HEADER HYDROLASE 19-MAR-18 5ZJ7 TITLE CRYSTAL STRUCTURE OF NDM-1 IN COMPLEX WITH D-CAPTOPRIL DERIVATIVE CY22 COMPND MOL_ID: 1; COMPND 2 MOLECULE: METALLO-BETA-LACTAMASE TYPE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: B2 METALLO-BETA-LACTAMASE,BETA-LACTAMASE TYPE II,METALLO- COMPND 5 BETA-LACTAMASE NDM-1,METALLO-BETA-LACTAMASE TYPE II,NEW DELHI COMPND 6 METALLO-BETA-LACTAMASE-1,NDM-1; COMPND 7 EC: 3.5.2.6; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 573; SOURCE 4 GENE: BLANDM-1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PRHISMBP KEYWDS NDM-1, METALLO-BETA-LACTAMASE, ANTIBIOTIC RESISTENT, INHIBITOR, THIO KEYWDS 2 COMPOUNDS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.ZHANG,Q.HAO REVDAT 2 22-NOV-23 5ZJ7 1 REMARK REVDAT 1 20-MAR-19 5ZJ7 0 JRNL AUTH H.ZHANG,Q.HAO JRNL TITL CRYSTAL STRUCTURE OF NDM-1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 0.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.5 REMARK 3 NUMBER OF REFLECTIONS : 101895 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) : 0.116 REMARK 3 R VALUE (WORKING SET) : 0.115 REMARK 3 FREE R VALUE : 0.131 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5355 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) : 0.96 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 0.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1124 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 13.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.3700 REMARK 3 BIN FREE R VALUE SET COUNT : 62 REMARK 3 BIN FREE R VALUE : 0.4200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1702 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 295 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.13000 REMARK 3 B22 (A**2) : 0.73000 REMARK 3 B33 (A**2) : -0.33000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.89000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.019 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.019 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.012 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.514 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.987 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.984 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1818 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1660 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2472 ; 1.354 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3850 ; 0.932 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 242 ; 6.444 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 77 ;29.685 ;24.545 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 272 ;11.494 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;17.372 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 272 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2087 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 367 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 3478 ; 1.033 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 200 ;19.297 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3533 ; 7.323 ; 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 42 A 47 REMARK 3 ORIGIN FOR THE GROUP (A): -0.8410 -6.7280 6.1350 REMARK 3 T TENSOR REMARK 3 T11: 0.1270 T22: 0.0726 REMARK 3 T33: 0.0229 T12: -0.0084 REMARK 3 T13: 0.0067 T23: -0.0131 REMARK 3 L TENSOR REMARK 3 L11: 8.4076 L22: 7.4375 REMARK 3 L33: 5.8855 L12: -3.7981 REMARK 3 L13: -3.5060 L23: 1.1694 REMARK 3 S TENSOR REMARK 3 S11: -0.1633 S12: 0.0827 S13: -0.2612 REMARK 3 S21: 0.4699 S22: 0.0333 S23: 0.1371 REMARK 3 S31: 0.1657 S32: -0.2207 S33: 0.1300 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 48 A 70 REMARK 3 ORIGIN FOR THE GROUP (A): -3.2950 -7.1940 -3.0130 REMARK 3 T TENSOR REMARK 3 T11: 0.0265 T22: 0.0263 REMARK 3 T33: 0.0178 T12: -0.0027 REMARK 3 T13: 0.0152 T23: -0.0130 REMARK 3 L TENSOR REMARK 3 L11: 2.0885 L22: 6.3512 REMARK 3 L33: 1.4165 L12: 2.0661 REMARK 3 L13: -0.8815 L23: -0.9374 REMARK 3 S TENSOR REMARK 3 S11: 0.0429 S12: -0.0747 S13: 0.1291 REMARK 3 S21: 0.0717 S22: 0.0114 S23: 0.1782 REMARK 3 S31: -0.0881 S32: -0.0417 S33: -0.0544 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 71 A 138 REMARK 3 ORIGIN FOR THE GROUP (A): 3.5370 -14.0130 -7.2240 REMARK 3 T TENSOR REMARK 3 T11: 0.0147 T22: 0.0125 REMARK 3 T33: 0.0178 T12: -0.0021 REMARK 3 T13: 0.0113 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 0.5766 L22: 1.3065 REMARK 3 L33: 0.9665 L12: -0.0374 REMARK 3 L13: -0.0354 L23: -0.3318 REMARK 3 S TENSOR REMARK 3 S11: 0.0114 S12: -0.0644 S13: -0.0175 REMARK 3 S21: 0.0548 S22: -0.0309 S23: -0.0375 REMARK 3 S31: 0.0230 S32: 0.0724 S33: 0.0195 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 139 A 180 REMARK 3 ORIGIN FOR THE GROUP (A): 0.2200 -18.7170 -21.4710 REMARK 3 T TENSOR REMARK 3 T11: 0.0364 T22: 0.0051 REMARK 3 T33: 0.0178 T12: 0.0049 REMARK 3 T13: 0.0107 T23: -0.0038 REMARK 3 L TENSOR REMARK 3 L11: 0.9973 L22: 2.9173 REMARK 3 L33: 1.0764 L12: 0.5590 REMARK 3 L13: -0.3542 L23: -0.2595 REMARK 3 S TENSOR REMARK 3 S11: -0.0373 S12: 0.0231 S13: -0.0413 REMARK 3 S21: -0.1605 S22: -0.0048 S23: 0.0633 REMARK 3 S31: 0.0118 S32: -0.0176 S33: 0.0420 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 181 A 215 REMARK 3 ORIGIN FOR THE GROUP (A): -11.1770 -13.9620 -14.8250 REMARK 3 T TENSOR REMARK 3 T11: 0.0060 T22: 0.0115 REMARK 3 T33: 0.0415 T12: -0.0009 REMARK 3 T13: 0.0026 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 1.5702 L22: 1.7343 REMARK 3 L33: 1.3287 L12: -0.1620 REMARK 3 L13: -0.4292 L23: -0.1366 REMARK 3 S TENSOR REMARK 3 S11: -0.0232 S12: -0.0383 S13: -0.0045 REMARK 3 S21: 0.0176 S22: 0.0048 S23: 0.1585 REMARK 3 S31: 0.0337 S32: -0.0716 S33: 0.0185 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 216 A 221 REMARK 3 ORIGIN FOR THE GROUP (A): -14.7210 1.4120 -16.6200 REMARK 3 T TENSOR REMARK 3 T11: 0.2268 T22: 0.1117 REMARK 3 T33: 0.2649 T12: 0.0170 REMARK 3 T13: -0.0150 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 6.9171 L22: 0.0032 REMARK 3 L33: 13.8990 L12: 0.0480 REMARK 3 L13: -9.7999 L23: -0.0735 REMARK 3 S TENSOR REMARK 3 S11: 0.3355 S12: -0.3644 S13: 0.2297 REMARK 3 S21: 0.0180 S22: -0.0119 S23: -0.0045 REMARK 3 S31: -0.5274 S32: 0.5199 S33: -0.3235 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 222 A 264 REMARK 3 ORIGIN FOR THE GROUP (A): -17.1380 -11.3950 -15.1980 REMARK 3 T TENSOR REMARK 3 T11: 0.0096 T22: 0.0278 REMARK 3 T33: 0.0689 T12: 0.0032 REMARK 3 T13: 0.0049 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 1.8077 L22: 1.0086 REMARK 3 L33: 1.2831 L12: 0.2061 REMARK 3 L13: 0.1193 L23: 0.4452 REMARK 3 S TENSOR REMARK 3 S11: -0.0013 S12: 0.0576 S13: 0.0384 REMARK 3 S21: -0.0223 S22: 0.0174 S23: 0.1289 REMARK 3 S31: 0.0179 S32: -0.1076 S33: -0.0162 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 265 A 270 REMARK 3 ORIGIN FOR THE GROUP (A): -21.8560 -2.5280 -22.9540 REMARK 3 T TENSOR REMARK 3 T11: 0.1145 T22: 0.1080 REMARK 3 T33: 0.1365 T12: 0.0310 REMARK 3 T13: -0.0016 T23: 0.0519 REMARK 3 L TENSOR REMARK 3 L11: 7.7619 L22: 7.4265 REMARK 3 L33: 10.0285 L12: 2.5631 REMARK 3 L13: 0.1059 L23: -0.9236 REMARK 3 S TENSOR REMARK 3 S11: -0.0340 S12: 0.4825 S13: 0.4008 REMARK 3 S21: -0.3255 S22: -0.0388 S23: 0.0382 REMARK 3 S31: -0.5936 S32: -0.1091 S33: 0.0729 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 5ZJ7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-MAR-18. REMARK 100 THE DEPOSITION ID IS D_1300007167. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97930 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 119552 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.960 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 69.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.39600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: 3Q6X REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS PH5.5, 15% PEG 3350, REMARK 280 20MM L-PROLINE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 29.98200 REMARK 290 SMTRY3 2 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 TOTAL BURIED SURFACE AREA: 970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 2.0 KCAL/MOL 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 GLY A 29 REMARK 465 GLU A 30 REMARK 465 ILE A 31 REMARK 465 ARG A 32 REMARK 465 PRO A 33 REMARK 465 THR A 34 REMARK 465 ILE A 35 REMARK 465 GLY A 36 REMARK 465 GLN A 37 REMARK 465 GLN A 38 REMARK 465 MET A 39 REMARK 465 GLU A 40 REMARK 465 THR A 41 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 90 141.74 75.21 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 692 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH A 693 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH A 694 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A 695 DISTANCE = 6.01 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 ZN A 307 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 120 NE2 REMARK 620 2 HIS A 122 ND1 98.8 REMARK 620 3 HIS A 189 NE2 99.9 113.7 REMARK 620 4 9DU A 301 SAA 136.2 110.2 97.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 308 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 124 OD2 REMARK 620 2 CYS A 208 SG 110.3 REMARK 620 3 HIS A 250 NE2 92.6 105.9 REMARK 620 4 9DU A 301 SAA 113.8 113.9 118.2 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 9DU A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 308 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5ZIO RELATED DB: PDB REMARK 900 NDM-1 IN COMPLEX WITH L-CAPTOPRIL REMARK 900 RELATED ID: 5ZJ2 RELATED DB: PDB REMARK 900 NDM-1 IN COMPLEX WITH D-CAPTOPRIL REMARK 900 RELATED ID: 5ZJ1 RELATED DB: PDB REMARK 900 NDM-1 IN COMPLEX WITH D-CAPTOPRIL DERIVATIVE CYT-14 DBREF 5ZJ7 A 29 270 UNP C7C422 BLAN1_KLEPN 29 270 SEQRES 1 A 242 GLY GLU ILE ARG PRO THR ILE GLY GLN GLN MET GLU THR SEQRES 2 A 242 GLY ASP GLN ARG PHE GLY ASP LEU VAL PHE ARG GLN LEU SEQRES 3 A 242 ALA PRO ASN VAL TRP GLN HIS THR SER TYR LEU ASP MET SEQRES 4 A 242 PRO GLY PHE GLY ALA VAL ALA SER ASN GLY LEU ILE VAL SEQRES 5 A 242 ARG ASP GLY GLY ARG VAL LEU VAL VAL ASP THR ALA TRP SEQRES 6 A 242 THR ASP ASP GLN THR ALA GLN ILE LEU ASN TRP ILE LYS SEQRES 7 A 242 GLN GLU ILE ASN LEU PRO VAL ALA LEU ALA VAL VAL THR SEQRES 8 A 242 HIS ALA HIS GLN ASP LYS MET GLY GLY MET ASP ALA LEU SEQRES 9 A 242 HIS ALA ALA GLY ILE ALA THR TYR ALA ASN ALA LEU SER SEQRES 10 A 242 ASN GLN LEU ALA PRO GLN GLU GLY MET VAL ALA ALA GLN SEQRES 11 A 242 HIS SER LEU THR PHE ALA ALA ASN GLY TRP VAL GLU PRO SEQRES 12 A 242 ALA THR ALA PRO ASN PHE GLY PRO LEU LYS VAL PHE TYR SEQRES 13 A 242 PRO GLY PRO GLY HIS THR SER ASP ASN ILE THR VAL GLY SEQRES 14 A 242 ILE ASP GLY THR ASP ILE ALA PHE GLY GLY CYS LEU ILE SEQRES 15 A 242 LYS ASP SER LYS ALA LYS SER LEU GLY ASN LEU GLY ASP SEQRES 16 A 242 ALA ASP THR GLU HIS TYR ALA ALA SER ALA ARG ALA PHE SEQRES 17 A 242 GLY ALA ALA PHE PRO LYS ALA SER MET ILE VAL MET SER SEQRES 18 A 242 HIS SER ALA PRO ASP SER ARG ALA ALA ILE THR HIS THR SEQRES 19 A 242 ALA ARG MET ALA ASP LYS LEU ARG HET 9DU A 301 14 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET ZN A 307 1 HET ZN A 308 1 HETNAM 9DU (2R)-2-METHYL-N-(PHENYLMETHYL)-3-SULFANYL-PROPANAMIDE HETNAM EDO 1,2-ETHANEDIOL HETNAM ZN ZINC ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 9DU C11 H15 N O S FORMUL 3 EDO 5(C2 H6 O2) FORMUL 8 ZN 2(ZN 2+) FORMUL 10 HOH *295(H2 O) HELIX 1 AA1 THR A 94 ILE A 109 1 16 HELIX 2 AA2 HIS A 122 GLY A 127 1 6 HELIX 3 AA3 GLY A 128 ALA A 135 1 8 HELIX 4 AA4 ALA A 143 ALA A 149 1 7 HELIX 5 AA5 PRO A 150 GLY A 153 5 4 HELIX 6 AA6 GLU A 170 ALA A 174 5 5 HELIX 7 AA7 GLY A 207 ILE A 210 5 4 HELIX 8 AA8 HIS A 228 PHE A 240 1 13 HELIX 9 AA9 ARG A 256 LYS A 268 1 13 SHEET 1 AA1 8 GLN A 44 PHE A 46 0 SHEET 2 AA1 8 LEU A 49 ALA A 55 -1 O LEU A 49 N PHE A 46 SHEET 3 AA1 8 VAL A 58 MET A 67 -1 O GLN A 60 N ARG A 52 SHEET 4 AA1 8 GLY A 71 ASP A 82 -1 O GLY A 71 N MET A 67 SHEET 5 AA1 8 ARG A 85 VAL A 89 -1 O LEU A 87 N VAL A 80 SHEET 6 AA1 8 VAL A 113 VAL A 118 1 O VAL A 117 N VAL A 88 SHEET 7 AA1 8 ALA A 138 ASN A 142 1 O TYR A 140 N VAL A 118 SHEET 8 AA1 8 HIS A 159 LEU A 161 1 O LEU A 161 N ALA A 141 SHEET 1 AA2 4 LEU A 180 PHE A 183 0 SHEET 2 AA2 4 THR A 195 ILE A 198 -1 O GLY A 197 N LYS A 181 SHEET 3 AA2 4 ILE A 203 PHE A 205 -1 O PHE A 205 N VAL A 196 SHEET 4 AA2 4 MET A 245 VAL A 247 1 O VAL A 247 N ALA A 204 LINK NE2 HIS A 120 ZN ZN A 307 1555 1555 2.05 LINK ND1 HIS A 122 ZN ZN A 307 1555 1555 2.03 LINK OD2 ASP A 124 ZN ZN A 308 1555 1555 1.94 LINK NE2 HIS A 189 ZN ZN A 307 1555 1555 2.04 LINK SG CYS A 208 ZN ZN A 308 1555 1555 2.28 LINK NE2 HIS A 250 ZN ZN A 308 1555 1555 2.05 LINK SAA 9DU A 301 ZN ZN A 307 1555 1555 2.32 LINK SAA 9DU A 301 ZN ZN A 308 1555 1555 2.31 SITE 1 AC1 12 MET A 67 TRP A 93 HIS A 122 ASP A 124 SITE 2 AC1 12 HIS A 189 ASN A 220 GLY A 222 ASP A 223 SITE 3 AC1 12 HIS A 250 ZN A 307 ZN A 308 HOH A 561 SITE 1 AC2 8 HIS A 133 GLY A 237 ARG A 256 ILE A 259 SITE 2 AC2 8 HOH A 439 HOH A 528 HOH A 580 HOH A 586 SITE 1 AC3 6 LYS A 181 GLY A 197 ILE A 198 ASP A 199 SITE 2 AC3 6 THR A 201 ILE A 203 SITE 1 AC4 7 ASP A 95 ALA A 131 ALA A 257 THR A 260 SITE 2 AC4 7 HIS A 261 HOH A 404 HOH A 426 SITE 1 AC5 5 GLU A 170 THR A 173 HOH A 412 HOH A 478 SITE 2 AC5 5 HOH A 568 SITE 1 AC6 7 HIS A 120 ALA A 121 LEU A 148 GLU A 152 SITE 2 AC6 7 THR A 190 ASP A 192 ASP A 223 SITE 1 AC7 5 HIS A 120 HIS A 122 HIS A 189 9DU A 301 SITE 2 AC7 5 ZN A 308 SITE 1 AC8 5 ASP A 124 CYS A 208 HIS A 250 9DU A 301 SITE 2 AC8 5 ZN A 307 CRYST1 41.442 59.964 41.998 90.00 98.00 90.00 P 1 21 1 2 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 0.024130 0.000000 0.003393 0.00000 SCALE2 0.000000 0.016677 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024045 0.00000