HEADER HYDROLASE 17-AUG-15 5ACQ TITLE W228A-INVESTIGATION OF THE IMPACT FROM RESIDUES W228 AND Y233 IN THE TITLE 2 METALLO-BETA-LACTAMASE GIM-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VARIANT: STAR PRARE KEYWDS HYDROLASE, METALLO-BETA-LACTAMASE, GIM-1, CARBAPENEMASE, ENZYME KEYWDS 2 KINETICS, MIC EXPDTA X-RAY DIFFRACTION AUTHOR S.SKAGSETH,T.J.CARLSEN,G.E.K.BJERGA,J.SPENCER,O.SAMUELSEN,H.- AUTHOR 2 K.S.LEIROS REVDAT 4 10-JAN-24 5ACQ 1 REMARK LINK REVDAT 3 23-OCT-19 5ACQ 1 REMARK LINK ATOM REVDAT 2 10-FEB-16 5ACQ 1 JRNL REVDAT 1 23-DEC-15 5ACQ 0 JRNL AUTH S.SKAGSETH,T.J.CARLSEN,G.E.K.BJERGA,J.SPENCER,O.SAMUELSEN, JRNL AUTH 2 H.S.LEIROS JRNL TITL ROLE OF RESIDUES W228 AND Y233 IN THE STRUCTURE AND ACTIVITY JRNL TITL 2 OF METALLO-BETA-LACTAMASE GIM-1. JRNL REF ANTIMICROB.AGENTS CHEMOTHER. V. 60 990 2015 JRNL REFN ISSN 0066-4804 JRNL PMID 26643332 JRNL DOI 10.1128/AAC.02017-15 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 42278 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2137 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 25.0002 - 4.1864 0.97 2771 131 0.1636 0.1740 REMARK 3 2 4.1864 - 3.3254 0.98 2726 161 0.1633 0.2196 REMARK 3 3 3.3254 - 2.9057 0.98 2760 123 0.1954 0.2453 REMARK 3 4 2.9057 - 2.6404 0.97 2727 145 0.2066 0.2744 REMARK 3 5 2.6404 - 2.4513 0.96 2679 148 0.2023 0.2600 REMARK 3 6 2.4513 - 2.3069 0.97 2718 156 0.1986 0.2253 REMARK 3 7 2.3069 - 2.1914 0.96 2691 131 0.1940 0.2183 REMARK 3 8 2.1914 - 2.0961 0.96 2671 144 0.2006 0.2251 REMARK 3 9 2.0961 - 2.0154 0.96 2643 138 0.2013 0.2320 REMARK 3 10 2.0154 - 1.9459 0.94 2639 124 0.2088 0.2649 REMARK 3 11 1.9459 - 1.8851 0.95 2654 148 0.2124 0.2551 REMARK 3 12 1.8851 - 1.8312 0.95 2609 152 0.2327 0.3025 REMARK 3 13 1.8312 - 1.7830 0.95 2685 145 0.2439 0.2290 REMARK 3 14 1.7830 - 1.7395 0.94 2593 155 0.2610 0.3339 REMARK 3 15 1.7395 - 1.7000 0.92 2575 136 0.2610 0.2914 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.560 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.50 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 : 0.012 3476 REMARK 3 ANGLE : 1.378 4730 REMARK 3 CHIRALITY : 0.053 533 REMARK 3 PLANARITY : 0.007 599 REMARK 3 DIHEDRAL : 13.864 1260 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 39 THROUGH 88 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.8958 -3.7141 16.5236 REMARK 3 T TENSOR REMARK 3 T11: 0.1451 T22: 0.2588 REMARK 3 T33: 0.2174 T12: 0.0048 REMARK 3 T13: 0.0206 T23: 0.0163 REMARK 3 L TENSOR REMARK 3 L11: 4.0248 L22: 7.3465 REMARK 3 L33: 6.2754 L12: 0.8232 REMARK 3 L13: 0.1406 L23: 2.9251 REMARK 3 S TENSOR REMARK 3 S11: 0.0759 S12: -0.0253 S13: -0.3826 REMARK 3 S21: -0.2272 S22: 0.1455 S23: -0.3315 REMARK 3 S31: 0.2282 S32: 0.1151 S33: -0.1989 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 89 THROUGH 124 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.5325 -3.9513 24.5675 REMARK 3 T TENSOR REMARK 3 T11: 0.1851 T22: 0.3857 REMARK 3 T33: 0.2029 T12: 0.0204 REMARK 3 T13: 0.0309 T23: 0.0167 REMARK 3 L TENSOR REMARK 3 L11: 2.4674 L22: 1.8255 REMARK 3 L33: 3.2791 L12: 0.0137 REMARK 3 L13: 2.2106 L23: 0.6687 REMARK 3 S TENSOR REMARK 3 S11: 0.3026 S12: -0.5937 S13: -0.1951 REMARK 3 S21: -0.0135 S22: -0.1490 S23: -0.0858 REMARK 3 S31: 0.1273 S32: -0.0788 S33: -0.1463 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 125 THROUGH 175 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.7575 -2.4279 29.9423 REMARK 3 T TENSOR REMARK 3 T11: 0.1956 T22: 0.4662 REMARK 3 T33: 0.1425 T12: -0.0250 REMARK 3 T13: 0.0344 T23: -0.0090 REMARK 3 L TENSOR REMARK 3 L11: 5.4481 L22: 4.6421 REMARK 3 L33: 4.9585 L12: -0.1624 REMARK 3 L13: 1.8737 L23: -1.9072 REMARK 3 S TENSOR REMARK 3 S11: 0.3139 S12: -0.7352 S13: -0.2219 REMARK 3 S21: 0.1921 S22: -0.1959 S23: 0.1984 REMARK 3 S31: 0.0028 S32: -0.0291 S33: -0.0959 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 179 THROUGH 295 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.2491 4.2949 10.6324 REMARK 3 T TENSOR REMARK 3 T11: 0.2341 T22: 0.2801 REMARK 3 T33: 0.1719 T12: 0.0821 REMARK 3 T13: 0.0071 T23: 0.0240 REMARK 3 L TENSOR REMARK 3 L11: 4.6060 L22: 3.5557 REMARK 3 L33: 3.6567 L12: 1.7052 REMARK 3 L13: 1.1895 L23: 1.5099 REMARK 3 S TENSOR REMARK 3 S11: -0.0001 S12: 0.2896 S13: 0.2855 REMARK 3 S21: -0.4010 S22: -0.1015 S23: 0.2052 REMARK 3 S31: -0.2409 S32: -0.3194 S33: 0.1085 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 40 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.8970 -28.8603 4.7343 REMARK 3 T TENSOR REMARK 3 T11: 0.5688 T22: 0.4215 REMARK 3 T33: 0.8479 T12: -0.1317 REMARK 3 T13: -0.3729 T23: 0.1500 REMARK 3 L TENSOR REMARK 3 L11: 3.7264 L22: 6.4384 REMARK 3 L33: 2.7307 L12: 3.4881 REMARK 3 L13: 0.0643 L23: 2.6881 REMARK 3 S TENSOR REMARK 3 S11: -0.2170 S12: -0.0527 S13: 0.8402 REMARK 3 S21: -1.2678 S22: 0.4187 S23: 1.8150 REMARK 3 S31: -0.1307 S32: -0.7176 S33: 0.1252 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 77 THROUGH 124 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.0799 -37.1776 11.2243 REMARK 3 T TENSOR REMARK 3 T11: 0.3476 T22: 0.2924 REMARK 3 T33: 0.5072 T12: -0.0685 REMARK 3 T13: -0.0298 T23: 0.0882 REMARK 3 L TENSOR REMARK 3 L11: 7.3242 L22: 3.2223 REMARK 3 L33: 2.8706 L12: -1.1796 REMARK 3 L13: -2.1879 L23: -1.8422 REMARK 3 S TENSOR REMARK 3 S11: 0.1312 S12: -0.4588 S13: 0.6109 REMARK 3 S21: -0.2180 S22: 0.2771 S23: 0.6053 REMARK 3 S31: 0.0447 S32: -0.3188 S33: -0.3474 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 125 THROUGH 295 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.6534 -35.5042 1.3135 REMARK 3 T TENSOR REMARK 3 T11: 0.6819 T22: 0.2834 REMARK 3 T33: 0.4447 T12: -0.1569 REMARK 3 T13: -0.0171 T23: 0.0480 REMARK 3 L TENSOR REMARK 3 L11: 3.1022 L22: 4.3786 REMARK 3 L33: 3.2687 L12: -0.1838 REMARK 3 L13: -0.4161 L23: -1.0191 REMARK 3 S TENSOR REMARK 3 S11: -0.2386 S12: 0.2790 S13: 0.4226 REMARK 3 S21: -1.2166 S22: 0.3031 S23: -0.4162 REMARK 3 S31: 0.2481 S32: 0.1399 S33: -0.0338 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 5ACQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1290064705. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2400 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42445 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 44.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.7000 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 (%) : 92.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2YNT REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19.8% POLYETHYLENE GLYCOL (PEG) 10K REMARK 280 AND 0.1 M SODIUM CACODYLATE, PH 6.5 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 65.89800 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -127.5 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 MET A 19 REMARK 465 LYS A 20 REMARK 465 ASN A 21 REMARK 465 VAL A 22 REMARK 465 LEU A 23 REMARK 465 VAL A 24 REMARK 465 PHE A 25 REMARK 465 LEU A 26 REMARK 465 ILE A 27 REMARK 465 LEU A 28 REMARK 465 LEU A 29 REMARK 465 VAL A 30 REMARK 465 ALA A 31 REMARK 465 LEU A 32 REMARK 465 PRO A 33 REMARK 465 ALA A 34 REMARK 465 LEU A 35 REMARK 465 ALA A 36 REMARK 465 GLN A 37 REMARK 465 GLY A 38 REMARK 465 LYS A 296 REMARK 465 LEU A 297 REMARK 465 MET A 298 REMARK 465 GLN A 299 REMARK 465 PRO A 300 REMARK 465 THR A 301 REMARK 465 ALA A 302 REMARK 465 GLU A 303 REMARK 465 ALA A 304 REMARK 465 SER A 305 REMARK 465 ALA A 306 REMARK 465 ASP A 307 REMARK 465 MET B 19 REMARK 465 LYS B 20 REMARK 465 ASN B 21 REMARK 465 VAL B 22 REMARK 465 LEU B 23 REMARK 465 VAL B 24 REMARK 465 PHE B 25 REMARK 465 LEU B 26 REMARK 465 ILE B 27 REMARK 465 LEU B 28 REMARK 465 LEU B 29 REMARK 465 VAL B 30 REMARK 465 ALA B 31 REMARK 465 LEU B 32 REMARK 465 PRO B 33 REMARK 465 ALA B 34 REMARK 465 LEU B 35 REMARK 465 ALA B 36 REMARK 465 GLN B 37 REMARK 465 GLY B 38 REMARK 465 HIS B 39 REMARK 465 LYS B 296 REMARK 465 LEU B 297 REMARK 465 MET B 298 REMARK 465 GLN B 299 REMARK 465 PRO B 300 REMARK 465 THR B 301 REMARK 465 ALA B 302 REMARK 465 GLU B 303 REMARK 465 ALA B 304 REMARK 465 SER B 305 REMARK 465 ALA B 306 REMARK 465 ASP B 307 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 GLU A 62 CG CD OE1 OE2 REMARK 470 ASN A 78 CG OD1 ND2 REMARK 470 ASN B 60 OD1 ND2 REMARK 470 GLU B 62 CG CD OE1 OE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASP B 174 CG 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 OE2 GLU A 179 HZ2 LYS A 252 1.59 REMARK 500 HE21 GLN A 257 O HOH A 2010 1.59 REMARK 500 NE2 HIS B 263 O HOH B 2010 2.05 REMARK 500 OE1 GLU B 89 O HOH B 2015 2.13 REMARK 500 O HOH A 2007 O HOH A 2016 2.14 REMARK 500 O HOH A 2069 O HOH A 2131 2.19 REMARK 500 NZ LYS B 173 O HOH B 2046 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 OE2 GLU A 229 O HOH A 2107 1554 2.04 REMARK 500 O HOH B 2015 O HOH B 2081 1556 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 LEU A 42 130.36 -39.39 REMARK 500 TYR A 64 -54.67 -121.47 REMARK 500 ASN A 77 -120.19 47.72 REMARK 500 ASP A 84 135.36 63.47 REMARK 500 PRO A 86 171.14 -59.50 REMARK 500 SER A 238 79.88 -111.22 REMARK 500 GLU B 62 46.72 -90.94 REMARK 500 TYR B 64 -49.09 -130.68 REMARK 500 ASN B 77 -116.47 51.52 REMARK 500 ASP B 84 138.37 52.15 REMARK 500 ALA B 123 14.50 53.50 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 ALA B 123 GLY B 124 130.58 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 ZN A1297 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 116 NE2 REMARK 620 2 HIS A 118 ND1 99.6 REMARK 620 3 HIS A 196 NE2 103.1 113.4 REMARK 620 4 HOH A2077 O 105.2 116.1 116.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1296 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 120 OD2 REMARK 620 2 OCS A 221 SG 133.2 REMARK 620 3 OCS A 221 OD3 139.9 40.7 REMARK 620 4 OCS A 221 OD1 100.7 32.5 62.5 REMARK 620 5 HIS A 263 NE2 76.2 104.9 71.7 99.5 REMARK 620 6 HOH A2077 O 85.1 112.0 134.9 116.7 141.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1296 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 116 NE2 REMARK 620 2 HIS B 118 ND1 99.9 REMARK 620 3 HIS B 196 NE2 102.8 114.6 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 1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1297 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1296 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5ACP RELATED DB: PDB REMARK 900 W228R-INVESTIGATION OF THE IMPACT FROM RESIDUES W228 AND Y233 IN REMARK 900 THE METALLO-BETA-LACTAMASE GIM-1 REMARK 900 RELATED ID: 5ACR RELATED DB: PDB REMARK 900 W228Y-INVESTIGATION OF THE IMPACT FROM RESIDUES W228 AND Y233 IN REMARK 900 THE METALLO-BETA-LACTAMASE GIM-1 REMARK 900 RELATED ID: 5ACS RELATED DB: PDB REMARK 900 Y233A-INVESTIGATION OF THE IMPACT FROM RESIDUES W228 AND Y233 IN REMARK 900 THE METALLO-BETA-LACTAMASE GIM-1 REMARK 900 RELATED ID: 5ACT RELATED DB: PDB REMARK 900 W228S-INVESTIGATION OF THE IMPACT FROM RESIDUES W228 AND Y233 IN REMARK 900 THE METALLO-BETA-LACTAMASE GIM-1 DBREF 5ACQ A 19 307 UNP Q704V1 Q704V1_PSEAI 1 250 DBREF 5ACQ B 19 307 UNP Q704V1 Q704V1_PSEAI 1 250 SEQADV 5ACQ ALA A 228 UNP Q704V1 TRP 182 ENGINEERED MUTATION SEQADV 5ACQ ALA B 228 UNP Q704V1 TRP 182 ENGINEERED MUTATION SEQRES 1 A 250 MET LYS ASN VAL LEU VAL PHE LEU ILE LEU LEU VAL ALA SEQRES 2 A 250 LEU PRO ALA LEU ALA GLN GLY HIS LYS PRO LEU GLU VAL SEQRES 3 A 250 ILE LYS ILE GLU ASP GLY VAL TYR LEU HIS THR SER PHE SEQRES 4 A 250 LYS ASN ILE GLU GLY TYR GLY LEU VAL ASP SER ASN GLY SEQRES 5 A 250 LEU VAL VAL LEU ASP ASN ASN GLN ALA TYR ILE ILE ASP SEQRES 6 A 250 THR PRO TRP SER GLU GLU ASP THR LYS LEU LEU LEU SER SEQRES 7 A 250 TRP ALA THR ASP ARG GLY TYR GLN VAL MET ALA SER ILE SEQRES 8 A 250 SER THR HIS SER HIS GLU ASP ARG THR ALA GLY ILE LYS SEQRES 9 A 250 LEU LEU ASN SER LYS SER ILE PRO THR TYR THR SER GLU SEQRES 10 A 250 LEU THR LYS LYS LEU LEU ALA ARG GLU GLY LYS PRO VAL SEQRES 11 A 250 PRO THR HIS TYR PHE LYS ASP ASP GLU PHE THR LEU GLY SEQRES 12 A 250 ASN GLY LEU ILE GLU LEU TYR TYR PRO GLY ALA GLY HIS SEQRES 13 A 250 THR GLU ASP ASN ILE VAL ALA TRP LEU PRO LYS SER LYS SEQRES 14 A 250 ILE LEU PHE GLY GLY OCS LEU VAL ARG SER HIS GLU ALA SEQRES 15 A 250 GLU GLY LEU GLY TYR VAL GLY ASP ALA SER ILE SER SER SEQRES 16 A 250 TRP ALA ASP SER ILE LYS ASN ILE VAL SER LYS LYS TYR SEQRES 17 A 250 PRO ILE GLN MET VAL VAL PRO GLY HIS GLY LYS VAL GLY SEQRES 18 A 250 SER SER ASP ILE LEU ASP HIS THR ILE ASP LEU ALA GLU SEQRES 19 A 250 SER ALA SER ASN LYS LEU MET GLN PRO THR ALA GLU ALA SEQRES 20 A 250 SER ALA ASP SEQRES 1 B 250 MET LYS ASN VAL LEU VAL PHE LEU ILE LEU LEU VAL ALA SEQRES 2 B 250 LEU PRO ALA LEU ALA GLN GLY HIS LYS PRO LEU GLU VAL SEQRES 3 B 250 ILE LYS ILE GLU ASP GLY VAL TYR LEU HIS THR SER PHE SEQRES 4 B 250 LYS ASN ILE GLU GLY TYR GLY LEU VAL ASP SER ASN GLY SEQRES 5 B 250 LEU VAL VAL LEU ASP ASN ASN GLN ALA TYR ILE ILE ASP SEQRES 6 B 250 THR PRO TRP SER GLU GLU ASP THR LYS LEU LEU LEU SER SEQRES 7 B 250 TRP ALA THR ASP ARG GLY TYR GLN VAL MET ALA SER ILE SEQRES 8 B 250 SER THR HIS SER HIS GLU ASP ARG THR ALA GLY ILE LYS SEQRES 9 B 250 LEU LEU ASN SER LYS SER ILE PRO THR TYR THR SER GLU SEQRES 10 B 250 LEU THR LYS LYS LEU LEU ALA ARG GLU GLY LYS PRO VAL SEQRES 11 B 250 PRO THR HIS TYR PHE LYS ASP ASP GLU PHE THR LEU GLY SEQRES 12 B 250 ASN GLY LEU ILE GLU LEU TYR TYR PRO GLY ALA GLY HIS SEQRES 13 B 250 THR GLU ASP ASN ILE VAL ALA TRP LEU PRO LYS SER LYS SEQRES 14 B 250 ILE LEU PHE GLY GLY OCS LEU VAL ARG SER HIS GLU ALA SEQRES 15 B 250 GLU GLY LEU GLY TYR VAL GLY ASP ALA SER ILE SER SER SEQRES 16 B 250 TRP ALA ASP SER ILE LYS ASN ILE VAL SER LYS LYS TYR SEQRES 17 B 250 PRO ILE GLN MET VAL VAL PRO GLY HIS GLY LYS VAL GLY SEQRES 18 B 250 SER SER ASP ILE LEU ASP HIS THR ILE ASP LEU ALA GLU SEQRES 19 B 250 SER ALA SER ASN LYS LEU MET GLN PRO THR ALA GLU ALA SEQRES 20 B 250 SER ALA ASP MODRES 5ACQ OCS A 221 CYS CYSTEINESULFONIC ACID MODRES 5ACQ OCS B 221 CYS CYSTEINESULFONIC ACID HET OCS A 221 12 HET OCS B 221 12 HET ZN A1296 1 HET ZN A1297 1 HET ZN B1296 1 HETNAM OCS CYSTEINESULFONIC ACID HETNAM ZN ZINC ION FORMUL 1 OCS 2(C3 H7 N O5 S) FORMUL 3 ZN 3(ZN 2+) FORMUL 6 HOH *281(H2 O) HELIX 1 1 SER A 88 ARG A 104 1 15 HELIX 2 2 HIS A 118 ALA A 123 1 6 HELIX 3 3 GLY A 124 LYS A 131 1 8 HELIX 4 4 GLU A 140 GLU A 149 1 10 HELIX 5 5 OCS A 221 VAL A 223 5 3 HELIX 6 6 SER A 238 LYS A 252 1 15 HELIX 7 7 SER A 280 ASN A 295 1 16 HELIX 8 8 SER B 88 ARG B 104 1 15 HELIX 9 9 GLY B 124 LYS B 131 1 8 HELIX 10 10 GLU B 140 GLU B 149 1 10 HELIX 11 11 OCS B 221 VAL B 223 5 3 HELIX 12 12 SER B 238 SER B 251 1 14 HELIX 13 13 SER B 280 ASN B 295 1 16 SHEET 1 AA 7 GLU A 43 GLU A 49 0 SHEET 2 AA 7 VAL A 52 ILE A 61 -1 O VAL A 52 N ILE A 48 SHEET 3 AA 7 GLY A 65 ASP A 76 -1 O GLY A 65 N ILE A 61 SHEET 4 AA 7 GLN A 79 ILE A 83 -1 O GLN A 79 N ASP A 76 SHEET 5 AA 7 GLN A 107 ILE A 113 1 O GLN A 107 N ALA A 80 SHEET 6 AA 7 THR A 136 SER A 139 1 N TYR A 137 O SER A 112 SHEET 7 AA 7 HIS A 170 PHE A 172 1 O HIS A 170 N THR A 138 SHEET 1 AB 5 GLU A 179 LEU A 182 0 SHEET 2 AB 5 ILE A 187 TYR A 190 -1 O ILE A 187 N LEU A 182 SHEET 3 AB 5 VAL A 202 LEU A 205 -1 O VAL A 202 N TYR A 190 SHEET 4 AB 5 ILE A 216 GLY A 220 -1 O ILE A 216 N LEU A 205 SHEET 5 AB 5 MET A 258 PRO A 261 1 O MET A 258 N LEU A 217 SHEET 1 BA 7 GLU B 43 GLU B 49 0 SHEET 2 BA 7 VAL B 52 ILE B 61 -1 O VAL B 52 N ILE B 48 SHEET 3 BA 7 GLY B 65 ASP B 76 -1 O GLY B 65 N ILE B 61 SHEET 4 BA 7 GLN B 79 ILE B 83 -1 O GLN B 79 N ASP B 76 SHEET 5 BA 7 GLN B 107 ILE B 113 1 O GLN B 107 N ALA B 80 SHEET 6 BA 7 THR B 136 SER B 139 1 N TYR B 137 O SER B 112 SHEET 7 BA 7 HIS B 170 PHE B 172 1 O HIS B 170 N THR B 138 SHEET 1 BB 5 GLU B 179 LEU B 182 0 SHEET 2 BB 5 ILE B 187 TYR B 190 -1 O ILE B 187 N LEU B 182 SHEET 3 BB 5 VAL B 202 LEU B 205 -1 O VAL B 202 N TYR B 190 SHEET 4 BB 5 ILE B 216 GLY B 220 -1 O ILE B 216 N LEU B 205 SHEET 5 BB 5 MET B 258 PRO B 261 1 O MET B 258 N LEU B 217 LINK C GLY A 220 N OCS A 221 1555 1555 1.34 LINK C OCS A 221 N LEU A 222 1555 1555 1.32 LINK C GLY B 220 N OCS B 221 1555 1555 1.32 LINK C OCS B 221 N LEU B 222 1555 1555 1.32 LINK NE2 HIS A 116 ZN ZN A1297 1555 1555 2.04 LINK ND1 HIS A 118 ZN ZN A1297 1555 1555 2.00 LINK OD2 ASP A 120 ZN ZN A1296 1555 1555 2.07 LINK NE2 HIS A 196 ZN ZN A1297 1555 1555 2.00 LINK SG OCS A 221 ZN ZN A1296 1555 1555 1.96 LINK OD3 OCS A 221 ZN ZN A1296 1555 1555 2.03 LINK OD1 OCS A 221 ZN ZN A1296 1555 1555 2.60 LINK NE2 HIS A 263 ZN ZN A1296 1555 1555 2.48 LINK ZN ZN A1296 O HOH A2077 1555 1555 2.30 LINK ZN ZN A1297 O HOH A2077 1555 1555 1.98 LINK NE2 HIS B 116 ZN ZN B1296 1555 1555 2.16 LINK ND1 HIS B 118 ZN ZN B1296 1555 1555 1.96 LINK NE2 HIS B 196 ZN ZN B1296 1555 1555 1.94 SITE 1 AC1 5 ASP A 120 OCS A 221 HIS A 263 HOH A2077 SITE 2 AC1 5 GLU B 62 SITE 1 AC2 6 HIS A 116 HIS A 118 HIS A 196 OCS A 221 SITE 2 AC2 6 HOH A2077 HOH A2081 SITE 1 AC3 4 HOH A2022 HIS B 116 HIS B 118 HIS B 196 CRYST1 38.549 131.796 40.581 90.00 95.51 90.00 P 1 21 1 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 0.025941 0.000000 0.002502 0.00000 SCALE2 0.000000 0.007587 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024756 0.00000