HEADER HYDROLASE 27-JUN-16 5KMT TITLE CTX-M9 MUTANT L48A COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.5.2.6; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: BLACTX-M-9A, BLACTX-M-9, BLACTX-M-9B; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BETA LACTAMASE, ESBL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.J.LATALLO,S.FAHAM,P.M.KASSON REVDAT 3 06-MAR-24 5KMT 1 LINK REVDAT 2 25-OCT-17 5KMT 1 JRNL REMARK REVDAT 1 02-AUG-17 5KMT 0 JRNL AUTH M.J.LATALLO,G.A.CORTINA,S.FAHAM,R.K.NAKAMOTO,P.M.KASSON JRNL TITL PREDICTING ALLOSTERIC MUTANTS THAT INCREASE ACTIVITY OF A JRNL TITL 2 MAJOR ANTIBIOTIC RESISTANCE ENZYME. JRNL REF CHEM SCI V. 8 6484 2017 JRNL REFN ISSN 2041-6520 JRNL PMID 28989673 JRNL DOI 10.1039/C7SC02676E REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.22 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 3 NUMBER OF REFLECTIONS : 45006 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2278 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2361 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 65.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE SET COUNT : 110 REMARK 3 BIN FREE R VALUE : 0.2590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3875 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 448 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.41000 REMARK 3 B22 (A**2) : 0.41000 REMARK 3 B33 (A**2) : -1.32000 REMARK 3 B12 (A**2) : 0.41000 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): 0.136 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.118 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.082 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.689 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3966 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3820 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5406 ; 1.588 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8765 ; 1.088 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 526 ; 5.869 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 161 ;38.739 ;24.534 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 645 ;12.898 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;17.398 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 638 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4584 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 858 ; 0.005 ; 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): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 27 A 287 1 REMARK 3 1 B 27 B 287 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 1 A (A**2): 3799 ; 1.54 ; 0.50 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 27 A 287 REMARK 3 RESIDUE RANGE : A 301 A 305 REMARK 3 RESIDUE RANGE : A 401 A 624 REMARK 3 ORIGIN FOR THE GROUP (A): 19.256 41.982 5.504 REMARK 3 T TENSOR REMARK 3 T11: 0.0862 T22: 0.0376 REMARK 3 T33: 0.1561 T12: -0.0455 REMARK 3 T13: 0.0065 T23: -0.0039 REMARK 3 L TENSOR REMARK 3 L11: 0.7498 L22: 0.2752 REMARK 3 L33: 3.7968 L12: 0.0008 REMARK 3 L13: 0.8422 L23: -0.0984 REMARK 3 S TENSOR REMARK 3 S11: -0.0761 S12: 0.0968 S13: 0.0288 REMARK 3 S21: -0.0397 S22: 0.0549 S23: -0.0035 REMARK 3 S31: -0.4961 S32: 0.2163 S33: 0.0212 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 27 B 287 REMARK 3 RESIDUE RANGE : B 301 B 303 REMARK 3 RESIDUE RANGE : B 401 B 624 REMARK 3 ORIGIN FOR THE GROUP (A): 16.733 40.604 43.953 REMARK 3 T TENSOR REMARK 3 T11: 0.0058 T22: 0.1173 REMARK 3 T33: 0.1612 T12: 0.0077 REMARK 3 T13: 0.0020 T23: 0.0059 REMARK 3 L TENSOR REMARK 3 L11: 0.4522 L22: 0.5912 REMARK 3 L33: 4.4679 L12: 0.3018 REMARK 3 L13: 0.5843 L23: 0.7723 REMARK 3 S TENSOR REMARK 3 S11: 0.0278 S12: -0.1235 S13: 0.0037 REMARK 3 S21: 0.0038 S22: -0.0537 S23: 0.0181 REMARK 3 S31: -0.0870 S32: -0.6353 S33: 0.0259 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 5KMT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000222229. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47330 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 77.470 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 8.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL 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: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.2 M POTASSIUM PHOSPHATE, PH 8.2, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 154.93400 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 77.46700 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 -1 REMARK 465 VAL A 0 REMARK 465 LYS A 1 REMARK 465 ARG A 2 REMARK 465 VAL A 3 REMARK 465 GLN A 4 REMARK 465 ARG A 5 REMARK 465 MET A 6 REMARK 465 MET A 7 REMARK 465 PHE A 8 REMARK 465 ALA A 9 REMARK 465 ALA A 10 REMARK 465 ALA A 11 REMARK 465 ALA A 12 REMARK 465 CYS A 13 REMARK 465 ILE A 14 REMARK 465 PRO A 15 REMARK 465 LEU A 16 REMARK 465 LEU A 17 REMARK 465 LEU A 18 REMARK 465 GLY A 19 REMARK 465 SER A 20 REMARK 465 ALA A 21 REMARK 465 PRO A 22 REMARK 465 LEU A 23 REMARK 465 TYR A 24 REMARK 465 ALA A 25 REMARK 465 GLN A 26 REMARK 465 LEU A 288 REMARK 465 MET B -1 REMARK 465 VAL B 0 REMARK 465 LYS B 1 REMARK 465 ARG B 2 REMARK 465 VAL B 3 REMARK 465 GLN B 4 REMARK 465 ARG B 5 REMARK 465 MET B 6 REMARK 465 MET B 7 REMARK 465 PHE B 8 REMARK 465 ALA B 9 REMARK 465 ALA B 10 REMARK 465 ALA B 11 REMARK 465 ALA B 12 REMARK 465 CYS B 13 REMARK 465 ILE B 14 REMARK 465 PRO B 15 REMARK 465 LEU B 16 REMARK 465 LEU B 17 REMARK 465 LEU B 18 REMARK 465 GLY B 19 REMARK 465 SER B 20 REMARK 465 ALA B 21 REMARK 465 PRO B 22 REMARK 465 LEU B 23 REMARK 465 TYR B 24 REMARK 465 ALA B 25 REMARK 465 GLN B 26 REMARK 465 LEU B 288 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 THR A 27 OG1 CG2 REMARK 470 ASN A 55 CG OD1 ND2 REMARK 470 GLN B 89 CG CD OE1 NE2 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 B 404 O HOH B 459 1.69 REMARK 500 O HOH B 403 O HOH B 408 1.70 REMARK 500 O HOH B 574 O HOH B 622 1.98 REMARK 500 O HOH B 406 O HOH B 559 2.16 REMARK 500 OG1 THR A 116 O HOH A 401 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 O HOH B 563 O HOH B 622 1655 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 222 CZ ARG A 222 NH1 -0.082 REMARK 500 ARG A 222 CZ ARG A 222 NH2 -0.104 REMARK 500 TYR A 240 CG TYR A 240 CD2 -0.169 REMARK 500 TYR A 240 CG TYR A 240 CD1 -0.165 REMARK 500 TYR A 240 CE1 TYR A 240 CZ -0.191 REMARK 500 TYR A 240 CZ TYR A 240 CE2 -0.143 REMARK 500 ARG B 222 CZ ARG B 222 NH1 -0.107 REMARK 500 ARG B 222 CZ ARG B 222 NH2 -0.091 REMARK 500 TYR B 240 CG TYR B 240 CD2 -0.179 REMARK 500 TYR B 240 CG TYR B 240 CD1 -0.155 REMARK 500 TYR B 240 CE1 TYR B 240 CZ -0.203 REMARK 500 TYR B 240 CZ TYR B 240 CE2 -0.140 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 ARG A 222 CG - CD - NE ANGL. DEV. = 14.4 DEGREES REMARK 500 ARG A 222 NH1 - CZ - NH2 ANGL. DEV. = -10.8 DEGREES REMARK 500 ARG A 222 NE - CZ - NH1 ANGL. DEV. = 9.0 DEGREES REMARK 500 VAL B 58 CG1 - CB - CG2 ANGL. DEV. = 12.1 DEGREES REMARK 500 ARG B 222 NH1 - CZ - NH2 ANGL. DEV. = -10.2 DEGREES REMARK 500 ARG B 222 NE - CZ - NH2 ANGL. DEV. = 8.8 DEGREES 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 CYS A 69 -140.65 47.02 REMARK 500 VAL A 103 -136.46 -116.33 REMARK 500 SER A 220 -129.82 -103.23 REMARK 500 CYS B 69 -140.29 47.07 REMARK 500 VAL B 103 -136.04 -116.57 REMARK 500 SER B 220 -129.08 -103.82 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 K A 303 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 70 OG REMARK 620 2 SER A 130 O 106.2 REMARK 620 3 SER A 130 OG 62.9 67.5 REMARK 620 4 ASN A 132 OD1 78.1 72.7 111.0 REMARK 620 5 PO4 A 302 O4 70.3 114.7 52.9 148.5 REMARK 620 6 HOH A 533 O 80.6 140.3 141.3 70.6 104.5 REMARK 620 7 HOH A 550 O 139.6 98.5 99.7 140.7 70.5 100.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 305 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 127 O REMARK 620 2 ASN A 214 OD1 75.8 REMARK 620 3 THR A 216 OG1 150.6 74.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 303 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY B 238 O REMARK 620 2 HOH B 475 O 74.6 REMARK 620 3 HOH B 489 O 77.8 104.9 REMARK 620 4 HOH B 529 O 141.2 82.8 78.1 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 PO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KMU RELATED DB: PDB DBREF 5KMT A 1 288 UNP Q9L5C8 Q9L5C8_ECOLX 4 291 DBREF 5KMT B 1 288 UNP Q9L5C8 Q9L5C8_ECOLX 4 291 SEQADV 5KMT MET A -1 UNP Q9L5C8 INITIATING METHIONINE SEQADV 5KMT VAL A 0 UNP Q9L5C8 EXPRESSION TAG SEQADV 5KMT ALA A 49 UNP Q9L5C8 LEU 52 ENGINEERED MUTATION SEQADV 5KMT MET B -1 UNP Q9L5C8 INITIATING METHIONINE SEQADV 5KMT VAL B 0 UNP Q9L5C8 EXPRESSION TAG SEQADV 5KMT ALA B 49 UNP Q9L5C8 LEU 52 ENGINEERED MUTATION SEQRES 1 A 290 MET VAL LYS ARG VAL GLN ARG MET MET PHE ALA ALA ALA SEQRES 2 A 290 ALA CYS ILE PRO LEU LEU LEU GLY SER ALA PRO LEU TYR SEQRES 3 A 290 ALA GLN THR SER ALA VAL GLN GLN LYS LEU ALA ALA LEU SEQRES 4 A 290 GLU LYS SER SER GLY GLY ARG LEU GLY VAL ALA ALA ILE SEQRES 5 A 290 ASP THR ALA ASP ASN THR GLN VAL LEU TYR ARG GLY ASP SEQRES 6 A 290 GLU ARG PHE PRO MET CYS SER THR SER LYS VAL MET ALA SEQRES 7 A 290 ALA ALA ALA VAL LEU LYS GLN SER GLU THR GLN LYS GLN SEQRES 8 A 290 LEU LEU ASN GLN PRO VAL GLU ILE LYS PRO ALA ASP LEU SEQRES 9 A 290 VAL ASN TYR ASN PRO ILE ALA GLU LYS HIS VAL ASN GLY SEQRES 10 A 290 THR MET THR LEU ALA GLU LEU SER ALA ALA ALA LEU GLN SEQRES 11 A 290 TYR SER ASP ASN THR ALA MET ASN LYS LEU ILE ALA GLN SEQRES 12 A 290 LEU GLY GLY PRO GLY GLY VAL THR ALA PHE ALA ARG ALA SEQRES 13 A 290 ILE GLY ASP GLU THR PHE ARG LEU ASP ARG THR GLU PRO SEQRES 14 A 290 THR LEU ASN THR ALA ILE PRO GLY ASP PRO ARG ASP THR SEQRES 15 A 290 THR THR PRO ARG ALA MET ALA GLN THR LEU ARG GLN LEU SEQRES 16 A 290 THR LEU GLY HIS ALA LEU GLY GLU THR GLN ARG ALA GLN SEQRES 17 A 290 LEU VAL THR TRP LEU LYS GLY ASN THR THR GLY ALA ALA SEQRES 18 A 290 SER ILE ARG ALA GLY LEU PRO THR SER TRP THR ALA GLY SEQRES 19 A 290 ASP LYS THR GLY SER GLY ASP TYR GLY THR THR ASN ASP SEQRES 20 A 290 ILE ALA VAL ILE TRP PRO GLN GLY ARG ALA PRO LEU VAL SEQRES 21 A 290 LEU VAL THR TYR PHE THR GLN PRO GLN GLN ASN ALA GLU SEQRES 22 A 290 SER ARG ARG ASP VAL LEU ALA SER ALA ALA ARG ILE ILE SEQRES 23 A 290 ALA GLU GLY LEU SEQRES 1 B 290 MET VAL LYS ARG VAL GLN ARG MET MET PHE ALA ALA ALA SEQRES 2 B 290 ALA CYS ILE PRO LEU LEU LEU GLY SER ALA PRO LEU TYR SEQRES 3 B 290 ALA GLN THR SER ALA VAL GLN GLN LYS LEU ALA ALA LEU SEQRES 4 B 290 GLU LYS SER SER GLY GLY ARG LEU GLY VAL ALA ALA ILE SEQRES 5 B 290 ASP THR ALA ASP ASN THR GLN VAL LEU TYR ARG GLY ASP SEQRES 6 B 290 GLU ARG PHE PRO MET CYS SER THR SER LYS VAL MET ALA SEQRES 7 B 290 ALA ALA ALA VAL LEU LYS GLN SER GLU THR GLN LYS GLN SEQRES 8 B 290 LEU LEU ASN GLN PRO VAL GLU ILE LYS PRO ALA ASP LEU SEQRES 9 B 290 VAL ASN TYR ASN PRO ILE ALA GLU LYS HIS VAL ASN GLY SEQRES 10 B 290 THR MET THR LEU ALA GLU LEU SER ALA ALA ALA LEU GLN SEQRES 11 B 290 TYR SER ASP ASN THR ALA MET ASN LYS LEU ILE ALA GLN SEQRES 12 B 290 LEU GLY GLY PRO GLY GLY VAL THR ALA PHE ALA ARG ALA SEQRES 13 B 290 ILE GLY ASP GLU THR PHE ARG LEU ASP ARG THR GLU PRO SEQRES 14 B 290 THR LEU ASN THR ALA ILE PRO GLY ASP PRO ARG ASP THR SEQRES 15 B 290 THR THR PRO ARG ALA MET ALA GLN THR LEU ARG GLN LEU SEQRES 16 B 290 THR LEU GLY HIS ALA LEU GLY GLU THR GLN ARG ALA GLN SEQRES 17 B 290 LEU VAL THR TRP LEU LYS GLY ASN THR THR GLY ALA ALA SEQRES 18 B 290 SER ILE ARG ALA GLY LEU PRO THR SER TRP THR ALA GLY SEQRES 19 B 290 ASP LYS THR GLY SER GLY ASP TYR GLY THR THR ASN ASP SEQRES 20 B 290 ILE ALA VAL ILE TRP PRO GLN GLY ARG ALA PRO LEU VAL SEQRES 21 B 290 LEU VAL THR TYR PHE THR GLN PRO GLN GLN ASN ALA GLU SEQRES 22 B 290 SER ARG ARG ASP VAL LEU ALA SER ALA ALA ARG ILE ILE SEQRES 23 B 290 ALA GLU GLY LEU HET PO4 A 301 5 HET PO4 A 302 5 HET K A 303 1 HET K A 304 1 HET K A 305 1 HET PO4 B 301 5 HET PO4 B 302 5 HET K B 303 1 HETNAM PO4 PHOSPHATE ION HETNAM K POTASSIUM ION FORMUL 3 PO4 4(O4 P 3-) FORMUL 5 K 4(K 1+) FORMUL 11 HOH *448(H2 O) HELIX 1 AA1 SER A 28 GLY A 42 1 15 HELIX 2 AA2 THR A 71 GLU A 85 1 15 HELIX 3 AA3 GLN A 89 ASN A 92 5 4 HELIX 4 AA4 LYS A 98 LEU A 102 5 5 HELIX 5 AA5 ILE A 108 HIS A 112 5 5 HELIX 6 AA6 LEU A 119 SER A 130 1 12 HELIX 7 AA7 ASP A 131 LEU A 142 1 12 HELIX 8 AA8 GLY A 144 ILE A 155 1 12 HELIX 9 AA9 PRO A 167 THR A 171 5 5 HELIX 10 AB1 THR A 182 LEU A 195 1 14 HELIX 11 AB2 GLY A 200 GLY A 213 1 14 HELIX 12 AB3 SER A 220 LEU A 225 5 6 HELIX 13 AB4 ARG A 273 GLY A 287 1 15 HELIX 14 AB5 SER B 28 GLY B 42 1 15 HELIX 15 AB6 CYS B 69 THR B 71 5 3 HELIX 16 AB7 SER B 72 GLU B 85 1 14 HELIX 17 AB8 GLN B 89 ASN B 92 5 4 HELIX 18 AB9 LYS B 98 LEU B 102 5 5 HELIX 19 AC1 ILE B 108 VAL B 113 5 6 HELIX 20 AC2 LEU B 119 SER B 130 1 12 HELIX 21 AC3 ASP B 131 LEU B 142 1 12 HELIX 22 AC4 GLY B 144 ILE B 155 1 12 HELIX 23 AC5 PRO B 167 THR B 171 5 5 HELIX 24 AC6 THR B 182 LEU B 195 1 14 HELIX 25 AC7 GLY B 200 GLY B 213 1 14 HELIX 26 AC8 SER B 220 LEU B 225 5 6 HELIX 27 AC9 ARG B 273 GLY B 287 1 15 SHEET 1 AA1 5 THR A 56 TYR A 60 0 SHEET 2 AA1 5 ARG A 44 ASP A 51 -1 N ASP A 51 O THR A 56 SHEET 3 AA1 5 LEU A 257 THR A 264 -1 O TYR A 262 N GLY A 46 SHEET 4 AA1 5 THR A 242 TRP A 250 -1 N ALA A 247 O LEU A 259 SHEET 5 AA1 5 THR A 230 GLY A 238 -1 N THR A 230 O TRP A 250 SHEET 1 AA2 2 PHE A 66 PRO A 67 0 SHEET 2 AA2 2 THR A 180 THR A 181 -1 O THR A 181 N PHE A 66 SHEET 1 AA3 2 PRO A 94 ILE A 97 0 SHEET 2 AA3 2 GLY A 115 THR A 118 -1 O MET A 117 N VAL A 95 SHEET 1 AA4 5 THR B 56 TYR B 60 0 SHEET 2 AA4 5 ARG B 44 ASP B 51 -1 N ASP B 51 O THR B 56 SHEET 3 AA4 5 LEU B 257 THR B 264 -1 O TYR B 262 N GLY B 46 SHEET 4 AA4 5 THR B 242 TRP B 250 -1 N ALA B 247 O LEU B 259 SHEET 5 AA4 5 THR B 230 GLY B 238 -1 N THR B 230 O TRP B 250 SHEET 1 AA5 2 PHE B 66 PRO B 67 0 SHEET 2 AA5 2 THR B 180 THR B 181 -1 O THR B 181 N PHE B 66 SHEET 1 AA6 2 PRO B 94 ILE B 97 0 SHEET 2 AA6 2 GLY B 115 THR B 118 -1 O MET B 117 N VAL B 95 LINK OG SER A 70 K K A 303 1555 1555 2.92 LINK O LEU A 127 K K A 305 1555 1555 2.76 LINK O SER A 130 K K A 303 1555 1555 2.74 LINK OG SER A 130 K K A 303 1555 1555 2.94 LINK OD1 ASN A 132 K K A 303 1555 1555 3.03 LINK OD1 ASN A 214 K K A 305 1555 1555 2.52 LINK OG1 THR A 216 K K A 305 1555 1555 2.70 LINK O4 PO4 A 302 K K A 303 1555 1555 2.83 LINK K K A 303 O HOH A 533 1555 1555 2.78 LINK K K A 303 O HOH A 550 1555 1555 2.67 LINK K K A 304 O HOH A 543 1555 1555 3.01 LINK O GLY B 238 K K B 303 1555 1555 2.66 LINK K K B 303 O HOH B 475 1555 1555 2.58 LINK K K B 303 O HOH B 489 1555 1555 3.00 LINK K K B 303 O HOH B 529 1555 1555 2.68 CISPEP 1 GLU A 166 PRO A 167 0 6.82 CISPEP 2 GLU B 166 PRO B 167 0 7.75 SITE 1 AC1 3 ARG A 61 LYS A 111 HOH A 511 SITE 1 AC2 10 SER A 70 SER A 130 THR A 235 GLY A 236 SITE 2 AC2 10 SER A 237 K A 303 HOH A 461 HOH A 483 SITE 3 AC2 10 HOH A 495 HOH A 550 SITE 1 AC3 6 SER A 70 SER A 130 ASN A 132 PO4 A 302 SITE 2 AC3 6 HOH A 533 HOH A 550 SITE 1 AC4 2 SER A 272 HOH A 543 SITE 1 AC5 4 LEU A 127 ASN A 214 THR A 216 LYS A 234 SITE 1 AC6 2 ARG B 61 LYS B 111 SITE 1 AC7 8 SER B 70 SER B 130 THR B 235 GLY B 236 SITE 2 AC7 8 SER B 237 HOH B 448 HOH B 472 HOH B 476 SITE 1 AC8 4 GLY B 238 HOH B 475 HOH B 489 HOH B 529 CRYST1 41.788 41.788 232.401 90.00 90.00 120.00 P 32 6 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 0.023930 0.013816 0.000000 0.00000 SCALE2 0.000000 0.027632 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004303 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 -0.499885 -0.866092 0.000230 62.67332 1 MTRIX2 2 -0.866092 0.499885 0.000011 36.19553 1 MTRIX3 2 -0.000124 -0.000194 -1.000000 49.40359 1