DISTANCE = 7.24 ANGSTROMS 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 NI A 103 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 2 OE2 REMARK 620 2 HOH A 203 O 59.2 REMARK 620 3 HIS A 7 NE2 92.9 69.0 REMARK 620 4 HOH A 204 O 97.3 108.4 166.1 REMARK 620 5 HOH A 225 O 123.4 162.5 93.4 88.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 101 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 22 OE1 REMARK 620 2 GLU A 22 OE1 0.0 REMARK 620 3 HIS A 37 NE2 40.5 40.5 REMARK 620 4 ASP A 39 OD2 22.8 22.8 33.1 REMARK 620 5 HOH A 212 O 104.9 104.9 131.6 126.8 REMARK 620 6 HOH A 233 O 93.3 93.3 119.3 87.8 87.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 104 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 36 OE1 REMARK 620 2 GLU A 36 OE2 53.8 REMARK 620 3 HOH A 221 O 82.0 134.8 REMARK 620 4 HOH A 252 O 120.8 101.7 92.5 REMARK 620 5 CYS A 72 SG 15.6 47.3 92.2 132.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 102 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 223 O REMARK 620 2 HOH A 202 O 106.8 REMARK 620 3 HOH A 223 O 44.9 137.1 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CD A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 105 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: CSGID-IDP92641 RELATED DB: TARGETTRACK DBREF 5I0C A 1 90 UNP P39274 YJDJ_ECOLI 1 90 SEQADV 5I0C ALA A 91 UNP P39274 EXPRESSION TAG SEQADV 5I0C SER A 92 UNP P39274 EXPRESSION TAG SEQADV 5I0C ASN A 93 UNP P39274 EXPRESSION TAG SEQRES 1 A 93 MSE GLU ILE ARG GLU GLY HIS ASN LYS PHE TYR ILE ASN SEQRES 2 A 93 ASP LYS GLN GLY LYS GLN ILE ALA GLU ILE VAL PHE VAL SEQRES 3 A 93 PRO THR GLY GLU ASN LEU ALA ILE ILE GLU HIS THR ASP SEQRES 4 A 93 VAL ASP GLU SER LEU LYS GLY GLN GLY ILE GLY LYS GLN SEQRES 5 A 93 LEU VAL ALA LYS VAL VAL GLU LYS MSE ARG ARG GLU LYS SEQRES 6 A 93 ARG LYS ILE ILE PRO LEU CYS PRO PHE ALA LYS HIS GLU SEQRES 7 A 93 PHE ASP LYS THR ARG GLU TYR ASP ASP ILE ARG SER ALA SEQRES 8 A 93 SER ASN MODRES 5I0C MSE A 61 MET MODIFIED RESIDUE HET MSE A 61 8 HET NI A 101 1 HET NI A 102 1 HET NI A 103 1 HET CD A 104 1 HET PO4 A 105 5 HETNAM MSE SELENOMETHIONINE HETNAM NI NICKEL (II) ION HETNAM CD CADMIUM ION HETNAM PO4 PHOSPHATE ION FORMUL 1 MSE C5 H11 N O2 SE FORMUL 2 NI 3(NI 2+) FORMUL 5 CD CD 2+ FORMUL 6 PO4 O4 P 3- FORMUL 7 HOH *61(H2 O) HELIX 1 AA1 GLU A 42 LYS A 45 5 4 HELIX 2 AA2 GLY A 48 GLU A 64 1 17 HELIX 3 AA3 CYS A 72 THR A 82 1 11 HELIX 4 AA4 ARG A 83 ARG A 89 5 7 SHEET 1 AA1 5 ARG A 4 GLY A 6 0 SHEET 2 AA1 5 LYS A 9 ASN A 13 -1 O TYR A 11 N ARG A 4 SHEET 3 AA1 5 GLN A 19 THR A 28 -1 O ILE A 20 N ILE A 12 SHEET 4 AA1 5 LEU A 32 VAL A 40 -1 O HIS A 37 N VAL A 24 SHEET 5 AA1 5 LYS A 67 ILE A 69 1 O ILE A 69 N ALA A 33 LINK OE2 GLU A 2 NI NI A 103 1555 1555 2.31 LINK OE1 GLU A 22 NI NI A 101 1555 1555 2.32 LINK OE1 GLU A 36 CD CD A 104 1555 1555 2.03 LINK OE2 GLU A 36 CD CD A 104 1555 1555 2.69 LINK C LYS A 60 N MSE A 61 1555 1555 1.33 LINK C MSE A 61 N ARG A 62 1555 1555 1.34 LINK NI NI A 102 O HOH A 223 1555 1555 2.36 LINK NI NI A 102 O HOH A 202 1555 1555 2.34 LINK NI NI A 103 O HOH A 203 1555 1555 2.35 LINK CD CD A 104 O HOH A 221 1555 1555 2.17 LINK CD CD A 104 O HOH A 252 1555 1555 2.58 LINK NE2 HIS A 7 NI NI A 103 1555 6655 2.16 LINK OE1 GLU A 22 NI NI A 101 1555 3756 2.20 LINK NE2 HIS A 37 NI NI A 101 1555 3756 2.21 LINK OD2 ASP A 39 NI NI A 101 1555 3756 2.00 LINK SG CYS A 72 CD CD A 104 1555 3756 2.50 LINK NI NI A 101 O HOH A 212 1555 3756 2.19 LINK NI NI A 101 O HOH A 233 1555 3756 2.29 LINK NI NI A 102 O HOH A 223 1555 3755 2.43 LINK NI NI A 103 O HOH A 204 1555 6654 2.34 LINK NI NI A 103 O HOH A 225 1555 6654 2.21 SITE 1 AC1 5 GLU A 22 HIS A 37 ASP A 39 HOH A 212 SITE 2 AC1 5 HOH A 233 SITE 1 AC2 4 HIS A 77 LYS A 81 HOH A 202 HOH A 223 SITE 1 AC3 5 GLU A 2 HIS A 7 HOH A 203 HOH A 204 SITE 2 AC3 5 HOH A 225 SITE 1 AC4 5 GLU A 36 CYS A 72 PRO A 73 HOH A 221 SITE 2 AC4 5 HOH A 252 SITE 1 AC5 7 VAL A 40 LYS A 45 GLY A 50 HOH A 201 SITE 2 AC5 7 HOH A 208 HOH A 211 HOH A 230 CRYST1 53.690 87.840 41.580 90.00 90.00 90.00 C 2 2 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 0.018625 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011384 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024050 0.00000