HEADER HYDROLASE 09-JUL-14 4TZB TITLE STRUCTURE OF NDM-METALLO-BETA-LACTAMASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: METALLO-BETA-LACTAMASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 42-270; COMPND 5 SYNONYM: NDM CARBAPENEMASE; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: BLANDM-6; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: OPINF KEYWDS METALLO-BETA-LACTAMASE, ANTIBIOTIC RESISTANCE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.A.FERGUSON,A.MAKENA,J.BREM,M.A.MCDONOUGH,C.J.SCHOFIELD REVDAT 3 20-DEC-23 4TZB 1 LINK ATOM REVDAT 2 13-SEP-17 4TZB 1 REMARK LINK SITE ATOM REVDAT 1 22-JUL-15 4TZB 0 JRNL AUTH J.A.FERGUSON,A.MAKENA,J.BREM,M.A.MCDONOUGH,C.J.SCHOFIELD JRNL TITL STRUCTURE OF METALLO-BETA-LACTAMASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.03 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.03 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 21341 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.370 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.0641 - 4.8891 1.00 1506 155 0.1880 0.2267 REMARK 3 2 4.8891 - 3.8812 1.00 1417 147 0.1549 0.1583 REMARK 3 3 3.8812 - 3.3908 1.00 1417 147 0.1764 0.2008 REMARK 3 4 3.3908 - 3.0808 1.00 1377 142 0.1867 0.1986 REMARK 3 5 3.0808 - 2.8600 1.00 1392 144 0.1917 0.2191 REMARK 3 6 2.8600 - 2.6914 1.00 1380 143 0.1767 0.1848 REMARK 3 7 2.6914 - 2.5567 1.00 1378 142 0.1797 0.2847 REMARK 3 8 2.5567 - 2.4454 1.00 1364 141 0.1764 0.2178 REMARK 3 9 2.4454 - 2.3512 1.00 1372 142 0.1699 0.2194 REMARK 3 10 2.3512 - 2.2701 1.00 1363 141 0.1830 0.2264 REMARK 3 11 2.2701 - 2.1991 1.00 1373 142 0.1655 0.2213 REMARK 3 12 2.1991 - 2.1363 1.00 1359 141 0.1734 0.2281 REMARK 3 13 2.1363 - 2.0800 1.00 1357 140 0.1820 0.2420 REMARK 3 14 2.0800 - 2.0293 0.94 1286 133 0.1867 0.2109 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.260 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 1773 REMARK 3 ANGLE : 0.933 2424 REMARK 3 CHIRALITY : 0.052 267 REMARK 3 PLANARITY : 0.003 319 REMARK 3 DIHEDRAL : 11.538 603 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 40 THROUGH 82 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.2921 35.3804 -30.1623 REMARK 3 T TENSOR REMARK 3 T11: 0.4031 T22: 0.2785 REMARK 3 T33: 0.2998 T12: 0.1120 REMARK 3 T13: 0.0671 T23: -0.0227 REMARK 3 L TENSOR REMARK 3 L11: 4.0833 L22: 2.9870 REMARK 3 L33: 3.6174 L12: -1.3538 REMARK 3 L13: 1.2851 L23: 1.8099 REMARK 3 S TENSOR REMARK 3 S11: 0.1336 S12: -0.0922 S13: 0.3464 REMARK 3 S21: -0.4012 S22: -0.1043 S23: -0.0292 REMARK 3 S31: -0.4400 S32: -0.4818 S33: -0.0749 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 83 THROUGH 270 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.1547 24.7411 26.9712 REMARK 3 T TENSOR REMARK 3 T11: 0.2343 T22: 0.2195 REMARK 3 T33: 0.2411 T12: 0.0341 REMARK 3 T13: 0.0932 T23: 0.0091 REMARK 3 L TENSOR REMARK 3 L11: 2.2565 L22: 1.4683 REMARK 3 L33: 3.0275 L12: -0.4813 REMARK 3 L13: 0.7505 L23: 0.6797 REMARK 3 S TENSOR REMARK 3 S11: -0.0554 S12: -0.2976 S13: -0.0624 REMARK 3 S21: 0.0642 S22: 0.1303 S23: -0.0623 REMARK 3 S31: -0.1450 S32: -0.1041 S33: -0.0585 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4TZB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000202516. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21343 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.60 REMARK 200 R MERGE (I) : 0.16200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.50 REMARK 200 R MERGE FOR SHELL (I) : NULL 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: 3ZR9 REMARK 200 REMARK 200 REMARK: CUBIC REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.007M CDCL2, NICL2, MGCL2, COCL2 0.1 REMARK 280 M HEPES PH 7.5 14% PEG 3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+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 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 60.12200 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 60.12200 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 44.59600 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 60.12200 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 60.12200 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 44.59600 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 60.12200 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 60.12200 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 44.59600 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 60.12200 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 60.12200 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 44.59600 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 60.12200 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 60.12200 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 44.59600 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 60.12200 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 60.12200 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 44.59600 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 60.12200 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 60.12200 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 44.59600 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 60.12200 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 60.12200 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 44.59600 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: 12200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 70380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -685.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 -89.19200 REMARK 350 BIOMT1 6 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 -89.19200 REMARK 350 BIOMT1 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 7 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 -1.000000 -89.19200 REMARK 350 BIOMT1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 8 0.000000 0.000000 -1.000000 -89.19200 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 NI NI A 305 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 480 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 488 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 527 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 551 LIES ON A SPECIAL POSITION. REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 PRO A 41 CG CD REMARK 470 PHE A 70 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 181 CD CE NZ REMARK 470 LYS A 216 CE NZ REMARK 470 LYS A 242 NZ REMARK 470 ARG A 264 NE CZ NH1 NH2 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 A 475 O HOH A 520 2.11 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 PRO A 41 -166.00 -107.38 REMARK 500 PRO A 68 100.74 -46.67 REMARK 500 ASP A 90 146.22 69.86 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 564 DISTANCE = 5.92 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 CO A 302 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 95 OD2 REMARK 620 2 ASP A 130 OD2 103.1 REMARK 620 3 HOH A 461 O 83.1 86.4 REMARK 620 4 HOH A 475 O 96.2 159.5 102.7 REMARK 620 5 HOH A 476 O 102.1 85.4 171.1 84.0 REMARK 620 6 HOH A 520 O 153.9 101.8 90.7 60.3 87.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 120 NE2 REMARK 620 2 HIS A 122 ND1 103.0 REMARK 620 3 HIS A 189 NE2 105.0 106.5 REMARK 620 4 HOH A 416 O 123.0 88.5 124.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 304 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 124 OD2 REMARK 620 2 CYS A 208 SG 81.4 REMARK 620 3 HIS A 250 NE2 81.2 107.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 307 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 152 OE1 REMARK 620 2 GLU A 152 OE2 49.6 REMARK 620 3 GLU A 170 OE1 66.5 29.7 REMARK 620 4 GLU A 170 OE2 70.3 31.9 3.9 REMARK 620 5 ASP A 223 OD1 119.8 91.4 62.6 59.8 REMARK 620 6 ASP A 223 OD2 85.2 96.9 73.6 74.2 51.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 305 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 159 NE2 REMARK 620 2 HIS A 159 NE2 0.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 306 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 261 ND1 REMARK 620 2 HOH A 451 O 86.5 REMARK 620 3 HOH A 523 O 112.4 107.8 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 ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CD A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 307 DBREF 4TZB A 42 270 UNP G9JVE6 G9JVE6_ECOLX 42 270 SEQADV 4TZB GLY A 40 UNP G9JVE6 EXPRESSION TAG SEQADV 4TZB PRO A 41 UNP G9JVE6 EXPRESSION TAG SEQRES 1 A 231 GLY PRO GLY ASP GLN ARG PHE GLY ASP LEU VAL PHE ARG SEQRES 2 A 231 GLN LEU ALA PRO ASN VAL TRP GLN HIS THR SER TYR LEU SEQRES 3 A 231 ASP MET PRO GLY PHE GLY ALA VAL ALA SER ASN GLY LEU SEQRES 4 A 231 ILE VAL ARG ASP GLY GLY ARG VAL LEU VAL VAL ASP THR SEQRES 5 A 231 ALA TRP THR ASP ASP GLN THR ALA GLN ILE LEU ASN TRP SEQRES 6 A 231 ILE LYS GLN GLU ILE ASN LEU PRO VAL ALA LEU ALA VAL SEQRES 7 A 231 VAL THR HIS ALA HIS GLN ASP LYS MET GLY GLY MET ASP SEQRES 8 A 231 ALA LEU HIS ALA ALA GLY ILE ALA THR TYR ALA ASN ALA SEQRES 9 A 231 LEU SER ASN GLN LEU ALA PRO GLN GLU GLY MET VAL ALA SEQRES 10 A 231 ALA GLN HIS SER LEU THR PHE ALA ALA ASN GLY TRP VAL SEQRES 11 A 231 GLU PRO ALA THR ALA PRO ASN PHE GLY PRO LEU LYS VAL SEQRES 12 A 231 PHE TYR PRO GLY PRO GLY HIS THR SER ASP ASN ILE THR SEQRES 13 A 231 VAL GLY ILE ASP GLY THR ASP ILE ALA PHE GLY GLY CYS SEQRES 14 A 231 LEU ILE LYS ASP SER LYS ALA LYS SER LEU GLY ASN LEU SEQRES 15 A 231 GLY ASP ALA ASP THR GLU HIS TYR ALA ALA SER VAL ARG SEQRES 16 A 231 ALA PHE GLY ALA ALA PHE PRO LYS ALA SER MET ILE VAL SEQRES 17 A 231 MET SER HIS SER ALA PRO ASP SER ARG ALA ALA ILE THR SEQRES 18 A 231 HIS THR ALA ARG MET ALA ASP LYS LEU ARG HET ZN A 301 1 HET CO A 302 1 HET NI A 303 1 HET CD A 304 1 HET NI A 305 1 HET NI A 306 1 HET NI A 307 1 HETNAM ZN ZINC ION HETNAM CO COBALT (II) ION HETNAM NI NICKEL (II) ION HETNAM CD CADMIUM ION FORMUL 2 ZN ZN 2+ FORMUL 3 CO CO 2+ FORMUL 4 NI 4(NI 2+) FORMUL 5 CD CD 2+ FORMUL 9 HOH *164(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 GLU A 170 ALA A 174 5 5 HELIX 6 AA6 HIS A 228 PHE A 240 1 13 HELIX 7 AA7 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 PHE A 51 N GLN A 44 SHEET 3 AA1 8 VAL A 58 ASP A 66 -1 O GLN A 60 N ARG A 52 SHEET 4 AA1 8 ALA A 72 ASP A 82 -1 O VAL A 73 N LEU A 65 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 ALA A 116 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 GLY A 207 -1 O PHE A 205 N VAL A 196 SHEET 4 AA2 4 MET A 245 MET A 248 1 O VAL A 247 N GLY A 206 LINK OD2 ASP A 95 CO CO A 302 1555 1555 2.08 LINK NE2 HIS A 120 ZN ZN A 301 1555 1555 2.05 LINK ND1 HIS A 122 ZN ZN A 301 1555 1555 2.00 LINK OD2 ASP A 124 CD CD A 304 1555 1555 2.70 LINK OD2 ASP A 130 CO CO A 302 1555 1555 2.05 LINK OE1 GLU A 152 NI NI A 307 1555 3555 2.77 LINK OE2 GLU A 152 NI NI A 307 1555 3555 2.40 LINK NE2 HIS A 159 NI NI A 305 1555 1555 2.00 LINK NE2 HIS A 159 NI NI A 305 1555 5554 2.00 LINK OE1 GLU A 170 NI NI A 307 1555 1555 2.04 LINK OE2 GLU A 170 NI NI A 307 1555 1555 2.01 LINK NE2 HIS A 189 ZN ZN A 301 1555 1555 2.06 LINK SG CYS A 208 CD CD A 304 1555 1555 2.72 LINK OD1 ASP A 223 NI NI A 307 1555 3555 2.20 LINK OD2 ASP A 223 NI NI A 307 1555 3555 2.72 LINK NE2 HIS A 228 NI NI A 303 1555 1555 1.98 LINK NE2 HIS A 250 CD CD A 304 1555 1555 2.65 LINK ND1 HIS A 261 NI NI A 306 1555 1555 1.95 LINK ZN ZN A 301 O HOH A 416 1555 1555 2.08 LINK CO CO A 302 O HOH A 461 1555 1555 2.09 LINK CO CO A 302 O HOH A 475 1555 1555 2.09 LINK CO CO A 302 O HOH A 476 1555 1555 2.11 LINK CO CO A 302 O HOH A 520 1555 1555 2.10 LINK NI NI A 306 O HOH A 451 1555 1555 2.04 LINK NI NI A 306 O HOH A 523 1555 1555 2.01 CISPEP 1 GLY A 40 PRO A 41 0 16.24 SITE 1 AC1 5 HIS A 120 HIS A 122 HIS A 189 CD A 304 SITE 2 AC1 5 HOH A 416 SITE 1 AC2 6 ASP A 95 ASP A 130 HOH A 461 HOH A 520 SITE 2 AC2 6 HOH A 476 HOH A 475 SITE 1 AC3 1 HIS A 228 SITE 1 AC4 7 ASP A 124 CYS A 208 HIS A 250 ZN A 301 SITE 2 AC4 7 HOH A 521 HOH A 416 HOH A 537 SITE 1 AC5 1 HIS A 159 SITE 1 AC6 5 SER A 213 HIS A 261 HOH A 523 HOH A 451 SITE 2 AC6 5 HOH A 536 SITE 1 AC7 3 GLU A 152 GLU A 170 ASP A 223 CRYST1 120.244 120.244 89.192 90.00 90.00 90.00 I 4 2 2 16 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 0.008316 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008316 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011212 0.00000